Diff of the two buildlogs: -- --- b1/build.log 2024-11-09 07:50:38.613692672 +0000 +++ b2/build.log 2024-11-09 07:52:56.696767748 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Nov 8 19:46:33 -12 2024 -I: pbuilder-time-stamp: 1731138393 +I: Current time: Sat Dec 13 04:13:41 +14 2025 +I: pbuilder-time-stamp: 1765548821 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -25,52 +25,84 @@ dpkg-source: info: unpacking libpwizlite_3.0.8-1.debian.tar.xz I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3469922/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3177437/tmp/hooks/D01_modify_environment starting +debug: Running on codethink03-arm64. +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 +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Dec 12 14:13 /bin/sh -> /bin/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/3177437/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3177437/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='641a982c881e4b9c9536ac5e2d727b24' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='3469922' - PS1='# ' - PS2='> ' + INVOCATION_ID=0e3c71a71d174c4a8c434f1e62d8b8bb + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=3177437 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.VPRKlhBl/pbuilderrc_CXyO --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.VPRKlhBl/b1 --logfile b1/build.log libpwizlite_3.0.8-1.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.VPRKlhBl/pbuilderrc_QqGe --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.VPRKlhBl/b2 --logfile b2/build.log libpwizlite_3.0.8-1.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink04-arm64 6.1.0-26-cloud-arm64 #1 SMP Debian 6.1.112-1 (2024-09-30) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-26-cloud-arm64 #1 SMP Debian 6.1.112-1 (2024-09-30) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3469922/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3177437/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -263,7 +295,7 @@ Get: 135 http://deb.debian.org/debian trixie/main arm64 libhdf5-dev arm64 1.10.10+repack-4 [2697 kB] Get: 136 http://deb.debian.org/debian trixie/main arm64 python3-roman all 4.2-1 [10.4 kB] Get: 137 http://deb.debian.org/debian trixie/main arm64 python3-docutils all 0.21.2+dfsg-2 [403 kB] -Fetched 83.6 MB in 1s (132 MB/s) +Fetched 83.6 MB in 0s (203 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:arm64. (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 ... 20088 files and directories currently installed.) @@ -725,8 +757,8 @@ Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Sat Nov 9 07:47:27 UTC 2024. -Universal Time is now: Sat Nov 9 07:47:27 UTC 2024. +Local time is now: Fri Dec 12 14:14:13 UTC 2025. +Universal Time is now: Fri Dec 12 14:14:13 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libboost-atomic1.83.0:arm64 (1.83.0-3.2) ... @@ -848,7 +880,11 @@ fakeroot is already the newest version (1.36-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/reproducible-path/libpwizlite-3.0.8/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../libpwizlite_3.0.8-1_source.changes +I: user script /srv/workspace/pbuilder/3177437/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/3177437/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/libpwizlite-3.0.8/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../libpwizlite_3.0.8-1_source.changes dpkg-buildpackage: info: source package libpwizlite dpkg-buildpackage: info: source version 3.0.8-1 dpkg-buildpackage: info: source distribution unstable @@ -934,7 +970,7 @@ -- Boost_INCLUDES: /usr/include -- Boost_LIB_DIRS: /usr/lib/aarch64-linux-gnu STATUS: Now managing the CPack process --- Configuring done (4.4s) +-- Configuring done (2.7s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: @@ -1430,63 +1466,45 @@ make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu' make -f src/CMakeFiles/pwizlite-static.dir/build.make src/CMakeFiles/pwizlite-static.dir/depend +make -f src/CMakeFiles/pwizlite-shared.dir/build.make src/CMakeFiles/pwizlite-shared.dir/depend make[3]: Entering directory '/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu' cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpwizlite-3.0.8 /build/reproducible-path/libpwizlite-3.0.8/src /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src/CMakeFiles/pwizlite-static.dir/DependInfo.cmake "--color=" -make -f src/CMakeFiles/pwizlite-shared.dir/build.make src/CMakeFiles/pwizlite-shared.dir/depend make[3]: Entering directory '/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu' cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpwizlite-3.0.8 /build/reproducible-path/libpwizlite-3.0.8/src /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src/CMakeFiles/pwizlite-shared.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu' make -f src/CMakeFiles/pwizlite-static.dir/build.make src/CMakeFiles/pwizlite-static.dir/build -make[3]: Entering directory '/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu' make -f src/CMakeFiles/pwizlite-shared.dir/build.make src/CMakeFiles/pwizlite-shared.dir/build make[3]: Entering directory '/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu' -[ 1%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/ParamTypes.cpp.o -[ 2%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/ParamTypes.cpp.o +make[3]: Entering directory '/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu' +[ 3%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/CVTranslator.cpp.o [ 3%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/CVTranslator.cpp.o -[ 4%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/cv.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/ParamTypes.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/common/ParamTypes.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/common/ParamTypes.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.cpp -[ 6%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/CVTranslator.cpp.o -[ 7%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/diff_std.cpp.o -[ 8%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o +[ 4%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/ParamTypes.cpp.o +[ 3%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/cv.cpp.o +[ 6%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/ParamTypes.cpp.o +[ 7%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/cv.cpp.o +[ 9%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/LegacyAdapter.cpp.o +[ 9%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/diff_std.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/CVTranslator.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/common/CVTranslator.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/common/CVTranslator.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/ParamTypes.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/common/ParamTypes.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/common/ParamTypes.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.cpp -[ 9%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/cv.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/cv.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/common/cv.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/common/cv.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.cpp -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/CVTranslator.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/common/CVTranslator.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/common/CVTranslator.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp -[ 10%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/diff_std.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/cv.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/common/cv.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/common/cv.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.cpp +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/ParamTypes.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/common/ParamTypes.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/common/ParamTypes.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.cpp +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/cv.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/common/cv.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/common/cv.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.cpp cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/common/diff_std.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/common/diff_std.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/common/diff_std.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramList_mzML.cpp -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/diff_std.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/common/diff_std.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/common/diff_std.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp -[ 12%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/LegacyAdapter.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/LegacyAdapter.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/LegacyAdapter.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/LegacyAdapter.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.cpp +[ 10%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o +[ 12%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/diff_std.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramList_mzML.cpp +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/ParamTypes.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/common/ParamTypes.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/common/ParamTypes.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.cpp [ 13%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/CVTranslator.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/common/CVTranslator.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/common/CVTranslator.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp [ 14%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSNumpress.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramList_mzML.cpp cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSNumpress.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSNumpress.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSNumpress.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSNumpress.cpp +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/common/diff_std.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/common/diff_std.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/common/diff_std.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramList_mzML.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSNumpress.cpp: In function 'void pwiz::msdata::MSNumpress::encodeInt(int, unsigned char*, size_t*)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSNumpress.cpp:114:21: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] 114 | } else if (init == mask) { | ~~~~~^~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.hpp:30, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.cpp:27: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ In file included from /usr/include/c++/14/iostream:41, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSNumpress.cpp:27: In member function 'std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(long long int) [with _CharT = char; _Traits = std::char_traits]', @@ -1509,31 +1527,6 @@ | ^ [ 15%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/References.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/References.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/References.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/References.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/References.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp:27: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp: In function 'void pwiz::data::diff_impl::diff(const std::string&, const std::string&, std::string&, std::string&, const pwiz::data::BaseDiffConfig&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp:40:33: warning: unused parameter 'config' [-Wunused-parameter] - 40 | const BaseDiffConfig& config) - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp: In function 'void pwiz::data::diff_impl::diff(const boost::logic::tribool&, const boost::logic::tribool&, boost::logic::tribool&, boost::logic::tribool&, const pwiz::data::BaseDiffConfig&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp:88:33: warning: unused parameter 'config' [-Wunused-parameter] - 88 | const BaseDiffConfig& config) - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp: In function 'void pwiz::data::diff_impl::diff(pwiz::cv::CVID, pwiz::cv::CVID, pwiz::cv::CVID&, pwiz::cv::CVID&, const pwiz::data::BaseDiffConfig&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp:124:33: warning: unused parameter 'config' [-Wunused-parameter] - 124 | const BaseDiffConfig& config) - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramListBase.hpp:28, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramList_mzML.hpp:29, @@ -1553,14 +1546,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramListBase.hpp:28, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramList_mzML.hpp:29, @@ -1580,20 +1565,54 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.cpp:31: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.hpp:30, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.cpp:27: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.cpp:26: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.cpp:26: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp:27: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] @@ -1611,36 +1630,6 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp:124:33: warning: unused parameter 'config' [-Wunused-parameter] 124 | const BaseDiffConfig& config) | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.cpp:26: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, - from /usr/include/boost/shared_ptr.hpp:17, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp:27: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, - from /usr/include/boost/shared_ptr.hpp:17, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp:27: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.cpp:26: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramList_mzML.cpp:27: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': @@ -1682,10 +1671,12 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] 597 | stream_offset position) {return Status::Ok;} | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.cpp:28: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, @@ -1694,24 +1685,13 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp:29: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramList_mzML.cpp:31: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.cpp:28: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp:29: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp:27: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); @@ -1722,6 +1702,26 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp: In function 'void pwiz::data::diff_impl::diff(const std::string&, const std::string&, std::string&, std::string&, const pwiz::data::BaseDiffConfig&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp:40:33: warning: unused parameter 'config' [-Wunused-parameter] + 40 | const BaseDiffConfig& config) + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp: In function 'void pwiz::data::diff_impl::diff(const boost::logic::tribool&, const boost::logic::tribool&, boost::logic::tribool&, boost::logic::tribool&, const pwiz::data::BaseDiffConfig&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp:88:33: warning: unused parameter 'config' [-Wunused-parameter] + 88 | const BaseDiffConfig& config) + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp: In function 'void pwiz::data::diff_impl::diff(pwiz::cv::CVID, pwiz::cv::CVID, pwiz::cv::CVID&, pwiz::cv::CVID&, const pwiz::data::BaseDiffConfig&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/diff_std.cpp:124:33: warning: unused parameter 'config' [-Wunused-parameter] + 124 | const BaseDiffConfig& config) + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, + from /usr/include/boost/shared_ptr.hpp:17, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp:27: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramList_mzML.cpp:29: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] @@ -1765,14 +1765,28 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.cpp:34: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.cpp:28: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramList_mzML.cpp:31: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.cpp:28: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp:29: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramList_mzML.cpp:31: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); @@ -1785,30 +1799,32 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/ChromatogramList_mzML.cpp:31: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/References.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/References.cpp:25: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, + from /usr/include/boost/shared_ptr.hpp:17, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp:27: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp: In function 'bool pwiz::data::shouldIgnore(const std::string&, pwiz::cv::CVID, pwiz::cv::CVID)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp:145:53: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 145 | return (key=="unit_" && value==MS_unit_OBSOLETE && cvid==UO_unit || @@ -1829,6 +1845,44 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp:153:56: warning: unused parameter 'cvid' [-Wunused-parameter] 153 | bool shouldReplace(const string& key, CVID value, CVID cvid) | ~~~~~^~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp:29: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/References.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/References.cpp:25: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.cpp:31: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp: In function 'bool pwiz::data::shouldIgnore(const std::string&, pwiz::cv::CVID, pwiz::cv::CVID)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp:145:53: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 145 | return (key=="unit_" && value==MS_unit_OBSOLETE && cvid==UO_unit || @@ -1849,26 +1903,11 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/CVTranslator.cpp:153:56: warning: unused parameter 'cvid' [-Wunused-parameter] 153 | bool shouldReplace(const string& key, CVID value, CVID cvid) | ~~~~~^~~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.cpp:34: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -[ 17%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumInfo.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumInfo.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumInfo.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumInfo.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumInfo.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.cpp:26735: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.inl: In function 'const pwiz::cv::CVTermInfo& pwiz::cv::cvTermInfo(const char*)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.inl:103:23: warning: comparison of integer expressions of different signedness: 'int' and 'const size_t' {aka 'const long unsigned int'} [-Wsign-compare] + 103 | for (int o=0;o instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 18%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.cpp:26735: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.inl: In function 'const pwiz::cv::CVTermInfo& pwiz::cv::cvTermInfo(const char*)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.inl:103:23: warning: comparison of integer expressions of different signedness: 'int' and 'const size_t' {aka 'const long unsigned int'} [-Wsign-compare] + 103 | for (int o=0;o(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.cpp:26735: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.inl: In function 'const pwiz::cv::CVTermInfo& pwiz::cv::cvTermInfo(const char*)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/cv.inl:103:23: warning: comparison of integer expressions of different signedness: 'int' and 'const size_t' {aka 'const long unsigned int'} [-Wsign-compare] - 103 | for (int o=0;o struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -[ 24%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/References.cpp.o +[ 20%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/References.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/References.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/References.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/References.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/References.cpp +[ 21%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSNumpress.cpp: In function 'void pwiz::msdata::MSNumpress::encodeInt(int, unsigned char*, size_t*)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSNumpress.cpp:114:21: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] 114 | } else if (init == mask) { | ~~~~~^~~~~~~ +[ 23%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp +[ 24%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_mzXML.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_mzXML.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_mzXML.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_mzXML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp [ 25%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumInfo.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumInfo.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumInfo.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumInfo.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumInfo.cpp [ 26%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Version.cpp.o @@ -1959,32 +1977,13 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSNumpress.cpp:347:15: note: 'y' was declared here 347 | long long y; | ^ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 28%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp -[ 29%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o +[ 28%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp -[ 30%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/DefaultReaderList.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/DefaultReaderList.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/DefaultReaderList.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/DefaultReaderList.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp +[ 29%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.hpp:30, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:26: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumInfo.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumInfo.cpp:27: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -2001,8 +2000,8 @@ 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.hpp:30, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.cpp:27: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/References.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/References.cpp:25: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -2018,16 +2017,11 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumInfo.cpp:29: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ +[ 30%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/DefaultReaderList.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/DefaultReaderList.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/DefaultReaderList.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/DefaultReaderList.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:26: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.hpp:30, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.cpp:27: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -2044,8 +2038,9 @@ 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/References.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/References.cpp:25: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.hpp:30, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:26: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -2062,9 +2057,8 @@ 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:25: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumInfo.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumInfo.cpp:27: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -2088,41 +2082,6 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:28: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] - 585 | virtual Status processingInstruction(const std::string& name, - | ~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:586:61: warning: unused parameter 'data' [-Wunused-parameter] - 586 | const std::string& data, - | ~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:587:56: warning: unused parameter 'position' [-Wunused-parameter] - 587 | stream_offset position) {return Status::Ok;} - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::startElement(const std::string&, const Attributes&, stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:589:52: warning: unused parameter 'name' [-Wunused-parameter] - 589 | virtual Status startElement(const std::string& name, - | ~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:590:51: warning: unused parameter 'attributes' [-Wunused-parameter] - 590 | const Attributes& attributes, - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:591:47: warning: unused parameter 'position' [-Wunused-parameter] - 591 | stream_offset position) {return Status::Ok;} - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::endElement(const std::string&, stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:593:50: warning: unused parameter 'name' [-Wunused-parameter] - 593 | virtual Status endElement(const std::string& name, - | ~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:594:45: warning: unused parameter 'position' [-Wunused-parameter] - 594 | stream_offset position) {return Status::Ok;} - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::characters(const pwiz::minimxml::SAXParser::saxstring&, stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:596:59: warning: unused parameter 'text' [-Wunused-parameter] - 596 | virtual Status characters(const SAXParser::saxstring& text, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] - 597 | stream_offset position) {return Status::Ok;} - | ~~~~~~~~~~~~~~^~~~~~~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, @@ -2139,6 +2098,25 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, @@ -2148,7 +2126,7 @@ 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:29: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumInfo.cpp:29: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); @@ -2178,24 +2156,10 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumInfo.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumInfo.cpp:27: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/References.cpp:26: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: @@ -2210,13 +2174,19 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:27: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] - 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:29: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:28: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] 585 | virtual Status processingInstruction(const std::string& name, @@ -2251,6 +2221,25 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] 597 | stream_offset position) {return Status::Ok;} | ~~~~~~~~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.hpp:30, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, @@ -2259,6 +2248,12 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:29: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -2267,58 +2262,19 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:30: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumInfo.cpp:29: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.hpp:30, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:121:47: warning: unused parameter 'position' [-Wunused-parameter] - 121 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::endElement(const std::string&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:162:45: warning: unused parameter 'position' [-Wunused-parameter] - 162 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:26: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:27: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexCreator::endElement(const std::string&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:356:45: warning: unused parameter 'position' [-Wunused-parameter] - 356 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:28: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:29: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] 585 | virtual Status processingInstruction(const std::string& name, @@ -2361,30 +2317,12 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/bind.hpp: At global scope: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.cpp:31: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:29: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:30: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, @@ -2400,81 +2338,6 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumInfo.cpp:29: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In constructor 'pwiz::msdata::{anonymous}::SpectrumList_mzXMLImpl::SpectrumList_mzXMLImpl(boost::shared_ptr >, const pwiz::msdata::MSData&, bool)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:84:30: warning: catching polymorphic type 'struct pwiz::msdata::SpectrumList_mzXML::index_not_found' by value [-Wcatch-value=] - 84 | } catch (index_not_found e){ - | ^ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPrecursor::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:128:47: warning: unused parameter 'position' [-Wunused-parameter] - 128 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPrecursor::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:212:45: warning: unused parameter 'position' [-Wunused-parameter] - 212 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:239:47: warning: unused parameter 'position' [-Wunused-parameter] - 239 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:282:45: warning: unused parameter 'position' [-Wunused-parameter] - 282 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::endElement(const std::string&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:302:70: warning: unused parameter 'position' [-Wunused-parameter] - 302 | virtual Status endElement(const std::string& name, stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexOffset::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:701:51: warning: unused parameter 'attributes' [-Wunused-parameter] - 701 | const Attributes& attributes, - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:702:47: warning: unused parameter 'position' [-Wunused-parameter] - 702 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexOffset::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:710:45: warning: unused parameter 'position' [-Wunused-parameter] - 710 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerOffset::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:736:47: warning: unused parameter 'position' [-Wunused-parameter] - 736 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerOffset::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:754:45: warning: unused parameter 'position' [-Wunused-parameter] - 754 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndex::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:778:51: warning: unused parameter 'attributes' [-Wunused-parameter] - 778 | const Attributes& attributes, - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:779:47: warning: unused parameter 'position' [-Wunused-parameter] - 779 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndex::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:796:59: warning: unused parameter 'text' [-Wunused-parameter] - 796 | virtual Status characters(const SAXParser::saxstring& text, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:797:45: warning: unused parameter 'position' [-Wunused-parameter] - 797 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexCreator::endElement(const std::string&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:885:45: warning: unused parameter 'position' [-Wunused-parameter] - 885 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -[ 31%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/IO.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/IO.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/IO.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/IO.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:38: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -2483,14 +2346,10 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp:26: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/bind.hpp: At global scope: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:28: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] @@ -2534,21 +2393,137 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:38: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -[ 32%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:29: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -[ 34%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzXML.cpp.o +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:121:47: warning: unused parameter 'position' [-Wunused-parameter] + 121 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::endElement(const std::string&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:162:45: warning: unused parameter 'position' [-Wunused-parameter] + 162 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexCreator::endElement(const std::string&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:356:45: warning: unused parameter 'position' [-Wunused-parameter] + 356 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/LegacyAdapter.cpp:31: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +[ 31%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/IO.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/IO.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/IO.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/IO.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp +[ 32%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Index_mzML.cpp.o +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:25: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Index_mzML.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Index_mzML.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Index_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp:26: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 34%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +[ 35%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzXML.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzXML.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzXML.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_mzXML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:121:47: warning: unused parameter 'position' [-Wunused-parameter] + 121 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::endElement(const std::string&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:162:45: warning: unused parameter 'position' [-Wunused-parameter] + 162 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexCreator::endElement(const std::string&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:356:45: warning: unused parameter 'position' [-Wunused-parameter] + 356 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] + 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:28: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] + 585 | virtual Status processingInstruction(const std::string& name, + | ~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:586:61: warning: unused parameter 'data' [-Wunused-parameter] + 586 | const std::string& data, + | ~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:587:56: warning: unused parameter 'position' [-Wunused-parameter] + 587 | stream_offset position) {return Status::Ok;} + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::startElement(const std::string&, const Attributes&, stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:589:52: warning: unused parameter 'name' [-Wunused-parameter] + 589 | virtual Status startElement(const std::string& name, + | ~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:590:51: warning: unused parameter 'attributes' [-Wunused-parameter] + 590 | const Attributes& attributes, + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:591:47: warning: unused parameter 'position' [-Wunused-parameter] + 591 | stream_offset position) {return Status::Ok;} + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::endElement(const std::string&, stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:593:50: warning: unused parameter 'name' [-Wunused-parameter] + 593 | virtual Status endElement(const std::string& name, + | ~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:594:45: warning: unused parameter 'position' [-Wunused-parameter] + 594 | stream_offset position) {return Status::Ok;} + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::characters(const pwiz::minimxml::SAXParser::saxstring&, stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:596:59: warning: unused parameter 'text' [-Wunused-parameter] + 596 | virtual Status characters(const SAXParser::saxstring& text, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] + 597 | stream_offset position) {return Status::Ok;} + | ~~~~~~~~~~~~~~^~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp:28: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] @@ -2591,6 +2566,14 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:29: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function 'bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] @@ -2616,8 +2599,12 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 35%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Index_mzML.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Index_mzML.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Index_mzML.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Index_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:29: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -2634,8 +2621,8 @@ 98 | virtual std::string identify(const std::string& filename, const std::string& head) const { return ""; } | ~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:26: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:24: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -2803,8 +2790,6 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp:536:19: warning: unused parameter 'config' [-Wunused-parameter] 536 | const Config& config) const | ~~~~~~~~~~~~~~^~~~~~ -[ 36%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Version.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Version.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Version.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Version.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Version.cpp In file included from /usr/include/c++/14/bits/stl_algobase.h:64, from /usr/include/c++/14/string:51: /usr/include/c++/14/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': @@ -2814,18 +2799,27 @@ /usr/include/c++/14/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1132 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:121:47: warning: unused parameter 'position' [-Wunused-parameter] - 121 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::endElement(const std::string&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:162:45: warning: unused parameter 'position' [-Wunused-parameter] - 162 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexCreator::endElement(const std::string&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_BTDX.cpp:356:45: warning: unused parameter 'position' [-Wunused-parameter] - 356 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ +[ 36%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Version.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Version.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Version.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Version.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Version.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -2834,17 +2828,17 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -[ 37%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] - 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:25: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:26: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -2860,11 +2854,14 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 39%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/DefaultReaderList.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/DefaultReaderList.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/DefaultReaderList.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/DefaultReaderList.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In constructor 'pwiz::msdata::{anonymous}::SpectrumList_mzXMLImpl::SpectrumList_mzXMLImpl(boost::shared_ptr >, const pwiz::msdata::MSData&, bool)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:84:30: warning: catching polymorphic type 'struct pwiz::msdata::SpectrumList_mzXML::index_not_found' by value [-Wcatch-value=] + 84 | } catch (index_not_found e){ + | ^ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:24: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:25: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -2880,7 +2877,72 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:28: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPrecursor::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:128:47: warning: unused parameter 'position' [-Wunused-parameter] + 128 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPrecursor::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:212:45: warning: unused parameter 'position' [-Wunused-parameter] + 212 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:239:47: warning: unused parameter 'position' [-Wunused-parameter] + 239 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:282:45: warning: unused parameter 'position' [-Wunused-parameter] + 282 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::endElement(const std::string&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:302:70: warning: unused parameter 'position' [-Wunused-parameter] + 302 | virtual Status endElement(const std::string& name, stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexOffset::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:701:51: warning: unused parameter 'attributes' [-Wunused-parameter] + 701 | const Attributes& attributes, + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:702:47: warning: unused parameter 'position' [-Wunused-parameter] + 702 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexOffset::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:710:45: warning: unused parameter 'position' [-Wunused-parameter] + 710 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerOffset::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:736:47: warning: unused parameter 'position' [-Wunused-parameter] + 736 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerOffset::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:754:45: warning: unused parameter 'position' [-Wunused-parameter] + 754 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndex::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:778:51: warning: unused parameter 'attributes' [-Wunused-parameter] + 778 | const Attributes& attributes, + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:779:47: warning: unused parameter 'position' [-Wunused-parameter] + 779 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndex::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:796:59: warning: unused parameter 'text' [-Wunused-parameter] + 796 | virtual Status characters(const SAXParser::saxstring& text, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:797:45: warning: unused parameter 'position' [-Wunused-parameter] + 797 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexCreator::endElement(const std::string&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:885:45: warning: unused parameter 'position' [-Wunused-parameter] + 885 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:25: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +[ 37%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:26: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] 585 | virtual Status processingInstruction(const std::string& name, @@ -2915,93 +2977,34 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] 597 | stream_offset position) {return Status::Ok;} | ~~~~~~~~~~~~~~^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:29: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp: In member function 'void pwiz::msdata::BinaryDataEncoder::Impl::encode(const double*, size_t, std::string&, size_t*)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:305:37: warning: 'byteCount' may be used uninitialized [-Wmaybe-uninitialized] - 305 | filterArray(byteBuffer, byteCount,compressed); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:131:12: note: 'byteCount' was declared here - 131 | size_t byteCount; - | ^~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:305:37: warning: 'byteBuffer' may be used uninitialized [-Wmaybe-uninitialized] - 305 | filterArray(byteBuffer, byteCount,compressed); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:132:17: note: 'byteBuffer' was declared here - 132 | const void* byteBuffer; - | ^~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerCV::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:85:47: warning: unused parameter 'position' [-Wunused-parameter] - 85 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerUserParam::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:136:47: warning: unused parameter 'position' [-Wunused-parameter] - 136 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerCVParam::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:195:47: warning: unused parameter 'position' [-Wunused-parameter] - 195 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerParamContainer::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:267:47: warning: unused parameter 'position' [-Wunused-parameter] - 267 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerFileDescription::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:504:51: warning: unused parameter 'attributes' [-Wunused-parameter] - 504 | const Attributes& attributes, +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:28: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] + 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexListOffset::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:86:51: warning: unused parameter 'attributes' [-Wunused-parameter] + 86 | const Attributes& attributes, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:505:47: warning: unused parameter 'position' [-Wunused-parameter] - 505 | stream_offset position) +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:87:47: warning: unused parameter 'position' [-Wunused-parameter] + 87 | stream_offset position) | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerComponentList::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:697:51: warning: unused parameter 'attributes' [-Wunused-parameter] - 697 | const Attributes& attributes, - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:698:47: warning: unused parameter 'position' [-Wunused-parameter] - 698 | stream_offset position) +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexListOffset::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:95:45: warning: unused parameter 'position' [-Wunused-parameter] + 95 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerOffset::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:120:47: warning: unused parameter 'position' [-Wunused-parameter] + 120 | stream_offset position) | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerDataProcessing::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:970:47: warning: unused parameter 'position' [-Wunused-parameter] - 970 | stream_offset position) +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerOffset::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:165:45: warning: unused parameter 'position' [-Wunused-parameter] + 165 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexList::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:201:47: warning: unused parameter 'position' [-Wunused-parameter] + 201 | stream_offset position) | ~~~~~~~~~~~~~~^~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] @@ -3011,52 +3014,13 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerScanSettings::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1083:47: warning: unused parameter 'position' [-Wunused-parameter] - 1083 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerProduct::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1359:51: warning: unused parameter 'attributes' [-Wunused-parameter] - 1359 | const Attributes& attributes, - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1360:47: warning: unused parameter 'position' [-Wunused-parameter] - 1360 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In function 'void pwiz::msdata::IO::writeMzMLbExtra(boost::iostreams::stream*, std::string&, size_t&, const std::string&, pwiz::minimxml::XMLWriter&, const BinaryDataArrayType&, const pwiz::msdata::BinaryDataEncoder::Config&) [with BinaryDataArrayType = pwiz::msdata::BinaryDataArray; std::string = std::__cxx11::basic_string; size_t = long unsigned int]': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1693:47: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 1693 | for (int i = 1; i < float_data.size(); i++) - | ~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1712:51: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 1712 | for (int i = 2; i < float_data.size(); i++) - | ~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1774:43: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 1774 | for (int i = 1; i < double_data.size(); i++) - | ~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1793:47: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 1793 | for (int i = 2; i < double_data.size(); i++) - | ~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1627:142: warning: unused parameter 'writer' [-Wunused-parameter] - 1627 | void writeMzMLbExtra(stream* mzMLb_os, string& dataset, size_t& offset, const string& encoded, XMLWriter& writer, const BinaryDataArray& binaryDataArray, const BinaryDataEncoder::Config& usedConfig) - | ~~~~~~~~~~~^~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In function 'void pwiz::msdata::IO::writeMzMLbExtra(boost::iostreams::stream*, std::string&, size_t&, const std::string&, pwiz::minimxml::XMLWriter&, const BinaryDataArrayType&, const pwiz::msdata::BinaryDataEncoder::Config&) [with BinaryDataArrayType = pwiz::msdata::IntegerDataArray; std::string = std::__cxx11::basic_string; size_t = long unsigned int]': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1820:143: warning: unused parameter 'writer' [-Wunused-parameter] - 1820 | void writeMzMLbExtra(stream* mzMLb_os, string& dataset, size_t& offset, const string& encoded, XMLWriter& writer, const IntegerDataArray& binaryDataArray, const BinaryDataEncoder::Config& usedConfig) - | ~~~~~~~~~~~^~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:26: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:28: +[ 39%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/DefaultReaderList.cpp.o +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:28: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] 585 | virtual Status processingInstruction(const std::string& name, @@ -3077,6 +3041,7 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:591:47: warning: unused parameter 'position' [-Wunused-parameter] 591 | stream_offset position) {return Status::Ok;} | ~~~~~~~~~~~~~~^~~~~~~~ +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/DefaultReaderList.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/DefaultReaderList.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/DefaultReaderList.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::endElement(const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:593:50: warning: unused parameter 'name' [-Wunused-parameter] 593 | virtual Status endElement(const std::string& name, @@ -3091,18 +3056,6 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] 597 | stream_offset position) {return Status::Ok;} | ~~~~~~~~~~~~~~^~~~~~~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerSpectrum::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:2639:35: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 2639 | else if (version == 1 && name == "acquisitionList" /* mzML 1.0 */ || name == "scanList") - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -3111,56 +3064,20 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerSpectrumListSimple::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:2955:47: warning: unused parameter 'position' [-Wunused-parameter] - 2955 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerChromatogramListSimple::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:3085:47: warning: unused parameter 'position' [-Wunused-parameter] - 3085 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerMSData::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:3415:31: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 3415 | else if (version == 1 && name == "acquisitionSettings" /* mzML 1.0 */ || - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:3333:47: warning: unused parameter 'position' [-Wunused-parameter] - 3333 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:29: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:27: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:25: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:29: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] @@ -3196,6 +3113,12 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] 597 | stream_offset position) {return Status::Ok;} | ~~~~~~~~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:29: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, @@ -3204,8 +3127,13 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 40%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSData.cpp.o -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:26: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] + 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:28: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] 585 | virtual Status processingInstruction(const std::string& name, @@ -3240,66 +3168,152 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] 597 | stream_offset position) {return Status::Ok;} | ~~~~~~~~~~~~~~^~~~~~~~ -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSData.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSData.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSData.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:30: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:28: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] - 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp:26: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: +/usr/include/boost/iterator.hpp: At global scope: /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexListOffset::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:86:51: warning: unused parameter 'attributes' [-Wunused-parameter] - 86 | const Attributes& attributes, - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:87:47: warning: unused parameter 'position' [-Wunused-parameter] - 87 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexListOffset::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:95:45: warning: unused parameter 'position' [-Wunused-parameter] - 95 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerOffset::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:120:47: warning: unused parameter 'position' [-Wunused-parameter] - 120 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerOffset::characters(const pwiz::minimxml::SAXParser::saxstring&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:165:45: warning: unused parameter 'position' [-Wunused-parameter] - 165 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerIndexList::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:201:47: warning: unused parameter 'position' [-Wunused-parameter] - 201 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -/usr/include/boost/bind.hpp: At global scope: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, - from /usr/include/boost/shared_ptr.hpp:17, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.hpp:30: +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: +/usr/include/boost/iterator.hpp: At global scope: /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzML.cpp:30: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:29: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +/usr/include/boost/bind.hpp: At global scope: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp: In member function 'void pwiz::msdata::BinaryDataEncoder::Impl::encode(const double*, size_t, std::string&, size_t*)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:305:37: warning: 'byteCount' may be used uninitialized [-Wmaybe-uninitialized] + 305 | filterArray(byteBuffer, byteCount,compressed); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:131:12: note: 'byteCount' was declared here + 131 | size_t byteCount; + | ^~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:305:37: warning: 'byteBuffer' may be used uninitialized [-Wmaybe-uninitialized] + 305 | filterArray(byteBuffer, byteCount,compressed); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:132:17: note: 'byteBuffer' was declared here + 132 | const void* byteBuffer; + | ^~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerCV::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:85:47: warning: unused parameter 'position' [-Wunused-parameter] + 85 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerUserParam::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:136:47: warning: unused parameter 'position' [-Wunused-parameter] + 136 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerCVParam::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:195:47: warning: unused parameter 'position' [-Wunused-parameter] + 195 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerParamContainer::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:267:47: warning: unused parameter 'position' [-Wunused-parameter] + 267 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerFileDescription::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:504:51: warning: unused parameter 'attributes' [-Wunused-parameter] + 504 | const Attributes& attributes, + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:505:47: warning: unused parameter 'position' [-Wunused-parameter] + 505 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerComponentList::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:697:51: warning: unused parameter 'attributes' [-Wunused-parameter] + 697 | const Attributes& attributes, + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:698:47: warning: unused parameter 'position' [-Wunused-parameter] + 698 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerDataProcessing::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:970:47: warning: unused parameter 'position' [-Wunused-parameter] + 970 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerScanSettings::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1083:47: warning: unused parameter 'position' [-Wunused-parameter] + 1083 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerProduct::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1359:51: warning: unused parameter 'attributes' [-Wunused-parameter] + 1359 | const Attributes& attributes, + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1360:47: warning: unused parameter 'position' [-Wunused-parameter] + 1360 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In function 'void pwiz::msdata::IO::writeMzMLbExtra(boost::iostreams::stream*, std::string&, size_t&, const std::string&, pwiz::minimxml::XMLWriter&, const BinaryDataArrayType&, const pwiz::msdata::BinaryDataEncoder::Config&) [with BinaryDataArrayType = pwiz::msdata::BinaryDataArray; std::string = std::__cxx11::basic_string; size_t = long unsigned int]': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1693:47: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 1693 | for (int i = 1; i < float_data.size(); i++) + | ~~^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1712:51: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 1712 | for (int i = 2; i < float_data.size(); i++) + | ~~^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1774:43: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 1774 | for (int i = 1; i < double_data.size(); i++) + | ~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1793:47: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 1793 | for (int i = 2; i < double_data.size(); i++) + | ~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1627:142: warning: unused parameter 'writer' [-Wunused-parameter] + 1627 | void writeMzMLbExtra(stream* mzMLb_os, string& dataset, size_t& offset, const string& encoded, XMLWriter& writer, const BinaryDataArray& binaryDataArray, const BinaryDataEncoder::Config& usedConfig) + | ~~~~~~~~~~~^~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In function 'void pwiz::msdata::IO::writeMzMLbExtra(boost::iostreams::stream*, std::string&, size_t&, const std::string&, pwiz::minimxml::XMLWriter&, const BinaryDataArrayType&, const pwiz::msdata::BinaryDataEncoder::Config&) [with BinaryDataArrayType = pwiz::msdata::IntegerDataArray; std::string = std::__cxx11::basic_string; size_t = long unsigned int]': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1820:143: warning: unused parameter 'writer' [-Wunused-parameter] + 1820 | void writeMzMLbExtra(stream* mzMLb_os, string& dataset, size_t& offset, const string& encoded, XMLWriter& writer, const IntegerDataArray& binaryDataArray, const BinaryDataEncoder::Config& usedConfig) + | ~~~~~~~~~~~^~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerSpectrum::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:2639:35: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 2639 | else if (version == 1 && name == "acquisitionList" /* mzML 1.0 */ || name == "scanList") + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerSpectrumListSimple::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:2955:47: warning: unused parameter 'position' [-Wunused-parameter] + 2955 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerChromatogramListSimple::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:3085:47: warning: unused parameter 'position' [-Wunused-parameter] + 3085 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerMSData::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:3415:31: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 3415 | else if (version == 1 && name == "acquisitionSettings" /* mzML 1.0 */ || + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:3333:47: warning: unused parameter 'position' [-Wunused-parameter] + 3333 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In constructor 'pwiz::msdata::{anonymous}::SpectrumList_mzXMLImpl::SpectrumList_mzXMLImpl(boost::shared_ptr >, const pwiz::msdata::MSData&, bool)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:84:30: warning: catching polymorphic type 'struct pwiz::msdata::SpectrumList_mzXML::index_not_found' by value [-Wcatch-value=] 84 | } catch (index_not_found e){ @@ -3312,6 +3326,8 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:212:45: warning: unused parameter 'position' [-Wunused-parameter] 212 | stream_offset position) | ~~~~~~~~~~~~~~^~~~~~~~ +[ 40%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSData.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSData.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSData.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSData.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::{anonymous}::HandlerPeaks::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:239:47: warning: unused parameter 'position' [-Wunused-parameter] 239 | stream_offset position) @@ -3361,12 +3377,49 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_mzXML.cpp:885:45: warning: unused parameter 'position' [-Wunused-parameter] 885 | stream_offset position) | ~~~~~~~~~~~~~~^~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, + from /usr/include/boost/shared_ptr.hpp:17, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.hpp:30: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:38: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp:26: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:25: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp:28: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] @@ -3444,23 +3497,6 @@ | ~~~~~~~~~~~~^~~ [ 41%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSDataFile.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSDataFile.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSDataFile.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSDataFile.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:25: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp: In member function 'virtual std::string pwiz::msdata::Reader_MS2::identify(const std::string&, const std::string&) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp:98:53: warning: unused parameter 'filename' [-Wunused-parameter] 98 | virtual std::string identify(const std::string& filename, const std::string& head) const { return ""; } @@ -3613,6 +3649,14 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp:488:51: warning: unused parameter 'config' [-Wunused-parameter] 488 | const Config& config) const | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp: In member function 'virtual void pwiz::msdata::Reader_mzMLb::read(const std::string&, const std::string&, pwiz::msdata::MSData&, int, const pwiz::msdata::Reader::Config&) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.cpp:533:24: warning: unused parameter 'head' [-Wunused-parameter] 533 | const std::string& head, @@ -3629,14 +3673,6 @@ /usr/include/c++/14/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1132 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, @@ -3645,51 +3681,18 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ +[ 42%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Reader.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Reader.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Reader.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Reader.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:26: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.hpp:30: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] - 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:29: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function 'bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 42%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Reader.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Reader.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Reader.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Reader.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp +[ 43%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MGF.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MGF.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MGF.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MGF.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp +[ 45%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MSn.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MSn.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MSn.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MSn.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp: In member function 'virtual size_t pwiz::msdata::SpectrumList::findAbbreviated(const std::string&, char) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:1121:21: warning: comparison of unsigned expression in '>= 0' is always true [-Wtype-limits] 1121 | if ((result >= 0 && result < size()) || s == 0) @@ -3702,30 +3705,8 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:1299:87: warning: unused parameter 'getBinaryData' [-Wunused-parameter] 1299 | PWIZ_API_DECL ChromatogramPtr ChromatogramListSimple::chromatogram(size_t index, bool getBinaryData) const | ~~~~~^~~~~~~~~~~~~ -[ 43%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MGF.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MGF.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MGF.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MGF.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp:39: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp: In member function 'virtual std::string pwiz::msdata::Reader_MS2::identify(const std::string&, const std::string&) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp:98:53: warning: unused parameter 'filename' [-Wunused-parameter] - 98 | virtual std::string identify(const std::string& filename, const std::string& head) const { return ""; } - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp:98:82: warning: unused parameter 'head' [-Wunused-parameter] - 98 | virtual std::string identify(const std::string& filename, const std::string& head) const { return ""; } - | ~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp:40: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 46%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/IO.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/IO.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/IO.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/IO.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp: In function 'std::string pwiz::msdata::id::translateNativeIDToScanNumber(pwiz::cv::CVID, const std::string&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:582:13: warning: this statement may fall through [-Wimplicit-fallthrough=] 582 | if (id.find("controllerType=0 controllerNumber=1") != 0) @@ -3733,18 +3714,24 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:587:9: note: here 587 | case MS_Bruker_Agilent_YEP_nativeID_format: | ^~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:64: -/usr/include/c++/14/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:34:98: required from here - 34 | MzMobilityWindow(double mobility, double mobilityTolerance) : MzMobilityWindow(std::make_pair(mobility - mobilityTolerance, mobility + mobilityTolerance)) {} - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 1132 | make_pair(_T1&& __x, _T2&& __y) - | ^~~~~~~~~ -[ 45%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/IO.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/IO.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/IO.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/IO.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp -[ 46%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MSn.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MSn.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MSn.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MSn.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:28, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp:26: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': @@ -3779,21 +3766,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp: In member function 'void pwiz::msdata::BinaryDataEncoder::Impl::encode(const double*, size_t, std::string&, size_t*)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:305:37: warning: 'byteCount' may be used uninitialized [-Wmaybe-uninitialized] - 305 | filterArray(byteBuffer, byteCount,compressed); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:131:12: note: 'byteCount' was declared here - 131 | size_t byteCount; - | ^~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:305:37: warning: 'byteBuffer' may be used uninitialized [-Wmaybe-uninitialized] - 305 | filterArray(byteBuffer, byteCount,compressed); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:132:17: note: 'byteBuffer' was declared here - 132 | const void* byteBuffer; - | ^~~~~~~~~~ -[ 47%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzML.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzML.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzML.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -3802,20 +3774,17 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -[ 48%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Index_mzML.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Index_mzML.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Index_mzML.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Index_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp:27: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:17: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.hpp:30: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] + 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:29: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function 'bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:25: @@ -3834,36 +3803,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp: In member function 'virtual void pwiz::msdata::Reader::readIds(const std::string&, const std::string&, std::vector >&, const Config&) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp:80:119: warning: unused parameter 'config' [-Wunused-parameter] - 80 | PWIZ_API_DECL void Reader::readIds(const string& filename, const string& head, vector& results, const Config& config) const - | ~~~~~~~~~~~~~~^~~~~~ -In file included from /usr/include/c++/14/bits/stl_tempbuf.h:62: -/usr/include/c++/14/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:34:98: required from here - 34 | MzMobilityWindow(double mobility, double mobilityTolerance) : MzMobilityWindow(std::make_pair(mobility - mobilityTolerance, mobility + mobilityTolerance)) {} - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 1132 | make_pair(_T1&& __x, _T2&& __y) - | ^~~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -3872,32 +3811,42 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp: In member function 'void pwiz::msdata::BinaryDataEncoder::Impl::encode(const double*, size_t, std::string&, size_t*)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:305:37: warning: 'byteCount' may be used uninitialized [-Wmaybe-uninitialized] + 305 | filterArray(byteBuffer, byteCount,compressed); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:131:12: note: 'byteCount' was declared here + 131 | size_t byteCount; + | ^~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:305:37: warning: 'byteBuffer' may be used uninitialized [-Wmaybe-uninitialized] + 305 | filterArray(byteBuffer, byteCount,compressed); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/BinaryDataEncoder.cpp:132:17: note: 'byteBuffer' was declared here + 132 | const void* byteBuffer; + | ^~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp:39: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp: In member function 'virtual std::string pwiz::msdata::Reader_MS2::identify(const std::string&, const std::string&) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp:98:53: warning: unused parameter 'filename' [-Wunused-parameter] + 98 | virtual std::string identify(const std::string& filename, const std::string& head) const { return ""; } + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp:98:82: warning: unused parameter 'head' [-Wunused-parameter] + 98 | virtual std::string identify(const std::string& filename, const std::string& head) const { return ""; } + | ~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp:27: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:17: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.hpp:27, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp:25: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.hpp:28: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] - 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:26: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:26: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -3914,7 +3863,7 @@ 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:28: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp:40: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); @@ -3935,9 +3884,14 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.hpp:28: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] + 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:24: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.hpp:27, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp:25: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -3953,18 +3907,42 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] - 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp: In member function 'void pwiz::msdata::Serializer_MSn::write(std::ostream&, const pwiz::msdata::MSData&, const pwiz::util::IterationListenerRegistry*, bool, bool) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:552:10: warning: unused parameter 'useWorkerThreads' [-Wunused-parameter] - 552 | bool useWorkerThreads, bool continueOnError) const - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:552:33: warning: unused parameter 'continueOnError' [-Wunused-parameter] - 552 | bool useWorkerThreads, bool continueOnError) const - | ~~~~~^~~~~~~~~~~~~~~ +[ 47%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Index_mzML.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Index_mzML.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Index_mzML.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Index_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp: In member function 'virtual void pwiz::msdata::Reader::readIds(const std::string&, const std::string&, std::vector >&, const Config&) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp:80:119: warning: unused parameter 'config' [-Wunused-parameter] + 80 | PWIZ_API_DECL void Reader::readIds(const string& filename, const string& head, vector& results, const Config& config) const + | ~~~~~~~~~~~~~~^~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:28: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /usr/include/c++/14/bits/stl_tempbuf.h:62: +/usr/include/c++/14/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:34:98: required from here + 34 | MzMobilityWindow(double mobility, double mobilityTolerance) : MzMobilityWindow(std::make_pair(mobility - mobilityTolerance, mobility + mobilityTolerance)) {} + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 1132 | make_pair(_T1&& __x, _T2&& __y) + | ^~~~~~~~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:64: +/usr/include/c++/14/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:34:98: required from here + 34 | MzMobilityWindow(double mobility, double mobilityTolerance) : MzMobilityWindow(std::make_pair(mobility - mobilityTolerance, mobility + mobilityTolerance)) {} + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 1132 | make_pair(_T1&& __x, _T2&& __y) + | ^~~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -3973,9 +3951,9 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -[ 50%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/MSData.cpp.o +[ 48%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/MSData.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/MSData.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/MSData.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/MSData.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.hpp:29: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.hpp:32: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} @@ -4023,19 +4001,26 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] 597 | stream_offset position) {return Status::Ok;} | ~~~~~~~~~~~~~~^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.hpp:31: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.hpp:29: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp: In member function 'void pwiz::msdata::Serializer_MSn::write(std::ostream&, const pwiz::msdata::MSData&, const pwiz::util::IterationListenerRegistry*, bool, bool) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:552:10: warning: unused parameter 'useWorkerThreads' [-Wunused-parameter] + 552 | bool useWorkerThreads, bool continueOnError) const + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:552:33: warning: unused parameter 'continueOnError' [-Wunused-parameter] + 552 | bool useWorkerThreads, bool continueOnError) const + | ~~~~~^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp:27: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:29: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:29: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp:27: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); @@ -4056,63 +4041,6 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:32: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] - 585 | virtual Status processingInstruction(const std::string& name, - | ~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:586:61: warning: unused parameter 'data' [-Wunused-parameter] - 586 | const std::string& data, - | ~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:587:56: warning: unused parameter 'position' [-Wunused-parameter] - 587 | stream_offset position) {return Status::Ok;} - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::startElement(const std::string&, const Attributes&, stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:589:52: warning: unused parameter 'name' [-Wunused-parameter] - 589 | virtual Status startElement(const std::string& name, - | ~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:590:51: warning: unused parameter 'attributes' [-Wunused-parameter] - 590 | const Attributes& attributes, - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:591:47: warning: unused parameter 'position' [-Wunused-parameter] - 591 | stream_offset position) {return Status::Ok;} - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::endElement(const std::string&, stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:593:50: warning: unused parameter 'name' [-Wunused-parameter] - 593 | virtual Status endElement(const std::string& name, - | ~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:594:45: warning: unused parameter 'position' [-Wunused-parameter] - 594 | stream_offset position) {return Status::Ok;} - | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::characters(const pwiz::minimxml::SAXParser::saxstring&, stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:596:59: warning: unused parameter 'text' [-Wunused-parameter] - 596 | virtual Status characters(const SAXParser::saxstring& text, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] - 597 | stream_offset position) {return Status::Ok;} - | ~~~~~~~~~~~~~~^~~~~~~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:33: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerCV::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:85:47: warning: unused parameter 'position' [-Wunused-parameter] 85 | stream_offset position) @@ -4158,14 +4086,6 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1360:47: warning: unused parameter 'position' [-Wunused-parameter] 1360 | stream_offset position) | ~~~~~~~~~~~~~~^~~~~~~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp: In function 'void pwiz::msdata::IO::writeMzMLbExtra(boost::iostreams::stream*, std::string&, size_t&, const std::string&, pwiz::minimxml::XMLWriter&, const BinaryDataArrayType&, const pwiz::msdata::BinaryDataEncoder::Config&) [with BinaryDataArrayType = pwiz::msdata::BinaryDataArray; std::string = std::__cxx11::basic_string; size_t = long unsigned int]': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:1693:47: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 1693 | for (int i = 1; i < float_data.size(); i++) @@ -4202,26 +4122,96 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:3415:31: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 3415 | else if (version == 1 && name == "acquisitionSettings" /* mzML 1.0 */ || | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 51%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/MSDataFile.cpp.o /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/IO.cpp:3333:47: warning: unused parameter 'position' [-Wunused-parameter] 3333 | stream_offset position) | ~~~~~~~~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:24: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:25: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +[ 50%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzML.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzML.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzML.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 51%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/MSDataFile.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/MSDataFile.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/MSDataFile.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/MSDataFile.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::HandlerIndexedMZML::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:278:51: warning: unused parameter 'attributes' [-Wunused-parameter] - 278 | const Attributes& attributes, - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:279:47: warning: unused parameter 'position' [-Wunused-parameter] - 279 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:25: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -[ 52%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp: In member function 'void pwiz::msdata::Serializer_MGF::Impl::write(std::ostream&, const pwiz::msdata::MSData&, const pwiz::util::IterationListenerRegistry*, bool, bool) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp:73:61: warning: 'std::string boost::filesystem::basename(const path&)' is deprecated: Use path::stem() instead [-Wdeprecated-declarations] + 73 | string thermoBasename = titleIsThermoDTA ? bfs::basename(thermoFilename) : ""; + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:37: +/usr/include/boost/filesystem/convenience.hpp:35:20: note: declared here + 35 | inline std::string basename(const path& p) + | ^~~~~~~~ +[ 52%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Reader.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Reader.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Reader.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Reader.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:26: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] @@ -4264,7 +4254,8 @@ 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:25: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:26: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -4303,6 +4294,24 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Index_mzML.cpp:201:47: warning: unused parameter 'position' [-Wunused-parameter] 201 | stream_offset position) | ~~~~~~~~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp: In member function 'virtual size_t pwiz::msdata::SpectrumList::findAbbreviated(const std::string&, char) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:1121:21: warning: comparison of unsigned expression in '>= 0' is always true [-Wtype-limits] + 1121 | if ((result >= 0 && result < size()) || s == 0) + | ~~~~~~~^~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp: In member function 'virtual pwiz::msdata::SpectrumPtr pwiz::msdata::SpectrumListSimple::spectrum(size_t, bool) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:1232:75: warning: unused parameter 'getBinaryData' [-Wunused-parameter] + 1232 | PWIZ_API_DECL SpectrumPtr SpectrumListSimple::spectrum(size_t index, bool getBinaryData) const + | ~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp: In member function 'virtual pwiz::msdata::ChromatogramPtr pwiz::msdata::ChromatogramListSimple::chromatogram(size_t, bool) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:1299:87: warning: unused parameter 'getBinaryData' [-Wunused-parameter] + 1299 | PWIZ_API_DECL ChromatogramPtr ChromatogramListSimple::chromatogram(size_t index, bool getBinaryData) const + | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -4311,6 +4320,68 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.hpp:31: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] + 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +[ 53%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp +[ 54%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumListBase.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumListBase.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumListBase.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumListBase.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:32: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] + 585 | virtual Status processingInstruction(const std::string& name, + | ~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:586:61: warning: unused parameter 'data' [-Wunused-parameter] + 586 | const std::string& data, + | ~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:587:56: warning: unused parameter 'position' [-Wunused-parameter] + 587 | stream_offset position) {return Status::Ok;} + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::startElement(const std::string&, const Attributes&, stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:589:52: warning: unused parameter 'name' [-Wunused-parameter] + 589 | virtual Status startElement(const std::string& name, + | ~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:590:51: warning: unused parameter 'attributes' [-Wunused-parameter] + 590 | const Attributes& attributes, + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:591:47: warning: unused parameter 'position' [-Wunused-parameter] + 591 | stream_offset position) {return Status::Ok;} + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::endElement(const std::string&, stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:593:50: warning: unused parameter 'name' [-Wunused-parameter] + 593 | virtual Status endElement(const std::string& name, + | ~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:594:45: warning: unused parameter 'position' [-Wunused-parameter] + 594 | stream_offset position) {return Status::Ok;} + | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::characters(const pwiz::minimxml::SAXParser::saxstring&, stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:596:59: warning: unused parameter 'text' [-Wunused-parameter] + 596 | virtual Status characters(const SAXParser::saxstring& text, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] + 597 | stream_offset position) {return Status::Ok;} + | ~~~~~~~~~~~~~~^~~~~~~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, @@ -4319,15 +4390,38 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] + 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp: In function 'std::string pwiz::msdata::id::translateNativeIDToScanNumber(pwiz::cv::CVID, const std::string&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:582:13: warning: this statement may fall through [-Wimplicit-fallthrough=] + 582 | if (id.find("controllerType=0 controllerNumber=1") != 0) + | ^~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:587:9: note: here + 587 | case MS_Bruker_Agilent_YEP_nativeID_format: + | ^~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:29: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function 'bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp:26: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:30: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp: At global scope: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +In file included from /usr/include/c++/14/bits/stl_construct.h:61, + from /usr/include/c++/14/bits/stl_tempbuf.h:61, + from /usr/include/c++/14/memory:66, + from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, + from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, + from /usr/include/boost/shared_ptr.hpp:17, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:29: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ @@ -4338,14 +4432,84 @@ 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:26: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:33: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.hpp:30: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] + 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:29: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function 'bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::HandlerIndexedMZML::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:278:51: warning: unused parameter 'attributes' [-Wunused-parameter] + 278 | const Attributes& attributes, + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:279:47: warning: unused parameter 'position' [-Wunused-parameter] + 279 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp:27: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:17: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp:39: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp: In member function 'virtual std::string pwiz::msdata::Reader_MS2::identify(const std::string&, const std::string&) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp:98:53: warning: unused parameter 'filename' [-Wunused-parameter] + 98 | virtual std::string identify(const std::string& filename, const std::string& head) const { return ""; } + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp:98:82: warning: unused parameter 'head' [-Wunused-parameter] + 98 | virtual std::string identify(const std::string& filename, const std::string& head) const { return ""; } + | ~~~~~~~~~~~~~~~~~~~^~~~ +[ 56%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp:40: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:25: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.cpp:25: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -4361,28 +4525,26 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp: In member function 'virtual size_t pwiz::msdata::SpectrumList::findAbbreviated(const std::string&, char) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:1121:21: warning: comparison of unsigned expression in '>= 0' is always true [-Wtype-limits] - 1121 | if ((result >= 0 && result < size()) || s == 0) - | ~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp: In member function 'virtual pwiz::msdata::SpectrumPtr pwiz::msdata::SpectrumListSimple::spectrum(size_t, bool) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:1232:75: warning: unused parameter 'getBinaryData' [-Wunused-parameter] - 1232 | PWIZ_API_DECL SpectrumPtr SpectrumListSimple::spectrum(size_t index, bool getBinaryData) const - | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp: In member function 'virtual pwiz::msdata::ChromatogramPtr pwiz::msdata::ChromatogramListSimple::chromatogram(size_t, bool) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:1299:87: warning: unused parameter 'getBinaryData' [-Wunused-parameter] - 1299 | PWIZ_API_DECL ChromatogramPtr ChromatogramListSimple::chromatogram(size_t index, bool getBinaryData) const - | ~~~~~^~~~~~~~~~~~~ -[ 53%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumListBase.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumListBase.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumListBase.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumListBase.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.cpp -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp: In member function 'void pwiz::msdata::Serializer_MGF::Impl::write(std::ostream&, const pwiz::msdata::MSData&, const pwiz::util::IterationListenerRegistry*, bool, bool) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp:73:61: warning: 'std::string boost::filesystem::basename(const path&)' is deprecated: Use path::stem() instead [-Wdeprecated-declarations] - 73 | string thermoBasename = titleIsThermoDTA ? bfs::basename(thermoFilename) : ""; - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:37: -/usr/include/boost/filesystem/convenience.hpp:35:20: note: declared here - 35 | inline std::string basename(const path& p) - | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp: In member function 'virtual void pwiz::msdata::Reader::readIds(const std::string&, const std::string&, std::vector >&, const Config&) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp:80:119: warning: unused parameter 'config' [-Wunused-parameter] + 80 | PWIZ_API_DECL void Reader::readIds(const string& filename, const string& head, vector& results, const Config& config) const + | ~~~~~~~~~~~~~~^~~~~~ +In file included from /usr/include/c++/14/bits/stl_tempbuf.h:62: +/usr/include/c++/14/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:34:98: required from here + 34 | MzMobilityWindow(double mobility, double mobilityTolerance) : MzMobilityWindow(std::make_pair(mobility - mobilityTolerance, mobility + mobilityTolerance)) {} + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 1132 | make_pair(_T1&& __x, _T2&& __y) + | ^~~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:64: +/usr/include/c++/14/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:34:98: required from here + 34 | MzMobilityWindow(double mobility, double mobilityTolerance) : MzMobilityWindow(std::make_pair(mobility - mobilityTolerance, mobility + mobilityTolerance)) {} + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 1132 | make_pair(_T1&& __x, _T2&& __y) + | ^~~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -4391,11 +4553,52 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.hpp:31: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] - 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +[ 57%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MSn.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MSn.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MSn.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MSn.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MSn.cpp +[ 58%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MGF.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MGF.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MGF.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MGF.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:25: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.hpp:30, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -4404,28 +4607,13 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -[ 56%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o -[ 56%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Reader.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Reader.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Reader.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Reader.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.hpp:30: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.hpp:31: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:29: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function 'bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp: In function 'std::string pwiz::msdata::id::translateNativeIDToScanNumber(pwiz::cv::CVID, const std::string&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:582:13: warning: this statement may fall through [-Wimplicit-fallthrough=] - 582 | if (id.find("controllerType=0 controllerNumber=1") != 0) - | ^~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.cpp:587:9: note: here - 587 | case MS_Bruker_Agilent_YEP_nativeID_format: - | ^~~~ +[ 59%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MSn.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MSn.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MSn.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MSn.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:32: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] @@ -4475,20 +4663,33 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp:39: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp: In member function 'virtual std::string pwiz::msdata::Reader_MS2::identify(const std::string&, const std::string&) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp:98:53: warning: unused parameter 'filename' [-Wunused-parameter] - 98 | virtual std::string identify(const std::string& filename, const std::string& head) const { return ""; } - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/DefaultReaderList.hpp:98:82: warning: unused parameter 'head' [-Wunused-parameter] - 98 | virtual std::string identify(const std::string& filename, const std::string& head) const { return ""; } - | ~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSDataFile.cpp:40: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MSn.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MSn.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, @@ -4497,12 +4698,6 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.cpp:25: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp: In function 'std::string pwiz::msdata::{anonymous}::translate_SourceFileTypeToRunID(const pwiz::msdata::SourceFile&, pwiz::cv::CVID)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:149:61: warning: 'std::string boost::filesystem::extension(const path&)' is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 149 | string nameExtension = bal::to_lower_copy(bfs::extension(sf.name)); @@ -4520,18 +4715,6 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:157:37: warning: 'std::string boost::filesystem::basename(const path&)' is deprecated: Use path::stem() instead [-Wdeprecated-declarations] 157 | return bfs::basename(sf.name); | ~~~~~~~~~~~~~^~~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ /usr/include/boost/filesystem/convenience.hpp:35:20: note: declared here 35 | inline std::string basename(const path& p) | ^~~~~~~~ @@ -4660,8 +4843,12 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:1027:47: warning: unused parameter 'position' [-Wunused-parameter] 1027 | stream_offset position) | ~~~~~~~~~~~~~~^~~~~~~~ -[ 57%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MGF.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MGF.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MGF.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MGF.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.cpp:28: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp: In function 'void pwiz::msdata::{anonymous}::fillInMetadata(pwiz::msdata::MSData&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:1139:65: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 1139 | msd.id = msd.run.id = BFS_STRING(bfs::path(lcp).leaf()); @@ -4697,108 +4884,16 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:1353:47: warning: unused parameter 'position' [-Wunused-parameter] 1353 | stream_offset position) | ~~~~~~~~~~~~~~^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] - 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.hpp:30, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:29: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function 'bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.hpp:30: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp: At global scope: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_construct.h:61, - from /usr/include/c++/14/bits/stl_tempbuf.h:61, - from /usr/include/c++/14/memory:66, - from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, - from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, - from /usr/include/boost/shared_ptr.hpp:17, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:64: -/usr/include/c++/14/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:34:98: required from here - 34 | MzMobilityWindow(double mobility, double mobilityTolerance) : MzMobilityWindow(std::make_pair(mobility - mobilityTolerance, mobility + mobilityTolerance)) {} - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 1132 | make_pair(_T1&& __x, _T2&& __y) - | ^~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ +[ 60%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp:27: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:17: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, @@ -4808,27 +4903,13 @@ 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.cpp:28: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MSn.cpp:28: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -[ 58%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MSn.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MSn.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MSn.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MSn.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MSn.cpp -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp: In member function 'virtual void pwiz::msdata::Reader::readIds(const std::string&, const std::string&, std::vector >&, const Config&) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Reader.cpp:80:119: warning: unused parameter 'config' [-Wunused-parameter] - 80 | PWIZ_API_DECL void Reader::readIds(const string& filename, const string& head, vector& results, const Config& config) const - | ~~~~~~~~~~~~~~^~~~~~ -In file included from /usr/include/c++/14/bits/stl_tempbuf.h:62: -/usr/include/c++/14/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/chemistry/MzMobilityWindow.hpp:34:98: required from here - 34 | MzMobilityWindow(double mobility, double mobilityTolerance) : MzMobilityWindow(std::make_pair(mobility - mobilityTolerance, mobility + mobilityTolerance)) {} - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 1132 | make_pair(_T1&& __x, _T2&& __y) - | ^~~~~~~~~ -[ 59%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp +[ 62%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.hpp:27, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp:25: @@ -4847,39 +4928,11 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.hpp:29: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] - 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -[ 60%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp:27: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 63%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/SAXParser.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/SAXParser.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/SAXParser.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/SAXParser.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MSn.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MSn.cpp:26: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:25: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator | ^~~~~~~~ @@ -4895,10 +4948,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 62%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/SAXParser.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/SAXParser.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/SAXParser.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/SAXParser.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp -[ 63%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MSn.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MSn.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MSn.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_MSn.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -4907,10 +4956,21 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.hpp:29: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] + 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp: In constructor 'pwiz::msdata::mzmlb::Connection_mzMLb::Connection_mzMLb(const std::string&, int, int)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp:142:26: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 142 | nbytes = (nbytes > chunk_size) ? nbytes : chunk_size; // Set per dataset cache to twice the chunk size please | ~~~~~~~^~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp:27: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, @@ -4919,6 +4979,21 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +[ 64%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/XMLWriter.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/XMLWriter.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/XMLWriter.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/XMLWriter.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.hpp:28: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] + 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, @@ -4927,21 +5002,27 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MSn.cpp:28: +[ 65%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Base64.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Base64.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Base64.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Base64.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Base64.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:28: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -[ 64%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/XMLWriter.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/XMLWriter.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/XMLWriter.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/XMLWriter.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.cpp -[ 65%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Base64.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Base64.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Base64.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Base64.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Base64.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp:26: @@ -4963,6 +5044,13 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp: In member function 'void pwiz::msdata::Serializer_MSn::write(std::ostream&, const pwiz::msdata::MSData&, const pwiz::util::IterationListenerRegistry*, bool, bool) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:552:10: warning: unused parameter 'useWorkerThreads' [-Wunused-parameter] + 552 | bool useWorkerThreads, bool continueOnError) const + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:552:33: warning: unused parameter 'continueOnError' [-Wunused-parameter] + 552 | bool useWorkerThreads, bool continueOnError) const + | ~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -4971,32 +5059,6 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:25: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp: In member function 'void pwiz::msdata::Serializer_MGF::Impl::write(std::ostream&, const pwiz::msdata::MSData&, const pwiz::util::IterationListenerRegistry*, bool, bool) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp:73:61: warning: 'std::string boost::filesystem::basename(const path&)' is deprecated: Use path::stem() instead [-Wdeprecated-declarations] - 73 | string thermoBasename = titleIsThermoDTA ? bfs::basename(thermoFilename) : ""; - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:37: -/usr/include/boost/filesystem/convenience.hpp:35:20: note: declared here - 35 | inline std::string basename(const path& p) - | ^~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp:28: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] @@ -5039,20 +5101,6 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp:29: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp: In constructor 'pwiz::msdata::SpectrumWorkerThreads::Impl::Impl(const pwiz::msdata::SpectrumList&, bool, bool)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp:337:22: warning: 'pwiz::msdata::SpectrumWorkerThreads::Impl::taskMRU_' will be initialized after [-Wreorder] 337 | mru_list taskMRU_; @@ -5063,11 +5111,6 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp:60:5: warning: when initialized here [-Wreorder] 60 | Impl(const SpectrumList& sl, bool useWorkerThreads, bool continueOnError) | ^~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.hpp:28: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] - 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, @@ -5076,52 +5119,30 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp:29: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:28: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp: In member function 'void pwiz::msdata::Serializer_MGF::Impl::write(std::ostream&, const pwiz::msdata::MSData&, const pwiz::util::IterationListenerRegistry*, bool, bool) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MGF.cpp:73:61: warning: 'std::string boost::filesystem::basename(const path&)' is deprecated: Use path::stem() instead [-Wdeprecated-declarations] + 73 | string thermoBasename = titleIsThermoDTA ? bfs::basename(thermoFilename) : ""; + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:37: +/usr/include/boost/filesystem/convenience.hpp:35:20: note: declared here + 35 | inline std::string basename(const path& p) + | ^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 67%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IterationListener.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IterationListener.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IterationListener.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IterationListener.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.cpp -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp: In member function 'void pwiz::msdata::Serializer_MSn::write(std::ostream&, const pwiz::msdata::MSData&, const pwiz::util::IterationListenerRegistry*, bool, bool) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:552:10: warning: unused parameter 'useWorkerThreads' [-Wunused-parameter] - 552 | bool useWorkerThreads, bool continueOnError) const - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_MSn.cpp:552:33: warning: unused parameter 'continueOnError' [-Wunused-parameter] - 552 | bool useWorkerThreads, bool continueOnError) const - | ~~~~~^~~~~~~~~~~~~~~ -[ 68%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/SHA1.cpp -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.cpp:25: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 69%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_mzML.cpp.o +[ 67%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_mzML.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_mzML.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_mzML.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_mzML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -[ 70%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o +[ 68%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IterationListener.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IterationListener.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IterationListener.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IterationListener.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.cpp +[ 69%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.hpp:29, @@ -5149,36 +5170,13 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:25: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -[ 71%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1Calculator.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1Calculator.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1Calculator.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1Calculator.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/SHA1Calculator.cpp +[ 70%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumListBase.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumListBase.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumListBase.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumListBase.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.cpp:27: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] - 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -5187,20 +5185,12 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.hpp:31: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.cpp:27: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.hpp:31: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.hpp:31: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} @@ -5248,6 +5238,99 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 71%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.cpp +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.cpp:25: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:33: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::HandlerIndexedMZML::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:278:51: warning: unused parameter 'attributes' [-Wunused-parameter] + 278 | const Attributes& attributes, + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:279:47: warning: unused parameter 'position' [-Wunused-parameter] + 279 | stream_offset position) + | ~~~~~~~~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:25: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +[ 73%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/SHA1.cpp +[ 74%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1Calculator.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1Calculator.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1Calculator.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1Calculator.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/SHA1Calculator.cpp +[ 75%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/random_access_compressed_ifstream.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.cpp:25: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.hpp:31: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] + 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +[ 76%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/BinaryData.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/BinaryData.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/BinaryData.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/BinaryData.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.cpp +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:32: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] @@ -5283,14 +5366,6 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] 597 | stream_offset position) {return Status::Ok;} | ~~~~~~~~~~~~~~^~~~~~~~ -[ 73%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/random_access_compressed_ifstream.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:33: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:33: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: @@ -5305,19 +5380,30 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 74%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumListBase.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumListBase.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumListBase.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumListBase.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.cpp -[ 75%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/BinaryData.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/BinaryData.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/BinaryData.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/BinaryData.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.cpp -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::HandlerIndexedMZML::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:278:51: warning: unused parameter 'attributes' [-Wunused-parameter] - 278 | const Attributes& attributes, - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzML.cpp:279:47: warning: unused parameter 'position' [-Wunused-parameter] - 279 | stream_offset position) - | ~~~~~~~~~~~~~~^~~~~~~~ -[ 76%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.hpp:30, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 54 | class PWIZ_API_DECL const_iterator : public std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/algorithm:60, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 88 | class PWIZ_API_DECL iterator : public std::iterator + | ^~~~~~~~ +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp: In function 'std::string pwiz::msdata::{anonymous}::translate_SourceFileTypeToRunID(const pwiz::msdata::SourceFile&, pwiz::cv::CVID)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:149:61: warning: 'std::string boost::filesystem::extension(const path&)' is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 149 | string nameExtension = bal::to_lower_copy(bfs::extension(sf.name)); @@ -5500,6 +5586,22 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/Serializer_mzXML.cpp:1353:47: warning: unused parameter 'position' [-Wunused-parameter] 1353 | stream_offset position) | ~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] + 769 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] + 853 | virtual void warn_once(const char* msg) const {} + | ~~~~~~~~~~~~^~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, @@ -5508,14 +5610,6 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/SHA1Calculator.cpp:33: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -[ 79%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IntegerSet.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IntegerSet.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IntegerSet.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IntegerSet.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.cpp:24: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator @@ -5532,26 +5626,20 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.cpp:25: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -[ 80%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/String.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/String.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/String.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/String.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.cpp +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.cpp:28: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/SHA1Calculator.cpp:33: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +[ 79%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp: In instantiation of 'const T& pwiz::util::BinaryData::at(size_type) const [with T = double; const_reference = const double&; size_type = long unsigned int]': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.cpp:498:30: required from here 498 | PWIZ_API_DECL template class BinaryData; @@ -5720,16 +5808,12 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:79:9: note: because 'pwiz::util::BinaryData::const_iterator' has user-provided 'pwiz::util::BinaryData::const_iterator::const_iterator(const pwiz::util::BinaryData::const_iterator&) [with T = long int]' 79 | const_iterator(const const_iterator& rhs) : current_(rhs.current_) {} | ^~~~~~~~~~~~~~ -[ 81%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Filesystem.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Filesystem.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Filesystem.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Filesystem.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ +[ 80%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IntegerSet.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IntegerSet.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IntegerSet.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IntegerSet.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp +[ 81%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/String.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/String.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/String.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/String.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.cpp +[ 82%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, @@ -5738,6 +5822,12 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/random_access_compressed_ifstream.cpp:76: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MSn.hpp:29, @@ -5757,41 +5847,8 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.hpp:28, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.hpp:30, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 54 | class PWIZ_API_DECL const_iterator : public std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/algorithm:60, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:29: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:88:48: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 88 | class PWIZ_API_DECL iterator : public std::iterator - | ^~~~~~~~ -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumListBase.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -[ 82%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/random_access_compressed_ifstream.cpp:76: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:54:21: warning: WIN32 is NOT defined - 54 | #pragma GCC warning "WIN32 is NOT defined" - | ^~~~~~~~~~~~~~~~~~~~~~ +[ 84%] Building CXX object src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Filesystem.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Filesystem.cpp.o -MF CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Filesystem.cpp.o.d -o CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Filesystem.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, @@ -5800,6 +5857,19 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp: In member function 'void pwiz::util::IntegerSet::insert(Interval)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp:138:79: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 138 | if (eraseBegin != intervals_.end() && eraseBegin->begin <= interval.begin && eraseBegin->end >= interval.end || + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp: In member function 'bool pwiz::util::IntegerSet::Iterator::operator==(const pwiz::util::IntegerSet::Iterator&) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp:325:63: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 325 | return (it_!=end_ && that.it_!=that.end_ && it_==that.it_ && value_==that.value_ || + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -5808,6 +5878,10 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp: In constructor 'pwiz::msdata::mzmlb::Connection_mzMLb::Connection_mzMLb(const std::string&, int, int)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp:142:26: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 142 | nbytes = (nbytes > chunk_size) ? nbytes : chunk_size; // Set per dataset cache to twice the chunk size please + | ~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, @@ -5816,14 +5890,8 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] - 769 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::ChromatogramListSimple::warn_once(const char*) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] - 853 | virtual void warn_once(const char* msg) const {} - | ~~~~~~~~~~~~^~~ +[ 85%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/SAXParser.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/SAXParser.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/SAXParser.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/SAXParser.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MSn.cpp:28: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: @@ -5832,25 +5900,12 @@ | ~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/common/ParamTypes.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:30: -/usr/include/boost/iterator.hpp: At global scope: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp:24: /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 84%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumList_MGF.cpp:28: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/random_access_compressed_ifstream.cpp: In member function 'std::streampos pwiz::util::random_access_compressed_streambuf::my_seekg(std::streampos, std::ios_base::seekdir, std::ios_base::openmode)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/random_access_compressed_ifstream.cpp:824:138: warning: unused parameter 'Mode' [-Wunused-parameter] 824 | std::streampos random_access_compressed_streambuf::my_seekg(std::streampos offset, std::ios_base::seekdir whence,std::ios_base::openmode Mode) { @@ -5859,69 +5914,31 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/random_access_compressed_ifstream.cpp:1199:137: warning: unused parameter 'Mode' [-Wunused-parameter] 1199 | std::streampos chunky_streambuf::my_seekg(boost::iostreams::stream_offset offset, std::ios_base::seekdir whence,std::ios_base::openmode Mode) { | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp: In member function 'void pwiz::util::IntegerSet::insert(Interval)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp:138:79: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 138 | if (eraseBegin != intervals_.end() && eraseBegin->begin <= interval.begin && eraseBegin->end >= interval.end || - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp: In member function 'bool pwiz::util::IntegerSet::Iterator::operator==(const pwiz::util::IntegerSet::Iterator&) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp:325:63: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 325 | return (it_!=end_ && that.it_!=that.end_ && it_==that.it_ && value_==that.value_ || - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.cpp:21: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:54:21: warning: WIN32 is NOT defined + 54 | #pragma GCC warning "WIN32 is NOT defined" + | ^~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp: In function 'void pwiz::minimxml::SAXParser::parse(std::istream&, Handler&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp:543:61: warning: offset '1' outside bounds of constant string [-Warray-bounds=] 543 | Handler::Status status = wrangler.endElement(buffer.c_str()+1, position); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 86%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/XMLWriter.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/XMLWriter.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/XMLWriter.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/XMLWriter.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp:549:17: warning: 'inCDATA' may be used uninitialized [-Wmaybe-uninitialized] 549 | if (inCDATA) | ^~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp:501:14: note: 'inCDATA' was declared here 501 | bool inCDATA; | ^~~~~~~ -[ 85%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/SAXParser.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/SAXParser.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/SAXParser.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/SAXParser.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, - from /usr/include/boost/function/detail/prologue.hpp:12, - from /usr/include/boost/function.hpp:30, - from /usr/include/boost/algorithm/string/detail/find_iterator.hpp:18, - from /usr/include/boost/algorithm/string/find_iterator.hpp:24, - from /usr/include/boost/algorithm/string/iter_find.hpp:27, - from /usr/include/boost/algorithm/string/split.hpp:16, - from /usr/include/boost/algorithm/string.hpp:23, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:31: -/usr/include/boost/iterator.hpp: At global scope: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 86%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/XMLWriter.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/XMLWriter.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/XMLWriter.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/minimxml/XMLWriter.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.cpp -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp: In constructor 'pwiz::msdata::mzmlb::Connection_mzMLb::Connection_mzMLb(const std::string&, int, int)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp:142:26: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 142 | nbytes = (nbytes > chunk_size) ? nbytes : chunk_size; // Set per dataset cache to twice the chunk size please - | ~~~~~~~^~~~~~~~~~~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp:24: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.cpp:21: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp:26: @@ -5943,8 +5960,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 87%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/Base64.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/Base64.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/Base64.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/Base64.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Base64.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp: In member function 'virtual void pwiz::msdata::SpectrumListSimple::warn_once(const char*) const': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:769:40: warning: unused parameter 'msg' [-Wunused-parameter] 769 | virtual void warn_once(const char* msg) const {} @@ -5953,60 +5968,8 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/MSData.hpp:853:40: warning: unused parameter 'msg' [-Wunused-parameter] 853 | virtual void warn_once(const char* msg) const {} | ~~~~~~~~~~~~^~~ -[ 89%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/IterationListener.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/IterationListener.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/IterationListener.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/IterationListener.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.cpp -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp: In function 'void pwiz::util::force_close_handles_to_filepath(const std::string&, bool)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:350:52: warning: unused parameter 'filepath' [-Wunused-parameter] - 350 | force_close_handles_to_filepath(const std::string &filepath, - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:351:38: warning: unused parameter 'closeMemoryMappedSections' [-Wunused-parameter] - 351 | bool closeMemoryMappedSections) noexcept(true) - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp: In function 'void pwiz::util::{anonymous}::copy_recursive(const boost::filesystem::path&, const boost::filesystem::path&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:686:22: warning: 'void boost::filesystem::copy_directory(const path&, const path&)' is deprecated: Use create_directory() instead [-Wdeprecated-declarations] - 686 | bfs::copy_directory(from, to); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:36: -/usr/include/boost/filesystem/operations.hpp:437:13: note: declared here - 437 | inline void copy_directory(path const& from, path const& to) - | ^~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp: In function 'void pwiz::util::{anonymous}::copy_recursive(const boost::filesystem::path&, const boost::filesystem::path&, boost::system::error_code&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:710:22: warning: 'void boost::filesystem::copy_directory(const path&, const path&, boost::system::error_code&)' is deprecated: Use create_directory() instead [-Wdeprecated-declarations] - 710 | bfs::copy_directory(from, to, ec); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/usr/include/boost/filesystem/operations.hpp:443:13: note: declared here - 443 | inline void copy_directory(path const& from, path const& to, system::error_code& ec) BOOST_NOEXCEPT - | ^~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp: In function 'void pwiz::util::copy_directory(const boost::filesystem::path&, const boost::filesystem::path&, bool, boost::system::error_code*)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:764:28: warning: 'void boost::filesystem::copy_directory(const path&, const path&, boost::system::error_code&)' is deprecated: Use create_directory() instead [-Wdeprecated-declarations] - 764 | bfs::copy_directory(from, to, *ec); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/usr/include/boost/filesystem/operations.hpp:443:13: note: declared here - 443 | inline void copy_directory(path const& from, path const& to, system::error_code& ec) BOOST_NOEXCEPT - | ^~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:766:28: warning: 'void boost::filesystem::copy_directory(const path&, const path&)' is deprecated: Use create_directory() instead [-Wdeprecated-declarations] - 766 | bfs::copy_directory(from, to); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/usr/include/boost/filesystem/operations.hpp:437:13: note: declared here - 437 | inline void copy_directory(path const& from, path const& to) - | ^~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp: In function 'void pwiz::util::check_path_length(const std::string&)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:967:33: warning: unused parameter 'path' [-Wunused-parameter] - 967 | check_path_length(const string &path) - | ~~~~~~~~~~~~~~^~~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.cpp:25: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.cpp:26: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ +[ 87%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/Base64.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/Base64.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/Base64.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/Base64.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Base64.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp:28: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp: In member function 'virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::minimxml::SAXParser::Handler::processingInstruction(const std::string&, const std::string&, stream_offset)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:585:61: warning: unused parameter 'name' [-Wunused-parameter] @@ -6042,16 +6005,6 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:597:45: warning: unused parameter 'position' [-Wunused-parameter] 597 | stream_offset position) {return Status::Ok;} | ~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp: In constructor 'pwiz::msdata::SpectrumWorkerThreads::Impl::Impl(const pwiz::msdata::SpectrumList&, bool, bool)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp:337:22: warning: 'pwiz::msdata::SpectrumWorkerThreads::Impl::taskMRU_' will be initialized after [-Wreorder] - 337 | mru_list taskMRU_; - | ^~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp:334:10: warning: 'bool pwiz::msdata::SpectrumWorkerThreads::Impl::continueOnError_' [-Wreorder] - 334 | bool continueOnError_; - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp:60:5: warning: when initialized here [-Wreorder] - 60 | Impl(const SpectrumList& sl, bool useWorkerThreads, bool continueOnError) - | ^~~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.hpp:31: @@ -6059,12 +6012,24 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 89%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/IterationListener.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/IterationListener.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/IterationListener.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/IterationListener.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp:29: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp: In constructor 'pwiz::msdata::SpectrumWorkerThreads::Impl::Impl(const pwiz::msdata::SpectrumList&, bool, bool)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp:337:22: warning: 'pwiz::msdata::SpectrumWorkerThreads::Impl::taskMRU_' will be initialized after [-Wreorder] + 337 | mru_list taskMRU_; + | ^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp:334:10: warning: 'bool pwiz::msdata::SpectrumWorkerThreads::Impl::continueOnError_' [-Wreorder] + 334 | bool continueOnError_; + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/data/msdata/SpectrumWorkerThreads.cpp:60:5: warning: when initialized here [-Wreorder] + 60 | Impl(const SpectrumList& sl, bool useWorkerThreads, bool continueOnError) + | ^~~~ In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, @@ -6078,10 +6043,6 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -[ 90%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/SHA1.cpp -[ 91%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1Calculator.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1Calculator.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1Calculator.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1Calculator.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/SHA1Calculator.cpp In file included from /usr/include/boost/lexical_cast.hpp:26, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, @@ -6090,18 +6051,41 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 90%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/SHA1.cpp +[ 91%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1Calculator.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1Calculator.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1Calculator.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/SHA1Calculator.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/SHA1Calculator.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -[ 92%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/random_access_compressed_ifstream.cpp In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.cpp:27: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp: In member function 'virtual pwiz::util::IterationListener::Status pwiz::util::IterationListener::update(const UpdateMessage&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IterationListener.hpp:60:48: warning: unused parameter 'updateMessage' [-Wunused-parameter] 60 | virtual Status update(const UpdateMessage& updateMessage) {return Status_Ok;} | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:26: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, + from /usr/include/boost/function/detail/prologue.hpp:12, + from /usr/include/boost/function.hpp:30, + from /usr/include/boost/algorithm/string/detail/find_iterator.hpp:18, + from /usr/include/boost/algorithm/string/find_iterator.hpp:24, + from /usr/include/boost/algorithm/string/iter_find.hpp:27, + from /usr/include/boost/algorithm/string/split.hpp:16, + from /usr/include/boost/algorithm/string.hpp:23, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:31: +/usr/include/boost/iterator.hpp: At global scope: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 92%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/random_access_compressed_ifstream.cpp [ 93%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/BinaryData.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/BinaryData.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/BinaryData.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/BinaryData.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.cpp [ 95%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/IntegerSet.cpp.o @@ -6114,6 +6098,19 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/SHA1Calculator.cpp:33: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.cpp:25: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.cpp:24: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:54:54: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 54 | class PWIZ_API_DECL const_iterator : public std::iterator @@ -6131,11 +6128,13 @@ 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/SHA1Calculator.cpp:33: + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/XMLWriter.cpp:26: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ +[ 96%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/String.cpp.o +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/String.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/String.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/String.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.cpp /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp: In instantiation of 'const T& pwiz::util::BinaryData::at(size_type) const [with T = double; const_reference = const double&; size_type = long unsigned int]': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.cpp:498:30: required from here 498 | PWIZ_API_DECL template class BinaryData; @@ -6304,10 +6303,68 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/BinaryData.hpp:79:9: note: because 'pwiz::util::BinaryData::const_iterator' has user-provided 'pwiz::util::BinaryData::const_iterator::const_iterator(const pwiz::util::BinaryData::const_iterator&) [with T = long int]' 79 | const_iterator(const const_iterator& rhs) : current_(rhs.current_) {} | ^~~~~~~~~~~~~~ -[ 96%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/String.cpp.o -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/String.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/String.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/String.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.cpp +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp: In function 'void pwiz::util::force_close_handles_to_filepath(const std::string&, bool)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:350:52: warning: unused parameter 'filepath' [-Wunused-parameter] + 350 | force_close_handles_to_filepath(const std::string &filepath, + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:351:38: warning: unused parameter 'closeMemoryMappedSections' [-Wunused-parameter] + 351 | bool closeMemoryMappedSections) noexcept(true) + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp: In function 'void pwiz::util::{anonymous}::copy_recursive(const boost::filesystem::path&, const boost::filesystem::path&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:686:22: warning: 'void boost::filesystem::copy_directory(const path&, const path&)' is deprecated: Use create_directory() instead [-Wdeprecated-declarations] + 686 | bfs::copy_directory(from, to); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:36: +/usr/include/boost/filesystem/operations.hpp:437:13: note: declared here + 437 | inline void copy_directory(path const& from, path const& to) + | ^~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp: In function 'void pwiz::util::{anonymous}::copy_recursive(const boost::filesystem::path&, const boost::filesystem::path&, boost::system::error_code&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:710:22: warning: 'void boost::filesystem::copy_directory(const path&, const path&, boost::system::error_code&)' is deprecated: Use create_directory() instead [-Wdeprecated-declarations] + 710 | bfs::copy_directory(from, to, ec); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/usr/include/boost/filesystem/operations.hpp:443:13: note: declared here + 443 | inline void copy_directory(path const& from, path const& to, system::error_code& ec) BOOST_NOEXCEPT + | ^~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp: In function 'void pwiz::util::copy_directory(const boost::filesystem::path&, const boost::filesystem::path&, bool, boost::system::error_code*)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:764:28: warning: 'void boost::filesystem::copy_directory(const path&, const path&, boost::system::error_code&)' is deprecated: Use create_directory() instead [-Wdeprecated-declarations] + 764 | bfs::copy_directory(from, to, *ec); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/usr/include/boost/filesystem/operations.hpp:443:13: note: declared here + 443 | inline void copy_directory(path const& from, path const& to, system::error_code& ec) BOOST_NOEXCEPT + | ^~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:766:28: warning: 'void boost::filesystem::copy_directory(const path&, const path&)' is deprecated: Use create_directory() instead [-Wdeprecated-declarations] + 766 | bfs::copy_directory(from, to); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/usr/include/boost/filesystem/operations.hpp:437:13: note: declared here + 437 | inline void copy_directory(path const& from, path const& to) + | ^~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp: In function 'void pwiz::util::check_path_length(const std::string&)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:967:33: warning: unused parameter 'path' [-Wunused-parameter] + 967 | check_path_length(const string &path) + | ~~~~~~~~~~~~~~^~~~ [ 97%] Building CXX object src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/Filesystem.cpp.o cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_CHRONO_DYN_LINK -DBOOST_CHRONO_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DHDF_NO_NAMESPACE -DNO_STATIC_CAST -DOLD_HEADER_FILENAME -DWITHOUT_MZ5 -Dpwizlite_shared_EXPORTS -I/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src -I/build/reproducible-path/libpwizlite-3.0.8/src -I/build/reproducible-path/libpwizlite-3.0.8/src/boost -isystem /usr/include/hdf5/serial -g -O2 -ffile-prefix-map=/build/reproducible-path/libpwizlite-3.0.8=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -std=gnu++17 -fPIC -Wno-unknown-pragmas -Wall -Wextra -fPIC -Wall -MD -MT src/CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/Filesystem.cpp.o -MF CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/Filesystem.cpp.o.d -o CMakeFiles/pwizlite-shared.dir/pwiz/utility/misc/Filesystem.cpp.o -c /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp +In file included from /usr/include/boost/lexical_cast.hpp:26, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:29, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp:26: +/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' + 10 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); + | ~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp: In member function 'void pwiz::util::IntegerSet::insert(Interval)': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp:138:79: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 138 | if (eraseBegin != intervals_.end() && eraseBegin->begin <= interval.begin && eraseBegin->end >= interval.end || + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp: In member function 'bool pwiz::util::IntegerSet::Iterator::operator==(const pwiz::util::IntegerSet::Iterator&) const': +/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp:325:63: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 325 | return (it_!=end_ && that.it_!=that.end_ && it_==that.it_ && value_==that.value_ || + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, @@ -6316,24 +6373,11 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/random_access_compressed_ifstream.cpp:76: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); - | ~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:54:21: warning: WIN32 is NOT defined 54 | #pragma GCC warning "WIN32 is NOT defined" | ^~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/lexical_cast.hpp:26, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/optimized_lexical_cast.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Environment.hpp:24, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:29, - from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp:26: -/usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' - 10 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31: +In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Std.hpp:31, + from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/random_access_compressed_ifstream.cpp:76: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); @@ -6346,26 +6390,15 @@ /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/random_access_compressed_ifstream.cpp:1199:137: warning: unused parameter 'Mode' [-Wunused-parameter] 1199 | std::streampos chunky_streambuf::my_seekg(boost::iostreams::stream_offset offset, std::ios_base::seekdir whence,std::ios_base::openmode Mode) { | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp: In member function 'void pwiz::util::IntegerSet::insert(Interval)': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp:138:79: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 138 | if (eraseBegin != intervals_.end() && eraseBegin->begin <= interval.begin && eraseBegin->end >= interval.end || - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp: In member function 'bool pwiz::util::IntegerSet::Iterator::operator==(const pwiz::util::IntegerSet::Iterator&) const': -/build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/IntegerSet.cpp:325:63: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 325 | return (it_!=end_ && that.it_!=that.end_ && it_==that.it_ && value_==that.value_ || - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -[ 98%] Linking CXX static library libpwizlite.a -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/pwizlite-static.dir/cmake_clean_target.cmake -cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/pwizlite-static.dir/link.txt --verbose=1 -/usr/bin/ar qc libpwizlite.a "CMakeFiles/pwizlite-static.dir/pwiz/data/common/ParamTypes.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/common/CVTranslator.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/common/cv.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/common/diff_std.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/LegacyAdapter.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSNumpress.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/References.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumInfo.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_mzXML.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Version.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/DefaultReaderList.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/IO.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Index_mzML.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSData.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSDataFile.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Reader.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MGF.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MSn.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzML.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumListBase.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MSn.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/SAXParser.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/XMLWriter.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Base64.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IterationListener.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1Calculator.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/BinaryData.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IntegerSet.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/String.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Filesystem.cpp.o" -/usr/bin/ranlib libpwizlite.a In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.cpp:21: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp:87:135: warning: comparison is always false due to limited range of data type [-Wtype-limits] 87 | return std::find_if(str.begin(), str.end(), [](char ch) { return !isprint(static_cast(ch)) || static_cast(ch) < 0; }); | ~~~~~~~~~~~~~~~~~~~~~^~~ -make[3]: Leaving directory '/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu' -[ 98%] Built target pwizlite-static +[ 98%] Linking CXX static library libpwizlite.a +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/pwizlite-static.dir/cmake_clean_target.cmake +cd /build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/pwizlite-static.dir/link.txt --verbose=1 +/usr/bin/ar qc libpwizlite.a "CMakeFiles/pwizlite-static.dir/pwiz/data/common/ParamTypes.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/common/CVTranslator.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/common/cv.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/common/diff_std.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/ChromatogramList_mzML.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/LegacyAdapter.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSNumpress.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/References.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumInfo.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_BTDX.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_mzML.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_mzXML.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Version.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/BinaryDataEncoder.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/DefaultReaderList.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/IO.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Index_mzML.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSData.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/MSDataFile.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Reader.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MGF.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_MSn.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzML.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/Serializer_mzXML.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumListBase.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MGF.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumList_MSn.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/SpectrumWorkerThreads.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/data/msdata/mzmlb/Connection_mzMLb.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/SAXParser.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/minimxml/XMLWriter.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Base64.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IterationListener.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/SHA1Calculator.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/random_access_compressed_ifstream.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/BinaryData.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/IntegerSet.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/String.cpp.o" "CMakeFiles/pwizlite-static.dir/pwiz/utility/misc/Filesystem.cpp.o" In file included from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.hpp:34, from /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/Filesystem.cpp:26: /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/misc/String.hpp: In lambda function: @@ -6385,6 +6418,9 @@ /usr/include/boost/iterator.hpp:10:1: note: '#pragma message: This header is deprecated. Use instead.' 10 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +/usr/bin/ranlib libpwizlite.a +make[3]: Leaving directory '/build/reproducible-path/libpwizlite-3.0.8/obj-aarch64-linux-gnu' +[ 98%] Built target pwizlite-static /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp: In function 'void pwiz::minimxml::SAXParser::parse(std::istream&, Handler&)': /build/reproducible-path/libpwizlite-3.0.8/src/pwiz/utility/minimxml/SAXParser.cpp:543:61: warning: offset '1' outside bounds of constant string [-Warray-bounds=] 543 | Handler::Status status = wrangler.endElement(buffer.c_str()+1, position); @@ -6488,24 +6524,24 @@ diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged -dpkg-shlibdeps: warning: symbol H5T_NATIVE_LONG_g used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries -dpkg-shlibdeps: warning: symbol H5Tcreate used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries +dpkg-shlibdeps: warning: symbol H5open used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Aclose used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries -dpkg-shlibdeps: warning: symbol H5Eset_auto2 used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries -dpkg-shlibdeps: warning: symbol H5Pget_cache used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries +dpkg-shlibdeps: warning: symbol H5Dcreate2 used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries +dpkg-shlibdeps: warning: symbol H5P_CLS_DATASET_ACCESS_ID_g used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries +dpkg-shlibdeps: warning: symbol H5Fopen used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries +dpkg-shlibdeps: warning: symbol H5Fcreate used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries +dpkg-shlibdeps: warning: symbol H5Pclose used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries +dpkg-shlibdeps: warning: symbol H5P_CLS_FILE_ACCESS_ID_g used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries +dpkg-shlibdeps: warning: symbol H5Screate_simple used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Sget_simple_extent_dims used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries -dpkg-shlibdeps: warning: symbol H5Pset_chunk_cache used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries -dpkg-shlibdeps: warning: symbol H5Tset_size used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries -dpkg-shlibdeps: warning: symbol H5Tclose used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries -dpkg-shlibdeps: warning: symbol H5T_NATIVE_LLONG_g used by debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 found in none of the libraries dpkg-shlibdeps: warning: 43 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libpwizlite3t64/usr/lib/aarch64-linux-gnu/libpwizlite.so.3.0.8 was not linked against libhdf5_serial_cpp.so.103 (it uses none of the library's symbols) dh_installdeb -O--build-system=cmake dh_gencontrol -O--build-system=cmake dh_md5sums -O--build-system=cmake dh_builddeb -O--build-system=cmake -dpkg-deb: building package 'libpwizlite-dev' in '../libpwizlite-dev_3.0.8-1_arm64.deb'. dpkg-deb: building package 'libpwizlite3t64-dbgsym' in '../libpwizlite3t64-dbgsym_3.0.8-1_arm64.deb'. +dpkg-deb: building package 'libpwizlite-dev' in '../libpwizlite-dev_3.0.8-1_arm64.deb'. dpkg-deb: building package 'libpwizlite3t64' in '../libpwizlite3t64_3.0.8-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../libpwizlite_3.0.8-1_arm64.buildinfo dpkg-genchanges --build=binary -O../libpwizlite_3.0.8-1_arm64.changes @@ -6514,12 +6550,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/3177437/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3177437/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/3469922 and its subdirectories -I: Current time: Fri Nov 8 19:50:37 -12 2024 -I: pbuilder-time-stamp: 1731138637 +I: removing directory /srv/workspace/pbuilder/3177437 and its subdirectories +I: Current time: Sat Dec 13 04:15:55 +14 2025 +I: pbuilder-time-stamp: 1765548955