Diff of the two buildlogs:
--
--- b1/build.log 2024-04-05 09:18:06.061051146 +0000
+++ b2/build.log 2024-04-05 09:19:27.637557748 +0000
@@ -1,6 +1,6 @@
I: pbuilder: network access will be disabled during build
-I: Current time: Thu Apr 4 21:16:13 -12 2024
-I: pbuilder-time-stamp: 1712308573
+I: Current time: Fri May 9 05:41:09 +14 2025
+I: pbuilder-time-stamp: 1746718869
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz]
I: copying local configuration
@@ -29,54 +29,86 @@
dpkg-source: info: applying src-core-matrix
I: Not using root during the build.
I: Installing the build-deps
-I: user script /srv/workspace/pbuilder/30214/tmp/hooks/D02_print_environment starting
+I: user script /srv/workspace/pbuilder/68058/tmp/hooks/D01_modify_environment starting
+debug: Running on ionos16-i386.
+I: Changing host+domainname to test build reproducibility
+I: Adding a custom variable just for the fun of it...
+I: Changing /bin/sh to bash
+'/bin/sh' -> '/bin/bash'
+lrwxrwxrwx 1 root root 9 May 8 15:41 /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/68058/tmp/hooks/D01_modify_environment finished
+I: user script /srv/workspace/pbuilder/68058/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='i386'
- DEBIAN_FRONTEND='noninteractive'
- DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=11 '
- DISTRIBUTION='trixie'
- HOME='/root'
- HOST_ARCH='i386'
+ 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]="21" [3]="1" [4]="release" [5]="i686-pc-linux-gnu")
+ BASH_VERSION='5.2.21(1)-release'
+ BUILDDIR=/build/reproducible-path
+ BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other'
+ BUILDUSERNAME=pbuilder2
+ BUILD_ARCH=i386
+ DEBIAN_FRONTEND=noninteractive
+ DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=21 '
+ DIRSTACK=()
+ DISTRIBUTION=trixie
+ EUID=0
+ FUNCNAME=([0]="Echo" [1]="main")
+ GROUPS=()
+ HOME=/root
+ HOSTNAME=i-capture-the-hostname
+ HOSTTYPE=i686
+ HOST_ARCH=i386
IFS='
'
- INVOCATION_ID='be282cdb00754d18a13328c252dd722e'
- LANG='C'
- LANGUAGE='en_US:en'
- LC_ALL='C'
- LD_LIBRARY_PATH='/usr/lib/libeatmydata'
- LD_PRELOAD='libeatmydata.so'
- 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='30214'
- PS1='# '
- PS2='> '
+ INVOCATION_ID=33a79ae47c5944008ceb2c533a14914b
+ LANG=C
+ LANGUAGE=de_CH:de
+ LC_ALL=C
+ LD_LIBRARY_PATH=/usr/lib/libeatmydata
+ LD_PRELOAD=libeatmydata.so
+ MACHTYPE=i686-pc-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=68058
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.e7OWjUMZ/pbuilderrc_wlEg --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.e7OWjUMZ/b1 --logfile b1/build.log ctffind_4.1.14-2.dsc'
- SUDO_GID='112'
- SUDO_UID='107'
- SUDO_USER='jenkins'
- TERM='unknown'
- TZ='/usr/share/zoneinfo/Etc/GMT+12'
- USER='root'
- _='/usr/bin/systemd-run'
- http_proxy='http://78.137.99.97:3128'
+ 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.e7OWjUMZ/pbuilderrc_K0hs --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.e7OWjUMZ/b2 --logfile b2/build.log ctffind_4.1.14-2.dsc'
+ SUDO_GID=112
+ SUDO_UID=107
+ SUDO_USER=jenkins
+ TERM=unknown
+ TZ=/usr/share/zoneinfo/Etc/GMT-14
+ UID=0
+ USER=root
+ _='I: set'
+ http_proxy=http://85.184.249.68:3128
I: uname -a
- Linux ionos12-i386 6.1.0-18-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.76-1 (2024-02-01) x86_64 GNU/Linux
+ Linux i-capture-the-hostname 6.1.0-18-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.76-1 (2024-02-01) x86_64 GNU/Linux
I: ls -l /bin
- lrwxrwxrwx 1 root root 7 Apr 4 11:26 /bin -> usr/bin
-I: user script /srv/workspace/pbuilder/30214/tmp/hooks/D02_print_environment finished
+ lrwxrwxrwx 1 root root 7 May 6 17:46 /bin -> usr/bin
+I: user script /srv/workspace/pbuilder/68058/tmp/hooks/D02_print_environment finished
-> Attempting to satisfy build-dependencies
-> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
@@ -330,7 +362,7 @@
Get: 208 http://deb.debian.org/debian trixie/main i386 wx-common i386 3.2.4+dfsg-3 [118 kB]
Get: 209 http://deb.debian.org/debian trixie/main i386 wx3.2-headers all 3.2.4+dfsg-3 [1123 kB]
Get: 210 http://deb.debian.org/debian trixie/main i386 libwxgtk3.2-dev i386 3.2.4+dfsg-3 [77.4 kB]
-Fetched 120 MB in 3s (39.1 MB/s)
+Fetched 120 MB in 5s (25.2 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package libapparmor1:i386.
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(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 19876 files and directories currently installed.)
@@ -1201,7 +1233,11 @@
Building tag database...
-> Finished parsing the build-deps
I: Building the package
-I: Running cd /build/reproducible-path/ctffind-4.1.14/ && 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 > ../ctffind_4.1.14-2_source.changes
+I: user script /srv/workspace/pbuilder/68058/tmp/hooks/A99_set_merged_usr starting
+Not re-configuring usrmerge for trixie
+I: user script /srv/workspace/pbuilder/68058/tmp/hooks/A99_set_merged_usr finished
+hostname: Name or service not known
+I: Running cd /build/reproducible-path/ctffind-4.1.14/ && 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 > ../ctffind_4.1.14-2_source.changes
dpkg-buildpackage: info: source package ctffind
dpkg-buildpackage: info: source version 4.1.14-2
dpkg-buildpackage: info: source distribution unstable
@@ -1358,65 +1394,53 @@
config.status: executing depfiles commands
config.status: executing libtool commands
dh_auto_build
- make -j11
+ make -j21
make[1]: Entering directory '/build/reproducible-path/ctffind-4.1.14'
g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o ctffind-image_trim.o `test -f 'image_trim.cpp' || echo './'`image_trim.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/programs/ctffind/ctffind-ctffind.o `test -f 'src/programs/ctffind/ctffind.cpp' || echo './'`src/programs/ctffind/ctffind.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-functions.o `test -f 'src/core/functions.cpp' || echo './'`src/core/functions.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-globals.o `test -f 'src/core/globals.cpp' || echo './'`src/core/globals.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-randomnumbergenerator.o `test -f 'src/core/randomnumbergenerator.cpp' || echo './'`src/core/randomnumbergenerator.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-userinput.o `test -f 'src/core/userinput.cpp' || echo './'`src/core/userinput.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-curve.o `test -f 'src/core/curve.cpp' || echo './'`src/core/curve.cpp
g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-matrix.o `test -f 'src/core/matrix.cpp' || echo './'`src/core/matrix.cpp
g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-symmetry_matrix.o `test -f 'src/core/symmetry_matrix.cpp' || echo './'`src/core/symmetry_matrix.cpp
g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-abstract_image_file.o `test -f 'src/core/abstract_image_file.cpp' || echo './'`src/core/abstract_image_file.cpp
g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-mrc_header.o `test -f 'src/core/mrc_header.cpp' || echo './'`src/core/mrc_header.cpp
-src/core/curve.cpp:1067:1: warning: "/*" within comment [-Wcomment]
- 1067 | /****************************************************************
- |
-src/core/userinput.cpp:160:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
- 160 | wxPrintf(" Compiled : %s\n", __DATE__);
- | ^~~~~~~~
-In file included from src/core/core_headers.h:80,
- from src/core/matrix.cpp:1:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-In file included from src/core/core_headers.h:80,
- from src/core/functions.cpp:1:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-In file included from src/core/core_headers.h:80,
- from src/core/mrc_header.cpp:1:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-In file included from src/core/core_headers.h:80,
- from src/core/userinput.cpp:1:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-mrc_file.o `test -f 'src/core/mrc_file.cpp' || echo './'`src/core/mrc_file.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-tiff_file.o `test -f 'src/core/tiff_file.cpp' || echo './'`src/core/tiff_file.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-dm_file.o `test -f 'src/core/dm_file.cpp' || echo './'`src/core/dm_file.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-image_file.o `test -f 'src/core/image_file.cpp' || echo './'`src/core/image_file.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-job_packager.o `test -f 'src/core/job_packager.cpp' || echo './'`src/core/job_packager.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-job_tracker.o `test -f 'src/core/job_tracker.cpp' || echo './'`src/core/job_tracker.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-run_profiles.o `test -f 'src/core/run_profiles.cpp' || echo './'`src/core/run_profiles.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-myapp.o `test -f 'src/core/myapp.cpp' || echo './'`src/core/myapp.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-empirical_distribution.o `test -f 'src/core/empirical_distribution.cpp' || echo './'`src/core/empirical_distribution.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-ctf.o `test -f 'src/core/ctf.cpp' || echo './'`src/core/ctf.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-numeric_text_file.o `test -f 'src/core/numeric_text_file.cpp' || echo './'`src/core/numeric_text_file.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-progressbar.o `test -f 'src/core/progressbar.cpp' || echo './'`src/core/progressbar.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-downhill_simplex.o `test -f 'src/core/downhill_simplex.cpp' || echo './'`src/core/downhill_simplex.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-brute_force_search.o `test -f 'src/core/brute_force_search.cpp' || echo './'`src/core/brute_force_search.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-va04.o `test -f 'src/core/va04.cpp' || echo './'`src/core/va04.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-conjugate_gradient.o `test -f 'src/core/conjugate_gradient.cpp' || echo './'`src/core/conjugate_gradient.cpp
+src/core/brute_force_search.cpp:246: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas]
+ 246 | #pragma omp parallel for default(none) num_threads(numThreads) shared( all_values, all_local_best_values, all_scores,numThreads,num_iterations_completed,my_progress_bar) private(current_iteration, current_values, current_values_for_local_minimization, i, accuracy_for_local_minimization)
+ |
+src/core/brute_force_search.cpp:257: warning: ignoring '#pragma omp atomic' [-Wunknown-pragmas]
+ 257 | #pragma omp atomic
+ |
+src/core/va04.cpp: In function 'int va04a_(int*, float*, float*, int*, float (*)(void*, float*), void*, float*, int*, int*, int*, float*)':
+src/core/va04.cpp:74:33: warning: empty parentheses were disambiguated as a function declaration [-Wvexing-parse]
+ 74 | int s_wsfe(cilist *), e_wsfe();
+ | ^~
+src/core/va04.cpp:74:33: note: remove parentheses to default-initialize a variable
+ 74 | int s_wsfe(cilist *), e_wsfe();
+ | ^~
+ | --
+src/core/va04.cpp:74:33: note: or replace parentheses with braces to value-initialize a variable
+src/core/va04.cpp:100:19: warning: unused variable 'io___32' [-Wunused-variable]
+ 100 | static cilist io___32 = { 0, 6, 0, fmt_19, 0 };
+ | ^~~~~~~
+src/core/va04.cpp:101:19: warning: unused variable 'io___42' [-Wunused-variable]
+ 101 | static cilist io___42 = { 0, 6, 0, fmt_52, 0 };
+ | ^~~~~~~
+src/core/va04.cpp:102:19: warning: unused variable 'io___45' [-Wunused-variable]
+ 102 | static cilist io___45 = { 0, 6, 0, fmt_80, 0 };
+ | ^~~~~~~
In file included from src/core/core_headers.h:80,
from image_trim.cpp:1:
src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
@@ -1427,34 +1451,10 @@
src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/functions.cpp: In function 'bool GetMRCDetails(const char*, int&, int&, int&)':
-src/core/functions.cpp:65:13: warning: variable 'success' set but not used [-Wunused-but-set-variable]
- 65 | int success;
- | ^~~~~~~
-src/core/functions.cpp: In function 'void SplitFileIntoDirectoryAndFile(wxString&, wxString&, wxString&)':
-src/core/functions.cpp:571:59: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 571 | for (int directory_counter = 0; directory_counter < directories.GetCount(); directory_counter++)
- | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
-src/core/userinput.cpp: In member function 'void UserInput::Init(const char*, wxString)':
-src/core/userinput.cpp:157:35: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 157 | for (counter = 0; counter < strlen(program_name) / 2; counter++) wxPrintf(" ");
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/userinput.cpp:159:35: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 159 | for (counter = 0; counter < strlen(program_name) / 2; counter++) wxPrintf(" ");
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/userinput.cpp:161:35: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 161 | for (counter = 0; counter < strlen(program_name) / 2; counter++) wxPrintf(" ");
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
-In file included from src/core/core_headers.h:80,
- from src/core/curve.cpp:1:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/va04.cpp: At global scope:
+src/core/va04.cpp:21:12: warning: 'c__1' defined but not used [-Wunused-variable]
+ 21 | static int c__1 = 1;
+ | ^~~~
image_trim.cpp: In member function 'void Image::MultiplyPixelWise(Image&)':
image_trim.cpp:115:13: warning: unused variable 'i' [-Wunused-variable]
115 | int i;
@@ -1487,16 +1487,6 @@
image_trim.cpp:2793:14: warning: unused variable 'address_within_input' [-Wunused-variable]
2793 | long address_within_input;
| ^~~~~~~~~~~~~~~~~~~~
-src/core/functions.cpp: In function 'int ReturnAppropriateNumberOfThreads(int)':
-src/core/functions.cpp:961:7: warning: unused variable 'physicalProcs' [-Wunused-variable]
- 961 | int physicalProcs = 0;
- | ^~~~~~~~~~~~~
-src/core/functions.cpp:962:7: warning: unused variable 'logicalProcessorCount' [-Wunused-variable]
- 962 | int logicalProcessorCount = 0;
- | ^~~~~~~~~~~~~~~~~~~~~
-src/core/functions.cpp:963:7: warning: unused variable 'processorCoreCount' [-Wunused-variable]
- 963 | int processorCoreCount = 0;
- | ^~~~~~~~~~~~~~~~~~
image_trim.cpp: In member function 'void Image::TaperEdges()':
image_trim.cpp:3082:57: warning: variable 'second_dimension' set but not used [-Wunused-but-set-variable]
3082 | int second_dimension;
@@ -1521,45 +1511,18 @@
image_trim.cpp:3500:16: warning: unused variable 'junk' [-Wunused-variable]
3500 | double junk;
| ^~~~
-src/core/curve.cpp: In member function 'float Curve::ReturnLinearInterpolationFromI(float)':
-src/core/curve.cpp:367:15: warning: unused variable 'distance' [-Wunused-variable]
- 367 | float distance;
- | ^~~~~~~~
-src/core/curve.cpp: In function 'void LS_POLY(float*, float*, int, int, float*, float*)':
-src/core/curve.cpp:1246:16: warning: variable 'dd' set but not used [-Wunused-but-set-variable]
- 1246 | double dd;
- | ^~
-src/core/matrix.cpp: In member function 'void RotationMatrix::ConvertToValidEulerAngles(float&, float&, float&)':
-src/core/matrix.cpp:369:80: warning: 'best_phi' may be used uninitialized [-Wmaybe-uninitialized]
- 369 | for (current_phi = best_phi - 1.0f; current_phi < old_best_phi + 1.0f; current_phi += 0.1f)
- | ~~~~~~~~~~~~~^~~~~~
-src/core/matrix.cpp:327:23: note: 'best_phi' was declared here
- 327 | float best_phi;
- | ^~~~~~~~
-src/core/matrix.cpp:371:96: warning: 'best_theta' may be used uninitialized [-Wmaybe-uninitialized]
- 371 | for (current_theta = best_theta - 1.0f; current_theta < old_best_theta + 1.0f; current_theta += 0.1f)
- | ~~~~~~~~~~~~~~~^~~~~~
-src/core/matrix.cpp:328:23: note: 'best_theta' was declared here
- 328 | float best_theta;
- | ^~~~~~~~~~
-src/core/matrix.cpp:373:96: warning: 'best_psi' may be used uninitialized [-Wmaybe-uninitialized]
- 373 | for (current_psi = best_psi - 5.0f; current_psi < old_best_psi + 5.0f; current_psi += 0.1f)
- | ~~~~~~~~~~~~~^~~~~~
-src/core/matrix.cpp:329:23: note: 'best_psi' was declared here
- 329 | float best_psi;
- | ^~~~~~~~
-In file included from src/programs/ctffind/../../core/core_headers.h:80,
- from src/programs/ctffind/ctffind.cpp:1:
-src/programs/ctffind/../../core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/programs/ctffind/../../core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+In file included from src/core/core_headers.h:80,
+ from src/core/matrix.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
| ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/programs/ctffind/../../core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/programs/ctffind/../../core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from src/core/core_headers.h:80,
- from src/core/globals.cpp:1:
+ from src/core/ctf.cpp:1:
src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
@@ -1569,7 +1532,7 @@
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from src/core/core_headers.h:80,
- from src/core/symmetry_matrix.cpp:1:
+ from src/core/tiff_file.cpp:1:
src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
@@ -1578,12 +1541,8 @@
src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp: In member function 'virtual bool CtffindApp::DoCalculation()':
-src/programs/ctffind/ctffind.cpp:814:41: warning: unused variable 'boost_ring_contrast' [-Wunused-variable]
- 814 | const bool boost_ring_contrast = ! command_line_parser.FoundSwitch("fast");
- | ^~~~~~~~~~~~~~~~~~~
In file included from src/core/core_headers.h:80,
- from src/core/randomnumbergenerator.cpp:1:
+ from src/core/conjugate_gradient.cpp:1:
src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
@@ -1592,35 +1551,30 @@
src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp: In function 'void OverlayCTF(Image*, CTF*, Image*, Image*, int, double*, double*, float*, float*, Curve*, Curve*)':
-src/programs/ctffind/ctffind.cpp:2316:15: warning: unused variable 'target_sigma' [-Wunused-variable]
- 2316 | float target_sigma;
- | ^~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp:2317:13: warning: unused variable 'chosen_bin' [-Wunused-variable]
- 2317 | int chosen_bin;
- | ^~~~~~~~~~
-src/programs/ctffind/ctffind.cpp: In function 'bool RescaleSpectrumAndRotationalAverage(Image*, Image*, Image*, int, double*, double*, double*, float*, float*, int, int)':
-src/programs/ctffind/ctffind.cpp:2447:15: warning: unused variable 'scale_factor' [-Wunused-variable]
- 2447 | float scale_factor;
- | ^~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp: In function 'void ComputeEquiPhaseAverageOfPowerSpectrum(Image*, CTF*, Curve*, Curve*)':
-src/programs/ctffind/ctffind.cpp:2630:23: warning: unused variable 'lowest_sq_freq_of_ctf_aberration_max' [-Wunused-variable]
- 2630 | float lowest_sq_freq_of_ctf_aberration_max = std::min( fabs(ctf->ReturnSquaredSpatialFrequencyOfPhaseShiftExtremumGivenDefocus(ctf->GetDefocus1())),
- | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/functions.cpp: At global scope:
-src/core/functions.cpp:782:12: warning: 'int numCoresAndLogicalProcs(int*, int*)' defined but not used [-Wunused-function]
- 782 | static int numCoresAndLogicalProcs(int *physical, int *logical)
- | ^~~~~~~~~~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp: In function 'bool ComputeRotationalAverageOfPowerSpectrum(Image*, CTF*, Image*, Image*, int, double*, double*, double*, double*, float*, float*)':
-src/programs/ctffind/ctffind.cpp:2780:15: warning: variable 'ctf_diff_from_current_bin' set but not used [-Wunused-but-set-variable]
- 2780 | float ctf_diff_from_current_bin;
- | ^~~~~~~~~~~~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp:2856:1: warning: no return statement in function returning non-void [-Wreturn-type]
- 2856 | }
- | ^
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-mrc_file.o `test -f 'src/core/mrc_file.cpp' || echo './'`src/core/mrc_file.cpp
+src/core/conjugate_gradient.cpp: In member function 'float ConjugateGradient::Run()':
+src/core/conjugate_gradient.cpp:72:13: warning: variable 'va04_success' set but not used [-Wunused-but-set-variable]
+ 72 | int va04_success = 0;
+ | ^~~~~~~~~~~~
+src/core/tiff_file.cpp: In member function 'bool TiffFile::ReadLogicalDimensionsFromDisk()':
+src/core/tiff_file.cpp:108:76: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare]
+ 108 | if (current_x != original_x || logical_dimension_y != current_y)
+ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
+src/core/tiff_file.cpp: In member function 'virtual void TiffFile::ReadSlicesFromDisk(int, int, float*)':
+src/core/tiff_file.cpp:149:80: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
+ 149 | for (unsigned int directory_counter = start_slice-1; directory_counter < end_slice; directory_counter ++ )
+ | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
In file included from src/core/core_headers.h:80,
- from src/core/abstract_image_file.cpp:1:
+ from src/core/progressbar.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+In file included from src/core/core_headers.h:80,
+ from src/core/run_profiles.cpp:1:
src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
@@ -1629,45 +1583,6 @@
src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp: In function 'bool RescaleSpectrumAndRotationalAverage(Image*, Image*, Image*, int, double*, double*, double*, float*, float*, int, int)':
-src/programs/ctffind/ctffind.cpp:2599:1: warning: control reaches end of non-void function [-Wreturn-type]
- 2599 | }
- | ^
-src/programs/ctffind/ctffind.cpp: In function 'int ReturnSpectrumBinNumber(int, float*, Image*, long int, Image*, float*)':
-src/programs/ctffind/ctffind.cpp:2930:1: warning: control reaches end of non-void function [-Wreturn-type]
- 2930 | }
- | ^
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-tiff_file.o `test -f 'src/core/tiff_file.cpp' || echo './'`src/core/tiff_file.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-dm_file.o `test -f 'src/core/dm_file.cpp' || echo './'`src/core/dm_file.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-image_file.o `test -f 'src/core/image_file.cpp' || echo './'`src/core/image_file.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-job_packager.o `test -f 'src/core/job_packager.cpp' || echo './'`src/core/job_packager.cpp
-src/core/curve.cpp: In member function 'float Curve::ReturnMode()':
-src/core/curve.cpp:444:16: warning: 'mode' may be used uninitialized [-Wmaybe-uninitialized]
- 444 | return mode;
- | ^~~~
-src/core/curve.cpp:442:30: note: 'mode' was declared here
- 442 | float maximum_value, mode;
- | ^~~~
-src/core/functions.cpp: In function 'wxString ReceivewxStringFromSocket(wxSocketBase*)':
-src/core/functions.cpp:191:77: warning: 'length_of_string' may be used uninitialized [-Wmaybe-uninitialized]
- 191 | unsigned char *transfer_buffer = new unsigned char[length_of_string + 1]; // + 1 for the terminating null character;
- | ~~~~~~~~~~~~~~~~~^~~
-src/core/functions.cpp:181:13: note: 'length_of_string' declared here
- 181 | int length_of_string;
- | ^~~~~~~~~~~~~~~~
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-job_tracker.o `test -f 'src/core/job_tracker.cpp' || echo './'`src/core/job_tracker.cpp
-src/programs/ctffind/ctffind.cpp: In function 'void ComputeFRCBetween1DSpectrumAndFit(int, double*, double*, float*, double*, double*, int)':
-src/programs/ctffind/ctffind.cpp:2222:51: warning: '*half_window_width[1]' may be used uninitialized [-Wmaybe-uninitialized]
- 2222 | half_window_width[0] = half_window_width[1];
- | ~~~~~~~~~~~~~~~~~~~^
-src/programs/ctffind/ctffind.cpp: In function 'bool RescaleSpectrumAndRotationalAverage(Image*, Image*, Image*, int, double*, double*, double*, float*, float*, int, int)':
-src/programs/ctffind/ctffind.cpp:2526:110: warning: 'normalisation_bin_number' may be used uninitialized [-Wmaybe-uninitialized]
- 2526 | actually_do_rescaling = (peak[normalisation_bin_number] - background[normalisation_bin_number]) > 0.0;
- | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^
-src/programs/ctffind/ctffind.cpp:2439:13: note: 'normalisation_bin_number' was declared here
- 2439 | int normalisation_bin_number;
- | ^~~~~~~~~~~~~~~~~~~~~~~~
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-run_profiles.o `test -f 'src/core/run_profiles.cpp' || echo './'`src/core/run_profiles.cpp
In file included from src/core/core_headers.h:80,
from src/core/dm_file.cpp:6:
src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
@@ -1678,6 +1593,81 @@
src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+In file included from src/core/core_headers.h:80,
+ from src/core/downhill_simplex.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+In file included from src/core/core_headers.h:80,
+ from src/core/image_file.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/image_file.cpp: In member function 'virtual bool ImageFile::OpenFile(std::string, bool, bool)':
+src/core/image_file.cpp:58:158: warning: statement is a reference, not call, to function 'abort' [-Waddress]
+ 58 | default: MyPrintWithDetails("Unsupported file type\n"); MyDebugAssertTrue(false,"Unsupported file type: %s\n",filename.GetFullPath().ToStdString()); abort; break;
+ | ^~~~~
+src/core/image_file.cpp:58:158: warning: statement has no effect [-Wunused-value]
+src/core/image_file.cpp: In member function 'virtual void ImageFile::ReadSlicesFromDisk(int, int, float*)':
+src/core/image_file.cpp:85:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
+ 85 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
+ | ^~~~~
+src/core/image_file.cpp:85:65: warning: statement has no effect [-Wunused-value]
+src/core/image_file.cpp: In member function 'virtual void ImageFile::WriteSlicesToDisk(int, int, float*)':
+src/core/image_file.cpp:101:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
+ 101 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
+ | ^~~~~
+src/core/image_file.cpp:101:65: warning: statement has no effect [-Wunused-value]
+src/core/image_file.cpp: In member function 'virtual int ImageFile::ReturnXSize()':
+src/core/image_file.cpp:113:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
+ 113 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
+ | ^~~~~
+src/core/image_file.cpp:113:65: warning: statement has no effect [-Wunused-value]
+src/core/image_file.cpp: In member function 'virtual int ImageFile::ReturnYSize()':
+src/core/image_file.cpp:124:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
+ 124 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
+ | ^~~~~
+src/core/image_file.cpp:124:65: warning: statement has no effect [-Wunused-value]
+src/core/image_file.cpp: In member function 'virtual int ImageFile::ReturnZSize()':
+src/core/image_file.cpp:135:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
+ 135 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
+ | ^~~~~
+src/core/image_file.cpp:135:65: warning: statement has no effect [-Wunused-value]
+src/core/image_file.cpp: In member function 'virtual int ImageFile::ReturnNumberOfSlices()':
+src/core/image_file.cpp:146:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
+ 146 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
+ | ^~~~~
+src/core/image_file.cpp:146:65: warning: statement has no effect [-Wunused-value]
+src/core/image_file.cpp: In member function 'virtual float ImageFile::ReturnPixelSize()':
+src/core/image_file.cpp:157:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
+ 157 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
+ | ^~~~~
+src/core/image_file.cpp:157:65: warning: statement has no effect [-Wunused-value]
+src/core/image_file.cpp: In member function 'virtual bool ImageFile::IsOpen()':
+src/core/image_file.cpp:168:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
+ 168 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
+ | ^~~~~
+src/core/image_file.cpp:168:65: warning: statement has no effect [-Wunused-value]
+In file included from src/core/core_headers.h:80,
+ from src/core/mrc_file.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
src/core/dm_file.cpp: In destructor 'DMFile::~DMFile()':
src/core/dm_file.cpp:49:13: warning: statement has no effect [-Wunused-value]
49 | true;
@@ -1935,6 +1925,16 @@
/usr/include/wx-3.2/wx/txtstrm.h:25:38: note: 'wxTextOutputStream& endl(wxTextOutputStream&)' declared here
25 | WXDLLIMPEXP_BASE wxTextOutputStream &endl( wxTextOutputStream &stream );
| ^~~~
+In file included from src/core/core_headers.h:80,
+ from src/core/numeric_text_file.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
src/core/dm_file.cpp:662:73: warning: the address of 'wxTextOutputStream& endl(wxTextOutputStream&)' will never be NULL [-Waddress]
662 | std::cout << "" << dvalue << "" << endl;
| ^~~~
@@ -1954,8 +1954,9 @@
/usr/include/wx-3.2/wx/txtstrm.h:25:38: note: 'wxTextOutputStream& endl(wxTextOutputStream&)' declared here
25 | WXDLLIMPEXP_BASE wxTextOutputStream &endl( wxTextOutputStream &stream );
| ^~~~
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/programs/ctffind/ctffind-ctffind.o `test -f 'src/programs/ctffind/ctffind.cpp' || echo './'`src/programs/ctffind/ctffind.cpp
In file included from src/core/core_headers.h:80,
- from src/core/tiff_file.cpp:1:
+ from src/core/job_tracker.cpp:1:
src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
@@ -1964,23 +1965,8 @@
src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/tiff_file.cpp: In member function 'bool TiffFile::ReadLogicalDimensionsFromDisk()':
-src/core/tiff_file.cpp:108:76: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare]
- 108 | if (current_x != original_x || logical_dimension_y != current_y)
- | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
-src/core/tiff_file.cpp: In member function 'virtual void TiffFile::ReadSlicesFromDisk(int, int, float*)':
-src/core/tiff_file.cpp:149:80: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
- 149 | for (unsigned int directory_counter = start_slice-1; directory_counter < end_slice; directory_counter ++ )
- | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
-src/core/dm_file.cpp: In member function 'virtual bool DMFile::OpenFile(std::string, bool, bool)':
-src/core/dm_file.cpp:57:15: warning: 'fake_pointer' is used uninitialized [-Wuninitialized]
- 57 | readDM(wxString(wanted_filename), fake_pointer, false);
- | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/dm_file.cpp:56:24: note: 'fake_pointer' was declared here
- 56 | unsigned char *fake_pointer;
- | ^~~~~~~~~~~~
In file included from src/core/core_headers.h:80,
- from src/core/mrc_file.cpp:1:
+ from src/core/myapp.cpp:2:
src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
@@ -1990,7 +1976,7 @@
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from src/core/core_headers.h:80,
- from src/core/job_packager.cpp:1:
+ from src/core/mrc_header.cpp:1:
src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
@@ -1999,52 +1985,8 @@
src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/job_packager.cpp: In member function 'void JobPackage::SendJobPackage(wxSocketBase*)':
-src/core/job_packager.cpp:67:36: warning: comparison of integer expressions of different signedness: 'long int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 67 | for (counter = 0; counter < my_profile.executable_name.Length(); counter++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/job_packager.cpp:88:36: warning: comparison of integer expressions of different signedness: 'long int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 88 | for (counter = 0; counter < my_profile.gui_address.Length(); counter++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/job_packager.cpp:108:36: warning: comparison of integer expressions of different signedness: 'long int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 108 | for (counter = 0; counter < my_profile.controller_address.Length(); counter++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/job_packager.cpp:14:13: warning: unused variable 'number_of_arguments' [-Wunused-variable]
- 14 | int number_of_arguments;
- | ^~~~~~~~~~~~~~~~~~~
-src/core/job_packager.cpp:16:13: warning: unused variable 'temp_job_number' [-Wunused-variable]
- 16 | int temp_job_number;
- | ^~~~~~~~~~~~~~~
-In file included from src/core/core_headers.h:55:
-src/core/job_packager.cpp: In member function 'void JobPackage::ReceiveJobPackage(wxSocketBase*)':
-src/core/socket_codes.h:6:42: warning: unused variable 'socket_input_buffer' [-Wunused-variable]
- 6 | #define SETUP_SOCKET_CODES unsigned char socket_input_buffer[SOCKET_CODE_SIZE];
- | ^~~~~~~~~~~~~~~~~~~
-src/core/job_packager.cpp:348:9: note: in expansion of macro 'SETUP_SOCKET_CODES'
- 348 | SETUP_SOCKET_CODES
- | ^~~~~~~~~~~~~~~~~~
-src/core/job_packager.cpp:358:13: warning: unused variable 'wanted_number_of_processes' [-Wunused-variable]
- 358 | int wanted_number_of_processes;
- | ^~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/job_packager.cpp:365:13: warning: unused variable 'number_of_arguments' [-Wunused-variable]
- 365 | int number_of_arguments;
- | ^~~~~~~~~~~~~~~~~~~
-src/core/job_packager.cpp: In member function 'void RunJob::SendJob(wxSocketBase*)':
-src/core/socket_codes.h:6:42: warning: unused variable 'socket_input_buffer' [-Wunused-variable]
- 6 | #define SETUP_SOCKET_CODES unsigned char socket_input_buffer[SOCKET_CODE_SIZE];
- | ^~~~~~~~~~~~~~~~~~~
-src/core/job_packager.cpp:838:9: note: in expansion of macro 'SETUP_SOCKET_CODES'
- 838 | SETUP_SOCKET_CODES
- | ^~~~~~~~~~~~~~~~~~
-src/core/job_packager.cpp: In member function 'void RunJob::RecieveJob(wxSocketBase*)':
-src/core/socket_codes.h:6:42: warning: unused variable 'socket_input_buffer' [-Wunused-variable]
- 6 | #define SETUP_SOCKET_CODES unsigned char socket_input_buffer[SOCKET_CODE_SIZE];
- | ^~~~~~~~~~~~~~~~~~~
-src/core/job_packager.cpp:1019:9: note: in expansion of macro 'SETUP_SOCKET_CODES'
- 1019 | SETUP_SOCKET_CODES
- | ^~~~~~~~~~~~~~~~~~
In file included from src/core/core_headers.h:80,
- from src/core/image_file.cpp:1:
+ from src/core/symmetry_matrix.cpp:1:
src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
@@ -2053,59 +1995,27 @@
src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/dm_file.cpp: In member function 'int DMFile::readTag(std::ifstream*, int, unsigned char*, bool, int&)':
-src/core/dm_file.cpp:566:55: warning: 'val' may be used uninitialized [-Wmaybe-uninitialized]
- 566 | datatype_from_dm3_type((DMDataType)val);
- | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
-src/core/dm_file.cpp:415:33: note: 'val' was declared here
- 415 | double val, arr[256];
- | ^~~
-src/core/image_file.cpp: In member function 'virtual bool ImageFile::OpenFile(std::string, bool, bool)':
-src/core/image_file.cpp:58:158: warning: statement is a reference, not call, to function 'abort' [-Waddress]
- 58 | default: MyPrintWithDetails("Unsupported file type\n"); MyDebugAssertTrue(false,"Unsupported file type: %s\n",filename.GetFullPath().ToStdString()); abort; break;
- | ^~~~~
-src/core/image_file.cpp:58:158: warning: statement has no effect [-Wunused-value]
-src/core/image_file.cpp: In member function 'virtual void ImageFile::ReadSlicesFromDisk(int, int, float*)':
-src/core/image_file.cpp:85:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
- 85 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
- | ^~~~~
-src/core/image_file.cpp:85:65: warning: statement has no effect [-Wunused-value]
-src/core/image_file.cpp: In member function 'virtual void ImageFile::WriteSlicesToDisk(int, int, float*)':
-src/core/image_file.cpp:101:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
- 101 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
- | ^~~~~
-src/core/image_file.cpp:101:65: warning: statement has no effect [-Wunused-value]
-src/core/image_file.cpp: In member function 'virtual int ImageFile::ReturnXSize()':
-src/core/image_file.cpp:113:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
- 113 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
- | ^~~~~
-src/core/image_file.cpp:113:65: warning: statement has no effect [-Wunused-value]
-src/core/image_file.cpp: In member function 'virtual int ImageFile::ReturnYSize()':
-src/core/image_file.cpp:124:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
- 124 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
- | ^~~~~
-src/core/image_file.cpp:124:65: warning: statement has no effect [-Wunused-value]
-src/core/image_file.cpp: In member function 'virtual int ImageFile::ReturnZSize()':
-src/core/image_file.cpp:135:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
- 135 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
- | ^~~~~
-src/core/image_file.cpp:135:65: warning: statement has no effect [-Wunused-value]
-src/core/image_file.cpp: In member function 'virtual int ImageFile::ReturnNumberOfSlices()':
-src/core/image_file.cpp:146:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
- 146 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
- | ^~~~~
-src/core/image_file.cpp:146:65: warning: statement has no effect [-Wunused-value]
-src/core/image_file.cpp: In member function 'virtual float ImageFile::ReturnPixelSize()':
-src/core/image_file.cpp:157:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
- 157 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
- | ^~~~~
-src/core/image_file.cpp:157:65: warning: statement has no effect [-Wunused-value]
-src/core/image_file.cpp: In member function 'virtual bool ImageFile::IsOpen()':
-src/core/image_file.cpp:168:65: warning: statement is a reference, not call, to function 'abort' [-Waddress]
- 168 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
- | ^~~~~
-src/core/image_file.cpp:168:65: warning: statement has no effect [-Wunused-value]
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-myapp.o `test -f 'src/core/myapp.cpp' || echo './'`src/core/myapp.cpp
+In file included from src/core/core_headers.h:80,
+ from src/core/empirical_distribution.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/job_tracker.cpp: In member function 'void JobTracker::MarkJobFinished()':
+src/core/job_tracker.cpp:62:14: warning: unused variable 'seconds_per_job_per_process_since_last_update' [-Wunused-variable]
+ 62 | long seconds_per_job_per_process_since_last_update;
+ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/job_tracker.cpp:63:14: warning: unused variable 'time_since_last_update' [-Wunused-variable]
+ 63 | long time_since_last_update = current_time - last_update_time;
+ | ^~~~~~~~~~~~~~~~~~~~~~
+src/core/myapp.cpp: In member function 'virtual bool MyApp::OnInit()':
+src/core/myapp.cpp:170:35: warning: comparison of integer expressions of different signedness: 'long int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 170 | for (counter = 0; counter < possible_controller_addresses.GetCount(); counter++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from src/core/core_headers.h:52:
src/core/image_file.cpp: In member function 'virtual int ImageFile::ReturnXSize()':
src/core/defines.h:25:65: warning: control reaches end of non-void function [-Wreturn-type]
@@ -2121,6 +2031,12 @@
src/core/image_file.cpp:124:18: note: in expansion of macro 'MyPrintWithDetails'
124 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
| ^~~~~~~~~~~~~~~~~~
+In file included from src/core/core_headers.h:80,
+ from src/core/abstract_image_file.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
src/core/image_file.cpp: In member function 'virtual int ImageFile::ReturnZSize()':
src/core/defines.h:25:65: warning: control reaches end of non-void function [-Wreturn-type]
25 | #define MyPrintWithDetails(...) {wxPrintf(__VA_ARGS__); wxPrintf("From %s:%i\n%s\n", __FILE__,__LINE__,__PRETTY_FUNCTION__);}
@@ -2128,6 +2044,10 @@
src/core/image_file.cpp:135:18: note: in expansion of macro 'MyPrintWithDetails'
135 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
| ^~~~~~~~~~~~~~~~~~
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
src/core/image_file.cpp: In member function 'virtual int ImageFile::ReturnNumberOfSlices()':
src/core/defines.h:25:65: warning: control reaches end of non-void function [-Wreturn-type]
25 | #define MyPrintWithDetails(...) {wxPrintf(__VA_ARGS__); wxPrintf("From %s:%i\n%s\n", __FILE__,__LINE__,__PRETTY_FUNCTION__);}
@@ -2149,122 +2069,6 @@
src/core/image_file.cpp:168:18: note: in expansion of macro 'MyPrintWithDetails'
168 | default: MyPrintWithDetails("Unsupported file type\n"); abort; break;
| ^~~~~~~~~~~~~~~~~~
-In file included from src/core/core_headers.h:80,
- from src/core/job_tracker.cpp:1:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/job_tracker.cpp: In member function 'void JobTracker::MarkJobFinished()':
-src/core/job_tracker.cpp:62:14: warning: unused variable 'seconds_per_job_per_process_since_last_update' [-Wunused-variable]
- 62 | long seconds_per_job_per_process_since_last_update;
- | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/job_tracker.cpp:63:14: warning: unused variable 'time_since_last_update' [-Wunused-variable]
- 63 | long time_since_last_update = current_time - last_update_time;
- | ^~~~~~~~~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp: In member function 'virtual bool CtffindApp::DoCalculation()':
-src/programs/ctffind/ctffind.cpp:2029:101: warning: array subscript 0 is outside array bounds of 'double [0]' [-Warray-bounds=]
- 2029 | results_array[5] = pixel_size_for_fitting / spatial_frequency[last_bin_with_good_fit]; // The resolution (Angstroms) up to which Thon rings are well fit by the CTF
- | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^
-cc1plus: note: source object is likely at address zero
-src/programs/ctffind/ctffind.cpp:1875:164: warning: array subscript 0 is outside array bounds of 'double [0]' [-Warray-bounds=]
- 1875 | normalization_radius_max = std::max(normalization_radius_max,float(average_spectrum->logical_x_dimension * spatial_frequency[last_bin_with_good_fit]));
- | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^
-cc1plus: note: source object is likely at address zero
-src/core/job_packager.cpp:1051:60: warning: 'transfer_size' may be used uninitialized [-Wmaybe-uninitialized]
- 1051 | unsigned char *transfer_buffer = new unsigned char[transfer_size];
- | ^~~~~~~~~~~~~
-src/core/job_packager.cpp:1024:14: note: 'transfer_size' declared here
- 1024 | long transfer_size;
- | ^~~~~~~~~~~~~
-src/core/tiff_file.cpp:186:96: warning: 'strip_counter' may be used uninitialized [-Wmaybe-uninitialized]
- 186 | number_of_bytes_placed_in_buffer = TIFFReadEncodedStrip(tif, strip_counter, (char *) buf, (tsize_t) -1);
- | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/tiff_file.cpp:146:18: note: 'strip_counter' was declared here
- 146 | tstrip_t strip_counter;
- | ^~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp:2008:120: warning: 'output_text_avrot' may be used uninitialized [-Wmaybe-uninitialized]
- 2008 | wxPrintf("Detailed results, including 1D fit profiles : %s\n",output_text_avrot->ReturnFilename());
- | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~
-src/programs/ctffind/ctffind.cpp:856:34: note: 'output_text_avrot' was declared here
- 856 | NumericTextFile *output_text_avrot;
- | ^~~~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp:2031:9: warning: 'last_bin_without_aliasing' may be used uninitialized [-Wmaybe-uninitialized]
- 2031 | if (last_bin_without_aliasing == 0)
- | ^~
-src/programs/ctffind/ctffind.cpp:904:49: note: 'last_bin_without_aliasing' was declared here
- 904 | int last_bin_without_aliasing;
- | ^~~~~~~~~~~~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp:969:98: warning: 'output_text' may be used uninitialized [-Wmaybe-uninitialized]
- 969 | wxPrintf("Results will be written to this file: %s\n",output_text->ReturnFilename());
- | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~
-src/programs/ctffind/ctffind.cpp:855:34: note: 'output_text' was declared here
- 855 | NumericTextFile *output_text;
- | ^~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp:1961:125: warning: 'my_progress_bar' may be used uninitialized [-Wmaybe-uninitialized]
- 1961 | if ( (!old_school_input) && number_of_micrographs > 1 && is_running_locally) my_progress_bar->Update(current_micrograph_number);
- | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp:854:42: note: 'my_progress_bar' was declared here
- 854 | ProgressBar *my_progress_bar;
- | ^~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp:1157:25: warning: 'resampling_is_necessary' may be used uninitialized [-Wmaybe-uninitialized]
- 1157 | if (resampling_is_necessary)
- | ^~
-src/programs/ctffind/ctffind.cpp:869:41: note: 'resampling_is_necessary' was declared here
- 869 | bool resampling_is_necessary;
- | ^~~~~~~~~~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp:2072:33: warning: 'conjugate_gradient_minimizer' may be used uninitialized [-Wmaybe-uninitialized]
- 2072 | if (! defocus_is_known) delete conjugate_gradient_minimizer;
- | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp:884:30: note: 'conjugate_gradient_minimizer' was declared here
- 884 | ConjugateGradient *conjugate_gradient_minimizer;
- | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp:2022:26: warning: 'final_score' may be used uninitialized [-Wmaybe-uninitialized]
- 2022 | results_array[4] = final_score; // CTFFIND score
- | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~
-src/programs/ctffind/ctffind.cpp:907:41: note: 'final_score' was declared here
- 907 | float final_score;
- | ^~~~~~~~~~~
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-empirical_distribution.o `test -f 'src/core/empirical_distribution.cpp' || echo './'`src/core/empirical_distribution.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-ctf.o `test -f 'src/core/ctf.cpp' || echo './'`src/core/ctf.cpp
-In file included from src/core/core_headers.h:80,
- from src/core/run_profiles.cpp:1:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-numeric_text_file.o `test -f 'src/core/numeric_text_file.cpp' || echo './'`src/core/numeric_text_file.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-progressbar.o `test -f 'src/core/progressbar.cpp' || echo './'`src/core/progressbar.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-downhill_simplex.o `test -f 'src/core/downhill_simplex.cpp' || echo './'`src/core/downhill_simplex.cpp
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-brute_force_search.o `test -f 'src/core/brute_force_search.cpp' || echo './'`src/core/brute_force_search.cpp
-src/core/brute_force_search.cpp:246: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas]
- 246 | #pragma omp parallel for default(none) num_threads(numThreads) shared( all_values, all_local_best_values, all_scores,numThreads,num_iterations_completed,my_progress_bar) private(current_iteration, current_values, current_values_for_local_minimization, i, accuracy_for_local_minimization)
- |
-src/core/brute_force_search.cpp:257: warning: ignoring '#pragma omp atomic' [-Wunknown-pragmas]
- 257 | #pragma omp atomic
- |
-In file included from src/core/core_headers.h:80,
- from src/core/myapp.cpp:2:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/myapp.cpp: In member function 'virtual bool MyApp::OnInit()':
-src/core/myapp.cpp:170:35: warning: comparison of integer expressions of different signedness: 'long int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 170 | for (counter = 0; counter < possible_controller_addresses.GetCount(); counter++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
src/core/myapp.cpp: In member function 'void MyApp::OnSlaveSocketEvent(wxSocketEvent&)':
src/core/myapp.cpp:779:55: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
779 | for (int counter = 0; counter < temp_array.GetCount(); counter++)
@@ -2272,48 +2076,6 @@
src/core/myapp.cpp:664:16: warning: unused variable 'result' [-Wunused-variable]
664 | float *result;
| ^~~~~~
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-va04.o `test -f 'src/core/va04.cpp' || echo './'`src/core/va04.cpp
-In file included from src/core/core_headers.h:80,
- from src/core/numeric_text_file.cpp:1:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-In file included from src/core/core_headers.h:80,
- from src/core/empirical_distribution.cpp:1:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-conjugate_gradient.o `test -f 'src/core/conjugate_gradient.cpp' || echo './'`src/core/conjugate_gradient.cpp
-In file included from src/core/core_headers.h:80,
- from src/core/ctf.cpp:1:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-In file included from src/core/core_headers.h:80,
- from src/core/progressbar.cpp:1:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from src/core/core_headers.h:80,
from src/core/brute_force_search.cpp:1:
src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
@@ -2324,45 +2086,37 @@
src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-In file included from src/core/core_headers.h:80,
- from src/core/downhill_simplex.cpp:1:
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
-src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
- | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
-src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
- 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
- | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-functions.o `test -f 'src/core/functions.cpp' || echo './'`src/core/functions.cpp
src/core/brute_force_search.cpp: In member function 'void BruteForceSearch::Run()':
src/core/brute_force_search.cpp:180:25: warning: unused variable 'maxThreads' [-Wunused-variable]
180 | int numThreads, maxThreads = 12;
| ^~~~~~~~~~
-src/core/va04.cpp: In function 'int va04a_(int*, float*, float*, int*, float (*)(void*, float*), void*, float*, int*, int*, int*, float*)':
-src/core/va04.cpp:74:33: warning: empty parentheses were disambiguated as a function declaration [-Wvexing-parse]
- 74 | int s_wsfe(cilist *), e_wsfe();
- | ^~
-src/core/va04.cpp:74:33: note: remove parentheses to default-initialize a variable
- 74 | int s_wsfe(cilist *), e_wsfe();
- | ^~
- | --
-src/core/va04.cpp:74:33: note: or replace parentheses with braces to value-initialize a variable
-src/core/va04.cpp:100:19: warning: unused variable 'io___32' [-Wunused-variable]
- 100 | static cilist io___32 = { 0, 6, 0, fmt_19, 0 };
- | ^~~~~~~
-src/core/va04.cpp:101:19: warning: unused variable 'io___42' [-Wunused-variable]
- 101 | static cilist io___42 = { 0, 6, 0, fmt_52, 0 };
- | ^~~~~~~
-src/core/va04.cpp:102:19: warning: unused variable 'io___45' [-Wunused-variable]
- 102 | static cilist io___45 = { 0, 6, 0, fmt_80, 0 };
- | ^~~~~~~
-src/core/numeric_text_file.cpp: In member function 'void NumericTextFile::Init()':
-src/core/numeric_text_file.cpp:167:34: warning: 'current_records_per_line' may be used uninitialized [-Wmaybe-uninitialized]
- 167 | records_per_line = current_records_per_line;
- | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/numeric_text_file.cpp:106:21: note: 'current_records_per_line' was declared here
- 106 | int current_records_per_line;
- | ^~~~~~~~~~~~~~~~~~~~~~~~
+src/core/dm_file.cpp: In member function 'virtual bool DMFile::OpenFile(std::string, bool, bool)':
+src/core/dm_file.cpp:57:15: warning: 'fake_pointer' is used uninitialized [-Wuninitialized]
+ 57 | readDM(wxString(wanted_filename), fake_pointer, false);
+ | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/dm_file.cpp:56:24: note: 'fake_pointer' was declared here
+ 56 | unsigned char *fake_pointer;
+ | ^~~~~~~~~~~~
+src/core/matrix.cpp: In member function 'void RotationMatrix::ConvertToValidEulerAngles(float&, float&, float&)':
+src/core/matrix.cpp:369:80: warning: 'best_phi' may be used uninitialized [-Wmaybe-uninitialized]
+ 369 | for (current_phi = best_phi - 1.0f; current_phi < old_best_phi + 1.0f; current_phi += 0.1f)
+ | ~~~~~~~~~~~~~^~~~~~
+src/core/matrix.cpp:327:23: note: 'best_phi' was declared here
+ 327 | float best_phi;
+ | ^~~~~~~~
+src/core/matrix.cpp:371:96: warning: 'best_theta' may be used uninitialized [-Wmaybe-uninitialized]
+ 371 | for (current_theta = best_theta - 1.0f; current_theta < old_best_theta + 1.0f; current_theta += 0.1f)
+ | ~~~~~~~~~~~~~~~^~~~~~
+src/core/matrix.cpp:328:23: note: 'best_theta' was declared here
+ 328 | float best_theta;
+ | ^~~~~~~~~~
+src/core/matrix.cpp:373:96: warning: 'best_psi' may be used uninitialized [-Wmaybe-uninitialized]
+ 373 | for (current_psi = best_psi - 5.0f; current_psi < old_best_psi + 5.0f; current_psi += 0.1f)
+ | ~~~~~~~~~~~~~^~~~~~
+src/core/matrix.cpp:329:23: note: 'best_psi' was declared here
+ 329 | float best_psi;
+ | ^~~~~~~~
In member function 'void DownhillSimplex::free_dmatrix(double**, long int, long int, long int, long int)',
inlined from 'DownhillSimplex::~DownhillSimplex()' at src/core/downhill_simplex.cpp:25:15:
src/core/downhill_simplex.cpp:327:35: warning: 'void free(void*)' called on pointer '*(double**)((char*) + *4)' with nonzero offset 8 [-Wfree-nonheap-object]
@@ -2371,10 +2125,62 @@
src/core/downhill_simplex.cpp:328:13: warning: 'void free(void*)' called on pointer '*this.DownhillSimplex::initial_values' with nonzero offset 4 [-Wfree-nonheap-object]
328 | free((char*) (m+nrl));
| ~~~~^~~~~~~~~~~~~~~~~
-src/core/va04.cpp: At global scope:
-src/core/va04.cpp:21:12: warning: 'c__1' defined but not used [-Wunused-variable]
- 21 | static int c__1 = 1;
- | ^~~~
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-globals.o `test -f 'src/core/globals.cpp' || echo './'`src/core/globals.cpp
+In file included from src/core/core_headers.h:80,
+ from src/core/job_packager.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/job_packager.cpp: In member function 'void JobPackage::SendJobPackage(wxSocketBase*)':
+src/core/job_packager.cpp:67:36: warning: comparison of integer expressions of different signedness: 'long int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 67 | for (counter = 0; counter < my_profile.executable_name.Length(); counter++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/job_packager.cpp:88:36: warning: comparison of integer expressions of different signedness: 'long int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 88 | for (counter = 0; counter < my_profile.gui_address.Length(); counter++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/job_packager.cpp:108:36: warning: comparison of integer expressions of different signedness: 'long int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 108 | for (counter = 0; counter < my_profile.controller_address.Length(); counter++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/job_packager.cpp:14:13: warning: unused variable 'number_of_arguments' [-Wunused-variable]
+ 14 | int number_of_arguments;
+ | ^~~~~~~~~~~~~~~~~~~
+src/core/job_packager.cpp:16:13: warning: unused variable 'temp_job_number' [-Wunused-variable]
+ 16 | int temp_job_number;
+ | ^~~~~~~~~~~~~~~
+In file included from src/core/core_headers.h:55:
+src/core/job_packager.cpp: In member function 'void JobPackage::ReceiveJobPackage(wxSocketBase*)':
+src/core/socket_codes.h:6:42: warning: unused variable 'socket_input_buffer' [-Wunused-variable]
+ 6 | #define SETUP_SOCKET_CODES unsigned char socket_input_buffer[SOCKET_CODE_SIZE];
+ | ^~~~~~~~~~~~~~~~~~~
+src/core/job_packager.cpp:348:9: note: in expansion of macro 'SETUP_SOCKET_CODES'
+ 348 | SETUP_SOCKET_CODES
+ | ^~~~~~~~~~~~~~~~~~
+src/core/job_packager.cpp:358:13: warning: unused variable 'wanted_number_of_processes' [-Wunused-variable]
+ 358 | int wanted_number_of_processes;
+ | ^~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/job_packager.cpp:365:13: warning: unused variable 'number_of_arguments' [-Wunused-variable]
+ 365 | int number_of_arguments;
+ | ^~~~~~~~~~~~~~~~~~~
+src/core/job_packager.cpp: In member function 'void RunJob::SendJob(wxSocketBase*)':
+src/core/socket_codes.h:6:42: warning: unused variable 'socket_input_buffer' [-Wunused-variable]
+ 6 | #define SETUP_SOCKET_CODES unsigned char socket_input_buffer[SOCKET_CODE_SIZE];
+ | ^~~~~~~~~~~~~~~~~~~
+src/core/job_packager.cpp:838:9: note: in expansion of macro 'SETUP_SOCKET_CODES'
+ 838 | SETUP_SOCKET_CODES
+ | ^~~~~~~~~~~~~~~~~~
+src/core/job_packager.cpp: In member function 'void RunJob::RecieveJob(wxSocketBase*)':
+src/core/socket_codes.h:6:42: warning: unused variable 'socket_input_buffer' [-Wunused-variable]
+ 6 | #define SETUP_SOCKET_CODES unsigned char socket_input_buffer[SOCKET_CODE_SIZE];
+ | ^~~~~~~~~~~~~~~~~~~
+src/core/job_packager.cpp:1019:9: note: in expansion of macro 'SETUP_SOCKET_CODES'
+ 1019 | SETUP_SOCKET_CODES
+ | ^~~~~~~~~~~~~~~~~~
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-randomnumbergenerator.o `test -f 'src/core/randomnumbergenerator.cpp' || echo './'`src/core/randomnumbergenerator.cpp
In member function 'void DownhillSimplex::free_dvector(double*, long int, long int)',
inlined from 'double DownhillSimplex::amotry(double**, double*, double*, long int, double (*)(double*), long int, double)' at src/core/downhill_simplex.cpp:168:14:
src/core/downhill_simplex.cpp:320:13: warning: 'void free(void*)' called on pointer '' with nonzero offset 8 [-Wfree-nonheap-object]
@@ -2384,6 +2190,8 @@
src/core/downhill_simplex.cpp:156:17: note: returned from 'double* DownhillSimplex::dvector(long int, long int)'
156 | ptry=dvector(1,ndim);
| ~~~~~~~^~~~~~~~
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-userinput.o `test -f 'src/core/userinput.cpp' || echo './'`src/core/userinput.cpp
+g++ -DPACKAGE_NAME=\"ctffind\" -DPACKAGE_TARNAME=\"ctffind\" -DPACKAGE_VERSION=\"4.1.14\" -DPACKAGE_STRING=\"ctffind\ 4.1.14\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ctffind\" -DVERSION=\"4.1.14\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -Dwx_is_available=1 -I. -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o src/core/ctffind-curve.o `test -f 'src/core/curve.cpp' || echo './'`src/core/curve.cpp
In member function 'void DownhillSimplex::free_dvector(double*, long int, long int)',
inlined from 'void DownhillSimplex::amoeba(double**, double*, long int, double, double (*)(double*), long int*)' at src/core/downhill_simplex.cpp:91:14:
src/core/downhill_simplex.cpp:320:13: warning: 'void free(void*)' called on pointer '' with nonzero offset 8 [-Wfree-nonheap-object]
@@ -2393,19 +2201,6 @@
src/core/downhill_simplex.cpp:42:17: note: returned from 'double* DownhillSimplex::dvector(long int, long int)'
42 | psum=dvector(1,ndim);
| ~~~~~~~^~~~~~~~
-src/core/myapp.cpp: In member function 'virtual void* CalculateThread::Entry()':
-src/core/myapp.cpp:1612:17: warning: 'thread_action_copy' may be used uninitialized [-Wmaybe-uninitialized]
- 1612 | if (thread_action_copy == THREAD_START_NEXT_JOB)
- | ^~
-src/core/myapp.cpp:1588:13: note: 'thread_action_copy' was declared here
- 1588 | int thread_action_copy;
- | ^~~~~~~~~~~~~~~~~~
-src/core/brute_force_search.cpp:259:56: warning: 'my_progress_bar' may be used uninitialized [-Wmaybe-uninitialized]
- 259 | my_progress_bar->Update(num_iterations_completed);
- | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/brute_force_search.cpp:181:22: note: 'my_progress_bar' was declared here
- 181 | ProgressBar *my_progress_bar;
- | ^~~~~~~~~~~~~~~
In member function 'void DownhillSimplex::free_dvector(double*, long int, long int)',
inlined from 'double DownhillSimplex::amotry(double**, double*, double*, long int, void*, double (*)(void*, double*), long int, double)' at src/core/downhill_simplex.cpp:190:14:
src/core/downhill_simplex.cpp:320:13: warning: 'void free(void*)' called on pointer '' with nonzero offset 8 [-Wfree-nonheap-object]
@@ -2415,6 +2210,13 @@
src/core/downhill_simplex.cpp:178:17: note: returned from 'double* DownhillSimplex::dvector(long int, long int)'
178 | ptry=dvector(1,ndim);
| ~~~~~~~^~~~~~~~
+src/core/dm_file.cpp: In member function 'int DMFile::readTag(std::ifstream*, int, unsigned char*, bool, int&)':
+src/core/dm_file.cpp:566:55: warning: 'val' may be used uninitialized [-Wmaybe-uninitialized]
+ 566 | datatype_from_dm3_type((DMDataType)val);
+ | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
+src/core/dm_file.cpp:415:33: note: 'val' was declared here
+ 415 | double val, arr[256];
+ | ^~~
In member function 'void DownhillSimplex::free_dvector(double*, long int, long int)',
inlined from 'void DownhillSimplex::amoeba(double**, double*, long int, double, void*, double (*)(void*, double*), long int*)' at src/core/downhill_simplex.cpp:148:14:
src/core/downhill_simplex.cpp:320:13: warning: 'void free(void*)' called on pointer '' with nonzero offset 8 [-Wfree-nonheap-object]
@@ -2424,8 +2226,46 @@
src/core/downhill_simplex.cpp:99:17: note: returned from 'double* DownhillSimplex::dvector(long int, long int)'
99 | psum=dvector(1,ndim);
| ~~~~~~~^~~~~~~~
+src/core/tiff_file.cpp:186:96: warning: 'strip_counter' may be used uninitialized [-Wmaybe-uninitialized]
+ 186 | number_of_bytes_placed_in_buffer = TIFFReadEncodedStrip(tif, strip_counter, (char *) buf, (tsize_t) -1);
+ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/tiff_file.cpp:146:18: note: 'strip_counter' was declared here
+ 146 | tstrip_t strip_counter;
+ | ^~~~~~~~~~~~~
+src/core/brute_force_search.cpp:259:56: warning: 'my_progress_bar' may be used uninitialized [-Wmaybe-uninitialized]
+ 259 | my_progress_bar->Update(num_iterations_completed);
+ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/brute_force_search.cpp:181:22: note: 'my_progress_bar' was declared here
+ 181 | ProgressBar *my_progress_bar;
+ | ^~~~~~~~~~~~~~~
+src/core/userinput.cpp:160:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
+ 160 | wxPrintf(" Compiled : %s\n", __DATE__);
+ | ^~~~~~~~
+src/core/curve.cpp:1067:1: warning: "/*" within comment [-Wcomment]
+ 1067 | /****************************************************************
+ |
+src/core/job_packager.cpp:1051:60: warning: 'transfer_size' may be used uninitialized [-Wmaybe-uninitialized]
+ 1051 | unsigned char *transfer_buffer = new unsigned char[transfer_size];
+ | ^~~~~~~~~~~~~
+src/core/job_packager.cpp:1024:14: note: 'transfer_size' declared here
+ 1024 | long transfer_size;
+ | ^~~~~~~~~~~~~
+src/core/numeric_text_file.cpp: In member function 'void NumericTextFile::Init()':
+src/core/numeric_text_file.cpp:167:34: warning: 'current_records_per_line' may be used uninitialized [-Wmaybe-uninitialized]
+ 167 | records_per_line = current_records_per_line;
+ | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/numeric_text_file.cpp:106:21: note: 'current_records_per_line' was declared here
+ 106 | int current_records_per_line;
+ | ^~~~~~~~~~~~~~~~~~~~~~~~
+src/core/myapp.cpp: In member function 'virtual void* CalculateThread::Entry()':
+src/core/myapp.cpp:1612:17: warning: 'thread_action_copy' may be used uninitialized [-Wmaybe-uninitialized]
+ 1612 | if (thread_action_copy == THREAD_START_NEXT_JOB)
+ | ^~
+src/core/myapp.cpp:1588:13: note: 'thread_action_copy' was declared here
+ 1588 | int thread_action_copy;
+ | ^~~~~~~~~~~~~~~~~~
In file included from src/core/core_headers.h:80,
- from src/core/conjugate_gradient.cpp:1:
+ from src/core/functions.cpp:1:
src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
@@ -2434,11 +2274,207 @@
src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
-src/core/conjugate_gradient.cpp: In member function 'float ConjugateGradient::Run()':
-src/core/conjugate_gradient.cpp:72:13: warning: variable 'va04_success' set but not used [-Wunused-but-set-variable]
- 72 | int va04_success = 0;
- | ^~~~~~~~~~~~
-/bin/bash ./libtool --tag=CXX --mode=link g++ -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -L/usr/lib/i386-linux-gnu -pthread -lwx_baseu-3.2 -lwx_baseu_net-3.2 -Wl,-z,relro -Wl,-z,now -o ctffind src/programs/ctffind/ctffind-ctffind.o src/core/ctffind-functions.o src/core/ctffind-globals.o src/core/ctffind-randomnumbergenerator.o src/core/ctffind-userinput.o src/core/ctffind-curve.o ctffind-image_trim.o src/core/ctffind-matrix.o src/core/ctffind-symmetry_matrix.o src/core/ctffind-abstract_image_file.o src/core/ctffind-mrc_header.o src/core/ctffind-mrc_file.o src/core/ctffind-tiff_file.o src/core/ctffind-dm_file.o src/core/ctffind-image_file.o src/core/ctffind-job_packager.o src/core/ctffind-job_tracker.o src/core/ctffind-run_profiles.o src/core/ctffind-myapp.o src/core/ctffind-empirical_distribution.o src/core/ctffind-ctf.o src/core/ctffind-numeric_text_file.o src/core/ctffind-progressbar.o src/core/ctffind-downhill_simplex.o src/core/ctffind-brute_force_search.o src/core/ctffind-va04.o src/core/ctffind-conjugate_gradient.o -ltiff -ljpeg -lz -ldl -lfftw3f
+In file included from src/programs/ctffind/../../core/core_headers.h:80,
+ from src/programs/ctffind/ctffind.cpp:1:
+src/programs/ctffind/../../core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/programs/ctffind/../../core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/programs/ctffind/../../core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/programs/ctffind/../../core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/functions.cpp: In function 'bool GetMRCDetails(const char*, int&, int&, int&)':
+src/core/functions.cpp:65:13: warning: variable 'success' set but not used [-Wunused-but-set-variable]
+ 65 | int success;
+ | ^~~~~~~
+src/core/functions.cpp: In function 'void SplitFileIntoDirectoryAndFile(wxString&, wxString&, wxString&)':
+src/core/functions.cpp:571:59: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 571 | for (int directory_counter = 0; directory_counter < directories.GetCount(); directory_counter++)
+ | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
+src/core/functions.cpp: In function 'int ReturnAppropriateNumberOfThreads(int)':
+src/core/functions.cpp:961:7: warning: unused variable 'physicalProcs' [-Wunused-variable]
+ 961 | int physicalProcs = 0;
+ | ^~~~~~~~~~~~~
+src/core/functions.cpp:962:7: warning: unused variable 'logicalProcessorCount' [-Wunused-variable]
+ 962 | int logicalProcessorCount = 0;
+ | ^~~~~~~~~~~~~~~~~~~~~
+src/core/functions.cpp:963:7: warning: unused variable 'processorCoreCount' [-Wunused-variable]
+ 963 | int processorCoreCount = 0;
+ | ^~~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp: In member function 'virtual bool CtffindApp::DoCalculation()':
+src/programs/ctffind/ctffind.cpp:814:41: warning: unused variable 'boost_ring_contrast' [-Wunused-variable]
+ 814 | const bool boost_ring_contrast = ! command_line_parser.FoundSwitch("fast");
+ | ^~~~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp: In function 'void OverlayCTF(Image*, CTF*, Image*, Image*, int, double*, double*, float*, float*, Curve*, Curve*)':
+src/programs/ctffind/ctffind.cpp:2316:15: warning: unused variable 'target_sigma' [-Wunused-variable]
+ 2316 | float target_sigma;
+ | ^~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp:2317:13: warning: unused variable 'chosen_bin' [-Wunused-variable]
+ 2317 | int chosen_bin;
+ | ^~~~~~~~~~
+src/programs/ctffind/ctffind.cpp: In function 'bool RescaleSpectrumAndRotationalAverage(Image*, Image*, Image*, int, double*, double*, double*, float*, float*, int, int)':
+src/programs/ctffind/ctffind.cpp:2447:15: warning: unused variable 'scale_factor' [-Wunused-variable]
+ 2447 | float scale_factor;
+ | ^~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp: In function 'void ComputeEquiPhaseAverageOfPowerSpectrum(Image*, CTF*, Curve*, Curve*)':
+src/programs/ctffind/ctffind.cpp:2630:23: warning: unused variable 'lowest_sq_freq_of_ctf_aberration_max' [-Wunused-variable]
+ 2630 | float lowest_sq_freq_of_ctf_aberration_max = std::min( fabs(ctf->ReturnSquaredSpatialFrequencyOfPhaseShiftExtremumGivenDefocus(ctf->GetDefocus1())),
+ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp: In function 'bool ComputeRotationalAverageOfPowerSpectrum(Image*, CTF*, Image*, Image*, int, double*, double*, double*, double*, float*, float*)':
+src/programs/ctffind/ctffind.cpp:2780:15: warning: variable 'ctf_diff_from_current_bin' set but not used [-Wunused-but-set-variable]
+ 2780 | float ctf_diff_from_current_bin;
+ | ^~~~~~~~~~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp:2856:1: warning: no return statement in function returning non-void [-Wreturn-type]
+ 2856 | }
+ | ^
+src/core/functions.cpp: At global scope:
+src/core/functions.cpp:782:12: warning: 'int numCoresAndLogicalProcs(int*, int*)' defined but not used [-Wunused-function]
+ 782 | static int numCoresAndLogicalProcs(int *physical, int *logical)
+ | ^~~~~~~~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp: In function 'bool RescaleSpectrumAndRotationalAverage(Image*, Image*, Image*, int, double*, double*, double*, float*, float*, int, int)':
+src/programs/ctffind/ctffind.cpp:2599:1: warning: control reaches end of non-void function [-Wreturn-type]
+ 2599 | }
+ | ^
+src/programs/ctffind/ctffind.cpp: In function 'int ReturnSpectrumBinNumber(int, float*, Image*, long int, Image*, float*)':
+src/programs/ctffind/ctffind.cpp:2930:1: warning: control reaches end of non-void function [-Wreturn-type]
+ 2930 | }
+ | ^
+In file included from src/core/core_headers.h:80,
+ from src/core/randomnumbergenerator.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+In file included from src/core/core_headers.h:80,
+ from src/core/curve.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+In file included from src/core/core_headers.h:80,
+ from src/core/userinput.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/curve.cpp: In member function 'float Curve::ReturnLinearInterpolationFromI(float)':
+src/core/curve.cpp:367:15: warning: unused variable 'distance' [-Wunused-variable]
+ 367 | float distance;
+ | ^~~~~~~~
+src/core/curve.cpp: In function 'void LS_POLY(float*, float*, int, int, float*, float*)':
+src/core/curve.cpp:1246:16: warning: variable 'dd' set but not used [-Wunused-but-set-variable]
+ 1246 | double dd;
+ | ^~
+src/core/userinput.cpp: In member function 'void UserInput::Init(const char*, wxString)':
+src/core/userinput.cpp:157:35: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 157 | for (counter = 0; counter < strlen(program_name) / 2; counter++) wxPrintf(" ");
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/userinput.cpp:159:35: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 159 | for (counter = 0; counter < strlen(program_name) / 2; counter++) wxPrintf(" ");
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/userinput.cpp:161:35: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 161 | for (counter = 0; counter < strlen(program_name) / 2; counter++) wxPrintf(" ");
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
+In file included from src/core/core_headers.h:80,
+ from src/core/globals.cpp:1:
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnThetaBin(float)':
+src/core/angular_distribution_histogram.h:33:47: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 33 | for (theta_bin = 0; theta_bin < theta_boundaries.GetCount(); theta_bin++)
+ | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/core/angular_distribution_histogram.h: In member function 'int AngularDistributionHistogram::ReturnPhiBin(float)':
+src/core/angular_distribution_histogram.h:57:43: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
+ 57 | for (phi_bin = 0; phi_bin < phi_boundaries.GetCount(); phi_bin++)
+ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp: In function 'void ComputeFRCBetween1DSpectrumAndFit(int, double*, double*, float*, double*, double*, int)':
+src/programs/ctffind/ctffind.cpp:2222:51: warning: '*half_window_width[1]' may be used uninitialized [-Wmaybe-uninitialized]
+ 2222 | half_window_width[0] = half_window_width[1];
+ | ~~~~~~~~~~~~~~~~~~~^
+src/core/curve.cpp: In member function 'float Curve::ReturnMode()':
+src/core/curve.cpp:444:16: warning: 'mode' may be used uninitialized [-Wmaybe-uninitialized]
+ 444 | return mode;
+ | ^~~~
+src/core/curve.cpp:442:30: note: 'mode' was declared here
+ 442 | float maximum_value, mode;
+ | ^~~~
+src/core/functions.cpp: In function 'wxString ReceivewxStringFromSocket(wxSocketBase*)':
+src/core/functions.cpp:191:77: warning: 'length_of_string' may be used uninitialized [-Wmaybe-uninitialized]
+ 191 | unsigned char *transfer_buffer = new unsigned char[length_of_string + 1]; // + 1 for the terminating null character;
+ | ~~~~~~~~~~~~~~~~~^~~
+src/core/functions.cpp:181:13: note: 'length_of_string' declared here
+ 181 | int length_of_string;
+ | ^~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp: In function 'bool RescaleSpectrumAndRotationalAverage(Image*, Image*, Image*, int, double*, double*, double*, float*, float*, int, int)':
+src/programs/ctffind/ctffind.cpp:2526:110: warning: 'normalisation_bin_number' may be used uninitialized [-Wmaybe-uninitialized]
+ 2526 | actually_do_rescaling = (peak[normalisation_bin_number] - background[normalisation_bin_number]) > 0.0;
+ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^
+src/programs/ctffind/ctffind.cpp:2439:13: note: 'normalisation_bin_number' was declared here
+ 2439 | int normalisation_bin_number;
+ | ^~~~~~~~~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp: In member function 'virtual bool CtffindApp::DoCalculation()':
+src/programs/ctffind/ctffind.cpp:2029:101: warning: array subscript 0 is outside array bounds of 'double [0]' [-Warray-bounds=]
+ 2029 | results_array[5] = pixel_size_for_fitting / spatial_frequency[last_bin_with_good_fit]; // The resolution (Angstroms) up to which Thon rings are well fit by the CTF
+ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^
+cc1plus: note: source object is likely at address zero
+src/programs/ctffind/ctffind.cpp:1875:164: warning: array subscript 0 is outside array bounds of 'double [0]' [-Warray-bounds=]
+ 1875 | normalization_radius_max = std::max(normalization_radius_max,float(average_spectrum->logical_x_dimension * spatial_frequency[last_bin_with_good_fit]));
+ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^
+cc1plus: note: source object is likely at address zero
+src/programs/ctffind/ctffind.cpp:2008:120: warning: 'output_text_avrot' may be used uninitialized [-Wmaybe-uninitialized]
+ 2008 | wxPrintf("Detailed results, including 1D fit profiles : %s\n",output_text_avrot->ReturnFilename());
+ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~
+src/programs/ctffind/ctffind.cpp:856:34: note: 'output_text_avrot' was declared here
+ 856 | NumericTextFile *output_text_avrot;
+ | ^~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp:2031:9: warning: 'last_bin_without_aliasing' may be used uninitialized [-Wmaybe-uninitialized]
+ 2031 | if (last_bin_without_aliasing == 0)
+ | ^~
+src/programs/ctffind/ctffind.cpp:904:49: note: 'last_bin_without_aliasing' was declared here
+ 904 | int last_bin_without_aliasing;
+ | ^~~~~~~~~~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp:969:98: warning: 'output_text' may be used uninitialized [-Wmaybe-uninitialized]
+ 969 | wxPrintf("Results will be written to this file: %s\n",output_text->ReturnFilename());
+ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~
+src/programs/ctffind/ctffind.cpp:855:34: note: 'output_text' was declared here
+ 855 | NumericTextFile *output_text;
+ | ^~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp:1961:125: warning: 'my_progress_bar' may be used uninitialized [-Wmaybe-uninitialized]
+ 1961 | if ( (!old_school_input) && number_of_micrographs > 1 && is_running_locally) my_progress_bar->Update(current_micrograph_number);
+ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp:854:42: note: 'my_progress_bar' was declared here
+ 854 | ProgressBar *my_progress_bar;
+ | ^~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp:1157:25: warning: 'resampling_is_necessary' may be used uninitialized [-Wmaybe-uninitialized]
+ 1157 | if (resampling_is_necessary)
+ | ^~
+src/programs/ctffind/ctffind.cpp:869:41: note: 'resampling_is_necessary' was declared here
+ 869 | bool resampling_is_necessary;
+ | ^~~~~~~~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp:2072:33: warning: 'conjugate_gradient_minimizer' may be used uninitialized [-Wmaybe-uninitialized]
+ 2072 | if (! defocus_is_known) delete conjugate_gradient_minimizer;
+ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp:884:30: note: 'conjugate_gradient_minimizer' was declared here
+ 884 | ConjugateGradient *conjugate_gradient_minimizer;
+ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp:2022:26: warning: 'final_score' may be used uninitialized [-Wmaybe-uninitialized]
+ 2022 | results_array[4] = final_score; // CTFFIND score
+ | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~
+src/programs/ctffind/ctffind.cpp:907:41: note: 'final_score' was declared here
+ 907 | float final_score;
+ | ^~~~~~~~~~~
+/bin/sh ./libtool --tag=CXX --mode=link g++ -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -L/usr/lib/i386-linux-gnu -pthread -lwx_baseu-3.2 -lwx_baseu_net-3.2 -Wl,-z,relro -Wl,-z,now -o ctffind src/programs/ctffind/ctffind-ctffind.o src/core/ctffind-functions.o src/core/ctffind-globals.o src/core/ctffind-randomnumbergenerator.o src/core/ctffind-userinput.o src/core/ctffind-curve.o ctffind-image_trim.o src/core/ctffind-matrix.o src/core/ctffind-symmetry_matrix.o src/core/ctffind-abstract_image_file.o src/core/ctffind-mrc_header.o src/core/ctffind-mrc_file.o src/core/ctffind-tiff_file.o src/core/ctffind-dm_file.o src/core/ctffind-image_file.o src/core/ctffind-job_packager.o src/core/ctffind-job_tracker.o src/core/ctffind-run_profiles.o src/core/ctffind-myapp.o src/core/ctffind-empirical_distribution.o src/core/ctffind-ctf.o src/core/ctffind-numeric_text_file.o src/core/ctffind-progressbar.o src/core/ctffind-downhill_simplex.o src/core/ctffind-brute_force_search.o src/core/ctffind-va04.o src/core/ctffind-conjugate_gradient.o -ltiff -ljpeg -lz -ldl -lfftw3f
libtool: link: g++ -I/usr/lib/i386-linux-gnu/wx/include/gtk3-unicode-3.2 -I/usr/include/wx-3.2 -D_FILE_OFFSET_BITS=64 -DWXUSINGDLL -D__WXGTK__ -DwxUSE_GUI=0 -g -O2 -ffile-prefix-map=/build/reproducible-path/ctffind-4.1.14=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -funroll-loops -O3 -Wall -pipe -fexpensive-optimizations -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -Wl,-z -Wl,relro -Wl,-z -Wl,now -o ctffind src/programs/ctffind/ctffind-ctffind.o src/core/ctffind-functions.o src/core/ctffind-globals.o src/core/ctffind-randomnumbergenerator.o src/core/ctffind-userinput.o src/core/ctffind-curve.o ctffind-image_trim.o src/core/ctffind-matrix.o src/core/ctffind-symmetry_matrix.o src/core/ctffind-abstract_image_file.o src/core/ctffind-mrc_header.o src/core/ctffind-mrc_file.o src/core/ctffind-tiff_file.o src/core/ctffind-dm_file.o src/core/ctffind-image_file.o src/core/ctffind-job_packager.o src/core/ctffind-job_tracker.o src/core/ctffind-run_profiles.o src/core/ctffind-myapp.o src/core/ctffind-empirical_distribution.o src/core/ctffind-ctf.o src/core/ctffind-numeric_text_file.o src/core/ctffind-progressbar.o src/core/ctffind-downhill_simplex.o src/core/ctffind-brute_force_search.o src/core/ctffind-va04.o src/core/ctffind-conjugate_gradient.o -L/usr/lib/i386-linux-gnu -lwx_baseu-3.2 -lwx_baseu_net-3.2 -ltiff -ljpeg -lz -ldl -lfftw3f -pthread
make[1]: Leaving directory '/build/reproducible-path/ctffind-4.1.14'
dh_auto_test
@@ -2475,12 +2511,14 @@
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: not including original source code in upload
I: copying local configuration
+I: user script /srv/workspace/pbuilder/68058/tmp/hooks/B01_cleanup starting
+I: user script /srv/workspace/pbuilder/68058/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/30214 and its subdirectories
-I: Current time: Thu Apr 4 21:18:04 -12 2024
-I: pbuilder-time-stamp: 1712308684
+I: removing directory /srv/workspace/pbuilder/68058 and its subdirectories
+I: Current time: Fri May 9 05:42:26 +14 2025
+I: pbuilder-time-stamp: 1746718946