I: pbuilder: network access will be disabled during build
I: Current time: Thu Dec 26 00:00:23 -12 2024
I: pbuilder-time-stamp: 1735214423
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz]
I: copying local configuration
W: --override-config is not set; not updating apt.conf Read the manpage for details.
I: mounting /proc filesystem
I: mounting /sys filesystem
I: creating /{dev,run}/shm
I: mounting /dev/pts filesystem
I: redirecting /dev/ptmx to /dev/pts/ptmx
I: policy-rc.d already exists
I: using eatmydata during job
I: Copying source file
I: copying [tracetuner_3.0.6~beta+dfsg-3.dsc]
I: copying [./tracetuner_3.0.6~beta+dfsg.orig.tar.xz]
I: copying [./tracetuner_3.0.6~beta+dfsg-3.debian.tar.xz]
I: Extracting source
gpgv: Signature made Fri Dec 4 22:53:28 2020
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./tracetuner_3.0.6~beta+dfsg-3.dsc: no acceptable signature found
dpkg-source: info: extracting tracetuner in tracetuner-3.0.6~beta+dfsg
dpkg-source: info: unpacking tracetuner_3.0.6~beta+dfsg.orig.tar.xz
dpkg-source: info: unpacking tracetuner_3.0.6~beta+dfsg-3.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying hardening.patch
dpkg-source: info: applying fix_format_security.patch
dpkg-source: info: applying cross.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/25281/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'
IFS='
'
INVOCATION_ID='34e6fa7dd320444eb4281ee9714cc6f1'
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='25281'
PS1='# '
PS2='> '
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.yvR7Yxp2/pbuilderrc_Vb7V --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.yvR7Yxp2/b1 --logfile b1/build.log tracetuner_3.0.6~beta+dfsg-3.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://46.16.76.132:3128'
I: uname -a
Linux ionos2-i386 6.1.0-28-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.119-1 (2024-11-22) x86_64 GNU/Linux
I: ls -l /bin
lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/25281/tmp/hooks/D02_print_environment finished
-> Attempting to satisfy build-dependencies
-> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
Version: 0.invalid.0
Architecture: i386
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder
This package was created automatically by pbuilder to satisfy the
build-dependencies of the package being currently built.
Depends: debhelper-compat (= 13), zlib1g-dev
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19953 files and directories currently installed.)
Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ...
Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ...
dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested:
pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however:
Package debhelper-compat is not installed.
pbuilder-satisfydepends-dummy depends on zlib1g-dev; however:
Package zlib1g-dev is not installed.
Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ...
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
Building tag database...
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
The following NEW packages will be installed:
autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} zlib1g-dev{a}
The following packages are RECOMMENDED but will NOT be installed:
curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget
0 packages upgraded, 30 newly installed, 0 to remove and 0 not upgraded.
Need to get 21.0 MB of archives. After unpacking 77.1 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian trixie/main i386 sensible-utils all 0.0.24 [24.8 kB]
Get: 2 http://deb.debian.org/debian trixie/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB]
Get: 3 http://deb.debian.org/debian trixie/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB]
Get: 4 http://deb.debian.org/debian trixie/main i386 file i386 1:5.45-3+b1 [43.2 kB]
Get: 5 http://deb.debian.org/debian trixie/main i386 gettext-base i386 0.22.5-3 [201 kB]
Get: 6 http://deb.debian.org/debian trixie/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB]
Get: 7 http://deb.debian.org/debian trixie/main i386 groff-base i386 1.23.0-6 [1198 kB]
Get: 8 http://deb.debian.org/debian trixie/main i386 bsdextrautils i386 2.40.2-12 [95.9 kB]
Get: 9 http://deb.debian.org/debian trixie/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB]
Get: 10 http://deb.debian.org/debian trixie/main i386 man-db i386 2.13.0-1 [1428 kB]
Get: 11 http://deb.debian.org/debian trixie/main i386 m4 i386 1.4.19-4 [293 kB]
Get: 12 http://deb.debian.org/debian trixie/main i386 autoconf all 2.72-3 [493 kB]
Get: 13 http://deb.debian.org/debian trixie/main i386 autotools-dev all 20220109.1 [51.6 kB]
Get: 14 http://deb.debian.org/debian trixie/main i386 automake all 1:1.16.5-1.3 [823 kB]
Get: 15 http://deb.debian.org/debian trixie/main i386 autopoint all 0.22.5-3 [723 kB]
Get: 16 http://deb.debian.org/debian trixie/main i386 libdebhelper-perl all 13.20 [89.7 kB]
Get: 17 http://deb.debian.org/debian trixie/main i386 libtool all 2.4.7-8 [517 kB]
Get: 18 http://deb.debian.org/debian trixie/main i386 dh-autoreconf all 20 [17.1 kB]
Get: 19 http://deb.debian.org/debian trixie/main i386 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 20 http://deb.debian.org/debian trixie/main i386 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB]
Get: 21 http://deb.debian.org/debian trixie/main i386 dh-strip-nondeterminism all 1.14.0-1 [8448 B]
Get: 22 http://deb.debian.org/debian trixie/main i386 libelf1t64 i386 0.192-4 [195 kB]
Get: 23 http://deb.debian.org/debian trixie/main i386 dwz i386 0.15-1+b1 [116 kB]
Get: 24 http://deb.debian.org/debian trixie/main i386 libicu72 i386 72.1-5+b1 [9583 kB]
Get: 25 http://deb.debian.org/debian trixie/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b1 [734 kB]
Get: 26 http://deb.debian.org/debian trixie/main i386 gettext i386 0.22.5-3 [1631 kB]
Get: 27 http://deb.debian.org/debian trixie/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 28 http://deb.debian.org/debian trixie/main i386 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 29 http://deb.debian.org/debian trixie/main i386 debhelper all 13.20 [915 kB]
Get: 30 http://deb.debian.org/debian trixie/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1+b1 [916 kB]
Fetched 21.0 MB in 0s (63.0 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package sensible-utils.
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(Reading database ... 19953 files and directories currently installed.)
Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ...
Unpacking sensible-utils (0.0.24) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_i386.deb ...
Unpacking libmagic-mgc (1:5.45-3+b1) ...
Selecting previously unselected package libmagic1t64:i386.
Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_i386.deb ...
Unpacking libmagic1t64:i386 (1:5.45-3+b1) ...
Selecting previously unselected package file.
Preparing to unpack .../03-file_1%3a5.45-3+b1_i386.deb ...
Unpacking file (1:5.45-3+b1) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../04-gettext-base_0.22.5-3_i386.deb ...
Unpacking gettext-base (0.22.5-3) ...
Selecting previously unselected package libuchardet0:i386.
Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_i386.deb ...
Unpacking libuchardet0:i386 (0.0.8-1+b2) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../06-groff-base_1.23.0-6_i386.deb ...
Unpacking groff-base (1.23.0-6) ...
Selecting previously unselected package bsdextrautils.
Preparing to unpack .../07-bsdextrautils_2.40.2-12_i386.deb ...
Unpacking bsdextrautils (2.40.2-12) ...
Selecting previously unselected package libpipeline1:i386.
Preparing to unpack .../08-libpipeline1_1.5.8-1_i386.deb ...
Unpacking libpipeline1:i386 (1.5.8-1) ...
Selecting previously unselected package man-db.
Preparing to unpack .../09-man-db_2.13.0-1_i386.deb ...
Unpacking man-db (2.13.0-1) ...
Selecting previously unselected package m4.
Preparing to unpack .../10-m4_1.4.19-4_i386.deb ...
Unpacking m4 (1.4.19-4) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../11-autoconf_2.72-3_all.deb ...
Unpacking autoconf (2.72-3) ...
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Unpacking autotools-dev (20220109.1) ...
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Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ...
Unpacking automake (1:1.16.5-1.3) ...
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Preparing to unpack .../14-autopoint_0.22.5-3_all.deb ...
Unpacking autopoint (0.22.5-3) ...
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Preparing to unpack .../15-libdebhelper-perl_13.20_all.deb ...
Unpacking libdebhelper-perl (13.20) ...
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Unpacking libtool (2.4.7-8) ...
Selecting previously unselected package dh-autoreconf.
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Unpacking dh-autoreconf (20) ...
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Preparing to unpack .../22-dwz_0.15-1+b1_i386.deb ...
Unpacking dwz (0.15-1+b1) ...
Selecting previously unselected package libicu72:i386.
Preparing to unpack .../23-libicu72_72.1-5+b1_i386.deb ...
Unpacking libicu72:i386 (72.1-5+b1) ...
Selecting previously unselected package libxml2:i386.
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Unpacking libxml2:i386 (2.12.7+dfsg+really2.9.14-0.2+b1) ...
Selecting previously unselected package gettext.
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Unpacking gettext (0.22.5-3) ...
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Unpacking intltool-debian (0.35.0+20060710.6) ...
Selecting previously unselected package po-debconf.
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Unpacking debhelper (13.20) ...
Selecting previously unselected package zlib1g-dev:i386.
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Unpacking zlib1g-dev:i386 (1:1.3.dfsg+really1.3.1-1+b1) ...
Setting up libpipeline1:i386 (1.5.8-1) ...
Setting up libicu72:i386 (72.1-5+b1) ...
Setting up bsdextrautils (2.40.2-12) ...
Setting up libmagic-mgc (1:5.45-3+b1) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libdebhelper-perl (13.20) ...
Setting up libmagic1t64:i386 (1:5.45-3+b1) ...
Setting up gettext-base (0.22.5-3) ...
Setting up m4 (1.4.19-4) ...
Setting up file (1:5.45-3+b1) ...
Setting up libelf1t64:i386 (0.192-4) ...
Setting up autotools-dev (20220109.1) ...
Setting up autopoint (0.22.5-3) ...
Setting up autoconf (2.72-3) ...
Setting up zlib1g-dev:i386 (1:1.3.dfsg+really1.3.1-1+b1) ...
Setting up dwz (0.15-1+b1) ...
Setting up sensible-utils (0.0.24) ...
Setting up libuchardet0:i386 (0.0.8-1+b2) ...
Setting up libxml2:i386 (2.12.7+dfsg+really2.9.14-0.2+b1) ...
Setting up automake (1:1.16.5-1.3) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up libfile-stripnondeterminism-perl (1.14.0-1) ...
Setting up gettext (0.22.5-3) ...
Setting up libtool (2.4.7-8) ...
Setting up intltool-debian (0.35.0+20060710.6) ...
Setting up dh-autoreconf (20) ...
Setting up dh-strip-nondeterminism (1.14.0-1) ...
Setting up groff-base (1.23.0-6) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up man-db (2.13.0-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up debhelper (13.20) ...
Processing triggers for libc-bin (2.40-4) ...
Reading package lists...
Building dependency tree...
Reading state information...
Reading extended state information...
Initializing package states...
Writing extended state information...
Building tag database...
-> Finished parsing the build-deps
I: Building the package
I: Running cd /build/reproducible-path/tracetuner-3.0.6~beta+dfsg/ && 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 > ../tracetuner_3.0.6~beta+dfsg-3_source.changes
dpkg-buildpackage: info: source package tracetuner
dpkg-buildpackage: info: source version 3.0.6~beta+dfsg-3
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Andreas Tille <tille@debian.org>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture i386
debian/rules clean
dh clean --sourcedirectory=src --no-parallel
debian/rules override_dh_auto_clean
make[1]: Entering directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg'
dh_auto_clean
cd src && make -j1 clean
make[2]: Entering directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src'
cd compute_qv; make clean
make[3]: Entering directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/compute_qv'
make[3]: Leaving directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/compute_qv'
cd mktrain; make clean
make[3]: Entering directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/mktrain'
make[3]: Leaving directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/mktrain'
cd mklut; make clean
make[3]: Entering directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/mklut'
make[3]: Leaving directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/mklut'
cd mkchk; make clean
make[3]: Entering directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/mkchk'
make[3]: Leaving directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/mkchk'
make[2]: Leaving directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src'
rm -rf lib obj rel
make[1]: Leaving directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg'
dh_autoreconf_clean -O--sourcedirectory=src -O--no-parallel
dh_clean -O--sourcedirectory=src -O--no-parallel
rm -f debian/debhelper-build-stamp
rm -rf debian/.debhelper/
rm -f -- debian/tracetuner.substvars debian/files
rm -fr -- debian/tracetuner/ debian/tmp/
find . \( \( \
\( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \
\( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \
-o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \
-o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \
-o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \
\) -exec rm -f {} + \) -o \
\( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \)
debian/rules binary
dh binary --sourcedirectory=src --no-parallel
dh_update_autotools_config -O--sourcedirectory=src -O--no-parallel
dh_autoreconf -O--sourcedirectory=src -O--no-parallel
dh_auto_configure -O--sourcedirectory=src -O--no-parallel
dh_auto_build -O--sourcedirectory=src -O--no-parallel
cd src && make -j1 "INSTALL=install --strip-program=true"
make[1]: Entering directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src'
for dir in compute_qv mktrain mklut mkchk ; \
do (cd $dir; make EXTRACFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic" LDFLAGS="-Wl,-z,relro -Wl,-z,now -Wl,--as-needed" all); \
done
make[2]: Entering directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/compute_qv'
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c main.c -o ../../obj/Linux_64/main.o
main.c: In function 'main':
main.c:2000:45: warning: the comparison will always evaluate as 'true' for the address of 'ConsensusName' will never be NULL [-Waddress]
2000 | if (ConsensusSpecified && ConsensusName != NULL) {
| ^~
main.c:73:13: note: 'ConsensusName' declared here
73 | static char ConsensusName[BUFLEN]; /* path of consensus file */
| ^~~~~~~~~~~~~
main.c:1692:27: warning: '__builtin_strncpy' specified bound 256 equals destination size [-Wstringop-truncation]
1692 | (void)strncpy(options.tal_dir, argv[++optind],
| ^
main.c:1676:27: warning: '__builtin_strncpy' specified bound 256 equals destination size [-Wstringop-truncation]
1676 | (void)strncpy(options.tab_dir, argv[++optind],
| ^
main.c:1663:27: warning: '__builtin_strncpy' specified bound 256 equals destination size [-Wstringop-truncation]
1663 | (void)strncpy(options.tip_dir, argv[++optind],
| ^
main.c:1644:21: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1644 | strncpy(FastaDirName, argv[++optind], sizeof(FastaDirName));
| ^
main.c:1636:21: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1636 | strncpy(multiseqFileName, argv[++optind],
| ^
main.c:1587:21: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1587 | strncpy(QualRptName, argv[++optind], sizeof(QualRptName));
| ^
main.c:1580:21: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1580 | strncpy(QualDirName, argv[++optind], sizeof(QualDirName));
| ^
main.c:1572:21: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1572 | strncpy(multiqualFileName, argv[++optind],
| ^
main.c:1546:21: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1546 | strncpy(MultiFastaFilesDirName, argv[++optind],
| ^
main.c:1485:27: warning: '__builtin_strncpy' specified bound 256 equals destination size [-Wstringop-truncation]
1485 | (void)strncpy(options.inp_phd_dir, argv[++optind],
| ^
main.c:1450:27: warning: '__builtin_strncpy' specified bound 256 equals destination size [-Wstringop-truncation]
1450 | (void)strncpy(options.hpr_dir, argv[++optind],
| ^
main.c:1421:27: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1421 | (void)strncpy(InputName, argv[++optind],
| ^
main.c:1386:27: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1386 | (void)strncpy(InputName, argv[++optind],
| ^
main.c:1391:27: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1391 | (void)strncpy(PhdDirName, argv[++optind],
| ^
main.c:1397:27: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1397 | (void)strncpy(SCFDirName, argv[++optind],
| ^
main.c:1400:27: warning: '__builtin_strncpy' output may be truncated copying 256 bytes from a string of length 999 [-Wstringop-truncation]
1400 | (void)strncpy(options.scf_dir, SCFDirName,
| ^
main.c:1376:27: warning: '__builtin_strncpy' specified bound 256 equals destination size [-Wstringop-truncation]
1376 | (void)strncpy(options.poly_dir, argv[++optind],
| ^
main.c:1346:27: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1346 | (void)strncpy(ConsensusName, argv[++optind],
| ^
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c ../mktrain/Btk_match_data.c -o ../../obj/Linux_64/Btk_match_data.o
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c ../mktrain/Btk_compute_match.c -o ../../obj/Linux_64/Btk_compute_match.o
../mktrain/Btk_compute_match.c: In function 'find_best_region':
../mktrain/Btk_compute_match.c:658:13: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
658 | else
| ^~~~
../mktrain/Btk_compute_match.c:660:17: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
660 | max=i;
| ^~~
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c ../mktrain/Btk_sw.c -o ../../obj/Linux_64/Btk_sw.o
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_process_indels.c -o ../../obj/Linux_64/Btk_process_indels.o
Btk_process_indels.c: In function 'get_autocorrelation_indel_size':
Btk_process_indels.c:644:42: warning: variable 'max_height' set but not used [-Wunused-but-set-variable]
644 | float *ans[NUM_COLORS], height = 0., max_height = 0.;
| ^~~~~~~~~~
Btk_process_indels.c:642:25: warning: variable 'best_color' set but not used [-Wunused-but-set-variable]
642 | int i, j, color, best_color, n=1;
| ^~~~~~~~~~
Btk_process_indels.c: In function 'get_autocorrelation':
Btk_process_indels.c:409:5: warning: 'correl' accessing 4 bytes in a region of size 0 [-Wstringop-overflow=]
409 | correl(data1-1, data2-1, n, ans-1);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Btk_process_indels.c:409:5: note: referencing argument 1 of type 'float[0]'
Btk_process_indels.c:409:5: warning: 'correl' accessing 4 bytes in a region of size 0 [-Wstringop-overflow=]
Btk_process_indels.c:409:5: note: referencing argument 2 of type 'float[0]'
Btk_process_indels.c:409:5: note: referencing argument 4 of type 'float[0]'
In file included from Btk_process_indels.c:39:
nr.h:54:6: note: in a call to function 'correl'
54 | void correl(float data1[], float data2[], unsigned long n, float ans[]);
| ^~~~~~
Btk_process_indels.c: In function 'Btk_process_indels':
Btk_process_indels.c:2471:9: warning: '__builtin___strncpy_chk' specified bound depends on the length of the source argument [-Wstringop-truncation]
2471 | strncpy(prefix_name, options.file_name, prefix_len-1);
| ^
Btk_process_indels.c:2470:22: note: length computed here
2470 | prefix_len = strlen(options.file_name) - strlen(suffix);
| ^~~~~~~~~~~~~~~~~~~~~~~~~
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_atod.c -o ../../obj/Linux_64/Btk_atod.o
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_compute_qv.c -o ../../obj/Linux_64/Btk_compute_qv.o
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_call_bases.c -o ../../obj/Linux_64/Btk_call_bases.o
Btk_call_bases.c: In function 'get_best_peak_color_and_index_by_base_and_location':
Btk_call_bases.c:2988:28: warning: variable 'new_location' set but not used [-Wunused-but-set-variable]
2988 | int new_peak_index, new_location = location;
| ^~~~~~~~~~~~
Btk_call_bases.c: In function 'call_peak_by_location_color_and_index':
Btk_call_bases.c:3199:41: warning: variable 'r' set but not used [-Wunused-but-set-variable]
3199 | int i = base_ind, jc = color, j, l, r, k;
| ^
Btk_call_bases.c: In function 'mark_called_peaks':
Btk_call_bases.c:3547:28: warning: variable 'cd_length' set but not used [-Wunused-but-set-variable]
3547 | int Case, cd_index, cd_length;
| ^~~~~~~~~
Btk_call_bases.c:3547:18: warning: variable 'cd_index' set but not used [-Wunused-but-set-variable]
3547 | int Case, cd_index, cd_length;
| ^~~~~~~~
Btk_call_bases.c: In function 'Btk_call_bases':
Btk_call_bases.c:3697:32: warning: variable 'cweight' set but not used [-Wunused-but-set-variable]
3697 | double height2, nweight, cweight;
| ^~~~~~~
Btk_call_bases.c:3697:23: warning: variable 'nweight' set but not used [-Wunused-but-set-variable]
3697 | double height2, nweight, cweight;
| ^~~~~~~
Btk_call_bases.c:3691:14: warning: variable 'debug' set but not used [-Wunused-but-set-variable]
3691 | char *debug, base, *context=NULL;
| ^~~~~
Btk_call_bases.c: At top level:
Btk_call_bases.c:117:25: warning: 'gSpacEst0' defined but not used [-Wunused-const-variable=]
117 | static const double gSpacEst0 = 12.0;
| ^~~~~~~~~
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_process_raw_data.c -o ../../obj/Linux_64/Btk_process_raw_data.o
Btk_process_raw_data.c: In function 'estimate_spacing_variation_of_shifted_peaks':
Btk_process_raw_data.c:1142:26: warning: variable 'cd1' set but not used [-Wunused-but-set-variable]
1142 | ColorData *cd0, *cd1;
| ^~~
Btk_process_raw_data.c:1142:20: warning: variable 'cd0' set but not used [-Wunused-but-set-variable]
1142 | ColorData *cd0, *cd1;
| ^~~
Btk_process_raw_data.c: In function 'make_DP_mobility_shifts':
Btk_process_raw_data.c:2299:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
2299 | if (DEBUG_CURTIS && options->Verbose > 2 )
| ^~
Btk_process_raw_data.c:2300:28: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
2300 | putc('o', stderr); fflush(stderr);
| ^~~~~~
Btk_process_raw_data.c:2650:17: warning: this 'for' clause does not guard... [-Wmisleading-indentation]
2650 | for ( color=0; color < NUM_COLORS; color++ )
| ^~~
Btk_process_raw_data.c:2652:21: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for'
2652 | fprintf(fp, " %8.3g\n", shift_err[i]);
| ^~~~~~~
Btk_process_raw_data.c: In function 'normalize_signals':
Btk_process_raw_data.c:2956:40: warning: ordered comparison of pointer with integer zero [-Wpedantic]
2956 | norm_factor[i] = (num_peaks>0) ? ave_int[i][m] : -1;
| ^
Btk_process_raw_data.c: In function 'make_multicomponent_iteration':
Btk_process_raw_data.c:3305:21: warning: variable 'best_pos' set but not used [-Wunused-but-set-variable]
3305 | int best_pos;
| ^~~~~~~~
Btk_process_raw_data.c:3247:15: warning: variable 'det4' set but not used [-Wunused-but-set-variable]
3247 | float det4;
| ^~~~
Btk_process_raw_data.c: In function 'mobility_shift_curve':
Btk_process_raw_data.c:1257:5: warning: 'fpoly' accessing 4 bytes in a region of size 0 [-Wstringop-overflow=]
1257 | fpoly(scan, powers-1, poly_degree); // compute powers of scan; put in array p
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Btk_process_raw_data.c:1257:5: note: referencing argument 2 of type 'float[0]'
In file included from Btk_process_raw_data.c:44:
util.h:49:6: note: in a call to function 'fpoly'
49 | void fpoly(float x, float p[], int np);
| ^~~~~
Btk_process_raw_data.c: In function 'make_DP_mobility_shifts':
Btk_process_raw_data.c:2567:17: warning: 'fpoly' accessing 4 bytes in a region of size 0 [-Wstringop-overflow=]
2567 | fpoly(peaks[i]->ipos+shift_flag[color], powers-1,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2568 | POLYFIT_DEGREE+1);
| ~~~~~~~~~~~~~~~~~
Btk_process_raw_data.c:2567:17: note: referencing argument 2 of type 'float[0]'
util.h:49:6: note: in a call to function 'fpoly'
49 | void fpoly(float x, float p[], int np);
| ^~~~~
Btk_process_raw_data.c: In function 'make_DP_mobility_shifts.isra':
Btk_process_raw_data.c:2567:17: warning: array subscript -1 is outside array bounds of 'float[6]' [-Warray-bounds=]
2567 | fpoly(peaks[i]->ipos+shift_flag[color], powers-1,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2568 | POLYFIT_DEGREE+1);
| ~~~~~~~~~~~~~~~~~
Btk_process_raw_data.c:1992:19: note: at offset -4 into object 'powers' of size 24
1992 | float powers[POLYFIT_DEGREE+1];
| ^~~~~~
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c util.c -o ../../obj/Linux_64/util.o
util.c: In function 'mobShiftQuality':
util.c:980:17: warning: variable 'count' set but not used [-Wunused-but-set-variable]
980 | int count[MAX_CHUNKS];
| ^~~~~
util.c: In function 'polyfit':
util.c:192:5: warning: 'lfit' accessing 4 bytes in a region of size 0 [-Wstringop-overflow=]
192 | lfit(x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq, fpoly);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
util.c:192:5: note: referencing argument 6 of type 'int[0]'
In file included from util.c:45:
nr.h:63:6: note: in a call to function 'lfit'
63 | void lfit(float x[], float y[], float sig[], int ndat, float a[], int ia[],
| ^~~~
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c nr.c -o ../../obj/Linux_64/nr.o
nr.c: In function 'gaussj':
nr.c:487:13: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
487 | if (ipiv[j] != 1)
| ^~
nr.c:497:17: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
497 | ++(ipiv[icol]);
| ^~
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_process_peaks.c -o ../../obj/Linux_64/Btk_process_peaks.o
Btk_process_peaks.c: In function 'colordata_detect_peaks':
Btk_process_peaks.c:524:45: warning: variable 'relative_width' set but not used [-Wunused-but-set-variable]
524 | sum_peak_width, average10_width, relative_width;
| ^~~~~~~~~~~~~~
Btk_process_peaks.c: In function 'add_one_peak':
Btk_process_peaks.c:2307:35: warning: variable 'p2' set but not used [-Wunused-but-set-variable]
2307 | Peak peak0, peak1, *p0, *p1, *p2;
| ^~
Btk_process_peaks.c:2307:17: warning: variable 'peak1' set but not used [-Wunused-but-set-variable]
2307 | Peak peak0, peak1, *p0, *p1, *p2;
| ^~~~~
Btk_process_peaks.c:2307:10: warning: variable 'peak0' set but not used [-Wunused-but-set-variable]
2307 | Peak peak0, peak1, *p0, *p1, *p2;
| ^~~~~
Btk_process_peaks.c: In function 'fit_single_peak':
Btk_process_peaks.c:2651:45: warning: variable 'x2' set but not used [-Wunused-but-set-variable]
2651 | double sum_exp = 0., sum_exp2 = 0., x2, B;
| ^~
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_qv_io.c -o ../../obj/Linux_64/Btk_qv_io.o
Btk_qv_io.c: In function 'Btk_read_sample_file':
Btk_qv_io.c:770:46: warning: ordered comparison of pointer with integer zero [-Wpedantic]
770 | if ((options.inp_phd == 0) && (num_bases > 0)) {
| ^
Btk_qv_io.c:649:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result]
649 | fread(magic, 1, 2, fp);
| ^~~~~~~~~~~~~~~~~~~~~~
Btk_qv_io.c: In function 'output_scf_file':
Btk_qv_io.c:2636:5: warning: '__builtin_strncpy' output truncated before terminating nul copying 4 bytes from a string of the same length [-Wstringop-truncation]
2636 | strncpy(header.version, (scf_version == 2) ? "2.00" : "3.00", 4);
| ^
Btk_qv_io.c: In function 'Btk_read_sample_file':
Btk_qv_io.c:945:66: warning: '%s' directive writing up to 999 bytes into a region of size 231 [-Wformat-overflow=]
945 | sprintf(message->text, "Could not read phd file: %s\n",
| ^~
946 | phd_file_name);
| ~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:970,
from Btk_qv_io.c:27:
In function 'sprintf',
inlined from 'Btk_read_sample_file' at Btk_qv_io.c:945:17:
/usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 27 and 1026 bytes into a destination of size 256
30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
31 | __glibc_objsize (__s), __fmt,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
32 | __va_arg_pack ());
| ~~~~~~~~~~~~~~~~~
Btk_qv_io.c: In function 'Btk_read_sample_file':
Btk_qv_io.c:918:62: warning: '%s' directive writing up to 999 bytes into a region of size 231 [-Wformat-overflow=]
918 | sprintf(message->text, "Could not read phd file: %s\n",
| ^~
919 | phd_file_name);
| ~~~~~~~~~~~~~
In function 'sprintf',
inlined from 'Btk_read_sample_file' at Btk_qv_io.c:918:13:
/usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 27 and 1026 bytes into a destination of size 256
30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
31 | __glibc_objsize (__s), __fmt,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
32 | __va_arg_pack ());
| ~~~~~~~~~~~~~~~~~
Btk_qv_io.c: In function 'Btk_output_poly_file':
Btk_qv_io.c:2962:59: warning: '%s' directive writing up to 1023 bytes into a region of size 230 [-Wformat-overflow=]
2962 | sprintf(message->text, "Unable to open POLY file '%s'\n",
| ^~
2963 | poly_name);
| ~~~~~~~~~
In function 'sprintf',
inlined from 'Btk_output_poly_file' at Btk_qv_io.c:2962:9:
/usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 29 and 1052 bytes into a destination of size 256
30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
31 | __glibc_objsize (__s), __fmt,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
32 | __va_arg_pack ());
| ~~~~~~~~~~~~~~~~~
Btk_qv_io.c: In function 'Btk_output_poly_file_old':
Btk_qv_io.c:3104:59: warning: '%s' directive writing up to 1023 bytes into a region of size 230 [-Wformat-overflow=]
3104 | sprintf(message->text, "Unable to open POLY file '%s'\n",
| ^~
3105 | poly_name);
| ~~~~~~~~~
In function 'sprintf',
inlined from 'Btk_output_poly_file_old' at Btk_qv_io.c:3104:9:
/usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 29 and 1052 bytes into a destination of size 256
30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
31 | __glibc_objsize (__s), __fmt,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
32 | __va_arg_pack ());
| ~~~~~~~~~~~~~~~~~
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_compute_tp.c -o ../../obj/Linux_64/Btk_compute_tp.o
Btk_compute_tp.c: In function 'get_peak_height_ratio':
Btk_compute_tp.c:340:58: warning: variable 'bad_ipos' set but not used [-Wunused-but-set-variable]
340 | double max_uncalled_ipos = -1, min_called_ipos = -1, bad_ipos;
| ^~~~~~~~
Btk_compute_tp.c: In function 'get_peak_spacing_ratio':
Btk_compute_tp.c:394:17: warning: variable 'bad_ipos' set but not used [-Wunused-but-set-variable]
394 | double psr, bad_ipos, ipos;
| ^~~~~~~~
Btk_compute_tp.c: At top level:
Btk_compute_tp.c:634:54: warning: argument 3 of type 'double *[4]' with mismatched bound [-Warray-parameter=]
634 | Btk_compute_tp(Data *data, char *color2base, double *params[NUM_PARAMS],
| ~~~~~~~~^~~~~~~~~~~~~~~~~~
In file included from Btk_compute_tp.c:48:
Btk_compute_tp.h:31:43: note: previously declared as 'double *[]'
31 | extern int Btk_compute_tp(Data *, char *, double *[], ReadInfo *,
| ^~~~~~~~~~
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_compute_tpars.c -o ../../obj/Linux_64/Btk_compute_tpars.o
Btk_compute_tpars.c: In function 'data_create':
Btk_compute_tpars.c:215:33: warning: argument to 'sizeof' in 'memset' call is the same expression as the destination; did you mean to dereference it? [-Wsizeof-pointer-memaccess]
215 | (void)memset(data, 0, sizeof(data));
| ^
Btk_compute_tpars.c: In function 'Btk_compute_tpars':
Btk_compute_tpars.c:804:38: warning: the comparison will always evaluate as 'false' for the address of 'color_data' will never be NULL [-Waddress]
804 | if ((&data.color_data[i] == NULL) ||
| ^~
In file included from Btk_compute_tpars.c:42:
Btk_qv_data.h:150:16: note: 'color_data' declared here
150 | ColorData color_data[NUM_COLORS]; /* chromatograms */
| ^~~~~~~~~~
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_get_mixed_bases.c -o ../../obj/Linux_64/Btk_get_mixed_bases.o
Btk_get_mixed_bases.c: In function 'mixed_base':
Btk_get_mixed_bases.c:142:10: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
142 | else if (((b1 == 'G') && (b2 == 'T')) || ((b1 == 'T') && (b2 == 'G')))
| ^~
Btk_get_mixed_bases.c:145:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
145 | return 'N';
| ^~~~~~
Btk_get_mixed_bases.c: In function 'find_alternative_peaks':
Btk_get_mixed_bases.c:473:34: warning: ordered comparison of pointer with integer zero [-Wpedantic]
473 | if ((num_peaks_found > 0) &&
| ^
Btk_get_mixed_bases.c: In function 'call_mixed_bases':
Btk_get_mixed_bases.c:744:55: warning: variable 'cweight' set but not used [-Wunused-but-set-variable]
744 | double ratio, ave_wiheight, wiheight, nweight=1., cweight=1.;
| ^~~~~~~
Btk_get_mixed_bases.c:744:43: warning: variable 'nweight' set but not used [-Wunused-but-set-variable]
744 | double ratio, ave_wiheight, wiheight, nweight=1., cweight=1.;
| ^~~~~~~
Btk_get_mixed_bases.c:740:24: warning: variable 'pos' set but not used [-Wunused-but-set-variable]
740 | int i, j, k, n, pos, jbest, kbest, curr_num2, prev_right_bound=0;
| ^~~
Btk_get_mixed_bases.c:739:25: warning: variable 'context' set but not used [-Wunused-but-set-variable]
739 | char base, base2,*context = NULL;
| ^~~~~~~
Btk_get_mixed_bases.c:739:18: warning: variable 'base2' set but not used [-Wunused-but-set-variable]
739 | char base, base2,*context = NULL;
| ^~~~~
Btk_get_mixed_bases.c:739:12: warning: variable 'base' set but not used [-Wunused-but-set-variable]
739 | char base, base2,*context = NULL;
| ^~~~
Btk_get_mixed_bases.c: In function 'Btk_get_mixed_bases':
Btk_get_mixed_bases.c:1365:31: warning: variable 'res' set but not used [-Wunused-but-set-variable]
1365 | double ratio, wratio, res, w1, w2;
| ^~~
Btk_get_mixed_bases.c:1365:23: warning: variable 'wratio' set but not used [-Wunused-but-set-variable]
1365 | double ratio, wratio, res, w1, w2;
| ^~~~~~
In file included from Btk_get_mixed_bases.c:34:
Btk_qv.h:119:23: warning: 'altbases' may be used uninitialized [-Wmaybe-uninitialized]
119 | #define FREE(x) if((x)!=NULL) {free((char *)(x));(x)=NULL;}
| ^
Btk_get_mixed_bases.c:1439:5: note: in expansion of macro 'FREE'
1439 | FREE(altbases);
| ^~~~
Btk_get_mixed_bases.c:1206:14: note: 'altbases' declared here
1206 | AltBase *altbases;
| ^~~~~~~~
Btk_qv.h:119:23: warning: 'altbases' may be used uninitialized [-Wmaybe-uninitialized]
119 | #define FREE(x) if((x)!=NULL) {free((char *)(x));(x)=NULL;}
| ^
Btk_get_mixed_bases.c:1439:5: note: in expansion of macro 'FREE'
1439 | FREE(altbases);
| ^~~~
Btk_get_mixed_bases.c:1206:14: note: 'altbases' declared here
1206 | AltBase *altbases;
| ^~~~~~~~
Btk_qv.h:119:23: warning: 'altbases' may be used uninitialized [-Wmaybe-uninitialized]
119 | #define FREE(x) if((x)!=NULL) {free((char *)(x));(x)=NULL;}
| ^
Btk_get_mixed_bases.c:1439:5: note: in expansion of macro 'FREE'
1439 | FREE(altbases);
| ^~~~
Btk_get_mixed_bases.c:1206:14: note: 'altbases' declared here
1206 | AltBase *altbases;
| ^~~~~~~~
Btk_qv.h:119:23: warning: 'altbases' may be used uninitialized [-Wmaybe-uninitialized]
119 | #define FREE(x) if((x)!=NULL) {free((char *)(x));(x)=NULL;}
| ^
Btk_get_mixed_bases.c:1439:5: note: in expansion of macro 'FREE'
1439 | FREE(altbases);
| ^~~~
Btk_get_mixed_bases.c:1206:14: note: 'altbases' declared here
1206 | AltBase *altbases;
| ^~~~~~~~
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_lookup_table.c -o ../../obj/Linux_64/Btk_lookup_table.o
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_qv_funs.c -o ../../obj/Linux_64/Btk_qv_funs.o
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c ABI_Toolkit.c -o ../../obj/Linux_64/ABI_Toolkit.o
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_default_table.c -o ../../obj/Linux_64/Btk_default_table.o
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c FileHandler.c -o ../../obj/Linux_64/FileHandler.o
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c SCF_Toolkit.c -o ../../obj/Linux_64/SCF_Toolkit.o
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c context_table.c -o ../../obj/Linux_64/context_table.o
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c tracepoly.c -o ../../obj/Linux_64/tracepoly.o
tracepoly.c: In function 'gaussj':
tracepoly.c:631:13: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
631 | if (ipiv[j] != 1)
| ^~
tracepoly.c:641:17: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
641 | ++(ipiv[icol]);
| ^~
tracepoly.c: At top level:
tracepoly.c:1111:29: warning: argument 2 of type 'double[4][4000]' with mismatched bound [-Warray-parameter=]
1111 | double xx_a[4][MaxNumBases], double yy_a[4][MaxNumBases],
| ~~~~~~~^~~~~~~~~~~~~~~~~~~~
In file included from tracepoly.c:37:
tracepoly.h:64:37: note: previously declared as 'double[][4000]'
64 | int readGetCoefficients(ReadInfo *, double [][MaxNumBases],
| ^~~~~~~~~~~~~~~~~~~~~~
tracepoly.c:1111:58: warning: argument 3 of type 'double[4][4000]' with mismatched bound [-Warray-parameter=]
1111 | double xx_a[4][MaxNumBases], double yy_a[4][MaxNumBases],
| ~~~~~~~^~~~~~~~~~~~~~~~~~~~
tracepoly.h:65:25: note: previously declared as 'double[][4000]'
65 | double [][MaxNumBases], int [], int);
| ^~~~~~~~~~~~~~~~~~~~~~
tracepoly.c:1112:26: warning: argument 4 of type 'int[4]' with mismatched bound [-Warray-parameter=]
1112 | int num_xy_a[4], int read_num )
| ~~~~^~~~~~~~~~~
tracepoly.h:65:49: note: previously declared as 'int[]'
65 | double [][MaxNumBases], int [], int);
| ^~~~~~
tracepoly.c: In function 'func_legendre_1based':
tracepoly.c:137:9: warning: 'func_legendre_1based_sub' accessing 8 bytes in a region of size 0 [-Wstringop-overflow=]
137 | func_legendre_1based_sub( fa, x, ptemp0-1, n );
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
tracepoly.c:137:9: note: referencing argument 3 of type 'double[0]'
tracepoly.c:103:1: note: in a call to function 'func_legendre_1based_sub'
103 | func_legendre_1based_sub( FuncArgs* fa, double x, double pl[], int nl )
| ^~~~~~~~~~~~~~~~~~~~~~~~
tracepoly.c: In function 'legendre_fit':
tracepoly.c:790:5: warning: 'lfit' accessing 4 bytes in a region of size 0 [-Wstringop-overflow=]
790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
791 | func_legendre_1based);
| ~~~~~~~~~~~~~~~~~~~~~
tracepoly.c:790:5: note: referencing argument 7 of type 'int[0]'
tracepoly.c:699:1: note: in a call to function 'lfit'
699 | lfit(FuncArgs* fa,
| ^~~~
tracepoly.c: In function 'func_legendre_1based':
tracepoly.c:137:9: warning: array subscript -1 is outside array bounds of 'double[3]' [-Warray-bounds=]
137 | func_legendre_1based_sub( fa, x, ptemp0-1, n );
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
tracepoly.c:132:27: note: at offset -8 into object 'ptemp0' of size 24
132 | double *pl0 = pl1+1, ptemp0[2*NumCoef-1];
| ^~~~~~
In function 'legendre_fit',
inlined from 'traceGetCoef.isra' at tracepoly.c:947:9:
tracepoly.c:790:5: warning: array subscript -1 is outside array bounds of 'double[8000]' [-Warray-bounds=]
790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
791 | func_legendre_1based);
| ~~~~~~~~~~~~~~~~~~~~~
tracepoly.c: In function 'traceGetCoef.isra':
tracepoly.c:895:12: note: at offset -8 into object 'xxxx' of size 64000
895 | double xxxx[2*MaxNumBases], yyyy[2*MaxNumBases], sigma[2*MaxNumBases];
| ^~~~
In function 'legendre_fit',
inlined from 'traceGetCoef.isra' at tracepoly.c:947:9:
tracepoly.c:790:5: warning: array subscript -1 is outside array bounds of 'double[8000]' [-Warray-bounds=]
790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
791 | func_legendre_1based);
| ~~~~~~~~~~~~~~~~~~~~~
tracepoly.c: In function 'traceGetCoef.isra':
tracepoly.c:895:33: note: at offset -8 into object 'yyyy' of size 64000
895 | double xxxx[2*MaxNumBases], yyyy[2*MaxNumBases], sigma[2*MaxNumBases];
| ^~~~
In function 'legendre_fit',
inlined from 'traceGetCoef.isra' at tracepoly.c:947:9:
tracepoly.c:790:5: warning: array subscript -1 is outside array bounds of 'double[8000]' [-Warray-bounds=]
790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
791 | func_legendre_1based);
| ~~~~~~~~~~~~~~~~~~~~~
tracepoly.c: In function 'traceGetCoef.isra':
tracepoly.c:895:54: note: at offset -8 into object 'sigma' of size 64000
895 | double xxxx[2*MaxNumBases], yyyy[2*MaxNumBases], sigma[2*MaxNumBases];
| ^~~~~
In function 'legendre_fit',
inlined from 'traceGetCoef.isra' at tracepoly.c:947:9:
tracepoly.c:790:5: warning: array subscript -1 is outside array bounds of 'double[8000]' [-Warray-bounds=]
790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
791 | func_legendre_1based);
| ~~~~~~~~~~~~~~~~~~~~~
tracepoly.c: In function 'traceGetCoef.isra':
tracepoly.c:895:12: note: at offset -8 into object 'xxxx' of size 64000
895 | double xxxx[2*MaxNumBases], yyyy[2*MaxNumBases], sigma[2*MaxNumBases];
| ^~~~
In function 'legendre_fit',
inlined from 'traceGetCoef.isra' at tracepoly.c:947:9:
tracepoly.c:790:5: warning: array subscript -1 is outside array bounds of 'double[8000]' [-Warray-bounds=]
790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
791 | func_legendre_1based);
| ~~~~~~~~~~~~~~~~~~~~~
tracepoly.c: In function 'traceGetCoef.isra':
tracepoly.c:895:33: note: at offset -8 into object 'yyyy' of size 64000
895 | double xxxx[2*MaxNumBases], yyyy[2*MaxNumBases], sigma[2*MaxNumBases];
| ^~~~
In function 'legendre_fit',
inlined from 'traceGetCoef.isra' at tracepoly.c:947:9:
tracepoly.c:790:5: warning: array subscript -1 is outside array bounds of 'double[8000]' [-Warray-bounds=]
790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
791 | func_legendre_1based);
| ~~~~~~~~~~~~~~~~~~~~~
tracepoly.c: In function 'traceGetCoef.isra':
tracepoly.c:895:54: note: at offset -8 into object 'sigma' of size 64000
895 | double xxxx[2*MaxNumBases], yyyy[2*MaxNumBases], sigma[2*MaxNumBases];
| ^~~~~
In function 'func_legendre_1based',
inlined from 'func_legendre_0based' at tracepoly.c:153:5,
inlined from 'traceEvalPoly' at tracepoly.c:839:5:
tracepoly.c:137:9: warning: array subscript -1 is outside array bounds of 'double[3]' [-Warray-bounds=]
137 | func_legendre_1based_sub( fa, x, ptemp0-1, n );
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
tracepoly.c: In function 'traceEvalPoly':
tracepoly.c:132:27: note: at offset -8 into object 'ptemp0' of size 24
132 | double *pl0 = pl1+1, ptemp0[2*NumCoef-1];
| ^~~~~~
/usr/bin/ar rc ../../lib/Linux_64/libtt.a ../../obj/Linux_64/Btk_match_data.o ../../obj/Linux_64/Btk_compute_match.o ../../obj/Linux_64/Btk_sw.o ../../obj/Linux_64/Btk_process_indels.o ../../obj/Linux_64/Btk_atod.o ../../obj/Linux_64/Btk_compute_qv.o ../../obj/Linux_64/Btk_call_bases.o ../../obj/Linux_64/Btk_process_raw_data.o ../../obj/Linux_64/util.o ../../obj/Linux_64/nr.o ../../obj/Linux_64/Btk_process_peaks.o ../../obj/Linux_64/Btk_qv_io.o ../../obj/Linux_64/Btk_compute_tp.o ../../obj/Linux_64/Btk_compute_tpars.o ../../obj/Linux_64/Btk_get_mixed_bases.o ../../obj/Linux_64/Btk_lookup_table.o ../../obj/Linux_64/Btk_qv_funs.o ../../obj/Linux_64/ABI_Toolkit.o ../../obj/Linux_64/Btk_default_table.o ../../obj/Linux_64/FileHandler.o ../../obj/Linux_64/SCF_Toolkit.o ../../obj/Linux_64/context_table.o ../../obj/Linux_64/tracepoly.o
/usr/bin/gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed ../../obj/Linux_64/main.o ../../lib/Linux_64/libtt.a -lm -o ../../rel/Linux_64/ttuner -Wl,-z,relro -Wl,-z,now -Wl,--as-needed
make[2]: Leaving directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/compute_qv'
make[2]: Entering directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/mktrain'
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../compute_qv -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c train.c -o ../../obj/Linux_64/train.o
train.c: In function 'main':
train.c:1431:26: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1431 | (void)strncpy(InputName, argv[++optind], sizeof(InputName));
| ^
train.c:1400:23: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1400 | (void)strncpy(OutputName, argv[++optind], sizeof(OutputName));
| ^
train.c:1357:27: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1357 | (void)strncpy(inp_phd_dir, argv[++optind],
| ^
train.c:1511:23: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1511 | (void)strncpy(VectorName, argv[++optind], sizeof(VectorName));
| ^
train.c:1501:23: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1501 | (void)strncpy(SiteName, argv[++optind], sizeof(SiteName)); break;
| ^
train.c:1437:23: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1437 | (void)strncpy(PrimerName, argv[++optind], sizeof(PrimerName));
| ^
train.c:1297:23: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
1297 | (void)strncpy(ConsensusName, argv[++optind],
| ^
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../compute_qv -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c train_data.c -o ../../obj/Linux_64/train_data.o
train_data.c: In function 'append_to_train_data':
train_data.c:217:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
217 | if (Verbose > 0)
| ^~
train_data.c:220:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
220 | fprintf(fout, "# Clear range start :%4d end:%4d\n",
| ^~~~~~~
/usr/bin/gcc -g -Wall -I../compute_qv -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed ../../obj/Linux_64/train.o ../../obj/Linux_64/train_data.o ../../obj/Linux_64/Btk_compute_match.o ../../obj/Linux_64/Btk_match_data.o ../../obj/Linux_64/Btk_sw.o ../../lib/Linux_64/libtt.a -lm -o ../../rel/Linux_64/train -Wl,-z,relro -Wl,-z,now -Wl,--as-needed
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../compute_qv -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c trainphd.c -o ../../obj/Linux_64/trainphd.o
trainphd.c: In function 'process_projectfile':
trainphd.c:653:13: warning: variable 'buffer2' set but not used [-Wunused-but-set-variable]
653 | char buffer2[BUFLEN];
| ^~~~~~~
trainphd.c: In function 'main':
trainphd.c:931:35: error: format not a string literal and no format arguments [-Werror=format-security]
931 | fprintf(stderr, message.text);
| ~~~~~~~^~~~~
trainphd.c:940:35: error: format not a string literal and no format arguments [-Werror=format-security]
940 | fprintf(stderr, message.text);
| ~~~~~~~^~~~~
trainphd.c:959:40: error: format not a string literal and no format arguments [-Werror=format-security]
959 | fprintf(stderr, message.text);
| ~~~~~~~^~~~~
trainphd.c:967:44: error: format not a string literal and no format arguments [-Werror=format-security]
967 | fprintf(stderr, message.text);
| ~~~~~~~^~~~~
trainphd.c:1011:40: error: format not a string literal and no format arguments [-Werror=format-security]
1011 | fprintf(stderr, message.text);
| ~~~~~~~^~~~~
trainphd.c:1018:40: error: format not a string literal and no format arguments [-Werror=format-security]
1018 | fprintf(stderr, message.text);
| ~~~~~~~^~~~~
trainphd.c:1084:40: error: format not a string literal and no format arguments [-Werror=format-security]
1084 | fprintf(stderr, message.text);
| ~~~~~~~^~~~~
trainphd.c:1091:40: error: format not a string literal and no format arguments [-Werror=format-security]
1091 | fprintf(stderr, message.text);
| ~~~~~~~^~~~~
trainphd.c:1123:35: error: format not a string literal and no format arguments [-Werror=format-security]
1123 | fprintf(stderr, message.text);
| ~~~~~~~^~~~~
trainphd.c:1128:35: error: format not a string literal and no format arguments [-Werror=format-security]
1128 | fprintf(stderr, message.text);
| ~~~~~~~^~~~~
trainphd.c:1134:40: error: format not a string literal and no format arguments [-Werror=format-security]
1134 | fprintf(stderr, message.text);
| ~~~~~~~^~~~~
trainphd.c:1139:40: error: format not a string literal and no format arguments [-Werror=format-security]
1139 | fprintf(stderr, message.text);
| ~~~~~~~^~~~~
trainphd.c:608:17: warning: '__builtin___strncpy_chk' specified bound depends on the length of the source argument [-Wstringop-truncation]
608 | strncpy(path2, string, strlen(string)-strlen(name)); // remove the phd.1 suffix
| ^
In function 'process_dir',
inlined from 'main' at trainphd.c:1095:17:
trainphd.c:608:40: note: length computed here
608 | strncpy(path2, string, strlen(string)-strlen(name)); // remove the phd.1 suffix
| ^~~~~~~~~~~~~~
trainphd.c: In function 'main':
trainphd.c:735:17: warning: '__builtin___strncpy_chk' specified bound depends on the length of the source argument [-Wstringop-truncation]
735 | strncpy(tabFileName, string, strlen(string)-strlen(name)); // remove the phd.1 suffix
| ^
In function 'process_projectfile',
inlined from 'main' at trainphd.c:1105:13:
trainphd.c:735:46: note: length computed here
735 | strncpy(tabFileName, string, strlen(string)-strlen(name)); // remove the phd.1 suffix
| ^~~~~~~~~~~~~~
trainphd.c: In function 'main':
trainphd.c:1041:25: warning: '__builtin___strncpy_chk' specified bound depends on the length of the source argument [-Wstringop-truncation]
1041 | strncpy(tab_file_name, string, strlen(string)-strlen(name));
| ^
trainphd.c:1041:56: note: length computed here
1041 | strncpy(tab_file_name, string, strlen(string)-strlen(name));
| ^~~~~~~~~~~~~~
trainphd.c:896:19: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
896 | (void)strncpy(tab_dir_name, optarg, sizeof(tab_dir_name));
| ^
trainphd.c:856:19: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
856 | (void)strncpy(OutputName, optarg, sizeof(OutputName));
| ^
trainphd.c:864:19: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
864 | (void)strncpy(InputName, optarg, sizeof(InputName));
| ^
trainphd.c:860:19: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
860 | (void)strncpy(InputName, optarg, sizeof(InputName));
| ^
trainphd.c:818:19: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
818 | (void)strncpy(VectorName, optarg, sizeof(VectorName));
| ^
trainphd.c:822:19: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
822 | (void)strncpy(SiteName, optarg, sizeof(SiteName));
| ^
trainphd.c:814:19: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
814 | (void)strncpy(PrimerName, optarg, sizeof(PrimerName));
| ^
trainphd.c:849:19: warning: '__builtin_strncpy' specified bound 1000 equals destination size [-Wstringop-truncation]
849 | (void)strncpy(ConsensusName, optarg, sizeof(ConsensusName));
| ^
cc1: some warnings being treated as errors
make[2]: *** [../include.mk:180: ../../obj/Linux_64/trainphd.o] Error 1
make[2]: Leaving directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/mktrain'
make[2]: Entering directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/mklut'
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../compute_qv -I../mktrain -I. -I/home/gdenisov/build/include/io_lib -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -I../mkchk -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c lut.c -o ../../obj/Linux_64/lut.o
lut.c: In function 'read_bases_and_populate_bins':
lut.c:438:26: warning: variable 'cchar' set but not used [-Wunused-but-set-variable]
438 | char schar, cchar; /* Sample and consensus characters. */
| ^~~~~
lut.c:437:25: warning: variable 'cpos' set but not used [-Wunused-but-set-variable]
437 | int spos, cpos; /* Sample and consensus positions. */
| ^~~~
lut.c:437:19: warning: variable 'spos' set but not used [-Wunused-but-set-variable]
437 | int spos, cpos; /* Sample and consensus positions. */
| ^~~~
lut.c: In function 'create_qv_table_via_dynamic_programming':
lut.c:894:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation]
894 | for (i = 1; i < (MAX_QV / 10); i++)
| ^~~
lut.c:899:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for'
899 | fprintf(fout, "\n");
| ^~~~~~~
lut.c: In function 'compress_params_array':
lut.c:1012:13: warning: variable 'max_weight' set but not used [-Wunused-but-set-variable]
1012 | int max_weight=0, *wn;
| ^~~~~~~~~~
lut.c: In function 'read_and_sort_trace_parameters':
lut.c:1112:21: warning: variable 'cchar' set but not used [-Wunused-but-set-variable]
1112 | char schar, cchar; /* Sample and consensus characters. */
| ^~~~~
lut.c:1111:20: warning: variable 'cpos' set but not used [-Wunused-but-set-variable]
1111 | int spos, cpos; /* Sample and consensus positions. */
| ^~~~
lut.c:1111:14: warning: variable 'spos' set but not used [-Wunused-but-set-variable]
1111 | int spos, cpos; /* Sample and consensus positions. */
| ^~~~
lut.c: In function 'main':
lut.c:1404:15: error: passing argument 1 of 'time' makes pointer from integer without a cast [-Wint-conversion]
1404 | t1 = time((time_t) NULL);
| ^
| |
| long int
In file included from lut.c:45:
/usr/include/time.h:76:29: note: expected 'time_t *' {aka 'long int *'} but argument is of type 'long int'
76 | extern time_t time (time_t *__timer) __THROW;
| ~~~~~~~~^~~~~~~
lut.c:1449:34: warning: format '%d' expects argument of type 'int *', but argument 3 has type 'unsigned int *' [-Wformat=]
1449 | sscanf(optarg, "%d", &threshold_count);
| ~^ ~~~~~~~~~~~~~~~~
| | |
| | unsigned int *
| int *
| %d
lut.c:1520:15: error: passing argument 1 of 'time' makes pointer from integer without a cast [-Wint-conversion]
1520 | t2 = time((time_t) NULL);
| ^
| |
| long int
/usr/include/time.h:76:29: note: expected 'time_t *' {aka 'long int *'} but argument is of type 'long int'
76 | extern time_t time (time_t *__timer) __THROW;
| ~~~~~~~~^~~~~~~
lut.c:1573:15: error: passing argument 1 of 'time' makes pointer from integer without a cast [-Wint-conversion]
1573 | t2 = time((time_t) NULL);
| ^
| |
| long int
/usr/include/time.h:76:29: note: expected 'time_t *' {aka 'long int *'} but argument is of type 'long int'
76 | extern time_t time (time_t *__timer) __THROW;
| ~~~~~~~~^~~~~~~
lut.c:1604:15: error: passing argument 1 of 'time' makes pointer from integer without a cast [-Wint-conversion]
1604 | t2 = time((time_t) NULL);
| ^
| |
| long int
/usr/include/time.h:76:29: note: expected 'time_t *' {aka 'long int *'} but argument is of type 'long int'
76 | extern time_t time (time_t *__timer) __THROW;
| ~~~~~~~~^~~~~~~
lut.c:1645:15: error: passing argument 1 of 'time' makes pointer from integer without a cast [-Wint-conversion]
1645 | t2 = time((time_t) NULL);
| ^
| |
| long int
/usr/include/time.h:76:29: note: expected 'time_t *' {aka 'long int *'} but argument is of type 'long int'
76 | extern time_t time (time_t *__timer) __THROW;
| ~~~~~~~~^~~~~~~
make[2]: *** [../include.mk:180: ../../obj/Linux_64/lut.o] Error 1
make[2]: Leaving directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/mklut'
make[2]: Entering directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/mkchk'
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../compute_qv -I../mktrain -I../mklut -I. -I -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c checkbc.c -o ../../obj/Linux_64/checkbc.o
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../compute_qv -I../mktrain -I../mklut -I. -I -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c check_data.c -o ../../obj/Linux_64/check_data.o
check_data.c: In function 'get_bases':
check_data.c:47:25: warning: variable 'cpos' set but not used [-Wunused-but-set-variable]
47 | int spos, cpos; /* Sample and consensus positions. */
| ^~~~
check_data.c:47:19: warning: variable 'spos' set but not used [-Wunused-but-set-variable]
47 | int spos, cpos; /* Sample and consensus positions. */
| ^~~~
g++ ../../obj/Linux_64/checkbc.o ../../obj/Linux_64/check_data.o ../../lib/Linux_64/libtt.a -lm -lz -o ../../rel/Linux_64/checkbc -lm -lz ../../lib/Linux_64/libtt.a -Wl,-z,relro -Wl,-z,now -Wl,--as-needed
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../compute_qv -I../mktrain -I../mklut -I. -I -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c checkqv.c -o ../../obj/Linux_64/checkqv.o
checkqv.c: In function 'crossValidate':
checkqv.c:84:9: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
84 | if (base[i].schar != '-')
| ^~
checkqv.c:87:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
87 | qv = get_quality_value(base[i].parameter[0],
| ^~
g++ ../../obj/Linux_64/checkqv.o ../../obj/Linux_64/check_data.o ../../lib/Linux_64/libtt.a -lm -lz -o ../../rel/Linux_64/checkqv -lm -lz ../../lib/Linux_64/libtt.a -Wl,-z,relro -Wl,-z,now -Wl,--as-needed
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../compute_qv -I../mktrain -I../mklut -I. -I -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c checkbcphd.c -o ../../obj/Linux_64/checkbcphd.o
checkbcphd.c: In function 'errorStatswithQVs':
checkbcphd.c:197:18: warning: unknown escape sequence: '\%'
197 | char c = '\%';
| ^~~~
checkbcphd.c:50:51: warning: variable 'qvo' set but not used [-Wunused-but-set-variable]
50 | Nqvp[MAXNUMBINS+1], qvp[MAXNUMBINS+1], qvo[MAXNUMBINS+1];
| ^~~
checkbcphd.c:50:32: warning: variable 'qvp' set but not used [-Wunused-but-set-variable]
50 | Nqvp[MAXNUMBINS+1], qvp[MAXNUMBINS+1], qvo[MAXNUMBINS+1];
| ^~~
g++ ../../obj/Linux_64/checkbcphd.o ../../obj/Linux_64/check_data.o ../../lib/Linux_64/libtt.a -lm -lz -o ../../rel/Linux_64/checkbcphd -lm -lz ../../lib/Linux_64/libtt.a -Wl,-z,relro -Wl,-z,now -Wl,--as-needed
mkdir -p ../../obj/Linux_64
/usr/bin/gcc -g -Wall -I../compute_qv -I../mktrain -I../mklut -I. -I -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c checkqvphd.c -o ../../obj/Linux_64/checkqvphd.o
g++ ../../obj/Linux_64/checkqvphd.o ../../obj/Linux_64/check_data.o ../../lib/Linux_64/libtt.a -lm -lz -o ../../rel/Linux_64/checkqvphd -lm -lz ../../lib/Linux_64/libtt.a -Wl,-z,relro -Wl,-z,now -Wl,--as-needed
make[2]: Leaving directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src/mkchk'
make[1]: Leaving directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/src'
dh_auto_test -O--sourcedirectory=src -O--no-parallel
rm -fr -- /tmp/dh-xdg-rundir-xJhtfQEv
create-stamp debian/debhelper-build-stamp
dh_testroot -O--sourcedirectory=src -O--no-parallel
dh_prep -O--sourcedirectory=src -O--no-parallel
rm -f -- debian/tracetuner.substvars
rm -fr -- debian/.debhelper/generated/tracetuner/ debian/tracetuner/ debian/tmp/
dh_installdirs -O--sourcedirectory=src -O--no-parallel
install -m0755 -d debian/tracetuner/usr/bin
debian/rules override_dh_auto_install
make[1]: Entering directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg'
dh_auto_install
install -m0755 -d /build/reproducible-path/tracetuner-3.0.6\~beta\+dfsg/debian/tracetuner
find rel -mindepth 2 -type f | xargs -r mv --target-directory=/build/reproducible-path/tracetuner-3.0.6~beta+dfsg/debian/tracetuner/usr/bin/
make[1]: Leaving directory '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg'
dh_installdocs -O--sourcedirectory=src -O--no-parallel
install -m0755 -d debian/tracetuner/usr/share/doc/tracetuner
install -m0755 -d debian/tracetuner/usr/share/doc/tracetuner
cp --reflink=auto -a ./src/README debian/tracetuner/usr/share/doc/tracetuner
cp --reflink=auto -a ./doc/RELEASE_NOTES debian/tracetuner/usr/share/doc/tracetuner
chmod -R u\+rw,go=rX debian/tracetuner/usr/share/doc
install -p -m0644 debian/README.Debian debian/tracetuner/usr/share/doc/tracetuner/README.Debian
install -p -m0644 debian/copyright debian/tracetuner/usr/share/doc/tracetuner/copyright
dh_installchangelogs -O--sourcedirectory=src -O--no-parallel
install -m0755 -d debian/tracetuner/usr/share/doc/tracetuner
install -p -m0644 debian/.debhelper/generated/tracetuner/dh_installchangelogs.dch.trimmed debian/tracetuner/usr/share/doc/tracetuner/changelog.Debian
dh_installman -O--sourcedirectory=src -O--no-parallel
install -m0755 -d debian/tracetuner/usr/share/man/man1/
install -p -m0644 ./debian/mans/train.1 debian/tracetuner/usr/share/man/man1/train.1
install -m0755 -d debian/tracetuner/usr/share/man/man1/
install -p -m0644 ./debian/mans/trainphd.1 debian/tracetuner/usr/share/man/man1/trainphd.1
install -m0755 -d debian/tracetuner/usr/share/man/man1/
install -p -m0644 ./debian/mans/ttuner.1 debian/tracetuner/usr/share/man/man1/ttuner.1
man-recode --to-code UTF-8 --suffix .dh-new debian/tracetuner/usr/share/man/man1/train.1
man-recode --to-code UTF-8 --suffix .dh-new debian/tracetuner/usr/share/man/man1/trainphd.1
man-recode --to-code UTF-8 --suffix .dh-new debian/tracetuner/usr/share/man/man1/ttuner.1
mv debian/tracetuner/usr/share/man/man1/train.1.dh-new debian/tracetuner/usr/share/man/man1/train.1
chmod 0644 -- debian/tracetuner/usr/share/man/man1/train.1
mv debian/tracetuner/usr/share/man/man1/trainphd.1.dh-new debian/tracetuner/usr/share/man/man1/trainphd.1
chmod 0644 -- debian/tracetuner/usr/share/man/man1/trainphd.1
mv debian/tracetuner/usr/share/man/man1/ttuner.1.dh-new debian/tracetuner/usr/share/man/man1/ttuner.1
chmod 0644 -- debian/tracetuner/usr/share/man/man1/ttuner.1
dh_installsystemduser -O--sourcedirectory=src -O--no-parallel
dh_perl -O--sourcedirectory=src -O--no-parallel
dh_link -O--sourcedirectory=src -O--no-parallel
dh_strip_nondeterminism -O--sourcedirectory=src -O--no-parallel
dh_compress -O--sourcedirectory=src -O--no-parallel
cd debian/tracetuner
chmod a-x usr/share/doc/tracetuner/README usr/share/doc/tracetuner/RELEASE_NOTES usr/share/doc/tracetuner/changelog.Debian usr/share/man/man1/train.1 usr/share/man/man1/trainphd.1 usr/share/man/man1/ttuner.1
gzip -9nf usr/share/doc/tracetuner/README usr/share/doc/tracetuner/RELEASE_NOTES usr/share/doc/tracetuner/changelog.Debian usr/share/man/man1/train.1 usr/share/man/man1/trainphd.1 usr/share/man/man1/ttuner.1
cd '/build/reproducible-path/tracetuner-3.0.6~beta+dfsg'
dh_fixperms -O--sourcedirectory=src -O--no-parallel
find debian/tracetuner ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
find debian/tracetuner/usr/share/doc -type f -a -true -a ! -regex 'debian/tracetuner/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
find debian/tracetuner/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755
find debian/tracetuner/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644
find debian/tracetuner -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644
find debian/tracetuner/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x
dh_missing -O--sourcedirectory=src -O--no-parallel
dh_dwz -a -O--sourcedirectory=src -O--no-parallel
install -m0755 -d debian/tracetuner/usr/lib/debug/.dwz/i386-linux-gnu
dwz -mdebian/tracetuner/usr/lib/debug/.dwz/i386-linux-gnu/tracetuner.debug -M/usr/lib/debug/.dwz/i386-linux-gnu/tracetuner.debug -- debian/tracetuner/usr/bin/checkbc debian/tracetuner/usr/bin/checkbcphd debian/tracetuner/usr/bin/checkqv debian/tracetuner/usr/bin/checkqvphd debian/tracetuner/usr/bin/train debian/tracetuner/usr/bin/ttuner
objcopy --compress-debug-sections debian/tracetuner/usr/lib/debug/.dwz/i386-linux-gnu/tracetuner.debug
chmod 0644 -- debian/tracetuner/usr/lib/debug/.dwz/i386-linux-gnu/tracetuner.debug
dh_strip -a -O--sourcedirectory=src -O--no-parallel
install -m0755 -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/a2
objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/checkbcphd debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/a2/9eaa5bd4256e8da59c88ead99a22e454fa0029.debug
chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/a2/9eaa5bd4256e8da59c88ead99a22e454fa0029.debug
strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/checkbcphd
objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/a2/9eaa5bd4256e8da59c88ead99a22e454fa0029.debug debian/tracetuner/usr/bin/checkbcphd
install -m0755 -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/68
objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/checkqv debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/68/fa333886d6b17569f6d8dc3c29bea222f003ce.debug
chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/68/fa333886d6b17569f6d8dc3c29bea222f003ce.debug
strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/checkqv
objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/68/fa333886d6b17569f6d8dc3c29bea222f003ce.debug debian/tracetuner/usr/bin/checkqv
install -m0755 -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/98
objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/checkqvphd debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/98/db12dcd4dca553d5b69dd6f4bb193cb9be9fb6.debug
chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/98/db12dcd4dca553d5b69dd6f4bb193cb9be9fb6.debug
strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/checkqvphd
objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/98/db12dcd4dca553d5b69dd6f4bb193cb9be9fb6.debug debian/tracetuner/usr/bin/checkqvphd
install -m0755 -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/74
objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/checkbc debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/74/7c7e0a45e6254359ae96122dd94d4c1417adf5.debug
chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/74/7c7e0a45e6254359ae96122dd94d4c1417adf5.debug
strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/checkbc
objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/74/7c7e0a45e6254359ae96122dd94d4c1417adf5.debug debian/tracetuner/usr/bin/checkbc
install -m0755 -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/09
objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/train debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/09/294a099ea5189c4efa42051f376e132302296b.debug
chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/09/294a099ea5189c4efa42051f376e132302296b.debug
strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/train
objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/09/294a099ea5189c4efa42051f376e132302296b.debug debian/tracetuner/usr/bin/train
install -m0755 -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/dd
objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/ttuner debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/dd/0ea5b53c1309c6d4bb2cfe4faf7b31602943ab.debug
chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/dd/0ea5b53c1309c6d4bb2cfe4faf7b31602943ab.debug
strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/ttuner
objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/dd/0ea5b53c1309c6d4bb2cfe4faf7b31602943ab.debug debian/tracetuner/usr/bin/ttuner
install -m0755 -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.dwz
cp --reflink=auto -a debian/tracetuner/usr/lib/debug/.dwz/i386-linux-gnu debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.dwz
rm -fr debian/tracetuner/usr/lib/debug/.dwz
rmdir -p --ignore-fail-on-non-empty debian/tracetuner/usr/lib/debug
install -m0755 -d debian/.debhelper/tracetuner/dbgsym-root/usr/share/doc
ln -s tracetuner debian/.debhelper/tracetuner/dbgsym-root/usr/share/doc/tracetuner-dbgsym
install -m0755 -d debian/.debhelper/tracetuner
dh_makeshlibs -a -O--sourcedirectory=src -O--no-parallel
rm -f debian/tracetuner/DEBIAN/shlibs
dh_shlibdeps -a -O--sourcedirectory=src -O--no-parallel
install -m0755 -d debian/tracetuner/DEBIAN
dpkg-shlibdeps -Tdebian/tracetuner.substvars debian/tracetuner/usr/bin/checkbcphd debian/tracetuner/usr/bin/checkqv debian/tracetuner/usr/bin/checkqvphd debian/tracetuner/usr/bin/checkbc debian/tracetuner/usr/bin/train debian/tracetuner/usr/bin/ttuner
dh_installdeb -O--sourcedirectory=src -O--no-parallel
install -m0755 -d debian/tracetuner/DEBIAN
dh_gencontrol -O--sourcedirectory=src -O--no-parallel
install -m0755 -d debian/tracetuner/DEBIAN
echo misc:Depends= >> debian/tracetuner.substvars
echo misc:Pre-Depends= >> debian/tracetuner.substvars
install -m0755 -d debian/.debhelper/tracetuner/dbgsym-root/DEBIAN
dpkg-gencontrol -ptracetuner -ldebian/changelog -Tdebian/tracetuner.substvars -cdebian/control -Pdebian/.debhelper/tracetuner/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=tracetuner-dbgsym "-DDepends=tracetuner (= \${binary:Version})" "-DDescription=debug symbols for tracetuner" "-DBuild-Ids=09294a099ea5189c4efa42051f376e132302296b 68fa333886d6b17569f6d8dc3c29bea222f003ce 747c7e0a45e6254359ae96122dd94d4c1417adf5 98db12dcd4dca553d5b69dd6f4bb193cb9be9fb6 a29eaa5bd4256e8da59c88ead99a22e454fa0029 dd0ea5b53c1309c6d4bb2cfe4faf7b31602943ab" -DSection=debug -UMulti-Arch -UReplaces -UBreaks
chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/DEBIAN/control
dpkg-gencontrol -ptracetuner -ldebian/changelog -Tdebian/tracetuner.substvars -cdebian/control -Pdebian/tracetuner
chmod 0644 -- debian/tracetuner/DEBIAN/control
dh_md5sums -O--sourcedirectory=src -O--no-parallel
install -m0755 -d debian/tracetuner/DEBIAN
cd debian/tracetuner >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
chmod 0644 -- debian/tracetuner/DEBIAN/md5sums
install -m0755 -d debian/.debhelper/tracetuner/dbgsym-root/DEBIAN
cd debian/.debhelper/tracetuner/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/DEBIAN/md5sums
dh_builddeb -O--sourcedirectory=src -O--no-parallel
dpkg-deb --root-owner-group --build debian/tracetuner ..
dpkg-deb --root-owner-group --build debian/.debhelper/tracetuner/dbgsym-root ..
dpkg-deb: building package 'tracetuner-dbgsym' in '../tracetuner-dbgsym_3.0.6~beta+dfsg-3_i386.deb'.
dpkg-deb: building package 'tracetuner' in '../tracetuner_3.0.6~beta+dfsg-3_i386.deb'.
dpkg-genbuildinfo --build=binary -O../tracetuner_3.0.6~beta+dfsg-3_i386.buildinfo
dpkg-genchanges --build=binary -O../tracetuner_3.0.6~beta+dfsg-3_i386.changes
dpkg-genchanges: info: binary-only upload (no source code included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: not including original source code in upload
I: copying local configuration
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/25281 and its subdirectories
I: Current time: Thu Dec 26 00:01:26 -12 2024
I: pbuilder-time-stamp: 1735214486