Diff of the two buildlogs: -- --- b1/build.log 2020-03-27 05:28:07.235115189 +0000 +++ b2/build.log 2020-03-27 05:30:26.276303074 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Mar 26 17:18:06 -12 2020 -I: pbuilder-time-stamp: 1585286286 +I: Current time: Fri Apr 30 01:51:07 +14 2021 +I: pbuilder-time-stamp: 1619697067 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration @@ -18,7 +18,7 @@ I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error -gpgv: Signature made Thu Jul 26 01:37:24 2018 -12 +gpgv: Signature made Fri Jul 27 03:37:24 2018 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -28,6 +28,18 @@ dpkg-source: info: unpacking freecontact_1.0.21-7.debian.tar.xz I: using fakeroot in build. I: Installing the build-deps +I: user script /srv/workspace/pbuilder/10478/tmp/hooks/D01_modify_environment starting +disorder-fs debug: Running on profitbricks-build16-i386. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' +Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' +Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' +Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/10478/tmp/hooks/D01_modify_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -159,7 +171,7 @@ Get: 70 http://deb.debian.org/debian buster/main i386 libxerces-c3.2 i386 3.2.2+debian-1+b1 [955 kB] Get: 71 http://deb.debian.org/debian buster/main i386 libxerces-c-dev i386 3.2.2+debian-1+b1 [1777 kB] Get: 72 http://deb.debian.org/debian buster/main i386 xsdcxx i386 4.0.0-8 [1860 kB] -Fetched 89.8 MB in 9s (10.4 MB/s) +Fetched 89.8 MB in 1s (77.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19231 files and directories currently installed.) @@ -476,7 +488,7 @@ fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/freecontact-1.0.21/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b +I: Running cd /build/freecontact-1.0.21/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package freecontact dpkg-buildpackage: info: source version 1.0.21-7 dpkg-buildpackage: info: source distribution unstable @@ -676,7 +688,7 @@ checking for Xerces C++ Parser... yes checking for xsdcxx... xsdcxx checking for x86 cpuid output... unknown -checking for x86 cpuid 0x00000001 output... 600f12:5000800:9eb82203:78bfbff +checking for x86 cpuid 0x00000001 output... 306c1:4020800:fffa3223:178bfbff checking whether mmx is supported... yes checking whether sse is supported... yes checking whether sse2 is supported... yes @@ -862,7 +874,7 @@ checking for Xerces C++ Parser... yes checking for xsdcxx... xsdcxx checking for x86 cpuid output... unknown -checking for x86 cpuid 0x00000001 output... 600f12:3000800:9eb82203:78bfbff +checking for x86 cpuid 0x00000001 output... 306c1:b020800:fffa3223:178bfbff checking whether mmx is supported... yes checking whether sse is supported... yes checking whether sse2 is supported... yes @@ -1021,16 +1033,16 @@ make[2]: Leaving directory '/build/freecontact-1.0.21/lib' make[1]: Leaving directory '/build/freecontact-1.0.21' dh_auto_build - make -j10 + make -j18 make[1]: Entering directory '/build/freecontact-1.0.21' Making all in lib make[2]: Entering directory '/build/freecontact-1.0.21/lib' make all-am make[3]: Entering directory '/build/freecontact-1.0.21/lib' -/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wall -fvisibility=hidden -falign-labels -fbranch-count-reg -fcaller-saves -fcode-hoisting -fcombine-stack-adjustments -fcompare-elim -fcprop-registers -fcrossjumping -fcse-follow-jumps -fdefer-pop -fdevirtualize -fdevirtualize-speculatively -fexpensive-optimizations -fforward-propagate -fgcse -fgcse-after-reload -fguess-branch-probability -fhoist-adjacent-loads -fif-conversion -fif-conversion2 -findirect-inlining -finline-functions -finline-functions-called-once -finline-small-functions -fipa-bit-cp -fipa-cp -fipa-cp-clone -fipa-icf -fipa-icf-functions -fipa-icf-variables -fipa-profile -fipa-pure-const -fipa-ra -fipa-reference -fipa-sra -fipa-vrp -fisolate-erroneous-paths-dereference -floop-interchange -floop-unroll-and-jam -flra-remat -fmove-loop-invariants -fomit-frame-pointer -foptimize-sibling-calls -foptimize-strlen -fpartial-inlining -fpeel-loops -fpeephole2 -fpredictive-commoning -freorder-blocks -freorder-blocks-and-partition -freorder-functions -frerun-cse-after-loop -fschedule-insns2 -fshrink-wrap -fsplit-loops -fsplit-paths -fsplit-wide-types -fssa-phiopt -fstore-merging -fstrict-aliasing -fthread-jumps -ftree-bit-ccp -ftree-builtin-call-dce -ftree-ccp -ftree-ch -ftree-coalesce-vars -ftree-copy-prop -ftree-dce -ftree-dominator-opts -ftree-dse -ftree-fre -ftree-loop-distribute-patterns -ftree-loop-distribution -ftree-loop-vectorize -ftree-partial-pre -ftree-pre -ftree-pta -ftree-sink -ftree-slp-vectorize -ftree-slsr -ftree-sra -ftree-switch-conversion -ftree-tail-merge -ftree-ter -ftree-vrp -funswitch-loops -ffast-math -funroll-loops -ftree-vectorizer-verbose=0 -pthread -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libfreecontact_la-freecontact.lo `test -f 'freecontact.cpp' || echo './'`freecontact.cpp -/bin/bash ../libtool --tag=FC --mode=compile gfortran -fvisibility=hidden -falign-labels -fbranch-count-reg -fcaller-saves -fcode-hoisting -fcombine-stack-adjustments -fcompare-elim -fcprop-registers -fcrossjumping -fcse-follow-jumps -fdefer-pop -fdevirtualize -fdevirtualize-speculatively -fexpensive-optimizations -fforward-propagate -fgcse -fgcse-after-reload -fguess-branch-probability -fhoist-adjacent-loads -fif-conversion -fif-conversion2 -findirect-inlining -finline-functions -finline-functions-called-once -finline-small-functions -fipa-bit-cp -fipa-cp -fipa-cp-clone -fipa-icf -fipa-icf-functions -fipa-icf-variables -fipa-profile -fipa-pure-const -fipa-ra -fipa-reference -fipa-sra -fipa-vrp -fisolate-erroneous-paths-dereference -floop-interchange -floop-unroll-and-jam -flra-remat -fmove-loop-invariants -fomit-frame-pointer -foptimize-sibling-calls -foptimize-strlen -fpartial-inlining -fpeel-loops -fpeephole2 -fpredictive-commoning -freorder-blocks -freorder-blocks-and-partition -freorder-functions -frerun-cse-after-loop -fschedule-insns2 -fshrink-wrap -fsplit-loops -fsplit-paths -fsplit-wide-types -fssa-phiopt -fstore-merging -fstrict-aliasing -fthread-jumps -ftree-bit-ccp -ftree-builtin-call-dce -ftree-ccp -ftree-ch -ftree-coalesce-vars -ftree-copy-prop -ftree-dce -ftree-dominator-opts -ftree-dse -ftree-fre -ftree-loop-distribute-patterns -ftree-loop-distribution -ftree-loop-vectorize -ftree-partial-pre -ftree-pre -ftree-pta -ftree-sink -ftree-slp-vectorize -ftree-slsr -ftree-sra -ftree-switch-conversion -ftree-tail-merge -ftree-ter -ftree-vrp -funswitch-loops -ffast-math -funroll-loops -ftree-vectorizer-verbose=0 -pthread -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -c -o libfreecontact_la-glassofast-real.lo `test -f 'glassofast-real.f90' || echo './'`glassofast-real.f90 -libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wall -fvisibility=hidden -falign-labels -fbranch-count-reg -fcaller-saves -fcode-hoisting -fcombine-stack-adjustments -fcompare-elim -fcprop-registers -fcrossjumping -fcse-follow-jumps -fdefer-pop -fdevirtualize -fdevirtualize-speculatively -fexpensive-optimizations -fforward-propagate -fgcse -fgcse-after-reload -fguess-branch-probability -fhoist-adjacent-loads -fif-conversion -fif-conversion2 -findirect-inlining -finline-functions -finline-functions-called-once -finline-small-functions -fipa-bit-cp -fipa-cp -fipa-cp-clone -fipa-icf -fipa-icf-functions -fipa-icf-variables -fipa-profile -fipa-pure-const -fipa-ra -fipa-reference -fipa-sra -fipa-vrp -fisolate-erroneous-paths-dereference -floop-interchange -floop-unroll-and-jam -flra-remat -fmove-loop-invariants -fomit-frame-pointer -foptimize-sibling-calls -foptimize-strlen -fpartial-inlining -fpeel-loops -fpeephole2 -fpredictive-commoning -freorder-blocks -freorder-blocks-and-partition -freorder-functions -frerun-cse-after-loop -fschedule-insns2 -fshrink-wrap -fsplit-loops -fsplit-paths -fsplit-wide-types -fssa-phiopt -fstore-merging -fstrict-aliasing -fthread-jumps -ftree-bit-ccp -ftree-builtin-call-dce -ftree-ccp -ftree-ch -ftree-coalesce-vars -ftree-copy-prop -ftree-dce -ftree-dominator-opts -ftree-dse -ftree-fre -ftree-loop-distribute-patterns -ftree-loop-distribution -ftree-loop-vectorize -ftree-partial-pre -ftree-pre -ftree-pta -ftree-sink -ftree-slp-vectorize -ftree-slsr -ftree-sra -ftree-switch-conversion -ftree-tail-merge -ftree-ter -ftree-vrp -funswitch-loops -ffast-math -funroll-loops -ftree-vectorizer-verbose=0 -pthread -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -c freecontact.cpp -fPIC -DPIC -o .libs/libfreecontact_la-freecontact.o +/bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wall -fvisibility=hidden -falign-labels -fbranch-count-reg -fcaller-saves -fcode-hoisting -fcombine-stack-adjustments -fcompare-elim -fcprop-registers -fcrossjumping -fcse-follow-jumps -fdefer-pop -fdevirtualize -fdevirtualize-speculatively -fexpensive-optimizations -fforward-propagate -fgcse -fgcse-after-reload -fguess-branch-probability -fhoist-adjacent-loads -fif-conversion -fif-conversion2 -findirect-inlining -finline-functions -finline-functions-called-once -finline-small-functions -fipa-bit-cp -fipa-cp -fipa-cp-clone -fipa-icf -fipa-icf-functions -fipa-icf-variables -fipa-profile -fipa-pure-const -fipa-ra -fipa-reference -fipa-sra -fipa-vrp -fisolate-erroneous-paths-dereference -floop-interchange -floop-unroll-and-jam -flra-remat -fmove-loop-invariants -fomit-frame-pointer -foptimize-sibling-calls -foptimize-strlen -fpartial-inlining -fpeel-loops -fpeephole2 -fpredictive-commoning -freorder-blocks -freorder-blocks-and-partition -freorder-functions -frerun-cse-after-loop -fschedule-insns2 -fshrink-wrap -fsplit-loops -fsplit-paths -fsplit-wide-types -fssa-phiopt -fstore-merging -fstrict-aliasing -fthread-jumps -ftree-bit-ccp -ftree-builtin-call-dce -ftree-ccp -ftree-ch -ftree-coalesce-vars -ftree-copy-prop -ftree-dce -ftree-dominator-opts -ftree-dse -ftree-fre -ftree-loop-distribute-patterns -ftree-loop-distribution -ftree-loop-vectorize -ftree-partial-pre -ftree-pre -ftree-pta -ftree-sink -ftree-slp-vectorize -ftree-slsr -ftree-sra -ftree-switch-conversion -ftree-tail-merge -ftree-ter -ftree-vrp -funswitch-loops -ffast-math -funroll-loops -ftree-vectorizer-verbose=0 -pthread -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libfreecontact_la-freecontact.lo `test -f 'freecontact.cpp' || echo './'`freecontact.cpp +/bin/sh ../libtool --tag=FC --mode=compile gfortran -fvisibility=hidden -falign-labels -fbranch-count-reg -fcaller-saves -fcode-hoisting -fcombine-stack-adjustments -fcompare-elim -fcprop-registers -fcrossjumping -fcse-follow-jumps -fdefer-pop -fdevirtualize -fdevirtualize-speculatively -fexpensive-optimizations -fforward-propagate -fgcse -fgcse-after-reload -fguess-branch-probability -fhoist-adjacent-loads -fif-conversion -fif-conversion2 -findirect-inlining -finline-functions -finline-functions-called-once -finline-small-functions -fipa-bit-cp -fipa-cp -fipa-cp-clone -fipa-icf -fipa-icf-functions -fipa-icf-variables -fipa-profile -fipa-pure-const -fipa-ra -fipa-reference -fipa-sra -fipa-vrp -fisolate-erroneous-paths-dereference -floop-interchange -floop-unroll-and-jam -flra-remat -fmove-loop-invariants -fomit-frame-pointer -foptimize-sibling-calls -foptimize-strlen -fpartial-inlining -fpeel-loops -fpeephole2 -fpredictive-commoning -freorder-blocks -freorder-blocks-and-partition -freorder-functions -frerun-cse-after-loop -fschedule-insns2 -fshrink-wrap -fsplit-loops -fsplit-paths -fsplit-wide-types -fssa-phiopt -fstore-merging -fstrict-aliasing -fthread-jumps -ftree-bit-ccp -ftree-builtin-call-dce -ftree-ccp -ftree-ch -ftree-coalesce-vars -ftree-copy-prop -ftree-dce -ftree-dominator-opts -ftree-dse -ftree-fre -ftree-loop-distribute-patterns -ftree-loop-distribution -ftree-loop-vectorize -ftree-partial-pre -ftree-pre -ftree-pta -ftree-sink -ftree-slp-vectorize -ftree-slsr -ftree-sra -ftree-switch-conversion -ftree-tail-merge -ftree-ter -ftree-vrp -funswitch-loops -ffast-math -funroll-loops -ftree-vectorizer-verbose=0 -pthread -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -c -o libfreecontact_la-glassofast-real.lo `test -f 'glassofast-real.f90' || echo './'`glassofast-real.f90 libtool: compile: gfortran -fvisibility=hidden -falign-labels -fbranch-count-reg -fcaller-saves -fcode-hoisting -fcombine-stack-adjustments -fcompare-elim -fcprop-registers -fcrossjumping -fcse-follow-jumps -fdefer-pop -fdevirtualize -fdevirtualize-speculatively -fexpensive-optimizations -fforward-propagate -fgcse -fgcse-after-reload -fguess-branch-probability -fhoist-adjacent-loads -fif-conversion -fif-conversion2 -findirect-inlining -finline-functions -finline-functions-called-once -finline-small-functions -fipa-bit-cp -fipa-cp -fipa-cp-clone -fipa-icf -fipa-icf-functions -fipa-icf-variables -fipa-profile -fipa-pure-const -fipa-ra -fipa-reference -fipa-sra -fipa-vrp -fisolate-erroneous-paths-dereference -floop-interchange -floop-unroll-and-jam -flra-remat -fmove-loop-invariants -fomit-frame-pointer -foptimize-sibling-calls -foptimize-strlen -fpartial-inlining -fpeel-loops -fpeephole2 -fpredictive-commoning -freorder-blocks -freorder-blocks-and-partition -freorder-functions -frerun-cse-after-loop -fschedule-insns2 -fshrink-wrap -fsplit-loops -fsplit-paths -fsplit-wide-types -fssa-phiopt -fstore-merging -fstrict-aliasing -fthread-jumps -ftree-bit-ccp -ftree-builtin-call-dce -ftree-ccp -ftree-ch -ftree-coalesce-vars -ftree-copy-prop -ftree-dce -ftree-dominator-opts -ftree-dse -ftree-fre -ftree-loop-distribute-patterns -ftree-loop-distribution -ftree-loop-vectorize -ftree-partial-pre -ftree-pre -ftree-pta -ftree-sink -ftree-slp-vectorize -ftree-slsr -ftree-sra -ftree-switch-conversion -ftree-tail-merge -ftree-ter -ftree-vrp -funswitch-loops -ffast-math -funroll-loops -ftree-vectorizer-verbose=0 -pthread -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -c glassofast-real.f90 -fPIC -o .libs/libfreecontact_la-glassofast-real.o +libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wall -fvisibility=hidden -falign-labels -fbranch-count-reg -fcaller-saves -fcode-hoisting -fcombine-stack-adjustments -fcompare-elim -fcprop-registers -fcrossjumping -fcse-follow-jumps -fdefer-pop -fdevirtualize -fdevirtualize-speculatively -fexpensive-optimizations -fforward-propagate -fgcse -fgcse-after-reload -fguess-branch-probability -fhoist-adjacent-loads -fif-conversion -fif-conversion2 -findirect-inlining -finline-functions -finline-functions-called-once -finline-small-functions -fipa-bit-cp -fipa-cp -fipa-cp-clone -fipa-icf -fipa-icf-functions -fipa-icf-variables -fipa-profile -fipa-pure-const -fipa-ra -fipa-reference -fipa-sra -fipa-vrp -fisolate-erroneous-paths-dereference -floop-interchange -floop-unroll-and-jam -flra-remat -fmove-loop-invariants -fomit-frame-pointer -foptimize-sibling-calls -foptimize-strlen -fpartial-inlining -fpeel-loops -fpeephole2 -fpredictive-commoning -freorder-blocks -freorder-blocks-and-partition -freorder-functions -frerun-cse-after-loop -fschedule-insns2 -fshrink-wrap -fsplit-loops -fsplit-paths -fsplit-wide-types -fssa-phiopt -fstore-merging -fstrict-aliasing -fthread-jumps -ftree-bit-ccp -ftree-builtin-call-dce -ftree-ccp -ftree-ch -ftree-coalesce-vars -ftree-copy-prop -ftree-dce -ftree-dominator-opts -ftree-dse -ftree-fre -ftree-loop-distribute-patterns -ftree-loop-distribution -ftree-loop-vectorize -ftree-partial-pre -ftree-pre -ftree-pta -ftree-sink -ftree-slp-vectorize -ftree-slsr -ftree-sra -ftree-switch-conversion -ftree-tail-merge -ftree-ter -ftree-vrp -funswitch-loops -ffast-math -funroll-loops -ftree-vectorizer-verbose=0 -pthread -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -c freecontact.cpp -fPIC -DPIC -o .libs/libfreecontact_la-freecontact.o libtool: compile: gfortran -fvisibility=hidden -falign-labels -fbranch-count-reg -fcaller-saves -fcode-hoisting -fcombine-stack-adjustments -fcompare-elim -fcprop-registers -fcrossjumping -fcse-follow-jumps -fdefer-pop -fdevirtualize -fdevirtualize-speculatively -fexpensive-optimizations -fforward-propagate -fgcse -fgcse-after-reload -fguess-branch-probability -fhoist-adjacent-loads -fif-conversion -fif-conversion2 -findirect-inlining -finline-functions -finline-functions-called-once -finline-small-functions -fipa-bit-cp -fipa-cp -fipa-cp-clone -fipa-icf -fipa-icf-functions -fipa-icf-variables -fipa-profile -fipa-pure-const -fipa-ra -fipa-reference -fipa-sra -fipa-vrp -fisolate-erroneous-paths-dereference -floop-interchange -floop-unroll-and-jam -flra-remat -fmove-loop-invariants -fomit-frame-pointer -foptimize-sibling-calls -foptimize-strlen -fpartial-inlining -fpeel-loops -fpeephole2 -fpredictive-commoning -freorder-blocks -freorder-blocks-and-partition -freorder-functions -frerun-cse-after-loop -fschedule-insns2 -fshrink-wrap -fsplit-loops -fsplit-paths -fsplit-wide-types -fssa-phiopt -fstore-merging -fstrict-aliasing -fthread-jumps -ftree-bit-ccp -ftree-builtin-call-dce -ftree-ccp -ftree-ch -ftree-coalesce-vars -ftree-copy-prop -ftree-dce -ftree-dominator-opts -ftree-dse -ftree-fre -ftree-loop-distribute-patterns -ftree-loop-distribution -ftree-loop-vectorize -ftree-partial-pre -ftree-pre -ftree-pta -ftree-sink -ftree-slp-vectorize -ftree-slsr -ftree-sra -ftree-switch-conversion -ftree-tail-merge -ftree-ter -ftree-vrp -funswitch-loops -ffast-math -funroll-loops -ftree-vectorizer-verbose=0 -pthread -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -c glassofast-real.f90 -o libfreecontact_la-glassofast-real.o >/dev/null 2>&1 In file included from freecontact.cpp:32: freecontact.h:69:54: warning: ignoring attributes on template argument 'freecontact::__m128i' {aka '__vector(2) long long int'} [-Wignored-attributes] @@ -1112,7 +1124,7 @@ ali_t& ali_t::push(const std::vector& __al) throw (alilen_error) ^~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wall -fvisibility=hidden -falign-labels -fbranch-count-reg -fcaller-saves -fcode-hoisting -fcombine-stack-adjustments -fcompare-elim -fcprop-registers -fcrossjumping -fcse-follow-jumps -fdefer-pop -fdevirtualize -fdevirtualize-speculatively -fexpensive-optimizations -fforward-propagate -fgcse -fgcse-after-reload -fguess-branch-probability -fhoist-adjacent-loads -fif-conversion -fif-conversion2 -findirect-inlining -finline-functions -finline-functions-called-once -finline-small-functions -fipa-bit-cp -fipa-cp -fipa-cp-clone -fipa-icf -fipa-icf-functions -fipa-icf-variables -fipa-profile -fipa-pure-const -fipa-ra -fipa-reference -fipa-sra -fipa-vrp -fisolate-erroneous-paths-dereference -floop-interchange -floop-unroll-and-jam -flra-remat -fmove-loop-invariants -fomit-frame-pointer -foptimize-sibling-calls -foptimize-strlen -fpartial-inlining -fpeel-loops -fpeephole2 -fpredictive-commoning -freorder-blocks -freorder-blocks-and-partition -freorder-functions -frerun-cse-after-loop -fschedule-insns2 -fshrink-wrap -fsplit-loops -fsplit-paths -fsplit-wide-types -fssa-phiopt -fstore-merging -fstrict-aliasing -fthread-jumps -ftree-bit-ccp -ftree-builtin-call-dce -ftree-ccp -ftree-ch -ftree-coalesce-vars -ftree-copy-prop -ftree-dce -ftree-dominator-opts -ftree-dse -ftree-fre -ftree-loop-distribute-patterns -ftree-loop-distribution -ftree-loop-vectorize -ftree-partial-pre -ftree-pre -ftree-pta -ftree-sink -ftree-slp-vectorize -ftree-slsr -ftree-sra -ftree-switch-conversion -ftree-tail-merge -ftree-ter -ftree-vrp -funswitch-loops -ffast-math -funroll-loops -ftree-vectorizer-verbose=0 -pthread -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -c freecontact.cpp -o libfreecontact_la-freecontact.o >/dev/null 2>&1 -/bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -Wall -fvisibility=hidden -falign-labels -fbranch-count-reg -fcaller-saves -fcode-hoisting -fcombine-stack-adjustments -fcompare-elim -fcprop-registers -fcrossjumping -fcse-follow-jumps -fdefer-pop -fdevirtualize -fdevirtualize-speculatively -fexpensive-optimizations -fforward-propagate -fgcse -fgcse-after-reload -fguess-branch-probability -fhoist-adjacent-loads -fif-conversion -fif-conversion2 -findirect-inlining -finline-functions -finline-functions-called-once -finline-small-functions -fipa-bit-cp -fipa-cp -fipa-cp-clone -fipa-icf -fipa-icf-functions -fipa-icf-variables -fipa-profile -fipa-pure-const -fipa-ra -fipa-reference -fipa-sra -fipa-vrp -fisolate-erroneous-paths-dereference -floop-interchange -floop-unroll-and-jam -flra-remat -fmove-loop-invariants -fomit-frame-pointer -foptimize-sibling-calls -foptimize-strlen -fpartial-inlining -fpeel-loops -fpeephole2 -fpredictive-commoning -freorder-blocks -freorder-blocks-and-partition -freorder-functions -frerun-cse-after-loop -fschedule-insns2 -fshrink-wrap -fsplit-loops -fsplit-paths -fsplit-wide-types -fssa-phiopt -fstore-merging -fstrict-aliasing -fthread-jumps -ftree-bit-ccp -ftree-builtin-call-dce -ftree-ccp -ftree-ch -ftree-coalesce-vars -ftree-copy-prop -ftree-dce -ftree-dominator-opts -ftree-dse -ftree-fre -ftree-loop-distribute-patterns -ftree-loop-distribution -ftree-loop-vectorize -ftree-partial-pre -ftree-pre -ftree-pta -ftree-sink -ftree-slp-vectorize -ftree-slsr -ftree-sra -ftree-switch-conversion -ftree-tail-merge -ftree-ter -ftree-vrp -funswitch-loops -ffast-math -funroll-loops -ftree-vectorizer-verbose=0 -pthread -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -pthread -version-info 0:0:0 -Wl,-z,relro -Wl,-z,now -o libfreecontact.la -rpath /usr/lib/i386-linux-gnu libfreecontact_la-freecontact.lo libfreecontact_la-glassofast-real.lo -lrt -L/usr/lib/gcc/i686-linux-gnu/8 -L/usr/lib/gcc/i686-linux-gnu/8/../../../i386-linux-gnu -L/usr/lib/gcc/i686-linux-gnu/8/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/8/../../.. -lgfortran -lm -lquadmath -lblas -llapack +/bin/sh ../libtool --tag=CXX --mode=link g++ -fopenmp -Wall -fvisibility=hidden -falign-labels -fbranch-count-reg -fcaller-saves -fcode-hoisting -fcombine-stack-adjustments -fcompare-elim -fcprop-registers -fcrossjumping -fcse-follow-jumps -fdefer-pop -fdevirtualize -fdevirtualize-speculatively -fexpensive-optimizations -fforward-propagate -fgcse -fgcse-after-reload -fguess-branch-probability -fhoist-adjacent-loads -fif-conversion -fif-conversion2 -findirect-inlining -finline-functions -finline-functions-called-once -finline-small-functions -fipa-bit-cp -fipa-cp -fipa-cp-clone -fipa-icf -fipa-icf-functions -fipa-icf-variables -fipa-profile -fipa-pure-const -fipa-ra -fipa-reference -fipa-sra -fipa-vrp -fisolate-erroneous-paths-dereference -floop-interchange -floop-unroll-and-jam -flra-remat -fmove-loop-invariants -fomit-frame-pointer -foptimize-sibling-calls -foptimize-strlen -fpartial-inlining -fpeel-loops -fpeephole2 -fpredictive-commoning -freorder-blocks -freorder-blocks-and-partition -freorder-functions -frerun-cse-after-loop -fschedule-insns2 -fshrink-wrap -fsplit-loops -fsplit-paths -fsplit-wide-types -fssa-phiopt -fstore-merging -fstrict-aliasing -fthread-jumps -ftree-bit-ccp -ftree-builtin-call-dce -ftree-ccp -ftree-ch -ftree-coalesce-vars -ftree-copy-prop -ftree-dce -ftree-dominator-opts -ftree-dse -ftree-fre -ftree-loop-distribute-patterns -ftree-loop-distribution -ftree-loop-vectorize -ftree-partial-pre -ftree-pre -ftree-pta -ftree-sink -ftree-slp-vectorize -ftree-slsr -ftree-sra -ftree-switch-conversion -ftree-tail-merge -ftree-ter -ftree-vrp -funswitch-loops -ffast-math -funroll-loops -ftree-vectorizer-verbose=0 -pthread -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -pthread -version-info 0:0:0 -Wl,-z,relro -Wl,-z,now -o libfreecontact.la -rpath /usr/lib/i386-linux-gnu libfreecontact_la-freecontact.lo libfreecontact_la-glassofast-real.lo -lrt -L/usr/lib/gcc/i686-linux-gnu/8 -L/usr/lib/gcc/i686-linux-gnu/8/../../../i386-linux-gnu -L/usr/lib/gcc/i686-linux-gnu/8/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/8/../../.. -lgfortran -lm -lquadmath -lblas -llapack libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/i686-linux-gnu/8/../../../i386-linux-gnu/crti.o /usr/lib/gcc/i686-linux-gnu/8/crtbeginS.o .libs/libfreecontact_la-freecontact.o .libs/libfreecontact_la-glassofast-real.o -lrt -L/usr/lib/gcc/i686-linux-gnu/8 -L/usr/lib/gcc/i686-linux-gnu/8/../../../i386-linux-gnu -L/usr/lib/gcc/i686-linux-gnu/8/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/8/../../.. -lgfortran -lquadmath -lblas -llapack -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i686-linux-gnu/8/crtendS.o /usr/lib/gcc/i686-linux-gnu/8/../../../i386-linux-gnu/crtn.o -fopenmp -pthread -g -O2 -fstack-protector-strong -pthread -Wl,-z -Wl,relro -Wl,-z -Wl,now -fopenmp -pthread -Wl,-soname -Wl,libfreecontact.so.0 -o .libs/libfreecontact.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libfreecontact.so.0" && ln -s "libfreecontact.so.0.0.0" "libfreecontact.so.0") libtool: link: (cd ".libs" && rm -f "libfreecontact.so" && ln -s "libfreecontact.so.0.0.0" "libfreecontact.so") @@ -1158,1357 +1170,1124 @@ --hxx-suffix _xsd.hxx --cxx-suffix _xsd.cxx \ freecontact_output.xsd g++ -DHAVE_CONFIG_H -I. -I../lib -I../lib -I../src -I/usr/include -I/usr/include/xercesc -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -c -o freecontact-BioXSD-1.1_xsd.o `test -f 'BioXSD-1.1_xsd.cxx' || echo './'`BioXSD-1.1_xsd.cxx -g++ -DHAVE_CONFIG_H -I. -I../lib -I../lib -I../src -I/usr/include -I/usr/include/xercesc -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -c -o freecontact-freecontact_input_xsd.o `test -f 'freecontact_input_xsd.cxx' || echo './'`freecontact_input_xsd.cxx -g++ -DHAVE_CONFIG_H -I. -I../lib -I../lib -I../src -I/usr/include -I/usr/include/xercesc -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -c -o freecontact-_write_bioxsd.o `test -f '_write_bioxsd.cpp' || echo './'`_write_bioxsd.cpp g++ -DHAVE_CONFIG_H -I. -I../lib -I../lib -I../src -I/usr/include -I/usr/include/xercesc -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -c -o freecontact-freecontact_output_xsd.o `test -f 'freecontact_output_xsd.cxx' || echo './'`freecontact_output_xsd.cxx -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +g++ -DHAVE_CONFIG_H -I. -I../lib -I../lib -I../src -I/usr/include -I/usr/include/xercesc -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -c -o freecontact-_write_bioxsd.o `test -f '_write_bioxsd.cpp' || echo './'`_write_bioxsd.cpp +g++ -DHAVE_CONFIG_H -I. -I../lib -I../lib -I../src -I/usr/include -I/usr/include/xercesc -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -c -o freecontact-freecontact_input_xsd.o `test -f 'freecontact_input_xsd.cxx' || echo './'`freecontact_input_xsd.cxx +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:1507:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] sequence (::std::auto_ptr< sequence_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:1585:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] species (::std::auto_ptr< species_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:1665:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] reference (::std::auto_ptr< reference_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:1741:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] name (::std::auto_ptr< name_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:1817:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] note (::std::auto_ptr< note_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:1893:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] translationData (::std::auto_ptr< translationData_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:1969:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] inlineBaseQuality (::std::auto_ptr< inlineBaseQuality_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:1992:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BiosequenceRecord (::std::auto_ptr< sequence_type >); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:2105:45: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] GeneralNucleotideSequenceRecord (::std::auto_ptr< sequence_type >); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:2186:44: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] GeneralAminoacidSequenceRecord (::std::auto_ptr< sequence_type >); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:2267:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] NucleotideSequenceRecord (::std::auto_ptr< sequence_type >); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:2348:37: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AminoacidSequenceRecord (::std::auto_ptr< sequence_type >); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:2611:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] note (::std::auto_ptr< note_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:3051:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] pos (::std::auto_ptr< pos_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:3109:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] len (::std::auto_ptr< len_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:3287:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] min (::std::auto_ptr< min_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:3366:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] max (::std::auto_ptr< max_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:3442:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] strand (::std::auto_ptr< strand_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:3500:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] minCertainty (::std::auto_ptr< minCertainty_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:3567:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] maxCertainty (::std::auto_ptr< maxCertainty_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:3877:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] pos (::std::auto_ptr< pos_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:3935:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] bases (::std::auto_ptr< bases_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:4110:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] localAlignmentPosition (::std::auto_ptr< localAlignmentPosition_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:4186:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:4262:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] sequenceReference (::std::auto_ptr< sequenceReference_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:4338:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] sequenceName (::std::auto_ptr< sequenceName_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:4414:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] species (::std::auto_ptr< species_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:4490:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] genomeBuild (::std::auto_ptr< genomeBuild_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:4566:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] chromosome (::std::auto_ptr< chromosome_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:4644:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:4720:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] variantAccession (::std::auto_ptr< variantAccession_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:4796:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] variantNote (::std::auto_ptr< variantNote_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:5064:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] reversedDirection (::std::auto_ptr< reversedDirection_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:5589:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] name (::std::auto_ptr< name_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1507:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequence (::std::auto_ptr< sequence_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:5798:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] className (::std::auto_ptr< className_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1585:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:5938:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] properties (::std::auto_ptr< properties_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1665:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reference (::std::auto_ptr< reference_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1741:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1817:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1893:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - translationData (::std::auto_ptr< translationData_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1969:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - inlineBaseQuality (::std::auto_ptr< inlineBaseQuality_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1992:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - BiosequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:6115:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] specificFeatureName (::std::auto_ptr< specificFeatureName_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:6385:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] note (::std::auto_ptr< note_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:6627:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] appliesToWholeSequence (::std::auto_ptr< appliesToWholeSequence_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:2105:45: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - GeneralNucleotideSequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:6703:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] position (::std::auto_ptr< position_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:2186:44: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - GeneralAminoacidSequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:6843:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] occurrenceName (::std::auto_ptr< occurrenceName_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:6919:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] occurrenceNote (::std::auto_ptr< occurrenceNote_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:2267:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - NucleotideSequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: +In file included from BioXSD-1.1_xsd.cxx:41: BioXSD-1.1_xsd.hxx:6995:32: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] featureTypeDetails (::std::auto_ptr< featureTypeDetails_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:2348:37: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - AminoacidSequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7203:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + frame (::std::auto_ptr< frame_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:2611:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7279:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + phase (::std::auto_ptr< phase_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3051:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignment (::std::auto_ptr< alignment_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3109:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - len (::std::auto_ptr< len_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7588:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + referenceSequence (::std::auto_ptr< referenceSequence_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7203:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - frame (::std::auto_ptr< frame_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7742:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + FeatureRecord (::std::auto_ptr< referenceSequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7279:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - phase (::std::auto_ptr< phase_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7901:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + predicted (::std::auto_ptr< predicted_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3287:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - min (::std::auto_ptr< min_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7977:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + experimental (::std::auto_ptr< experimental_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3366:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:8130:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3442:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:8217:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + MethodResult (::std::auto_ptr< method_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3500:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - minCertainty (::std::auto_ptr< minCertainty_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:8357:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignment (::std::auto_ptr< alignment_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:8444:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + Result (::std::auto_ptr< methodIdRef_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3567:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - maxCertainty (::std::auto_ptr< maxCertainty_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:8602:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3877:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:8678:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3935:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - bases (::std::auto_ptr< bases_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:8818:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + verdict (::std::auto_ptr< verdict_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7588:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - referenceSequence (::std::auto_ptr< referenceSequence_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:8973:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dataReference (::std::auto_ptr< dataReference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4110:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localAlignmentPosition (::std::auto_ptr< localAlignmentPosition_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9113:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + verdict (::std::auto_ptr< verdict_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4186:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9189:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reliability (::std::auto_ptr< reliability_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4262:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceReference (::std::auto_ptr< sequenceReference_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9212:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ExperimentalEvidence (::std::auto_ptr< dataReference_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4338:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceName (::std::auto_ptr< sequenceName_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9566:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4414:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9642:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + index (::std::auto_ptr< index_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4490:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - genomeBuild (::std::auto_ptr< genomeBuild_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9718:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + unit (::std::auto_ptr< unit_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4566:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - chromosome (::std::auto_ptr< chromosome_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9794:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4644:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9974:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4720:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10032:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + value (::std::auto_ptr< value_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4796:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10108:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7742:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - FeatureRecord (::std::auto_ptr< referenceSequence_type >); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10285:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7901:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - predicted (::std::auto_ptr< predicted_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10361:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7977:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - experimental (::std::auto_ptr< experimental_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8130:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10679:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8217:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - MethodResult (::std::auto_ptr< method_type >); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10755:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:5064:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reversedDirection (::std::auto_ptr< reversedDirection_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10813:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8357:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11072:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8444:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - Result (::std::auto_ptr< methodIdRef_type >); +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11148:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8602:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11206:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8678:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11465:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + min (::std::auto_ptr< min_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8818:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - verdict (::std::auto_ptr< verdict_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11544:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8973:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dataReference (::std::auto_ptr< dataReference_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11620:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9113:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - verdict (::std::auto_ptr< verdict_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11678:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + minCertainty (::std::auto_ptr< minCertainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9189:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reliability (::std::auto_ptr< reliability_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11745:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + maxCertainty (::std::auto_ptr< maxCertainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9212:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ExperimentalEvidence (::std::auto_ptr< dataReference_type >); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12003:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:5589:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12061:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:5798:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - className (::std::auto_ptr< className_type > p); +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12377:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + insertion (::std::auto_ptr< insertion_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:5938:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - properties (::std::auto_ptr< properties_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12517:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + nextPoint (::std::auto_ptr< nextPoint_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6115:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - specificFeatureName (::std::auto_ptr< specificFeatureName_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12593:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + nextPartition (::std::auto_ptr< nextPartition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9566:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12669:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + samePoint (::std::auto_ptr< samePoint_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9642:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - index (::std::auto_ptr< index_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12745:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + samePartition (::std::auto_ptr< samePartition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9718:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - unit (::std::auto_ptr< unit_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12821:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + outside (::std::auto_ptr< outside_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9794:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13071:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + correspondance (::std::auto_ptr< correspondance_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6385:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13211:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + insertion (::std::auto_ptr< insertion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9974:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13351:39: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + explicitSequenceReference (::std::auto_ptr< explicitSequenceReference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10032:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - value (::std::auto_ptr< value_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13597:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reference (::std::auto_ptr< reference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10108:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13832:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + geneticCode (::std::auto_ptr< geneticCode_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6627:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - appliesToWholeSequence (::std::auto_ptr< appliesToWholeSequence_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13908:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + phase (::std::auto_ptr< phase_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10285:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13984:42: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reversedTranslationDirection (::std::auto_ptr< reversedTranslationDirection_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6703:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:14226:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbName (::std::auto_ptr< dbName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10361:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:14304:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbUri (::std::auto_ptr< dbUri_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:14380:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbVersion (::std::auto_ptr< dbVersion_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6843:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - occurrenceName (::std::auto_ptr< occurrenceName_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:14511:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdl (::std::auto_ptr< wsdl_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1507:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequence (::std::auto_ptr< sequence_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:14587:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlService (::std::auto_ptr< wsdlService_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2516,34 +2295,32 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6919:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - occurrenceNote (::std::auto_ptr< occurrenceNote_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:14663:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlPort (::std::auto_ptr< wsdlPort_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6995:32: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - featureTypeDetails (::std::auto_ptr< featureTypeDetails_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:14739:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1585:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:14815:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2552,9 +2329,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1665:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reference (::std::auto_ptr< reference_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:14894:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceDate (::std::auto_ptr< webserviceDate_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2562,22 +2339,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10679:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15075:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + accession (::std::auto_ptr< accession_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1741:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:15151:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + entryUri (::std::auto_ptr< entryUri_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2585,34 +2361,32 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10755:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15227:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + entryVersion (::std::auto_ptr< entryVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10813:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15305:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + date (::std::auto_ptr< date_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1817:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:15481:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyName (::std::auto_ptr< ontologyName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2620,46 +2394,43 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11072:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15559:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyUri (::std::auto_ptr< ontologyUri_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7203:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - frame (::std::auto_ptr< frame_type > p); - ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11148:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15635:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyVersion (::std::auto_ptr< ontologyVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15870:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + accession (::std::auto_ptr< accession_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1893:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - translationData (::std::auto_ptr< translationData_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:15946:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + conceptUri (::std::auto_ptr< conceptUri_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2667,34 +2438,32 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11206:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:16028:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + term (::std::auto_ptr< term_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7279:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - phase (::std::auto_ptr< phase_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:16207:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + speciesName (::std::auto_ptr< speciesName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1969:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - inlineBaseQuality (::std::auto_ptr< inlineBaseQuality_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:16283:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + speciesNote (::std::auto_ptr< speciesNote_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2703,9 +2472,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:1992:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - BiosequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:16459:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2713,118 +2482,109 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignment (::std::auto_ptr< alignment_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:16538:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + supersequence (::std::auto_ptr< supersequence_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11465:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - min (::std::auto_ptr< min_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:16617:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + supersequenceName (::std::auto_ptr< supersequenceName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11544:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:16693:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceVersion (::std::auto_ptr< sequenceVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11620:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:16769:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11678:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - minCertainty (::std::auto_ptr< minCertainty_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:16845:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11745:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - maxCertainty (::std::auto_ptr< maxCertainty_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:17130:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12003:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > p); +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:17206:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + uri (::std::auto_ptr< uri_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12061:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:17282:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + version (::std::auto_ptr< version_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7588:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - referenceSequence (::std::auto_ptr< referenceSequence_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:17358:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + date (::std::auto_ptr< date_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:2105:45: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - GeneralNucleotideSequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17434:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdl (::std::auto_ptr< wsdl_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2833,9 +2593,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:2186:44: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - GeneralAminoacidSequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17510:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlService (::std::auto_ptr< wsdlService_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2844,9 +2604,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:2267:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - NucleotideSequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17586:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlPort (::std::auto_ptr< wsdlPort_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2855,9 +2615,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:2348:37: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - AminoacidSequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17662:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2865,70 +2625,65 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12377:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - insertion (::std::auto_ptr< insertion_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:17738:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7742:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - FeatureRecord (::std::auto_ptr< referenceSequence_type >); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:17817:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceDate (::std::auto_ptr< webserviceDate_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12517:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - nextPoint (::std::auto_ptr< nextPoint_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:22916:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + relationName (::std::auto_ptr< relationName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12593:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - nextPartition (::std::auto_ptr< nextPartition_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:23505:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + canonicalVariant (::std::auto_ptr< canonicalVariant_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12669:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - samePoint (::std::auto_ptr< samePoint_type > p); - ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:2611:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:23645:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + missing (::std::auto_ptr< missing_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:23787:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2936,58 +2691,54 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12745:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - samePartition (::std::auto_ptr< samePartition_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:23961:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignmentOfReference (::std::auto_ptr< alignmentOfReference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7901:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - predicted (::std::auto_ptr< predicted_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24019:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignedSequence (::std::auto_ptr< alignedSequence_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12821:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - outside (::std::auto_ptr< outside_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24042:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignment (::std::auto_ptr< alignedSequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7977:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - experimental (::std::auto_ptr< experimental_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24200:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3051:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:24276:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceReference (::std::auto_ptr< sequenceReference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -2996,9 +2747,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3109:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - len (::std::auto_ptr< len_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:24352:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceName (::std::auto_ptr< sequenceName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3006,46 +2757,43 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8130:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24428:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8217:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - MethodResult (::std::auto_ptr< method_type >); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24504:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + genomeBuild (::std::auto_ptr< genomeBuild_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13071:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - correspondance (::std::auto_ptr< correspondance_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24580:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + chromosome (::std::auto_ptr< chromosome_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3287:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - min (::std::auto_ptr< min_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:24658:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3054,9 +2802,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3366:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:24734:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3064,22 +2812,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8357:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > p); +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24810:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3442:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:24970:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + feature (::std::auto_ptr< feature_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3087,22 +2834,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8444:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - Result (::std::auto_ptr< methodIdRef_type >); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:25046:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + condensedReferences (::std::auto_ptr< condensedReferences_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3500:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - minCertainty (::std::auto_ptr< minCertainty_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:25133:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + annotation (::std::auto_ptr< feature_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3111,9 +2857,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3567:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - maxCertainty (::std::auto_ptr< maxCertainty_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:25778:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3121,58 +2867,54 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13211:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - insertion (::std::auto_ptr< insertion_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:25932:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + code (::std::auto_ptr< code_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8602:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:26122:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + aminoacid (::std::auto_ptr< aminoacid_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8678:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:26253:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8818:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - verdict (::std::auto_ptr< verdict_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:26781:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3877:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:26857:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontology (::std::auto_ptr< ontology_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3181,9 +2923,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:3935:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - bases (::std::auto_ptr< bases_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:26933:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + database (::std::auto_ptr< database_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3191,34 +2933,32 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8973:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dataReference (::std::auto_ptr< dataReference_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27009:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreType (::std::auto_ptr< scoreType_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9113:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - verdict (::std::auto_ptr< verdict_type > p); - ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4110:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localAlignmentPosition (::std::auto_ptr< localAlignmentPosition_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:27164:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27316:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3227,14 +2967,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4186:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9189:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reliability (::std::auto_ptr< reliability_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:27468:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3242,29 +2977,32 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27620:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9212:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ExperimentalEvidence (::std::auto_ptr< dataReference_type >); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27773:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4262:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceReference (::std::auto_ptr< sequenceReference_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:27925:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + feature (::std::auto_ptr< feature_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3273,9 +3011,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4338:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceName (::std::auto_ptr< sequenceName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:28001:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + condensedReferences (::std::auto_ptr< condensedReferences_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3284,9 +3022,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4414:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:28088:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + annotation1 (::std::auto_ptr< feature_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3295,9 +3033,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4490:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - genomeBuild (::std::auto_ptr< genomeBuild_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:28471:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3306,9 +3044,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4566:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - chromosome (::std::auto_ptr< chromosome_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:28547:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3317,9 +3055,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4644:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:28623:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontology (::std::auto_ptr< ontology_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3328,9 +3066,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4720:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:28699:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyIdRef (::std::auto_ptr< ontologyIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3339,9 +3077,9 @@ template class auto_ptr; ^~~~~~~~ In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:4796:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:28775:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + database (::std::auto_ptr< database_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -3349,16 +3087,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13351:39: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - explicitSequenceReference (::std::auto_ptr< explicitSequenceReference_type > p); - ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9566:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1507:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequence (::std::auto_ptr< sequence_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3366,30 +3099,37 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28851:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + databaseIdRef (::std::auto_ptr< databaseIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9642:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - index (::std::auto_ptr< index_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28927:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreType (::std::auto_ptr< scoreType_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9718:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - unit (::std::auto_ptr< unit_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1585:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > p); + ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:29003:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3397,23 +3137,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9794:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9974:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1665:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reference (::std::auto_ptr< reference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3423,9 +3158,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10032:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - value (::std::auto_ptr< value_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1741:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3435,9 +3170,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10108:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1817:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3445,23 +3180,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13597:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reference (::std::auto_ptr< reference_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10285:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1893:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + translationData (::std::auto_ptr< translationData_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3471,9 +3194,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10361:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1969:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + inlineBaseQuality (::std::auto_ptr< inlineBaseQuality_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3481,59 +3204,56 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13832:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - geneticCode (::std::auto_ptr< geneticCode_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:1992:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + BiosequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13908:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - phase (::std::auto_ptr< phase_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:29244:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:29415:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + relationName (::std::auto_ptr< relationName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13984:42: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reversedTranslationDirection (::std::auto_ptr< reversedTranslationDirection_type > p); - ^~~~~~~~ +In file included from BioXSD-1.1_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:29826:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localIdRef (::std::auto_ptr< localIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10679:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:2105:45: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + GeneralNucleotideSequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3543,9 +3263,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10755:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:2186:44: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + GeneralAminoacidSequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3555,9 +3275,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10813:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:2267:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + NucleotideSequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3565,34 +3285,23 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14226:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbName (::std::auto_ptr< dbName_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:5064:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reversedDirection (::std::auto_ptr< reversedDirection_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:2348:37: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + AminoacidSequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11072:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:2611:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3602,9 +3311,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11148:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:3051:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3614,9 +3323,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11206:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:3109:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + len (::std::auto_ptr< len_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3626,7 +3335,7 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11465:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] +BioXSD-1.1_xsd.hxx:3287:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] min (::std::auto_ptr< min_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, @@ -3638,7 +3347,7 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11544:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] +BioXSD-1.1_xsd.hxx:3366:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] max (::std::auto_ptr< max_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, @@ -3650,7 +3359,7 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11620:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] +BioXSD-1.1_xsd.hxx:3442:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] strand (::std::auto_ptr< strand_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, @@ -3662,7 +3371,7 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11678:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] +BioXSD-1.1_xsd.hxx:3500:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] minCertainty (::std::auto_ptr< minCertainty_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, @@ -3674,7 +3383,7 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11745:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] +BioXSD-1.1_xsd.hxx:3567:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] maxCertainty (::std::auto_ptr< maxCertainty_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, @@ -3684,46 +3393,10 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14304:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbUri (::std::auto_ptr< dbUri_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14380:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbVersion (::std::auto_ptr< dbVersion_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14511:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdl (::std::auto_ptr< wsdl_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12003:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > p); +BioXSD-1.1_xsd.hxx:3877:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -3732,23 +3405,23 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14587:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlService (::std::auto_ptr< wsdlService_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:3935:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + bases (::std::auto_ptr< bases_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12061:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:4110:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localAlignmentPosition (::std::auto_ptr< localAlignmentPosition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3756,59 +3429,35 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14663:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlPort (::std::auto_ptr< wsdlPort_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:4186:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14739:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14815:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:4262:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceReference (::std::auto_ptr< sequenceReference_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14894:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceDate (::std::auto_ptr< webserviceDate_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12377:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - insertion (::std::auto_ptr< insertion_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:4338:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceName (::std::auto_ptr< sequenceName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3818,9 +3467,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12517:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - nextPoint (::std::auto_ptr< nextPoint_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:4414:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3830,9 +3479,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12593:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - nextPartition (::std::auto_ptr< nextPartition_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:4490:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + genomeBuild (::std::auto_ptr< genomeBuild_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3842,9 +3491,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12669:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - samePoint (::std::auto_ptr< samePoint_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:4566:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + chromosome (::std::auto_ptr< chromosome_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3854,9 +3503,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12745:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - samePartition (::std::auto_ptr< samePartition_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:4644:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3866,9 +3515,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12821:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - outside (::std::auto_ptr< outside_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:4720:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3878,9 +3527,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13071:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - correspondance (::std::auto_ptr< correspondance_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:4796:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -3888,35 +3537,34 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15075:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - accession (::std::auto_ptr< accession_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:110:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequence (::std::auto_ptr< sequence_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13211:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - insertion (::std::auto_ptr< insertion_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:140:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15151:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - entryUri (::std::auto_ptr< entryUri_type > p); +BioXSD-1.1_xsd.hxx:1507:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequence (::std::auto_ptr< sequence_type > p); ^~~~~~~~ +BioXSD-1.1_xsd.cxx:170:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reference (::std::auto_ptr< reference_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -3924,23 +3572,23 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15227:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - entryVersion (::std::auto_ptr< entryVersion_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15305:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - date (::std::auto_ptr< date_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1585:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > p); + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:5064:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reversedDirection (::std::auto_ptr< reversedDirection_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -3948,23 +3596,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15481:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyName (::std::auto_ptr< ontologyName_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15559:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyUri (::std::auto_ptr< ontologyUri_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1665:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reference (::std::auto_ptr< reference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -3974,9 +3617,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15635:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyVersion (::std::auto_ptr< ontologyVersion_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1741:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -3984,23 +3627,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13351:39: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - explicitSequenceReference (::std::auto_ptr< explicitSequenceReference_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:200:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15870:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - accession (::std::auto_ptr< accession_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1817:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4010,9 +3651,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15946:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - conceptUri (::std::auto_ptr< conceptUri_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1893:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + translationData (::std::auto_ptr< translationData_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4022,9 +3663,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16028:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - term (::std::auto_ptr< term_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:1969:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + inlineBaseQuality (::std::auto_ptr< inlineBaseQuality_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4032,10 +3673,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:5589:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:1992:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + BiosequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:230:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -4043,47 +3695,41 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16207:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - speciesName (::std::auto_ptr< speciesName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:260:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + translationData (::std::auto_ptr< translationData_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16283:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - speciesNote (::std::auto_ptr< speciesNote_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:290:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + inlineBaseQuality (::std::auto_ptr< inlineBaseQuality_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13597:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reference (::std::auto_ptr< reference_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:376:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16459:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:2105:45: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + GeneralNucleotideSequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4093,9 +3739,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16538:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - supersequence (::std::auto_ptr< supersequence_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:2186:44: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + GeneralAminoacidSequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4103,23 +3749,26 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16617:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - supersequenceName (::std::auto_ptr< supersequenceName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:420:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:5589:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16693:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceVersion (::std::auto_ptr< sequenceVersion_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:2267:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + NucleotideSequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4127,11 +3776,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16769:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:2348:37: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + AminoacidSequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4139,10 +3795,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:5798:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - className (::std::auto_ptr< className_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:444:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + len (::std::auto_ptr< len_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -4150,22 +3805,19 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16845:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:478:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + min (::std::auto_ptr< min_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:5938:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - properties (::std::auto_ptr< properties_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:508:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -4175,9 +3827,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13832:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - geneticCode (::std::auto_ptr< geneticCode_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:5798:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + className (::std::auto_ptr< className_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4187,9 +3839,12 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13908:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - phase (::std::auto_ptr< phase_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:5938:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + properties (::std::auto_ptr< properties_type > p); + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:538:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4197,22 +3852,17 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13984:42: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reversedTranslationDirection (::std::auto_ptr< reversedTranslationDirection_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17130:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); +BioXSD-1.1_xsd.hxx:2611:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -4221,46 +3871,53 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17206:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - uri (::std::auto_ptr< uri_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:562:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + minCertainty (::std::auto_ptr< minCertainty_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: BioXSD-1.1_xsd.hxx:6115:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] specificFeatureName (::std::auto_ptr< specificFeatureName_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:592:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + maxCertainty (::std::auto_ptr< maxCertainty_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17282:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - version (::std::auto_ptr< version_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:634:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17358:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - date (::std::auto_ptr< date_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:3051:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4268,23 +3925,23 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17434:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdl (::std::auto_ptr< wsdl_type > p); +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:6385:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17510:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlService (::std::auto_ptr< wsdlService_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:3109:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + len (::std::auto_ptr< len_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4292,11 +3949,31 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +BioXSD-1.1_xsd.cxx:658:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + bases (::std::auto_ptr< bases_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:692:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localAlignmentPosition (::std::auto_ptr< localAlignmentPosition_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17586:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlPort (::std::auto_ptr< wsdlPort_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:3287:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + min (::std::auto_ptr< min_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4306,9 +3983,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17662:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:3366:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4318,9 +3995,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14226:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbName (::std::auto_ptr< dbName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:6627:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + appliesToWholeSequence (::std::auto_ptr< appliesToWholeSequence_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4330,9 +4007,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17738:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:3442:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4342,9 +4019,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14304:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbUri (::std::auto_ptr< dbUri_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:6703:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4354,9 +4031,21 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17817:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceDate (::std::auto_ptr< webserviceDate_type > p); +BioXSD-1.1_xsd.hxx:3500:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + minCertainty (::std::auto_ptr< minCertainty_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:3567:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + maxCertainty (::std::auto_ptr< maxCertainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4366,9 +4055,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14380:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbVersion (::std::auto_ptr< dbVersion_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:6843:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + occurrenceName (::std::auto_ptr< occurrenceName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4376,10 +4065,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6385:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:722:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceRecord (::std::auto_ptr< sequenceRecord_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -4389,9 +4077,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14511:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdl (::std::auto_ptr< wsdl_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:6919:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + occurrenceNote (::std::auto_ptr< occurrenceNote_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4401,9 +4089,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14587:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlService (::std::auto_ptr< wsdlService_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:6995:32: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + featureTypeDetails (::std::auto_ptr< featureTypeDetails_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4411,11 +4099,75 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +BioXSD-1.1_xsd.cxx:752:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceReference (::std::auto_ptr< sequenceReference_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:782:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceName (::std::auto_ptr< sequenceName_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:812:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:3877:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:842:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + genomeBuild (::std::auto_ptr< genomeBuild_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:3935:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + bases (::std::auto_ptr< bases_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14663:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlPort (::std::auto_ptr< wsdlPort_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:7203:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + frame (::std::auto_ptr< frame_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4425,9 +4177,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14739:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:7279:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + phase (::std::auto_ptr< phase_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4435,23 +4187,67 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14815:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); +BioXSD-1.1_xsd.cxx:872:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + chromosome (::std::auto_ptr< chromosome_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:4110:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localAlignmentPosition (::std::auto_ptr< localAlignmentPosition_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:4186:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:902:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > x) + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:4262:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceReference (::std::auto_ptr< sequenceReference_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14894:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceDate (::std::auto_ptr< webserviceDate_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:7419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignment (::std::auto_ptr< alignment_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4459,31 +4255,44 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6627:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - appliesToWholeSequence (::std::auto_ptr< appliesToWholeSequence_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:4338:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceName (::std::auto_ptr< sequenceName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6703:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:4414:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6843:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - occurrenceName (::std::auto_ptr< occurrenceName_type > p); +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:4490:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + genomeBuild (::std::auto_ptr< genomeBuild_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:932:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -4492,21 +4301,57 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6919:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - occurrenceNote (::std::auto_ptr< occurrenceNote_type > p); +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:4566:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + chromosome (::std::auto_ptr< chromosome_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:4644:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:4720:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:4796:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > p); + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:962:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:6995:32: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - featureTypeDetails (::std::auto_ptr< featureTypeDetails_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -4516,9 +4361,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15075:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - accession (::std::auto_ptr< accession_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:7588:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + referenceSequence (::std::auto_ptr< referenceSequence_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4526,35 +4371,31 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15151:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - entryUri (::std::auto_ptr< entryUri_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1046:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reversedDirection (::std::auto_ptr< reversedDirection_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15227:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - entryVersion (::std::auto_ptr< entryVersion_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1114:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15305:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - date (::std::auto_ptr< date_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:7742:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + FeatureRecord (::std::auto_ptr< referenceSequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4562,10 +4403,14 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7203:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - frame (::std::auto_ptr< frame_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1180:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + className (::std::auto_ptr< className_type > x) + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:5064:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reversedDirection (::std::auto_ptr< reversedDirection_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -4573,10 +4418,16 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7279:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - phase (::std::auto_ptr< phase_type > p); - ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1228:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + properties (::std::auto_ptr< properties_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -4586,9 +4437,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15481:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyName (::std::auto_ptr< ontologyName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:7901:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + predicted (::std::auto_ptr< predicted_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4598,25 +4449,19 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15559:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyUri (::std::auto_ptr< ontologyUri_type > p); - ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:22916:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - relationName (::std::auto_ptr< relationName_type > p); +BioXSD-1.1_xsd.hxx:7977:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + experimental (::std::auto_ptr< experimental_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignment (::std::auto_ptr< alignment_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1262:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + specificFeatureName (::std::auto_ptr< specificFeatureName_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -4624,18 +4469,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1346:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15635:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyVersion (::std::auto_ptr< ontologyVersion_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:8130:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4645,9 +4493,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15870:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - accession (::std::auto_ptr< accession_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:8217:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + MethodResult (::std::auto_ptr< method_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4655,11 +4503,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1398:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + appliesToWholeSequence (::std::auto_ptr< appliesToWholeSequence_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15946:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - conceptUri (::std::auto_ptr< conceptUri_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:8357:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4667,11 +4525,14 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1428:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > x) + ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16028:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - term (::std::auto_ptr< term_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:8444:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + Result (::std::auto_ptr< methodIdRef_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4679,22 +4540,16 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:23505:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - canonicalVariant (::std::auto_ptr< canonicalVariant_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7588:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - referenceSequence (::std::auto_ptr< referenceSequence_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1476:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + occurrenceName (::std::auto_ptr< occurrenceName_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -4704,9 +4559,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16207:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - speciesName (::std::auto_ptr< speciesName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:8602:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4716,8 +4571,8 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16283:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - speciesNote (::std::auto_ptr< speciesNote_type > p); +BioXSD-1.1_xsd.hxx:8678:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -4726,23 +4581,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:23645:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - missing (::std::auto_ptr< missing_type > p); - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16459:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1506:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + occurrenceNote (::std::auto_ptr< occurrenceNote_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:8818:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + verdict (::std::auto_ptr< verdict_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4750,16 +4603,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16538:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - supersequence (::std::auto_ptr< supersequence_type > p); - ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:23787:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:5589:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4767,30 +4615,31 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1536:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + featureTypeDetails (::std::auto_ptr< featureTypeDetails_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16617:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - supersequenceName (::std::auto_ptr< supersequenceName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1602:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + frame (::std::auto_ptr< frame_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16693:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceVersion (::std::auto_ptr< sequenceVersion_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:8973:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dataReference (::std::auto_ptr< dataReference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4800,9 +4649,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16769:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:9113:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + verdict (::std::auto_ptr< verdict_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4812,13 +4661,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:23961:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignmentOfReference (::std::auto_ptr< alignmentOfReference_type > p); - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7742:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - FeatureRecord (::std::auto_ptr< referenceSequence_type >); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:5798:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + className (::std::auto_ptr< className_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4826,18 +4671,23 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9189:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reliability (::std::auto_ptr< reliability_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16845:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:9212:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ExperimentalEvidence (::std::auto_ptr< dataReference_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -4847,9 +4697,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24019:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignedSequence (::std::auto_ptr< alignedSequence_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:5938:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + properties (::std::auto_ptr< properties_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4857,11 +4707,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1632:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + phase (::std::auto_ptr< phase_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24042:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignment (::std::auto_ptr< alignedSequence_type >); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:6115:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + specificFeatureName (::std::auto_ptr< specificFeatureName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4869,10 +4729,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7901:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - predicted (::std::auto_ptr< predicted_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1680:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignment (::std::auto_ptr< alignment_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -4880,23 +4739,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24200:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1708:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + referenceSequence (::std::auto_ptr< referenceSequence_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24276:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceReference (::std::auto_ptr< sequenceReference_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:6385:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4904,47 +4761,69 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24352:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceName (::std::auto_ptr< sequenceName_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9566:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24428:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > p); +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9642:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + index (::std::auto_ptr< index_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1778:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + predicted (::std::auto_ptr< predicted_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24504:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - genomeBuild (::std::auto_ptr< genomeBuild_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9718:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + unit (::std::auto_ptr< unit_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:9794:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24580:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - chromosome (::std::auto_ptr< chromosome_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:6627:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + appliesToWholeSequence (::std::auto_ptr< appliesToWholeSequence_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4952,11 +4831,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1808:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + experimental (::std::auto_ptr< experimental_type > x) + ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24658:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:6703:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4966,9 +4855,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24734:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:6843:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + occurrenceName (::std::auto_ptr< occurrenceName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4978,9 +4867,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24810:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:6919:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + occurrenceNote (::std::auto_ptr< occurrenceNote_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -4990,9 +4879,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17130:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:9974:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -5002,9 +4891,14 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17206:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - uri (::std::auto_ptr< uri_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:10032:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + value (::std::auto_ptr< value_type > p); + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:6995:32: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + featureTypeDetails (::std::auto_ptr< featureTypeDetails_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -5012,11 +4906,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17282:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - version (::std::auto_ptr< version_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:10108:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -5024,27 +4925,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17358:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - date (::std::auto_ptr< date_type > p); +BioXSD-1.1_xsd.cxx:1836:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17434:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdl (::std::auto_ptr< wsdl_type > p); - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:7977:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - experimental (::std::auto_ptr< experimental_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:10285:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -5052,6 +4947,14 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1882:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > x) + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10361:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5059,11 +4962,6 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17510:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlService (::std::auto_ptr< wsdlService_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -5073,9 +4971,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17586:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlPort (::std::auto_ptr< wsdlPort_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:10419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -5083,11 +4981,23 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7203:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + frame (::std::auto_ptr< frame_type > p); + ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17662:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:10679:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -5095,11 +5005,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1934:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > x) + ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17738:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:10755:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -5107,11 +5027,23 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7279:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + phase (::std::auto_ptr< phase_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17817:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceDate (::std::auto_ptr< webserviceDate_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:10813:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -5119,10 +5051,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8130:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:1964:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5130,32 +5061,33 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8217:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - MethodResult (::std::auto_ptr< method_type >); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignment (::std::auto_ptr< alignment_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8357:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11072:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8444:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - Result (::std::auto_ptr< methodIdRef_type >); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2012:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + verdict (::std::auto_ptr< verdict_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5163,20 +5095,32 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8602:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11148:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8678:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > p); +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11206:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2040:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dataReference (::std::auto_ptr< dataReference_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -5185,10 +5129,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8818:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - verdict (::std::auto_ptr< verdict_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2088:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + verdict (::std::auto_ptr< verdict_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5196,34 +5139,33 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24970:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - feature (::std::auto_ptr< feature_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11465:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + min (::std::auto_ptr< min_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:25046:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - condensedReferences (::std::auto_ptr< condensedReferences_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11544:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:8973:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dataReference (::std::auto_ptr< dataReference_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2118:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reliability (::std::auto_ptr< reliability_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5231,77 +5173,81 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:25133:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - annotation (::std::auto_ptr< feature_type >); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11620:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9113:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - verdict (::std::auto_ptr< verdict_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11678:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + minCertainty (::std::auto_ptr< minCertainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9189:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reliability (::std::auto_ptr< reliability_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11745:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + maxCertainty (::std::auto_ptr< maxCertainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9212:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ExperimentalEvidence (::std::auto_ptr< dataReference_type >); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7588:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + referenceSequence (::std::auto_ptr< referenceSequence_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9566:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12003:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9642:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - index (::std::auto_ptr< index_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12061:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9718:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - unit (::std::auto_ptr< unit_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2206:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5309,10 +5255,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9794:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2236:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + index (::std::auto_ptr< index_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5320,21 +5265,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:9974:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7742:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + FeatureRecord (::std::auto_ptr< referenceSequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10032:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - value (::std::auto_ptr< value_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2266:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + unit (::std::auto_ptr< unit_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5342,10 +5287,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10108:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2296:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5353,20 +5297,20 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10285:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12377:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + insertion (::std::auto_ptr< insertion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10361:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); +BioXSD-1.1_xsd.cxx:2330:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -5375,32 +5319,33 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7901:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + predicted (::std::auto_ptr< predicted_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10679:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:7977:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + experimental (::std::auto_ptr< experimental_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10755:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2354:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + value (::std::auto_ptr< value_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5408,32 +5353,33 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:10813:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12517:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + nextPoint (::std::auto_ptr< nextPoint_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11072:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12593:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + nextPartition (::std::auto_ptr< nextPartition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11148:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2384:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5441,55 +5387,57 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11206:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12669:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + samePoint (::std::auto_ptr< samePoint_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11465:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - min (::std::auto_ptr< min_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12745:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + samePartition (::std::auto_ptr< samePartition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:25778:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); +BioXSD-1.1_xsd.hxx:8130:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12821:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + outside (::std::auto_ptr< outside_type > p); ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11544:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2418:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11620:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5497,21 +5445,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11678:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - minCertainty (::std::auto_ptr< minCertainty_type > p); +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:8217:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + MethodResult (::std::auto_ptr< method_type >); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:11745:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - maxCertainty (::std::auto_ptr< maxCertainty_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2448:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5519,23 +5467,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:25932:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - code (::std::auto_ptr< code_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2472:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26122:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - aminoacid (::std::auto_ptr< aminoacid_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:8357:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -5545,9 +5491,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26253:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:8444:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + Result (::std::auto_ptr< methodIdRef_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -5555,10 +5501,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12003:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2516:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5566,10 +5511,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12061:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2546:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5577,10 +5521,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12377:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - insertion (::std::auto_ptr< insertion_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2570:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5590,7 +5533,7 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26781:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] +BioXSD-1.1_xsd.hxx:8602:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] method (::std::auto_ptr< method_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, @@ -5600,23 +5543,23 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26857:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontology (::std::auto_ptr< ontology_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13071:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + correspondance (::std::auto_ptr< correspondance_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26933:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - database (::std::auto_ptr< database_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:8678:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -5626,9 +5569,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27009:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreType (::std::auto_ptr< scoreType_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:8818:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + verdict (::std::auto_ptr< verdict_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -5636,21 +5579,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12517:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - nextPoint (::std::auto_ptr< nextPoint_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12593:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - nextPartition (::std::auto_ptr< nextPartition_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2614:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5658,21 +5589,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12669:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - samePoint (::std::auto_ptr< samePoint_type > p); +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13211:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + insertion (::std::auto_ptr< insertion_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12745:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - samePartition (::std::auto_ptr< samePartition_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2644:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5680,9 +5611,8 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:12821:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - outside (::std::auto_ptr< outside_type > p); +BioXSD-1.1_xsd.cxx:2668:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -5691,21 +5621,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13071:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - correspondance (::std::auto_ptr< correspondance_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13211:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - insertion (::std::auto_ptr< insertion_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2712:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + min (::std::auto_ptr< min_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5715,21 +5633,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27164:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27316:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:8973:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dataReference (::std::auto_ptr< dataReference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -5737,22 +5643,20 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27468:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2742:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27620:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); +BioXSD-1.1_xsd.hxx:9113:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + verdict (::std::auto_ptr< verdict_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -5763,9 +5667,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27773:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:9189:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reliability (::std::auto_ptr< reliability_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -5775,9 +5679,12 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27925:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - feature (::std::auto_ptr< feature_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:9212:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ExperimentalEvidence (::std::auto_ptr< dataReference_type >); + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2772:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -5785,22 +5692,16 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28001:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - condensedReferences (::std::auto_ptr< condensedReferences_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13351:39: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - explicitSequenceReference (::std::auto_ptr< explicitSequenceReference_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2796:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + minCertainty (::std::auto_ptr< minCertainty_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5808,22 +5709,19 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28088:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - annotation1 (::std::auto_ptr< feature_type >); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2826:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + maxCertainty (::std::auto_ptr< maxCertainty_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13597:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reference (::std::auto_ptr< reference_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2870:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5831,10 +5729,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13832:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - geneticCode (::std::auto_ptr< geneticCode_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2894:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5842,21 +5739,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13908:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - phase (::std::auto_ptr< phase_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13351:39: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + explicitSequenceReference (::std::auto_ptr< explicitSequenceReference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:13984:42: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reversedTranslationDirection (::std::auto_ptr< reversedTranslationDirection_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:2956:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + insertion (::std::auto_ptr< insertion_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5866,9 +5763,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28471:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:9566:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -5876,11 +5773,14 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3004:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + nextPoint (::std::auto_ptr< nextPoint_type > x) + ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28547:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:9642:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + index (::std::auto_ptr< index_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -5888,23 +5788,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28623:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontology (::std::auto_ptr< ontology_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28699:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyIdRef (::std::auto_ptr< ontologyIdRef_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:9718:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + unit (::std::auto_ptr< unit_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -5914,9 +5809,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28775:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - database (::std::auto_ptr< database_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:9794:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -5924,22 +5819,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28851:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - databaseIdRef (::std::auto_ptr< databaseIdRef_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13597:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reference (::std::auto_ptr< reference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14226:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbName (::std::auto_ptr< dbName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3034:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + nextPartition (::std::auto_ptr< nextPartition_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5947,22 +5841,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28927:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreType (::std::auto_ptr< scoreType_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14304:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbUri (::std::auto_ptr< dbUri_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3064:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + samePoint (::std::auto_ptr< samePoint_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -5972,9 +5853,9 @@ ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:29003:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:9974:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -5982,32 +5863,26 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14380:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbVersion (::std::auto_ptr< dbVersion_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14511:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdl (::std::auto_ptr< wsdl_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10032:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + value (::std::auto_ptr< value_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14587:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlService (::std::auto_ptr< wsdlService_type > p); +BioXSD-1.1_xsd.cxx:3094:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + samePartition (::std::auto_ptr< samePartition_type > x) ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10108:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -6015,22 +5890,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14663:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlPort (::std::auto_ptr< wsdlPort_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:22916:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - relationName (::std::auto_ptr< relationName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:13832:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + geneticCode (::std::auto_ptr< geneticCode_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6038,15 +5909,14 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14739:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); - ^~~~~~~~ -In file included from freecontact_output_xsd.hxx:645, - from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:29244:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3124:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + outside (::std::auto_ptr< outside_type > x) + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13908:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + phase (::std::auto_ptr< phase_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -6056,38 +5926,28 @@ ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14815:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:14894:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceDate (::std::auto_ptr< webserviceDate_type > p); - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13984:42: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reversedTranslationDirection (::std::auto_ptr< reversedTranslationDirection_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:29415:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - relationName (::std::auto_ptr< relationName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:10285:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -6095,23 +5955,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:23505:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - canonicalVariant (::std::auto_ptr< canonicalVariant_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:29826:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localIdRef (::std::auto_ptr< localIdRef_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:10361:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -6119,77 +5967,20 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15075:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - accession (::std::auto_ptr< accession_type > p); +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15151:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - entryUri (::std::auto_ptr< entryUri_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15227:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - entryVersion (::std::auto_ptr< entryVersion_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15305:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - date (::std::auto_ptr< date_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:23645:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - missing (::std::auto_ptr< missing_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:23787:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15481:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyName (::std::auto_ptr< ontologyName_type > p); +BioXSD-1.1_xsd.cxx:3162:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + correspondance (::std::auto_ptr< correspondance_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -6198,57 +5989,47 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15559:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyUri (::std::auto_ptr< ontologyUri_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15635:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyVersion (::std::auto_ptr< ontologyVersion_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10679:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:23961:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignmentOfReference (::std::auto_ptr< alignmentOfReference_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10755:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24019:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignedSequence (::std::auto_ptr< alignedSequence_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:10813:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24042:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignment (::std::auto_ptr< alignedSequence_type >); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:14226:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbName (::std::auto_ptr< dbName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6256,10 +6037,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15870:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - accession (::std::auto_ptr< accession_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3210:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + insertion (::std::auto_ptr< insertion_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -6269,21 +6049,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24200:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24276:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceReference (::std::auto_ptr< sequenceReference_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:14304:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbUri (::std::auto_ptr< dbUri_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6293,9 +6061,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24352:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceName (::std::auto_ptr< sequenceName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:14380:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbVersion (::std::auto_ptr< dbVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6305,9 +6073,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24428:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:14511:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdl (::std::auto_ptr< wsdl_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6317,8 +6085,8 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24504:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - genomeBuild (::std::auto_ptr< genomeBuild_type > p); +BioXSD-1.1_xsd.hxx:14587:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlService (::std::auto_ptr< wsdlService_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -6329,9 +6097,12 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24580:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - chromosome (::std::auto_ptr< chromosome_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:14663:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlPort (::std::auto_ptr< wsdlPort_type > p); + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3258:37: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + explicitSequenceReference (::std::auto_ptr< explicitSequenceReference_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6339,10 +6110,6 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:15946:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - conceptUri (::std::auto_ptr< conceptUri_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -6352,8 +6119,8 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24658:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); +BioXSD-1.1_xsd.hxx:14739:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -6362,34 +6129,23 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16028:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - term (::std::auto_ptr< term_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24734:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11072:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24810:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:14815:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6397,21 +6153,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16207:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - speciesName (::std::auto_ptr< speciesName_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11148:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16283:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - speciesNote (::std::auto_ptr< speciesNote_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3296:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reference (::std::auto_ptr< reference_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -6419,23 +6175,16 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11206:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24970:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - feature (::std::auto_ptr< feature_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; +BioXSD-1.1_xsd.hxx:14894:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceDate (::std::auto_ptr< webserviceDate_type > p); ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:25046:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - condensedReferences (::std::auto_ptr< condensedReferences_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6443,76 +6192,16 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16459:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16538:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - supersequence (::std::auto_ptr< supersequence_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16617:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - supersequenceName (::std::auto_ptr< supersequenceName_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16693:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceVersion (::std::auto_ptr< sequenceVersion_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16769:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:16845:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17130:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3348:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + geneticCode (::std::auto_ptr< geneticCode_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -6520,54 +6209,33 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17206:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - uri (::std::auto_ptr< uri_type > p); +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11465:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + min (::std::auto_ptr< min_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17282:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - version (::std::auto_ptr< version_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17358:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - date (::std::auto_ptr< date_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17434:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdl (::std::auto_ptr< wsdl_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11544:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17510:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlService (::std::auto_ptr< wsdlService_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3378:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + phase (::std::auto_ptr< phase_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -6575,43 +6243,45 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17586:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlPort (::std::auto_ptr< wsdlPort_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11620:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17662:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11678:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + minCertainty (::std::auto_ptr< minCertainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17738:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:11745:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + maxCertainty (::std::auto_ptr< maxCertainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:17817:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceDate (::std::auto_ptr< webserviceDate_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3408:40: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reversedTranslationDirection (::std::auto_ptr< reversedTranslationDirection_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -6621,9 +6291,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:25133:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - annotation (::std::auto_ptr< feature_type >); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:15075:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + accession (::std::auto_ptr< accession_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6631,43 +6301,33 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:681:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3446:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbName (::std::auto_ptr< dbName_type > x) + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15151:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + entryUri (::std::auto_ptr< entryUri_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:697:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:715:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, +In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:731:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:12003:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -6675,32 +6335,23 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:747:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15227:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + entryVersion (::std::auto_ptr< entryVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:765:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, +In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:785:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:12061:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -6708,55 +6359,57 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:807:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15305:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + date (::std::auto_ptr< date_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:830:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3476:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbUri (::std::auto_ptr< dbUri_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:847:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15481:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyName (::std::auto_ptr< ontologyName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:863:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15559:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyUri (::std::auto_ptr< ontologyUri_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:25778:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:15635:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyVersion (::std::auto_ptr< ontologyVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6764,21 +6417,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:881:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3506:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbVersion (::std::auto_ptr< dbVersion_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:895:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12377:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + insertion (::std::auto_ptr< insertion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -6786,22 +6439,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_output_xsd.cxx:41: -freecontact_output_xsd.hxx:912:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3560:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdl (::std::auto_ptr< wsdl_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:25932:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - code (::std::auto_ptr< code_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:15870:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + accession (::std::auto_ptr< accession_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6811,9 +6463,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26122:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - aminoacid (::std::auto_ptr< aminoacid_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:15946:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + conceptUri (::std::auto_ptr< conceptUri_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6823,8 +6475,8 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26253:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); +BioXSD-1.1_xsd.hxx:16028:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + term (::std::auto_ptr< term_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -6834,118 +6486,34 @@ template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:1507:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequence (::std::auto_ptr< sequence_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:1585:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:1665:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reference (::std::auto_ptr< reference_type > p); + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:16207:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + speciesName (::std::auto_ptr< speciesName_type > p); + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12517:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + nextPoint (::std::auto_ptr< nextPoint_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:1741:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:1817:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:1893:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - translationData (::std::auto_ptr< translationData_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:1969:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - inlineBaseQuality (::std::auto_ptr< inlineBaseQuality_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:1992:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - BiosequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26781:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26857:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontology (::std::auto_ptr< ontology_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:16283:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + speciesNote (::std::auto_ptr< speciesNote_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -6953,47 +6521,47 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26933:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - database (::std::auto_ptr< database_type > p); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12593:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + nextPartition (::std::auto_ptr< nextPartition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27009:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreType (::std::auto_ptr< scoreType_type > p); +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12669:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + samePoint (::std::auto_ptr< samePoint_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:2105:45: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - GeneralNucleotideSequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12745:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + samePartition (::std::auto_ptr< samePartition_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27164:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:16459:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7002,58 +6570,22 @@ template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:2186:44: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - GeneralAminoacidSequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:2267:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - NucleotideSequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27316:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); +BioXSD-1.1_xsd.hxx:16538:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + supersequence (::std::auto_ptr< supersequence_type > p); + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:12821:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + outside (::std::auto_ptr< outside_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:2348:37: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - AminoacidSequenceRecord (::std::auto_ptr< sequence_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27468:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7061,23 +6593,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27620:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3590:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlService (::std::auto_ptr< wsdlService_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27773:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:16617:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + supersequenceName (::std::auto_ptr< supersequenceName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7086,106 +6616,10 @@ template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:2611:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:3051:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:3109:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - len (::std::auto_ptr< len_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:3287:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - min (::std::auto_ptr< min_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:3366:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:3442:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:3500:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - minCertainty (::std::auto_ptr< minCertainty_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:3567:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - maxCertainty (::std::auto_ptr< maxCertainty_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27925:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - feature (::std::auto_ptr< feature_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:16693:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceVersion (::std::auto_ptr< sequenceVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7195,9 +6629,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28001:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - condensedReferences (::std::auto_ptr< condensedReferences_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:16769:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7207,8 +6641,8 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28088:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - annotation1 (::std::auto_ptr< feature_type >); +BioXSD-1.1_xsd.hxx:16845:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -7217,155 +6651,41 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:3877:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:3935:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - bases (::std::auto_ptr< bases_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:4110:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localAlignmentPosition (::std::auto_ptr< localAlignmentPosition_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:4186:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +BioXSD-1.1_xsd.cxx:3620:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlPort (::std::auto_ptr< wsdlPort_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:4262:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceReference (::std::auto_ptr< sequenceReference_type > p); +BioXSD-1.1_xsd.cxx:3650:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceOperation (::std::auto_ptr< webserviceOperation_type > x) ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:4338:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceName (::std::auto_ptr< sequenceName_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:4414:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:4490:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - genomeBuild (::std::auto_ptr< genomeBuild_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:4566:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - chromosome (::std::auto_ptr< chromosome_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:4644:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:4720:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:4796:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +BioXSD-1.1_xsd.cxx:3680:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceVersion (::std::auto_ptr< webserviceVersion_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28471:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17130:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7375,9 +6695,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28547:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17206:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + uri (::std::auto_ptr< uri_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7387,9 +6707,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28623:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontology (::std::auto_ptr< ontology_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17282:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + version (::std::auto_ptr< version_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7399,9 +6719,14 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28699:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyIdRef (::std::auto_ptr< ontologyIdRef_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17358:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + date (::std::auto_ptr< date_type > p); + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13071:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + correspondance (::std::auto_ptr< correspondance_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7409,23 +6734,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:5064:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reversedDirection (::std::auto_ptr< reversedDirection_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28775:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - database (::std::auto_ptr< database_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17434:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdl (::std::auto_ptr< wsdl_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7435,9 +6755,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28851:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - databaseIdRef (::std::auto_ptr< databaseIdRef_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17510:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlService (::std::auto_ptr< wsdlService_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7447,9 +6767,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28927:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreType (::std::auto_ptr< scoreType_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17586:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlPort (::std::auto_ptr< wsdlPort_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7457,23 +6777,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:29003:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3710:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceDate (::std::auto_ptr< webserviceDate_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:29244:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17662:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7483,9 +6801,9 @@ ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:29415:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - relationName (::std::auto_ptr< relationName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17738:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7494,22 +6812,10 @@ template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:5589:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:29826:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localIdRef (::std::auto_ptr< localIdRef_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:17817:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceDate (::std::auto_ptr< webserviceDate_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -7517,130 +6823,14 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:5798:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - className (::std::auto_ptr< className_type > p); +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13211:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + insertion (::std::auto_ptr< insertion_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:5938:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - properties (::std::auto_ptr< properties_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:6115:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - specificFeatureName (::std::auto_ptr< specificFeatureName_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:6385:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:6627:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - appliesToWholeSequence (::std::auto_ptr< appliesToWholeSequence_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:6703:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:6843:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - occurrenceName (::std::auto_ptr< occurrenceName_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:6919:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - occurrenceNote (::std::auto_ptr< occurrenceNote_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:6995:32: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - featureTypeDetails (::std::auto_ptr< featureTypeDetails_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:7203:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - frame (::std::auto_ptr< frame_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:22916:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - relationName (::std::auto_ptr< relationName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3744:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + accession (::std::auto_ptr< accession_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7648,45 +6838,16 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:7279:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - phase (::std::auto_ptr< phase_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:7419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignment (::std::auto_ptr< alignment_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:23505:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - canonicalVariant (::std::auto_ptr< canonicalVariant_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:23645:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - missing (::std::auto_ptr< missing_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3774:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + entryUri (::std::auto_ptr< entryUri_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7694,10 +6855,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:23787:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3804:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + entryVersion (::std::auto_ptr< entryVersion_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7705,10 +6865,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:23961:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignmentOfReference (::std::auto_ptr< alignmentOfReference_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3834:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + date (::std::auto_ptr< date_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7716,10 +6875,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24019:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignedSequence (::std::auto_ptr< alignedSequence_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3868:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyName (::std::auto_ptr< ontologyName_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7727,9 +6885,8 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24042:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignment (::std::auto_ptr< alignedSequence_type >); +BioXSD-1.1_xsd.cxx:3898:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyUri (::std::auto_ptr< ontologyUri_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -7738,33 +6895,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:7588:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - referenceSequence (::std::auto_ptr< referenceSequence_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24200:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24276:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceReference (::std::auto_ptr< sequenceReference_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3928:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyVersion (::std::auto_ptr< ontologyVersion_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7772,10 +6905,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24352:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceName (::std::auto_ptr< sequenceName_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:3986:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + accession (::std::auto_ptr< accession_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7783,10 +6915,14 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24428:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4016:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + conceptUri (::std::auto_ptr< conceptUri_type > x) + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13351:39: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + explicitSequenceReference (::std::auto_ptr< explicitSequenceReference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7794,21 +6930,16 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24504:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - genomeBuild (::std::auto_ptr< genomeBuild_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24580:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - chromosome (::std::auto_ptr< chromosome_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4046:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + term (::std::auto_ptr< term_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7816,10 +6947,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24658:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4080:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + speciesName (::std::auto_ptr< speciesName_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7827,10 +6957,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24734:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4110:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + speciesNote (::std::auto_ptr< speciesNote_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7838,10 +6967,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24810:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4144:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7849,54 +6977,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:723:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - flat (::std::auto_ptr< flat_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:746:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - FcAlignment (::std::auto_ptr< flat_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:7742:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - FeatureRecord (::std::auto_ptr< referenceSequence_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:847:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx:68:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13597:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reference (::std::auto_ptr< reference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -7904,22 +6989,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:7901:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - predicted (::std::auto_ptr< predicted_type > p); - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:24970:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - feature (::std::auto_ptr< feature_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4174:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + supersequence (::std::auto_ptr< supersequence_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7927,10 +6999,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:25046:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - condensedReferences (::std::auto_ptr< condensedReferences_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4204:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + supersequenceName (::std::auto_ptr< supersequenceName_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -7938,99 +7009,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:7977:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - experimental (::std::auto_ptr< experimental_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:863:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:881:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:897:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:913:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:931:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:951:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:973:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:25133:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - annotation (::std::auto_ptr< feature_type >); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4234:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceVersion (::std::auto_ptr< sequenceVersion_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -8038,230 +7019,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:996:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:8130:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:1013:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:8217:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - MethodResult (::std::auto_ptr< method_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:1029:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:1047:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:1061:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.cxx:41: -freecontact_input_xsd.hxx:1078:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:8357:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:8444:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - Result (::std::auto_ptr< methodIdRef_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:8602:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:8678:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:8818:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - verdict (::std::auto_ptr< verdict_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:8973:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dataReference (::std::auto_ptr< dataReference_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:9113:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - verdict (::std::auto_ptr< verdict_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:9189:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reliability (::std::auto_ptr< reliability_type > p); +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:13832:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + geneticCode (::std::auto_ptr< geneticCode_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:9212:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ExperimentalEvidence (::std::auto_ptr< dataReference_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; +BioXSD-1.1_xsd.cxx:4264:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > x) ^~~~~~~~ -freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(const string&, xml_schema::flags, const properties&)': -freecontact_output_xsd.cxx:85:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx: At global scope: -freecontact_output_xsd.cxx:90:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(const string&, xml_schema::error_handler&, xml_schema::flags, const properties&)': -freecontact_output_xsd.cxx:107:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -8269,20 +7041,10 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_output_xsd.cxx: At global scope: -freecontact_output_xsd.cxx:112:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, +In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(const string&, xercesc_3_2::DOMErrorHandler&, xml_schema::flags, const properties&)': -freecontact_output_xsd.cxx:125:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( +BioXSD-1.1_xsd.hxx:13908:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + phase (::std::auto_ptr< phase_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -8291,104 +7053,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:9566:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:9642:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - index (::std::auto_ptr< index_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:9718:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - unit (::std::auto_ptr< unit_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:9794:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx: At global scope: -freecontact_output_xsd.cxx:130:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, +In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:9974:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:10032:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - value (::std::auto_ptr< value_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:10108:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx:143:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:13984:42: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reversedTranslationDirection (::std::auto_ptr< reversedTranslationDirection_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -8396,10 +7065,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:25778:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4294:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -8407,25 +7075,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_output_xsd.cxx:157:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:25932:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - code (::std::auto_ptr< code_type > p); - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:10285:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4358:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -8433,51 +7085,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:10361:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx:167:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:10419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26122:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - aminoacid (::std::auto_ptr< aminoacid_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4388:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + uri (::std::auto_ptr< uri_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -8485,10 +7095,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26253:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4418:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + version (::std::auto_ptr< version_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -8496,43 +7105,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_output_xsd.cxx:181:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, +In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:10679:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:10755:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); +BioXSD-1.1_xsd.hxx:14226:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbName (::std::auto_ptr< dbName_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx:196:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -8540,31 +7117,10 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:10813:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx:207:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, +In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(xercesc_3_2::InputSource&, xml_schema::flags, const properties&)': -freecontact_output_xsd.cxx:220:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( +BioXSD-1.1_xsd.hxx:14304:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbUri (::std::auto_ptr< dbUri_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -8573,32 +7129,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_output_xsd.cxx: At global scope: -freecontact_output_xsd.cxx:225:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4448:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + date (::std::auto_ptr< date_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, - from freecontact_output_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(xercesc_3_2::InputSource&, xml_schema::error_handler&, xml_schema::flags, const properties&)': -freecontact_output_xsd.cxx:238:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, +In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx: At global scope: -freecontact_output_xsd.cxx:243:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:14380:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbVersion (::std::auto_ptr< dbVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -8606,10 +7151,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(xercesc_3_2::InputSource&, xercesc_3_2::DOMErrorHandler&, xml_schema::flags, const properties&)': -freecontact_output_xsd.cxx:256:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:14511:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdl (::std::auto_ptr< wsdl_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -8617,10 +7163,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26781:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4478:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdl (::std::auto_ptr< wsdl_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -8628,10 +7173,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_output_xsd.cxx: At global scope: -freecontact_output_xsd.cxx:261:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:14587:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlService (::std::auto_ptr< wsdlService_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -8639,123 +7185,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26857:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontology (::std::auto_ptr< ontology_type > p); +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:14663:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlPort (::std::auto_ptr< wsdlPort_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(const xercesc_3_2::DOMDocument&, xml_schema::flags, const properties&)': -freecontact_output_xsd.cxx:271:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:26933:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - database (::std::auto_ptr< database_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27009:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreType (::std::auto_ptr< scoreType_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27164:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27316:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:11072:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:11148:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27468:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:11206:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); +BioXSD-1.1_xsd.cxx:4508:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlService (::std::auto_ptr< wsdlService_type > x) ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27620:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -8763,159 +7207,32 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_output_xsd.cxx:280:12: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_output_xsd.hxx:66, +In file included from freecontact_output_xsd.hxx:645, from freecontact_output_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27773:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:11465:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - min (::std::auto_ptr< min_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:11544:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:27925:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - feature (::std::auto_ptr< feature_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:11620:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28001:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - condensedReferences (::std::auto_ptr< condensedReferences_type > p); +BioXSD-1.1_xsd.hxx:14739:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:11678:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - minCertainty (::std::auto_ptr< minCertainty_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:11745:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - maxCertainty (::std::auto_ptr< maxCertainty_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:12003:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:12061:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28088:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - annotation1 (::std::auto_ptr< feature_type >); - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:14815:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:12377:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - insertion (::std::auto_ptr< insertion_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28471:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); +BioXSD-1.1_xsd.cxx:4538:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlPort (::std::auto_ptr< wsdlPort_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -8924,136 +7241,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28547:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28623:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontology (::std::auto_ptr< ontology_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28699:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyIdRef (::std::auto_ptr< ontologyIdRef_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28775:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - database (::std::auto_ptr< database_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28851:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - databaseIdRef (::std::auto_ptr< databaseIdRef_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:14894:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceDate (::std::auto_ptr< webserviceDate_type > p); ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:28927:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreType (::std::auto_ptr< scoreType_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:12517:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - nextPoint (::std::auto_ptr< nextPoint_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:12593:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - nextPartition (::std::auto_ptr< nextPartition_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:12669:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - samePoint (::std::auto_ptr< samePoint_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:12745:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - samePartition (::std::auto_ptr< samePartition_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:12821:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - outside (::std::auto_ptr< outside_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:29003:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4568:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceOperation (::std::auto_ptr< webserviceOperation_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -9061,34 +7263,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:13071:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - correspondance (::std::auto_ptr< correspondance_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:13211:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - insertion (::std::auto_ptr< insertion_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:29244:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:4598:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceVersion (::std::auto_ptr< webserviceVersion_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -9096,9 +7273,8 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:29415:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - relationName (::std::auto_ptr< relationName_type > p); +BioXSD-1.1_xsd.cxx:4628:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceDate (::std::auto_ptr< webserviceDate_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -9107,338 +7283,83 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:13351:39: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - explicitSequenceReference (::std::auto_ptr< explicitSequenceReference_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from BioXSD-1.1_xsd.cxx:41: -BioXSD-1.1_xsd.hxx:29826:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localIdRef (::std::auto_ptr< localIdRef_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:13597:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reference (::std::auto_ptr< reference_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:13832:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - geneticCode (::std::auto_ptr< geneticCode_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_input_xsd.cxx:67:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - flat (::std::auto_ptr< flat_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:13908:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - phase (::std::auto_ptr< phase_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:13984:42: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reversedTranslationDirection (::std::auto_ptr< reversedTranslationDirection_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:14226:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbName (::std::auto_ptr< dbName_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:14304:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbUri (::std::auto_ptr< dbUri_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:14380:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbVersion (::std::auto_ptr< dbVersion_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:14511:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdl (::std::auto_ptr< wsdl_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:14587:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlService (::std::auto_ptr< wsdlService_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:14663:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlPort (::std::auto_ptr< wsdlPort_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:14739:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:14815:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:14894:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceDate (::std::auto_ptr< webserviceDate_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:15075:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] accession (::std::auto_ptr< accession_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:15151:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] entryUri (::std::auto_ptr< entryUri_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:15227:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] entryVersion (::std::auto_ptr< entryVersion_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:15305:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] date (::std::auto_ptr< date_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:15481:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ontologyName (::std::auto_ptr< ontologyName_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:15559:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ontologyUri (::std::auto_ptr< ontologyUri_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:15635:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ontologyVersion (::std::auto_ptr< ontologyVersion_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:15870:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - accession (::std::auto_ptr< accession_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:15946:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - conceptUri (::std::auto_ptr< conceptUri_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:16028:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - term (::std::auto_ptr< term_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:110:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequence (::std::auto_ptr< sequence_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_input_xsd.cxx:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - FcAlignment (::std::auto_ptr< flat_type > flat) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx:289:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > r ( - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -9446,30 +7367,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:140:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:170:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reference (::std::auto_ptr< reference_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx: At global scope: -freecontact_output_xsd.cxx:307:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15870:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + accession (::std::auto_ptr< accession_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -9477,31 +7379,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: In member function 'void freecontact_input_xsd::FcAlignment::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': -freecontact_input_xsd.cxx:139:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:200:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(xsd::cxx::xml::dom::auto_ptr, xml_schema::flags, const properties&)': -freecontact_output_xsd.cxx:329:12: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:15946:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + conceptUri (::std::auto_ptr< conceptUri_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -9509,19 +7391,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:230:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > x) - ^~~~~~~~ -freecontact_output_xsd.cxx:339:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::BioXSD::FeatureRecord > r ( - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:16028:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + term (::std::auto_ptr< term_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_output_xsd.hxx:66, @@ -9529,265 +7403,263 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:16207:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] speciesName (::std::auto_ptr< speciesName_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:16283:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] speciesNote (::std::auto_ptr< speciesNote_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:16459:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:16538:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] supersequence (::std::auto_ptr< supersequence_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:16617:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] supersequenceName (::std::auto_ptr< supersequenceName_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:16693:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] sequenceVersion (::std::auto_ptr< sequenceVersion_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:16769:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] variantAccession (::std::auto_ptr< variantAccession_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:16845:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] variantNote (::std::auto_ptr< variantNote_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:17130:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] name (::std::auto_ptr< name_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:17206:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] uri (::std::auto_ptr< uri_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:17282:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] version (::std::auto_ptr< version_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:17358:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] date (::std::auto_ptr< date_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:17434:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] wsdl (::std::auto_ptr< wsdl_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:17510:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] wsdlService (::std::auto_ptr< wsdlService_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:17586:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] wsdlPort (::std::auto_ptr< wsdlPort_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:17662:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:17738:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:17817:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] webserviceDate (::std::auto_ptr< webserviceDate_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:260:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - translationData (::std::auto_ptr< translationData_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:290:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - inlineBaseQuality (::std::auto_ptr< inlineBaseQuality_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:22916:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + relationName (::std::auto_ptr< relationName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:376:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:23505:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + canonicalVariant (::std::auto_ptr< canonicalVariant_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:420:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:23645:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + missing (::std::auto_ptr< missing_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx:150:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< flat_type > r ( - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:23787:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -9795,9 +7667,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:444:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - len (::std::auto_ptr< len_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:5311:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + relationName (::std::auto_ptr< relationName_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -9805,10 +7677,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: At global scope: -freecontact_input_xsd.cxx:212:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:23961:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignmentOfReference (::std::auto_ptr< alignmentOfReference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -9816,39 +7689,33 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:478:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - min (::std::auto_ptr< min_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24019:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignedSequence (::std::auto_ptr< alignedSequence_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:508:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24042:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignment (::std::auto_ptr< alignedSequence_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:538:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; +BioXSD-1.1_xsd.cxx:5439:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + canonicalVariant (::std::auto_ptr< canonicalVariant_type > x) ^~~~~~~~ -BioXSD-1.1_xsd.cxx:562:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - minCertainty (::std::auto_ptr< minCertainty_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -9856,9 +7723,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:592:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - maxCertainty (::std::auto_ptr< maxCertainty_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:5487:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + missing (::std::auto_ptr< missing_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -9866,20 +7733,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:634:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24200:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); ^~~~~~~~ -freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(const string&, xml_schema::flags, const properties&)': -freecontact_input_xsd.cxx:229:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -9887,10 +7745,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: At global scope: -freecontact_input_xsd.cxx:234:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24276:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceReference (::std::auto_ptr< sequenceReference_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -9898,10 +7757,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(const string&, xml_schema::error_handler&, xml_schema::flags, const properties&)': -freecontact_input_xsd.cxx:251:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24352:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceName (::std::auto_ptr< sequenceName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -9909,21 +7769,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: At global scope: -freecontact_input_xsd.cxx:256:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:5535:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > x) + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24428:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(const string&, xercesc_3_2::DOMErrorHandler&, xml_schema::flags, const properties&)': -freecontact_input_xsd.cxx:269:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -9931,10 +7791,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: At global scope: -freecontact_input_xsd.cxx:274:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24504:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + genomeBuild (::std::auto_ptr< genomeBuild_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -9942,9 +7803,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx:287:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24580:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + chromosome (::std::auto_ptr< chromosome_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -9952,19 +7815,23 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:658:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - bases (::std::auto_ptr< bases_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24658:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx:301:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24734:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -9972,9 +7839,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx:311:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24810:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -9982,9 +7851,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:692:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localAlignmentPosition (::std::auto_ptr< localAlignmentPosition_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:5569:32: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignmentOfReference (::std::auto_ptr< alignmentOfReference_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -9992,9 +7861,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx:325:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24970:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + feature (::std::auto_ptr< feature_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -10002,9 +7873,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx:340:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:25046:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + condensedReferences (::std::auto_ptr< condensedReferences_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -10012,7 +7885,17 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:722:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] +BioXSD-1.1_xsd.cxx:5593:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignedSequence (::std::auto_ptr< alignedSequence_type > x) + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +BioXSD-1.1_xsd.cxx:5627:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] sequenceRecord (::std::auto_ptr< sequenceRecord_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, @@ -10022,9 +7905,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx:351:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:25133:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + annotation (::std::auto_ptr< feature_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -10032,7 +7917,7 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:752:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] +BioXSD-1.1_xsd.cxx:5657:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] sequenceReference (::std::auto_ptr< sequenceReference_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, @@ -10042,20 +7927,19 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(xercesc_3_2::InputSource&, xml_schema::flags, const properties&)': -freecontact_input_xsd.cxx:364:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:5687:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceName (::std::auto_ptr< sequenceName_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:782:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceName (::std::auto_ptr< sequenceName_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:5717:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10063,20 +7947,19 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: At global scope: -freecontact_input_xsd.cxx:369:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:5747:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + genomeBuild (::std::auto_ptr< genomeBuild_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:812:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:5777:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + chromosome (::std::auto_ptr< chromosome_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10084,30 +7967,28 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(xercesc_3_2::InputSource&, xml_schema::error_handler&, xml_schema::flags, const properties&)': -freecontact_input_xsd.cxx:382:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:5807:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: At global scope: -freecontact_input_xsd.cxx:387:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:5837:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:842:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - genomeBuild (::std::auto_ptr< genomeBuild_type > x) +BioXSD-1.1_xsd.cxx:5867:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -10116,31 +7997,29 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(xercesc_3_2::InputSource&, xercesc_3_2::DOMErrorHandler&, xml_schema::flags, const properties&)': -freecontact_input_xsd.cxx:400:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( +BioXSD-1.1_xsd.cxx:5895:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + feature (::std::auto_ptr< feature_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: At global scope: -freecontact_input_xsd.cxx:405:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:5925:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + condensedReferences (::std::auto_ptr< condensedReferences_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, - from freecontact_input_xsd.cxx:41: + from BioXSD-1.1_xsd.hxx:66, + from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:872:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - chromosome (::std::auto_ptr< chromosome_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6089:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10148,9 +8027,10 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(const xercesc_3_2::DOMDocument&, xml_schema::flags, const properties&)': -freecontact_input_xsd.cxx:415:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:25778:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -10159,9 +8039,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:902:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6117:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + code (::std::auto_ptr< code_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10169,19 +8049,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx:424:12: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, +In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_input_xsd.cxx:433:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > r ( - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:25932:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + code (::std::auto_ptr< code_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -10189,21 +8061,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx: At global scope: -freecontact_input_xsd.cxx:451:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from freecontact_input_xsd.hxx:66, +In file included from freecontact_input_xsd.hxx:646, from freecontact_input_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(xsd::cxx::xml::dom::auto_ptr, xml_schema::flags, const properties&)': -freecontact_input_xsd.cxx:473:12: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ +BioXSD-1.1_xsd.hxx:26122:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + aminoacid (::std::auto_ptr< aminoacid_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -10211,9 +8073,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact_input_xsd.cxx:483:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > r ( - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:26253:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from freecontact_input_xsd.hxx:66, @@ -10221,9 +8085,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:932:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6195:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + aminoacid (::std::auto_ptr< aminoacid_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10231,9 +8095,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:962:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6249:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10241,19 +8105,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1046:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reversedDirection (::std::auto_ptr< reversedDirection_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:26781:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1114:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6359:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10261,39 +8127,45 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1180:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - className (::std::auto_ptr< className_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:26857:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontology (::std::auto_ptr< ontology_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1228:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - properties (::std::auto_ptr< properties_type > x) +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:26933:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + database (::std::auto_ptr< database_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1262:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - specificFeatureName (::std::auto_ptr< specificFeatureName_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27009:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreType (::std::auto_ptr< scoreType_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1346:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6389:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontology (::std::auto_ptr< ontology_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10301,18 +8173,20 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1398:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - appliesToWholeSequence (::std::auto_ptr< appliesToWholeSequence_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:22916:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + relationName (::std::auto_ptr< relationName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1428:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > x) +BioXSD-1.1_xsd.cxx:6419:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + database (::std::auto_ptr< database_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -10321,19 +8195,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1476:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - occurrenceName (::std::auto_ptr< occurrenceName_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27164:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1506:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - occurrenceNote (::std::auto_ptr< occurrenceNote_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6449:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreType (::std::auto_ptr< scoreType_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10341,19 +8217,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1536:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - featureTypeDetails (::std::auto_ptr< featureTypeDetails_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27316:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1602:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - frame (::std::auto_ptr< frame_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6477:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10362,20 +8240,20 @@ template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:22916:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - relationName (::std::auto_ptr< relationName_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27468:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1632:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - phase (::std::auto_ptr< phase_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6505:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10383,19 +8261,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1680:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignment (::std::auto_ptr< alignment_type > x) +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27620:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1708:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - referenceSequence (::std::auto_ptr< referenceSequence_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6533:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10403,19 +8283,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1778:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - predicted (::std::auto_ptr< predicted_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:23505:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + canonicalVariant (::std::auto_ptr< canonicalVariant_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1808:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - experimental (::std::auto_ptr< experimental_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6561:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10423,19 +8305,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1836:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27773:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1882:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6589:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10444,20 +8328,20 @@ template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:23505:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - canonicalVariant (::std::auto_ptr< canonicalVariant_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27925:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + feature (::std::auto_ptr< feature_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1934:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6617:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + feature (::std::auto_ptr< feature_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10465,43 +8349,45 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:23645:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] missing (::std::auto_ptr< missing_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28001:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + condensedReferences (::std::auto_ptr< condensedReferences_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:1964:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:23787:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] position (::std::auto_ptr< position_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2012:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - verdict (::std::auto_ptr< verdict_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6647:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + condensedReferences (::std::auto_ptr< condensedReferences_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10509,55 +8395,57 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:23961:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] alignmentOfReference (::std::auto_ptr< alignmentOfReference_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:24019:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignedSequence (::std::auto_ptr< alignedSequence_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28088:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + annotation1 (::std::auto_ptr< feature_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2040:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dataReference (::std::auto_ptr< dataReference_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24019:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignedSequence (::std::auto_ptr< alignedSequence_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:24042:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] alignment (::std::auto_ptr< alignedSequence_type >); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2088:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - verdict (::std::auto_ptr< verdict_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6707:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10565,8 +8453,8 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2118:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reliability (::std::auto_ptr< reliability_type > x) +BioXSD-1.1_xsd.cxx:6737:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -10575,9 +8463,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2206:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6767:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontology (::std::auto_ptr< ontology_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10585,9 +8473,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2236:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - index (::std::auto_ptr< index_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6797:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyIdRef (::std::auto_ptr< ontologyIdRef_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10595,9 +8483,14 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2266:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - unit (::std::auto_ptr< unit_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6827:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + database (::std::auto_ptr< database_type > x) + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28471:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10605,106 +8498,76 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2296:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:24200:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28547:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:24276:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] sequenceReference (::std::auto_ptr< sequenceReference_type > p); ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2330:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28623:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontology (::std::auto_ptr< ontology_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:24352:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] sequenceName (::std::auto_ptr< sequenceName_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:24428:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:24504:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - genomeBuild (::std::auto_ptr< genomeBuild_type > p); +BioXSD-1.1_xsd.cxx:6857:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + databaseIdRef (::std::auto_ptr< databaseIdRef_type > x) ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:24580:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - chromosome (::std::auto_ptr< chromosome_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2354:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - value (::std::auto_ptr< value_type > x) - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:24658:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10712,93 +8575,68 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:24734:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:24810:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28699:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyIdRef (::std::auto_ptr< ontologyIdRef_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2384:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24428:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:24970:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - feature (::std::auto_ptr< feature_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28775:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + database (::std::auto_ptr< database_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2418:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24504:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + genomeBuild (::std::auto_ptr< genomeBuild_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:25046:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - condensedReferences (::std::auto_ptr< condensedReferences_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2448:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > x) - ^~~~~~~~ + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28851:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + databaseIdRef (::std::auto_ptr< databaseIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2472:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > x) +BioXSD-1.1_xsd.cxx:6887:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreType (::std::auto_ptr< scoreType_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -10807,61 +8645,69 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2516:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24580:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + chromosome (::std::auto_ptr< chromosome_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:25133:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - annotation (::std::auto_ptr< feature_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28927:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreType (::std::auto_ptr< scoreType_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2546:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24658:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2570:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:29003:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2614:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - pos (::std::auto_ptr< pos_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24734:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2644:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6917:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10869,19 +8715,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2668:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24810:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2712:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - min (::std::auto_ptr< min_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:6969:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10889,28 +8737,32 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2742:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:24970:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + feature (::std::auto_ptr< feature_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2772:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - strand (::std::auto_ptr< strand_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:25046:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + condensedReferences (::std::auto_ptr< condensedReferences_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2796:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - minCertainty (::std::auto_ptr< minCertainty_type > x) +BioXSD-1.1_xsd.cxx:7003:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + relationName (::std::auto_ptr< relationName_type > x) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -10919,19 +8771,26 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2826:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - maxCertainty (::std::auto_ptr< maxCertainty_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:29244:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2870:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - max (::std::auto_ptr< max_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7103:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localIdRef (::std::auto_ptr< localIdRef_type > x) + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:25133:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + annotation (::std::auto_ptr< feature_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -10939,1242 +8798,703 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2894:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - certainty (::std::auto_ptr< certainty_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:2956:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - insertion (::std::auto_ptr< insertion_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:29415:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + relationName (::std::auto_ptr< relationName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:25778:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_input_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:29826:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localIdRef (::std::auto_ptr< localIdRef_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3004:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - nextPoint (::std::auto_ptr< nextPoint_type > x) +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:25778:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:25932:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] code (::std::auto_ptr< code_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3034:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - nextPartition (::std::auto_ptr< nextPartition_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:26122:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] aminoacid (::std::auto_ptr< aminoacid_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3064:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - samePoint (::std::auto_ptr< samePoint_type > x) - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:26253:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] note (::std::auto_ptr< note_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3094:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - samePartition (::std::auto_ptr< samePartition_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:26781:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] method (::std::auto_ptr< method_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3124:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - outside (::std::auto_ptr< outside_type > x) - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:26857:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ontology (::std::auto_ptr< ontology_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:26933:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] database (::std::auto_ptr< database_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:27009:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] scoreType (::std::auto_ptr< scoreType_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3162:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - correspondance (::std::auto_ptr< correspondance_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3210:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - insertion (::std::auto_ptr< insertion_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3258:37: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - explicitSequenceReference (::std::auto_ptr< explicitSequenceReference_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:723:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + flat (::std::auto_ptr< flat_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3296:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reference (::std::auto_ptr< reference_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:746:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + FcAlignment (::std::auto_ptr< flat_type >); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: BioXSD-1.1_xsd.hxx:27164:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] localId (::std::auto_ptr< localId_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:27316:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:27468:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:27620:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3348:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - geneticCode (::std::auto_ptr< geneticCode_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:27773:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27316:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] localId (::std::auto_ptr< localId_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:27925:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - feature (::std::auto_ptr< feature_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3378:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - phase (::std::auto_ptr< phase_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:28001:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - condensedReferences (::std::auto_ptr< condensedReferences_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3408:40: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - reversedTranslationDirection (::std::auto_ptr< reversedTranslationDirection_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3446:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbName (::std::auto_ptr< dbName_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:28088:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - annotation1 (::std::auto_ptr< feature_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3476:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbUri (::std::auto_ptr< dbUri_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:847:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3506:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - dbVersion (::std::auto_ptr< dbVersion_type > x) +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27468:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3560:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdl (::std::auto_ptr< wsdl_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:28471:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:28547:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:28623:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontology (::std::auto_ptr< ontology_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:28699:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyIdRef (::std::auto_ptr< ontologyIdRef_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:28775:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - database (::std::auto_ptr< database_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:28851:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - databaseIdRef (::std::auto_ptr< databaseIdRef_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:28927:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreType (::std::auto_ptr< scoreType_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:29003:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3590:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlService (::std::auto_ptr< wsdlService_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3620:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlPort (::std::auto_ptr< wsdlPort_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:863:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:29244:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27620:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] localId (::std::auto_ptr< localId_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3650:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceOperation (::std::auto_ptr< webserviceOperation_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3680:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceVersion (::std::auto_ptr< webserviceVersion_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:881:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:29415:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - relationName (::std::auto_ptr< relationName_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3710:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceDate (::std::auto_ptr< webserviceDate_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:897:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3744:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - accession (::std::auto_ptr< accession_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:913:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3774:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - entryUri (::std::auto_ptr< entryUri_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:931:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3804:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - entryVersion (::std::auto_ptr< entryVersion_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:951:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27773:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3834:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - date (::std::auto_ptr< date_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3868:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyName (::std::auto_ptr< ontologyName_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:973:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from freecontact_input_xsd.hxx:646, - from _write_bioxsd.cpp:20: -BioXSD-1.1_xsd.hxx:29826:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localIdRef (::std::auto_ptr< localIdRef_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3898:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyUri (::std::auto_ptr< ontologyUri_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:996:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3928:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyVersion (::std::auto_ptr< ontologyVersion_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:1013:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:3986:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - accession (::std::auto_ptr< accession_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:1029:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4016:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - conceptUri (::std::auto_ptr< conceptUri_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:27925:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + feature (::std::auto_ptr< feature_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4046:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - term (::std::auto_ptr< term_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:1047:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4080:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - speciesName (::std::auto_ptr< speciesName_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:1061:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4110:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - speciesNote (::std::auto_ptr< speciesNote_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28001:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + condensedReferences (::std::auto_ptr< condensedReferences_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4144:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > x) - ^~~~~~~~ +In file included from freecontact_input_xsd.cxx:41: +freecontact_input_xsd.hxx:1078:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4174:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - supersequence (::std::auto_ptr< supersequence_type > x) +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28088:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + annotation1 (::std::auto_ptr< feature_type >); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4204:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - supersequenceName (::std::auto_ptr< supersequenceName_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4234:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceVersion (::std::auto_ptr< sequenceVersion_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4264:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4294:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28471:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4358:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - name (::std::auto_ptr< name_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28547:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4388:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - uri (::std::auto_ptr< uri_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28623:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontology (::std::auto_ptr< ontology_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4418:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - version (::std::auto_ptr< version_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28699:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyIdRef (::std::auto_ptr< ontologyIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4448:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - date (::std::auto_ptr< date_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28775:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + database (::std::auto_ptr< database_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4478:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdl (::std::auto_ptr< wsdl_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28851:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + databaseIdRef (::std::auto_ptr< databaseIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4508:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlService (::std::auto_ptr< wsdlService_type > x) +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:28927:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreType (::std::auto_ptr< scoreType_type > p); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4538:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - wsdlPort (::std::auto_ptr< wsdlPort_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4568:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceOperation (::std::auto_ptr< webserviceOperation_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4598:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceVersion (::std::auto_ptr< webserviceVersion_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:29003:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); ^~~~~~~~ -BioXSD-1.1_xsd.cxx:4628:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - webserviceDate (::std::auto_ptr< webserviceDate_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:723:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - flat (::std::auto_ptr< flat_type > p); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:746:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - FcAlignment (::std::auto_ptr< flat_type >); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:847:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:863:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:881:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:897:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:913:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:931:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:951:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:973:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:996:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:1013:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:1029:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:1047:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:1061:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:20: -freecontact_input_xsd.hxx:1078:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5311:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - relationName (::std::auto_ptr< relationName_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:29244:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5439:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - canonicalVariant (::std::auto_ptr< canonicalVariant_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:29415:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + relationName (::std::auto_ptr< relationName_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5487:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - missing (::std::auto_ptr< missing_type > x) - ^~~~~~~~ +In file included from freecontact_output_xsd.hxx:645, + from freecontact_output_xsd.cxx:41: +BioXSD-1.1_xsd.hxx:29826:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localIdRef (::std::auto_ptr< localIdRef_type > p); + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5535:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - position (::std::auto_ptr< position_type > x) - ^~~~~~~~ +freecontact_input_xsd.cxx:67:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + flat (::std::auto_ptr< flat_type > x) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:681:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:697:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:715:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:731:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:747:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:765:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:785:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:807:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:830:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:847:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:863:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:881:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:895:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from _write_bioxsd.cpp:21: +In file included from freecontact_output_xsd.cxx:41: freecontact_output_xsd.hxx:912:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::BioXSD::FeatureRecord > ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5569:32: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignmentOfReference (::std::auto_ptr< alignmentOfReference_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5593:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - alignedSequence (::std::auto_ptr< alignedSequence_type > x) - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5627:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceRecord (::std::auto_ptr< sequenceRecord_type > x) - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5657:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceReference (::std::auto_ptr< sequenceReference_type > x) +BioXSD-1.1_xsd.cxx:7570:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + BiosequenceRecord (::std::auto_ptr< sequence_type > sequence) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -12183,9 +9503,10 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5687:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - sequenceName (::std::auto_ptr< sequenceName_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::BiosequenceRecord::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': +BioXSD-1.1_xsd.cxx:7630:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12193,29 +9514,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5717:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - species (::std::auto_ptr< species_type > x) - ^~~~~~~~ +freecontact_input_xsd.cxx:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + FcAlignment (::std::auto_ptr< flat_type > flat) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5747:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - genomeBuild (::std::auto_ptr< genomeBuild_type > x) - ^~~~~~~~ +freecontact_input_xsd.cxx: In member function 'void freecontact_input_xsd::FcAlignment::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': +freecontact_input_xsd.cxx:139:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5777:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - chromosome (::std::auto_ptr< chromosome_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7641:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< sequence_type > r ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12223,9 +9545,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5807:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - subsequencePosition (::std::auto_ptr< subsequencePosition_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7658:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12233,9 +9555,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5837:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantAccession (::std::auto_ptr< variantAccession_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7669:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< species_type > r ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12243,9 +9565,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5867:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - variantNote (::std::auto_ptr< variantNote_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7686:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12253,9 +9575,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5895:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - feature (::std::auto_ptr< feature_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7697:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< reference_type > r ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12263,9 +9585,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:5925:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - condensedReferences (::std::auto_ptr< condensedReferences_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7714:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12273,9 +9595,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6089:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7725:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< name_type > r ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12283,8 +9605,8 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6117:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - code (::std::auto_ptr< code_type > x) +BioXSD-1.1_xsd.cxx:7742:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -12293,9 +9615,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6195:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - aminoacid (::std::auto_ptr< aminoacid_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7753:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< note_type > r ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12303,8 +9625,8 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6249:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - note (::std::auto_ptr< note_type > x) +BioXSD-1.1_xsd.cxx:7770:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -12313,9 +9635,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6359:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7781:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< translationData_type > r ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12323,9 +9645,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6389:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontology (::std::auto_ptr< ontology_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7798:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12333,8 +9655,8 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6419:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - database (::std::auto_ptr< database_type > x) +BioXSD-1.1_xsd.cxx:7809:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< inlineBaseQuality_type > r ( ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -12343,9 +9665,10 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6449:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreType (::std::auto_ptr< scoreType_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx: At global scope: +BioXSD-1.1_xsd.cxx:7880:43: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + GeneralNucleotideSequenceRecord (::std::auto_ptr< sequence_type > sequence) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12353,9 +9676,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6477:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7929:42: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + GeneralAminoacidSequenceRecord (::std::auto_ptr< sequence_type > sequence) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12363,9 +9686,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6505:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:7978:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + NucleotideSequenceRecord (::std::auto_ptr< sequence_type > sequence) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12373,9 +9696,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6533:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:8027:35: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + AminoacidSequenceRecord (::std::auto_ptr< sequence_type > sequence) + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12383,19 +9706,20 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6561:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > x) - ^~~~~~~~ +freecontact_input_xsd.cxx:150:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< flat_type > r ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6589:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::BiosequenceAlignment::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': +BioXSD-1.1_xsd.cxx:8118:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12403,9 +9727,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6617:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - feature (::std::auto_ptr< feature_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:8127:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< alignedBy_type > r ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12413,9 +9737,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6647:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - condensedReferences (::std::auto_ptr< condensedReferences_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:8143:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12423,8 +9747,8 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6707:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - method (::std::auto_ptr< method_type > x) +BioXSD-1.1_xsd.cxx:8152:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< alignedSequence_type > r ( ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -12433,9 +9757,9 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6737:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - methodIdRef (::std::auto_ptr< methodIdRef_type > x) - ^~~~~~~~ +BioXSD-1.1_xsd.cxx:8168:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -12443,8 +9767,8 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6767:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontology (::std::auto_ptr< ontology_type > x) +BioXSD-1.1_xsd.cxx:8179:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< note_type > r ( ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, @@ -12453,670 +9777,492 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6797:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ontologyIdRef (::std::auto_ptr< ontologyIdRef_type > x) - ^~~~~~~~ +freecontact_input_xsd.cxx: At global scope: +freecontact_input_xsd.cxx:212:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6827:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - database (::std::auto_ptr< database_type > x) - ^~~~~~~~ +freecontact_output_xsd.cxx:68:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6857:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - databaseIdRef (::std::auto_ptr< databaseIdRef_type > x) - ^~~~~~~~ +freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(const string&, xml_schema::flags, const properties&)': +freecontact_input_xsd.cxx:229:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6887:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreType (::std::auto_ptr< scoreType_type > x) - ^~~~~~~~ +freecontact_input_xsd.cxx: At global scope: +freecontact_input_xsd.cxx:234:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6917:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > x) - ^~~~~~~~ +freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(const string&, xml_schema::flags, const properties&)': +freecontact_output_xsd.cxx:85:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:6969:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localId (::std::auto_ptr< localId_type > x) +freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(const string&, xml_schema::error_handler&, xml_schema::flags, const properties&)': +freecontact_input_xsd.cxx:251:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7003:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - relationName (::std::auto_ptr< relationName_type > x) - ^~~~~~~~ +freecontact_output_xsd.cxx: At global scope: +freecontact_output_xsd.cxx:90:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7103:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - localIdRef (::std::auto_ptr< localIdRef_type > x) - ^~~~~~~~ +freecontact_input_xsd.cxx: At global scope: +freecontact_input_xsd.cxx:256:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -In file included from _write_bioxsd.cpp:22: -../lib/freecontact.h:69:54: warning: ignoring attributes on template argument 'freecontact::__m128i' {aka '__vector(2) long long int'} [-Wignored-attributes] - class LIBFREEC_API ali_t : public std::vector<__m128i> - ^ -In file included from _write_bioxsd.cpp:22: -../lib/freecontact.h:113:56: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - ali_t& push(const std::vector& __al) throw (alilen_error); - ^~~~~ -../lib/freecontact.h:116:50: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - inline ali_t& push(const std::string& __l) throw (alilen_error) - ^~~~~ -In file included from _write_bioxsd.cpp:22: -../lib/freecontact.h: In constructor 'freecontact::ali_t::ali_t(uint16_t)': -../lib/freecontact.h:80:79: warning: ignoring attributes on template argument 'freecontact::__m128i' {aka '__vector(2) long long int'} [-Wignored-attributes] - ali_t( const uint16_t __alilen = 0 ) : std::vector<__m128i>(), seqcnt(0), alilen(__alilen), alilen16(( alilen-1 )/16 + 1), alilenpad( 16 * alilen16 ) - ^ -In file included from _write_bioxsd.cpp:22: -../lib/freecontact.h: At global scope: -../lib/freecontact.h:185:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error); - ^~~~~ -../lib/freecontact.h:219:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error); - ^~~~~ -../lib/freecontact.h:227:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error); - ^~~~~ -../lib/freecontact.h:234:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error) - ^~~~~ -_write_bioxsd.cpp:30:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr _get_bxScore(const fc::contact_t& __ct, const std::string& __scid); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp: In function 'std::__cxx11::string _xml_flatali(std::istream&, bool)': -_write_bioxsd.cpp:38:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr xml( fix::alignment(__is) ); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp: In function 'void _write_bioxsd(const freecontact::ali_t&, const resn_mapper_t&, const std::map, std::vector >&, bool)': -_write_bioxsd.cpp:53:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr seqSeg_p(new BioXSD::SequenceSegment()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:56:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr seqPos_p(new BioXSD::SequencePosition()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:59:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr seqRef_p(new BioXSD::SequenceReference()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:63:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr seqRec_p( new BioXSD::GeneralAminoacidSequenceRecord( BioXSD::GeneralAminoacidSequence( ucq ))); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:67:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr refSeq_p(new BioXSD::referenceSequence()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:73:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr metCatCon_p(new BioXSD::SemanticConcept()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:79:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr metCit_p(new BioXSD::EntryReference()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:82:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr method_p(new BioXSD::method1("freecontact", "M#fc")); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:86:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr sc_l1_p(new BioXSD::scoreType("S#l1")); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:88:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr metCit_p(new BioXSD::EntryReference()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:94:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr method_p(new BioXSD::Method("l1-norm")); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:100:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr sc_MI_p(new BioXSD::scoreType("S#MI")); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:102:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr metCit_p(new BioXSD::EntryReference()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:108:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr method_p(new BioXSD::Method("Mutual information")); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: -/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here - template class auto_ptr; - ^~~~~~~~ -_write_bioxsd.cpp:114:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr sc_fr_p(new BioXSD::scoreType("S#fr")); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp:116:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr metCit_p(new BioXSD::EntryReference()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(const string&, xercesc_3_2::DOMErrorHandler&, xml_schema::flags, const properties&)': +freecontact_input_xsd.cxx:269:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp:122:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr method_p(new BioXSD::Method("Frobenius norm")); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +freecontact_input_xsd.cxx: At global scope: +freecontact_input_xsd.cxx:274:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp:128:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr featCon_p(new BioXSD::SemanticConcept()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(const string&, xml_schema::error_handler&, xml_schema::flags, const properties&)': +freecontact_output_xsd.cxx:107:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp:135:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr feat_p(new BioXSD::FeatureType()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +freecontact_input_xsd.cxx:287:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp:139:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr cref_p(new BioXSD::condensedReferences1()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +freecontact_output_xsd.cxx: At global scope: +freecontact_output_xsd.cxx:112:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +freecontact_input_xsd.cxx:301:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp:142:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr ann_p(new BioXSD::annotation1(feat_p)); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7570:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - BiosequenceRecord (::std::auto_ptr< sequence_type > sequence) - ^~~~~~~~ +freecontact_input_xsd.cxx:311:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::BiosequenceRecord::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': -BioXSD-1.1_xsd.cxx:7630:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ +freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(const string&, xercesc_3_2::DOMErrorHandler&, xml_schema::flags, const properties&)': +freecontact_output_xsd.cxx:125:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp:156:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr pt1_p(new BioXSD::SequencePoint()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +freecontact_input_xsd.cxx:325:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +freecontact_output_xsd.cxx: At global scope: +freecontact_output_xsd.cxx:130:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp:158:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr pt2_p(new BioXSD::SequencePoint()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp:161:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr pos_p(new BioXSD::SequencePosition()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +freecontact_input_xsd.cxx:340:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp:165:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr occ_p(new BioXSD::occurrence()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +freecontact_output_xsd.cxx:143:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp:177:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr occRef_p(new BioXSD::blockWithOccurrenceReferences()); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +freecontact_input_xsd.cxx:351:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp: At global scope: -_write_bioxsd.cpp:199:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr _get_bxScore( const fc::contact_t& __ct, const std::string& __scid ) - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +freecontact_output_xsd.cxx:157:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -_write_bioxsd.cpp: In function 'std::auto_ptr _get_bxScore(const freecontact::contact_t&, const string&)': -_write_bioxsd.cpp:201:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr MI_score_p(new BioXSD::Score( bo::str(bo::format("%g") % __ct.score) )); - ^~~~~~~~ -In file included from /usr/include/c++/8/bits/locale_conv.h:41, - from /usr/include/c++/8/locale:43, - from /usr/include/boost/format.hpp:23, - from _write_bioxsd.cpp:17: +freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(xercesc_3_2::InputSource&, xml_schema::flags, const properties&)': +freecontact_input_xsd.cxx:364:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7641:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< sequence_type > r ( - ^~~~~~~~ +freecontact_output_xsd.cxx:167:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7658:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ +freecontact_input_xsd.cxx: At global scope: +freecontact_input_xsd.cxx:369:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7669:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< species_type > r ( - ^~~~~~~~ +freecontact_output_xsd.cxx:181:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7686:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ +freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(xercesc_3_2::InputSource&, xml_schema::error_handler&, xml_schema::flags, const properties&)': +freecontact_input_xsd.cxx:382:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7697:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< reference_type > r ( - ^~~~~~~~ +freecontact_output_xsd.cxx:196:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7714:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ +freecontact_input_xsd.cxx: At global scope: +freecontact_input_xsd.cxx:387:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7725:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< name_type > r ( - ^~~~~~~~ +freecontact_output_xsd.cxx:207:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7742:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ +freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(xercesc_3_2::InputSource&, xercesc_3_2::DOMErrorHandler&, xml_schema::flags, const properties&)': +freecontact_input_xsd.cxx:400:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7753:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< note_type > r ( - ^~~~~~~~ +freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(xercesc_3_2::InputSource&, xml_schema::flags, const properties&)': +freecontact_output_xsd.cxx:220:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7770:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ +freecontact_input_xsd.cxx: At global scope: +freecontact_input_xsd.cxx:405:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7781:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< translationData_type > r ( - ^~~~~~~~ +freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(const xercesc_3_2::DOMDocument&, xml_schema::flags, const properties&)': +freecontact_input_xsd.cxx:415:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > ( + ^~~~~~~~ +freecontact_output_xsd.cxx: At global scope: +freecontact_output_xsd.cxx:225:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7798:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7809:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< inlineBaseQuality_type > r ( - ^~~~~~~~ +freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(xercesc_3_2::InputSource&, xml_schema::error_handler&, xml_schema::flags, const properties&)': +freecontact_output_xsd.cxx:238:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx: At global scope: -BioXSD-1.1_xsd.cxx:7880:43: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - GeneralNucleotideSequenceRecord (::std::auto_ptr< sequence_type > sequence) - ^~~~~~~~ +freecontact_input_xsd.cxx:424:12: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7929:42: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - GeneralAminoacidSequenceRecord (::std::auto_ptr< sequence_type > sequence) - ^~~~~~~~ +freecontact_input_xsd.cxx:433:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > r ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:7978:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - NucleotideSequenceRecord (::std::auto_ptr< sequence_type > sequence) - ^~~~~~~~ +freecontact_output_xsd.cxx: At global scope: +freecontact_output_xsd.cxx:243:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:8027:35: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - AminoacidSequenceRecord (::std::auto_ptr< sequence_type > sequence) - ^~~~~~~~ +freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(xercesc_3_2::InputSource&, xercesc_3_2::DOMErrorHandler&, xml_schema::flags, const properties&)': +freecontact_output_xsd.cxx:256:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::BiosequenceAlignment::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': -BioXSD-1.1_xsd.cxx:8118:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ +freecontact_output_xsd.cxx: At global scope: +freecontact_output_xsd.cxx:261:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:8127:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< alignedBy_type > r ( - ^~~~~~~~ +freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(const xercesc_3_2::DOMDocument&, xml_schema::flags, const properties&)': +freecontact_output_xsd.cxx:271:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + return ::std::auto_ptr< ::BioXSD::FeatureRecord > ( + ^~~~~~~~ +freecontact_input_xsd.cxx: At global scope: +freecontact_input_xsd.cxx:451:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:8143:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:8152:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< alignedSequence_type > r ( - ^~~~~~~~ +freecontact_input_xsd.cxx: In function 'std::auto_ptr freecontact_input_xsd::alignment(xsd::cxx::xml::dom::auto_ptr, xml_schema::flags, const properties&)': +freecontact_input_xsd.cxx:473:12: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:8168:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( - ^~~~~~~~ +freecontact_input_xsd.cxx:483:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > r ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_input_xsd.hxx:66, + from freecontact_input_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -BioXSD-1.1_xsd.cxx:8179:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ::std::auto_ptr< note_type > r ( - ^~~~~~~~ +freecontact_output_xsd.cxx:280:12: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, - from BioXSD-1.1_xsd.hxx:66, - from BioXSD-1.1_xsd.cxx:41: + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ @@ -13251,6 +10397,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:1507:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequence (::std::auto_ptr< sequence_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9103:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< chromosome_type > r ( ^~~~~~~~ @@ -13261,6 +10419,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:1585:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9120:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -13271,6 +10441,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:1665:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reference (::std::auto_ptr< reference_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9131:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< subsequencePosition_type > r ( ^~~~~~~~ @@ -13281,6 +10463,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:1741:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:1817:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9148:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -13291,6 +10497,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:1893:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + translationData (::std::auto_ptr< translationData_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9159:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< variantAccession_type > r ( ^~~~~~~~ @@ -13301,6 +10519,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:1969:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + inlineBaseQuality (::std::auto_ptr< inlineBaseQuality_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:1992:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + BiosequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9176:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -13381,6 +10623,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:2105:45: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + GeneralNucleotideSequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:2186:44: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + GeneralAminoacidSequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9279:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -13391,6 +10657,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:2267:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + NucleotideSequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9290:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< reversedDirection_type > r ( ^~~~~~~~ @@ -13401,6 +10679,11 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:2348:37: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + AminoacidSequenceRecord (::std::auto_ptr< sequence_type >); + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9307:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -13411,16 +10694,221 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +freecontact_output_xsd.cxx:289:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > r ( + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9316:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< sequenceScore_type > r ( ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, from BioXSD-1.1_xsd.cxx:41: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +freecontact_output_xsd.cxx: At global scope: +freecontact_output_xsd.cxx:307:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:2611:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +freecontact_output_xsd.cxx: In function 'std::auto_ptr freecontact_output_xsd::contactMap(xsd::cxx::xml::dom::auto_ptr, xml_schema::flags, const properties&)': +freecontact_output_xsd.cxx:329:12: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +freecontact_output_xsd.cxx:339:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > r ( + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/xsd/cxx/tree/elements.hxx:23, + from freecontact_output_xsd.hxx:66, + from freecontact_output_xsd.cxx:41: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:3051:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:3109:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + len (::std::auto_ptr< len_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:3287:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + min (::std::auto_ptr< min_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:3366:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:3442:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:3500:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + minCertainty (::std::auto_ptr< minCertainty_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:3567:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + maxCertainty (::std::auto_ptr< maxCertainty_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:3877:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:3935:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + bases (::std::auto_ptr< bases_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:4110:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localAlignmentPosition (::std::auto_ptr< localAlignmentPosition_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:4186:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:4262:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceReference (::std::auto_ptr< sequenceReference_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::FeatureType::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:9610:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( @@ -13432,6 +10920,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:4338:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceName (::std::auto_ptr< sequenceName_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:4414:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9621:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< name_type > r ( ^~~~~~~~ @@ -13442,6 +10954,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:4490:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + genomeBuild (::std::auto_ptr< genomeBuild_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:4566:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + chromosome (::std::auto_ptr< chromosome_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9638:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -13452,6 +10988,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:4644:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:4720:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9647:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< equalConcept_type > r ( ^~~~~~~~ @@ -13462,6 +11022,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:4796:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9663:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -13542,6 +11114,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:5064:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reversedDirection (::std::auto_ptr< reversedDirection_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::FeatureTypeDetails::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:9866:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( @@ -13623,6 +11207,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:5589:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:9969:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -13653,6 +11249,66 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:5798:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + className (::std::auto_ptr< className_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:5938:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + properties (::std::auto_ptr< properties_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:6115:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + specificFeatureName (::std::auto_ptr< specificFeatureName_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:6385:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:6627:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + appliesToWholeSequence (::std::auto_ptr< appliesToWholeSequence_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::FeatureOccurrenceData::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:10123:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( @@ -13664,6 +11320,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:6703:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:6843:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + occurrenceName (::std::auto_ptr< occurrenceName_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:10134:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< appliesToWholeSequence_type > r ( ^~~~~~~~ @@ -13674,9 +11354,33 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:6919:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + occurrenceNote (::std::auto_ptr< occurrenceNote_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:6995:32: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + featureTypeDetails (::std::auto_ptr< featureTypeDetails_type > p); + ^~~~~~~~ BioXSD-1.1_xsd.cxx:10151:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -13744,6 +11448,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:7203:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + frame (::std::auto_ptr< frame_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:10243:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< occurrenceNote_type > r ( ^~~~~~~~ @@ -13754,6 +11470,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:7279:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + phase (::std::auto_ptr< phase_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:10260:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -13784,6 +11512,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:7419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignment (::std::auto_ptr< alignment_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:10297:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< score_type > r ( ^~~~~~~~ @@ -13864,6 +11604,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:7588:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + referenceSequence (::std::auto_ptr< referenceSequence_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: At global scope: BioXSD-1.1_xsd.cxx:10460:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FeatureRecord (::std::auto_ptr< referenceSequence_type > referenceSequence) @@ -13875,6 +11627,42 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:7742:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + FeatureRecord (::std::auto_ptr< referenceSequence_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:7901:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + predicted (::std::auto_ptr< predicted_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:7977:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + experimental (::std::auto_ptr< experimental_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::FeatureRecord::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:10509:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< referenceSequence_type > r ( @@ -13886,6 +11674,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:8130:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:10523:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< annotation_type > r ( ^~~~~~~~ @@ -13896,6 +11696,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:8217:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + MethodResult (::std::auto_ptr< method_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:8357:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:10534:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< blockWithOccurrenceReferences_type > r ( ^~~~~~~~ @@ -13906,10 +11730,82 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:8444:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + Result (::std::auto_ptr< methodIdRef_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:8602:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:8678:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:8818:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + verdict (::std::auto_ptr< verdict_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:8973:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dataReference (::std::auto_ptr< dataReference_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:9113:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + verdict (::std::auto_ptr< verdict_type > p); + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::Evidence::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:10633:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -13917,6 +11813,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:9189:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reliability (::std::auto_ptr< reliability_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:9212:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ExperimentalEvidence (::std::auto_ptr< dataReference_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:10644:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< predicted_type > r ( ^~~~~~~~ @@ -13958,6 +11878,54 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:9566:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:9642:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + index (::std::auto_ptr< index_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:9718:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + unit (::std::auto_ptr< unit_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:9794:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::MethodResult::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:10779:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< method_type > r ( @@ -13969,6 +11937,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:9974:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:10792:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -13979,6 +11959,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:10032:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + value (::std::auto_ptr< value_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:10108:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:10801:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< score_type > r ( ^~~~~~~~ @@ -13989,6 +11993,42 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:10285:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:10361:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:10419:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: At global scope: BioXSD-1.1_xsd.cxx:10868:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] Result (::std::auto_ptr< methodIdRef_type > methodIdRef) @@ -14000,6 +12040,42 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:10679:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:10755:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:10813:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::Result::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:10913:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( @@ -14021,6 +12097,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:11072:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + pos (::std::auto_ptr< pos_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:11148:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:10941:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -14031,6 +12131,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:11206:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:10950:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< score_type > r ( ^~~~~~~~ @@ -14041,6 +12153,90 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:11465:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + min (::std::auto_ptr< min_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:11544:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:11620:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + strand (::std::auto_ptr< strand_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:11678:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + minCertainty (::std::auto_ptr< minCertainty_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:11745:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + maxCertainty (::std::auto_ptr< maxCertainty_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:12003:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + max (::std::auto_ptr< max_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:12061:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + certainty (::std::auto_ptr< certainty_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::PredictionResult::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:11060:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( @@ -14072,6 +12268,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:12377:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + insertion (::std::auto_ptr< insertion_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:11099:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< methodIdRef_type > r ( ^~~~~~~~ @@ -14112,6 +12320,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:12517:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + nextPoint (::std::auto_ptr< nextPoint_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:11152:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< verdict_type > r ( ^~~~~~~~ @@ -14122,6 +12342,54 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:12593:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + nextPartition (::std::auto_ptr< nextPartition_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:12669:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + samePoint (::std::auto_ptr< samePoint_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:12745:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + samePartition (::std::auto_ptr< samePartition_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:12821:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + outside (::std::auto_ptr< outside_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: At global scope: BioXSD-1.1_xsd.cxx:11217:32: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ExperimentalEvidence (::std::auto_ptr< dataReference_type > dataReference) @@ -14133,6 +12401,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:13071:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + correspondance (::std::auto_ptr< correspondance_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::ExperimentalEvidence::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:11268:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( @@ -14144,6 +12424,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:13211:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + insertion (::std::auto_ptr< insertion_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:11279:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< dataReference_type > r ( ^~~~~~~~ @@ -14154,10 +12446,6 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact.cpp:25: -../lib/freecontact.h:69:54: warning: ignoring attributes on template argument 'freecontact::__m128i' {aka '__vector(2) long long int'} [-Wignored-attributes] - class LIBFREEC_API ali_t : public std::vector<__m128i> - ^ BioXSD-1.1_xsd.cxx:11296:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -14178,6 +12466,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:13351:39: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + explicitSequenceReference (::std::auto_ptr< explicitSequenceReference_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:11321:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -14218,10 +12518,66 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact.cpp:25: -../lib/freecontact.h:113:56: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - ali_t& push(const std::vector& __al) throw (alilen_error); - ^~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:13597:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reference (::std::auto_ptr< reference_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:13832:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + geneticCode (::std::auto_ptr< geneticCode_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:13908:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + phase (::std::auto_ptr< phase_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:13984:42: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + reversedTranslationDirection (::std::auto_ptr< reversedTranslationDirection_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:14226:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbName (::std::auto_ptr< dbName_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::ScoreType::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:11482:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( @@ -14233,6 +12589,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:14304:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbUri (::std::auto_ptr< dbUri_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:14380:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + dbVersion (::std::auto_ptr< dbVersion_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:11491:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< concept_type > r ( ^~~~~~~~ @@ -14243,9 +12623,33 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:14511:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdl (::std::auto_ptr< wsdl_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:11507:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:14587:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlService (::std::auto_ptr< wsdlService_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -14253,9 +12657,33 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:14663:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlPort (::std::auto_ptr< wsdlPort_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:14739:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); + ^~~~~~~~ BioXSD-1.1_xsd.cxx:11516:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< method_type > r ( ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -14263,9 +12691,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -../lib/freecontact.h:116:50: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - inline ali_t& push(const std::string& __l) throw (alilen_error) - ^~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:14815:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:11532:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -14276,11 +12713,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact.cpp:25: -../lib/freecontact.h: In constructor 'freecontact::ali_t::ali_t(uint16_t)': -../lib/freecontact.h:80:79: warning: ignoring attributes on template argument 'freecontact::__m128i' {aka '__vector(2) long long int'} [-Wignored-attributes] - ali_t( const uint16_t __alilen = 0 ) : std::vector<__m128i>(), seqcnt(0), alilen(__alilen), alilen16(( alilen-1 )/16 + 1), alilenpad( 16 * alilen16 ) - ^ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:14894:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceDate (::std::auto_ptr< webserviceDate_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:11541:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< methodIdRef_type > r ( ^~~~~~~~ @@ -14291,6 +12735,126 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:15075:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + accession (::std::auto_ptr< accession_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:15151:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + entryUri (::std::auto_ptr< entryUri_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:15227:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + entryVersion (::std::auto_ptr< entryVersion_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:15305:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + date (::std::auto_ptr< date_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:15481:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyName (::std::auto_ptr< ontologyName_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:15559:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyUri (::std::auto_ptr< ontologyUri_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:15635:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyVersion (::std::auto_ptr< ontologyVersion_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:15870:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + accession (::std::auto_ptr< accession_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:15946:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + conceptUri (::std::auto_ptr< conceptUri_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:16028:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + term (::std::auto_ptr< term_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::Score::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:11679:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( @@ -14302,9 +12866,21 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:16207:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + speciesName (::std::auto_ptr< speciesName_type > p); + ^~~~~~~~ BioXSD-1.1_xsd.cxx:11690:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< position_type > r ( ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -14312,24 +12888,238 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -In file included from freecontact.cpp:25: -../lib/freecontact.h: At global scope: -../lib/freecontact.h:185:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error); - ^~~~~ -../lib/freecontact.h:219:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error); - ^~~~~ -../lib/freecontact.h:227:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error); - ^~~~~ -../lib/freecontact.h:234:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error) - ^~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:16283:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + speciesNote (::std::auto_ptr< speciesNote_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:16459:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:16538:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + supersequence (::std::auto_ptr< supersequence_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:16617:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + supersequenceName (::std::auto_ptr< supersequenceName_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:16693:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceVersion (::std::auto_ptr< sequenceVersion_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:16769:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:16845:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:17130:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + name (::std::auto_ptr< name_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:17206:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + uri (::std::auto_ptr< uri_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:17282:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + version (::std::auto_ptr< version_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:17358:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + date (::std::auto_ptr< date_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:17434:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdl (::std::auto_ptr< wsdl_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:17510:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlService (::std::auto_ptr< wsdlService_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:17586:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + wsdlPort (::std::auto_ptr< wsdlPort_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:17662:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceOperation (::std::auto_ptr< webserviceOperation_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:17738:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceVersion (::std::auto_ptr< webserviceVersion_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:17817:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + webserviceDate (::std::auto_ptr< webserviceDate_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:22916:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + relationName (::std::auto_ptr< relationName_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::GeneralSequencePosition::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:12613:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:23505:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + canonicalVariant (::std::auto_ptr< canonicalVariant_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -14347,6 +13137,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:23645:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + missing (::std::auto_ptr< missing_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:12638:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -14357,6 +13159,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:23787:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + position (::std::auto_ptr< position_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:12649:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< insertion_type > r ( ^~~~~~~~ @@ -14377,9 +13191,33 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:23961:34: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignmentOfReference (::std::auto_ptr< alignmentOfReference_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:12675:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< segment_type > r ( ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:24019:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignedSequence (::std::auto_ptr< alignedSequence_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -14387,6 +13225,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:24042:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + alignment (::std::auto_ptr< alignedSequence_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:12691:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -14407,6 +13257,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:24200:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceRecord (::std::auto_ptr< sequenceRecord_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:12719:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -14417,6 +13279,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:24276:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceReference (::std::auto_ptr< sequenceReference_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:24352:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + sequenceName (::std::auto_ptr< sequenceName_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:12730:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< nextPartition_type > r ( ^~~~~~~~ @@ -14427,6 +13313,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:24428:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + species (::std::auto_ptr< species_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:24504:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + genomeBuild (::std::auto_ptr< genomeBuild_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:12747:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -14437,6 +13347,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:24580:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + chromosome (::std::auto_ptr< chromosome_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:24658:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + subsequencePosition (::std::auto_ptr< subsequencePosition_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:12758:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< samePoint_type > r ( ^~~~~~~~ @@ -14447,6 +13381,30 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:24734:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantAccession (::std::auto_ptr< variantAccession_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:24810:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + variantNote (::std::auto_ptr< variantNote_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:12775:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -14467,6 +13425,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:24970:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + feature (::std::auto_ptr< feature_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:12803:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -14477,6 +13447,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:25046:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + condensedReferences (::std::auto_ptr< condensedReferences_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:12814:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< outside_type > r ( ^~~~~~~~ @@ -14487,6 +13469,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:25133:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + annotation (::std::auto_ptr< feature_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::GeneralOutsideSequencePosition::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:12970:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( @@ -14568,6 +13562,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:25778:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:13076:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -14588,6 +13594,90 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:25932:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + code (::std::auto_ptr< code_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:26122:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + aminoacid (::std::auto_ptr< aminoacid_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:26253:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + note (::std::auto_ptr< note_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:26781:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:26857:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontology (::std::auto_ptr< ontology_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:26933:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + database (::std::auto_ptr< database_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:27009:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreType (::std::auto_ptr< scoreType_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::GeneticCode::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:13231:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( @@ -14619,6 +13709,90 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:27164:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:27316:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:27468:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:27620:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:27773:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:27925:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + feature (::std::auto_ptr< feature_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:28001:33: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + condensedReferences (::std::auto_ptr< condensedReferences_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::TranslationData::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:13354:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( @@ -14650,6 +13824,18 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:28088:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + annotation1 (::std::auto_ptr< feature_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:13393:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< phase_type > r ( ^~~~~~~~ @@ -14680,36 +13866,311 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact.cpp: In function 'int main(int, char**)': -freecontact.cpp:165:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - auto_ptr ali_ifs_p; - ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/boost/container_hash/extensions.hpp:36, - from /usr/include/boost/container_hash/hash.hpp:760, - from /usr/include/boost/type_index/stl_type_index.hpp:43, - from /usr/include/boost/type_index.hpp:29, - from /usr/include/boost/any.hpp:20, - from /usr/include/boost/program_options/value_semantic.hpp:12, - from /usr/include/boost/program_options/options_description.hpp:13, - from /usr/include/boost/program_options.hpp:15, - from freecontact.cpp:17: +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:28471:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + method (::std::auto_ptr< method_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -freecontact.cpp:169:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] - ali_ifs_p = auto_ptr(new std::ifstream(vm["ali"].as().c_str())); +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:28547:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + methodIdRef (::std::auto_ptr< methodIdRef_type > p); ^~~~~~~~ -In file included from /usr/include/c++/8/memory:80, - from /usr/include/boost/container_hash/extensions.hpp:36, - from /usr/include/boost/container_hash/hash.hpp:760, - from /usr/include/boost/type_index/stl_type_index.hpp:43, - from /usr/include/boost/type_index.hpp:29, - from /usr/include/boost/any.hpp:20, - from /usr/include/boost/program_options/value_semantic.hpp:12, - from /usr/include/boost/program_options/options_description.hpp:13, - from /usr/include/boost/program_options.hpp:15, - from freecontact.cpp:17: +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:28623:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontology (::std::auto_ptr< ontology_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:28699:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ontologyIdRef (::std::auto_ptr< ontologyIdRef_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:28775:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + database (::std::auto_ptr< database_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:28851:27: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + databaseIdRef (::std::auto_ptr< databaseIdRef_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:28927:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreType (::std::auto_ptr< scoreType_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:29003:28: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + scoreTypeIdRef (::std::auto_ptr< scoreTypeIdRef_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:29244:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localId (::std::auto_ptr< localId_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:29415:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + relationName (::std::auto_ptr< relationName_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from freecontact_input_xsd.hxx:646, + from _write_bioxsd.cpp:20: +BioXSD-1.1_xsd.hxx:29826:24: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + localIdRef (::std::auto_ptr< localIdRef_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:723:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + flat (::std::auto_ptr< flat_type > p); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:746:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + FcAlignment (::std::auto_ptr< flat_type >); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:847:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:863:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:881:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:897:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:913:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:931:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:951:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:973:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:996:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:1013:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:1029:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:1047:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:1061:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:20: +freecontact_input_xsd.hxx:1078:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::freecontact_input_xsd::FcAlignment > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ @@ -14774,10 +14235,58 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:681:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:697:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:715:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:731:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::Method::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:14410:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:747:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -14785,9 +14294,49 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:765:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:785:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:807:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ BioXSD-1.1_xsd.cxx:14419:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< categoryConcept_type > r ( ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/xsd/cxx/tree/elements.hxx:23, from BioXSD-1.1_xsd.hxx:66, @@ -14795,6 +14344,28 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:830:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:847:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:14435:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( ^~~~~~~~ @@ -14805,6 +14376,39 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:863:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:881:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:895:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx:14444:18: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< citation_type > r ( ^~~~~~~~ @@ -14815,6 +14419,351 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ +In file included from _write_bioxsd.cpp:21: +freecontact_output_xsd.hxx:912:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ::std::auto_ptr< ::BioXSD::FeatureRecord > + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +In file included from _write_bioxsd.cpp:22: +../lib/freecontact.h:69:54: warning: ignoring attributes on template argument 'freecontact::__m128i' {aka '__vector(2) long long int'} [-Wignored-attributes] + class LIBFREEC_API ali_t : public std::vector<__m128i> + ^ +In file included from _write_bioxsd.cpp:22: +../lib/freecontact.h:113:56: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + ali_t& push(const std::vector& __al) throw (alilen_error); + ^~~~~ +../lib/freecontact.h:116:50: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + inline ali_t& push(const std::string& __l) throw (alilen_error) + ^~~~~ +In file included from _write_bioxsd.cpp:22: +../lib/freecontact.h: In constructor 'freecontact::ali_t::ali_t(uint16_t)': +../lib/freecontact.h:80:79: warning: ignoring attributes on template argument 'freecontact::__m128i' {aka '__vector(2) long long int'} [-Wignored-attributes] + ali_t( const uint16_t __alilen = 0 ) : std::vector<__m128i>(), seqcnt(0), alilen(__alilen), alilen16(( alilen-1 )/16 + 1), alilenpad( 16 * alilen16 ) + ^ +In file included from _write_bioxsd.cpp:22: +../lib/freecontact.h: At global scope: +../lib/freecontact.h:185:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error); + ^~~~~ +../lib/freecontact.h:219:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error); + ^~~~~ +../lib/freecontact.h:227:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error); + ^~~~~ +../lib/freecontact.h:234:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error) + ^~~~~ +_write_bioxsd.cpp:30:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr _get_bxScore(const fc::contact_t& __ct, const std::string& __scid); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp: In function 'std::__cxx11::string _xml_flatali(std::istream&, bool)': +_write_bioxsd.cpp:38:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr xml( fix::alignment(__is) ); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp: In function 'void _write_bioxsd(const freecontact::ali_t&, const resn_mapper_t&, const std::map, std::vector >&, bool)': +_write_bioxsd.cpp:53:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr seqSeg_p(new BioXSD::SequenceSegment()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:56:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr seqPos_p(new BioXSD::SequencePosition()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:59:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr seqRef_p(new BioXSD::SequenceReference()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:63:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr seqRec_p( new BioXSD::GeneralAminoacidSequenceRecord( BioXSD::GeneralAminoacidSequence( ucq ))); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:67:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr refSeq_p(new BioXSD::referenceSequence()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:73:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr metCatCon_p(new BioXSD::SemanticConcept()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:79:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr metCit_p(new BioXSD::EntryReference()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:82:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr method_p(new BioXSD::method1("freecontact", "M#fc")); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:86:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr sc_l1_p(new BioXSD::scoreType("S#l1")); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:88:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr metCit_p(new BioXSD::EntryReference()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:94:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr method_p(new BioXSD::Method("l1-norm")); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:100:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr sc_MI_p(new BioXSD::scoreType("S#MI")); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:102:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr metCit_p(new BioXSD::EntryReference()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:108:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr method_p(new BioXSD::Method("Mutual information")); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:114:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr sc_fr_p(new BioXSD::scoreType("S#fr")); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:116:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr metCit_p(new BioXSD::EntryReference()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:122:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr method_p(new BioXSD::Method("Frobenius norm")); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:128:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr featCon_p(new BioXSD::SemanticConcept()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:135:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr feat_p(new BioXSD::FeatureType()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:139:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr cref_p(new BioXSD::condensedReferences1()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:142:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr ann_p(new BioXSD::annotation1(feat_p)); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:156:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr pt1_p(new BioXSD::SequencePoint()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:158:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr pt2_p(new BioXSD::SequencePoint()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:161:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr pos_p(new BioXSD::SequencePosition()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:165:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr occ_p(new BioXSD::occurrence()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp:177:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr occRef_p(new BioXSD::blockWithOccurrenceReferences()); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp: At global scope: +_write_bioxsd.cpp:199:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr _get_bxScore( const fc::contact_t& __ct, const std::string& __scid ) + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +_write_bioxsd.cpp: In function 'std::auto_ptr _get_bxScore(const freecontact::contact_t&, const string&)': +_write_bioxsd.cpp:201:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr MI_score_p(new BioXSD::Score( bo::str(bo::format("%g") % __ct.score) )); + ^~~~~~~~ +In file included from /usr/include/c++/8/bits/locale_conv.h:41, + from /usr/include/c++/8/locale:43, + from /usr/include/boost/format.hpp:23, + from _write_bioxsd.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ BioXSD-1.1_xsd.cxx: In member function 'void BioXSD::association::parse(xsd::cxx::xml::dom::parser&, xml_schema::flags)': BioXSD-1.1_xsd.cxx:17632:16: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ::std::auto_ptr< ::xsd::cxx::tree::type > tmp ( @@ -15861,7 +15810,70 @@ /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ -/bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib -Wl,-z,relro -Wl,-z,now -o freecontact freecontact-freecontact.o freecontact-_write_bioxsd.o freecontact-freecontact_input_xsd.o freecontact-freecontact_output_xsd.o freecontact-BioXSD-1.1_xsd.o -lboost_program_options -lxerces-c ../lib/libfreecontact.la +In file included from freecontact.cpp:25: +../lib/freecontact.h:69:54: warning: ignoring attributes on template argument 'freecontact::__m128i' {aka '__vector(2) long long int'} [-Wignored-attributes] + class LIBFREEC_API ali_t : public std::vector<__m128i> + ^ +In file included from freecontact.cpp:25: +../lib/freecontact.h:113:56: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + ali_t& push(const std::vector& __al) throw (alilen_error); + ^~~~~ +../lib/freecontact.h:116:50: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + inline ali_t& push(const std::string& __l) throw (alilen_error) + ^~~~~ +In file included from freecontact.cpp:25: +../lib/freecontact.h: In constructor 'freecontact::ali_t::ali_t(uint16_t)': +../lib/freecontact.h:80:79: warning: ignoring attributes on template argument 'freecontact::__m128i' {aka '__vector(2) long long int'} [-Wignored-attributes] + ali_t( const uint16_t __alilen = 0 ) : std::vector<__m128i>(), seqcnt(0), alilen(__alilen), alilen16(( alilen-1 )/16 + 1), alilenpad( 16 * alilen16 ) + ^ +In file included from freecontact.cpp:25: +../lib/freecontact.h: At global scope: +../lib/freecontact.h:185:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error); + ^~~~~ +../lib/freecontact.h:219:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error); + ^~~~~ +../lib/freecontact.h:227:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error); + ^~~~~ +../lib/freecontact.h:234:23: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + ) throw (alilen_error, icme_timeout_error, std::range_error, std::runtime_error) + ^~~~~ +freecontact.cpp: In function 'int main(int, char**)': +freecontact.cpp:165:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + auto_ptr ali_ifs_p; + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/boost/container_hash/extensions.hpp:36, + from /usr/include/boost/container_hash/hash.hpp:760, + from /usr/include/boost/type_index/stl_type_index.hpp:43, + from /usr/include/boost/type_index.hpp:29, + from /usr/include/boost/any.hpp:20, + from /usr/include/boost/program_options/value_semantic.hpp:12, + from /usr/include/boost/program_options/options_description.hpp:13, + from /usr/include/boost/program_options.hpp:15, + from freecontact.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +freecontact.cpp:169:25: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] + ali_ifs_p = auto_ptr(new std::ifstream(vm["ali"].as().c_str())); + ^~~~~~~~ +In file included from /usr/include/c++/8/memory:80, + from /usr/include/boost/container_hash/extensions.hpp:36, + from /usr/include/boost/container_hash/hash.hpp:760, + from /usr/include/boost/type_index/stl_type_index.hpp:43, + from /usr/include/boost/type_index.hpp:29, + from /usr/include/boost/any.hpp:20, + from /usr/include/boost/program_options/value_semantic.hpp:12, + from /usr/include/boost/program_options/options_description.hpp:13, + from /usr/include/boost/program_options.hpp:15, + from freecontact.cpp:17: +/usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here + template class auto_ptr; + ^~~~~~~~ +/bin/sh ../libtool --tag=CXX --mode=link g++ -fopenmp -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib -Wl,-z,relro -Wl,-z,now -o freecontact freecontact-freecontact.o freecontact-_write_bioxsd.o freecontact-freecontact_input_xsd.o freecontact-freecontact_output_xsd.o freecontact-BioXSD-1.1_xsd.o -lboost_program_options -lxerces-c ../lib/libfreecontact.la libtool: link: g++ -fopenmp -g -O2 -ffile-prefix-map=/build/freecontact-1.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/freecontact freecontact-freecontact.o freecontact-_write_bioxsd.o freecontact-freecontact_input_xsd.o freecontact-freecontact_output_xsd.o freecontact-BioXSD-1.1_xsd.o -L/usr/lib -lboost_program_options -lxerces-c ../lib/.libs/libfreecontact.so -pthread -fopenmp make[2]: Leaving directory '/build/freecontact-1.0.21/src' make[2]: Entering directory '/build/freecontact-1.0.21' @@ -15869,7 +15881,7 @@ make[2]: Leaving directory '/build/freecontact-1.0.21' make[1]: Leaving directory '/build/freecontact-1.0.21' dh_auto_test - make -j10 check VERBOSE=1 + make -j18 check VERBOSE=1 make[1]: Entering directory '/build/freecontact-1.0.21' Making check in lib make[2]: Entering directory '/build/freecontact-1.0.21/lib' @@ -15914,7 +15926,7 @@ make[2]: Entering directory '/build/freecontact-1.0.21/lib' make[3]: Entering directory '/build/freecontact-1.0.21/lib' /bin/mkdir -p '/build/freecontact-1.0.21/debian/tmp/usr/lib/i386-linux-gnu' - /bin/bash ../libtool --mode=install /usr/bin/install -c libfreecontact.la '/build/freecontact-1.0.21/debian/tmp/usr/lib/i386-linux-gnu' + /bin/sh ../libtool --mode=install /usr/bin/install -c libfreecontact.la '/build/freecontact-1.0.21/debian/tmp/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/libfreecontact.so.0.0.0 /build/freecontact-1.0.21/debian/tmp/usr/lib/i386-linux-gnu/libfreecontact.so.0.0.0 libtool: install: (cd /build/freecontact-1.0.21/debian/tmp/usr/lib/i386-linux-gnu && { ln -s -f libfreecontact.so.0.0.0 libfreecontact.so.0 || { rm -f libfreecontact.so.0 && ln -s libfreecontact.so.0.0.0 libfreecontact.so.0; }; }) libtool: install: (cd /build/freecontact-1.0.21/debian/tmp/usr/lib/i386-linux-gnu && { ln -s -f libfreecontact.so.0.0.0 libfreecontact.so || { rm -f libfreecontact.so && ln -s libfreecontact.so.0.0.0 libfreecontact.so; }; }) @@ -15931,7 +15943,7 @@ make[2]: Entering directory '/build/freecontact-1.0.21/src' make[3]: Entering directory '/build/freecontact-1.0.21/src' /bin/mkdir -p '/build/freecontact-1.0.21/debian/tmp/usr/bin' - /bin/bash ../libtool --mode=install /usr/bin/install -c freecontact '/build/freecontact-1.0.21/debian/tmp/usr/bin' + /bin/sh ../libtool --mode=install /usr/bin/install -c freecontact '/build/freecontact-1.0.21/debian/tmp/usr/bin' libtool: warning: '../lib/libfreecontact.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/freecontact /build/freecontact-1.0.21/debian/tmp/usr/bin/freecontact /bin/mkdir -p '/build/freecontact-1.0.21/debian/tmp/usr/share/doc/freecontact/examples' @@ -16018,24 +16030,26 @@ make[1]: Leaving directory '/build/freecontact-1.0.21' dh_md5sums dh_builddeb -dpkg-deb: building package 'libfreecontact-doc' in '../libfreecontact-doc_1.0.21-7_all.deb'. -dpkg-deb: building package 'libfreecontact0v5-dbgsym' in '../libfreecontact0v5-dbgsym_1.0.21-7_i386.deb'. dpkg-deb: building package 'freecontact-dbgsym' in '../freecontact-dbgsym_1.0.21-7_i386.deb'. dpkg-deb: building package 'freecontact' in '../freecontact_1.0.21-7_i386.deb'. -dpkg-deb: building package 'libfreecontact-dev' in '../libfreecontact-dev_1.0.21-7_i386.deb'. dpkg-deb: building package 'libfreecontact0v5' in '../libfreecontact0v5_1.0.21-7_i386.deb'. +dpkg-deb: building package 'libfreecontact0v5-dbgsym' in '../libfreecontact0v5-dbgsym_1.0.21-7_i386.deb'. +dpkg-deb: building package 'libfreecontact-dev' in '../libfreecontact-dev_1.0.21-7_i386.deb'. +dpkg-deb: building package 'libfreecontact-doc' in '../libfreecontact-doc_1.0.21-7_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../freecontact_1.0.21-7_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration +I: user script /srv/workspace/pbuilder/10478/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/10478/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/21497 and its subdirectories -I: Current time: Thu Mar 26 17:28:06 -12 2020 -I: pbuilder-time-stamp: 1585286886 +I: removing directory /srv/workspace/pbuilder/10478 and its subdirectories +I: Current time: Fri Apr 30 01:53:25 +14 2021 +I: pbuilder-time-stamp: 1619697205