Tue Jan 28 20:01:42 UTC 2025  I: starting to build ghmm/trixie/armhf on jenkins on '2025-01-28 20:01'
Tue Jan 28 20:01:42 UTC 2025  I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_14/9647/console.log
Tue Jan 28 20:01:42 UTC 2025  I: Downloading source for trixie/ghmm=0.9~rc3-11
--2025-01-28 20:01:42--  http://deb.debian.org/debian/pool/main/g/ghmm/ghmm_0.9%7erc3-11.dsc
Connecting to 46.16.76.132:3128... connected.
Proxy request sent, awaiting response... 200 OK
Length: 1709 (1.7K) [text/prs.lines.tag]
Saving to: ‘ghmm_0.9~rc3-11.dsc’

     0K .                                                     100%  251M=0s

2025-01-28 20:01:42 (251 MB/s) - ‘ghmm_0.9~rc3-11.dsc’ saved [1709/1709]

Tue Jan 28 20:01:42 UTC 2025  I: ghmm_0.9~rc3-11.dsc
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256

Format: 3.0 (quilt)
Source: ghmm
Binary: ghmm, libghmm-dev, libghmm1t64
Architecture: any
Version: 0.9~rc3-11
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Steffen Moeller <moeller@debian.org>, Étienne Mollier <emollier@debian.org>
Homepage: https://sourceforge.net/p/ghmm/wiki/Home/
Standards-Version: 4.7.0
Vcs-Browser: https://salsa.debian.org/med-team/ghmm
Vcs-Git: https://salsa.debian.org/med-team/ghmm.git
Testsuite: autopkgtest
Testsuite-Triggers: build-essential, liblapacke-dev
Build-Depends: dpkg-dev (>= 1.22.5), debhelper-compat (= 13), dh-sequence-python3, d-shlibs (>= 0.106~), python3-dev, python3-setuptools, pkgconf, libxml2-dev, libgsl-dev, liblapacke-dev, zlib1g-dev, swig
Package-List:
 ghmm deb science optional arch=any
 libghmm-dev deb libdevel optional arch=any
 libghmm1t64 deb libs optional arch=any
Checksums-Sha1:
 c3f2be9c27010a6f82df6f136821673112ed41a5 770526 ghmm_0.9~rc3.orig.tar.gz
 00c1b200261eab62a001e4df91fd7a089ebfad88 25200 ghmm_0.9~rc3-11.debian.tar.xz
Checksums-Sha256:
 c42462ff4f87aadd5efe7bb6adb59657786ed71046ba924111bc28c7cbb588d0 770526 ghmm_0.9~rc3.orig.tar.gz
 e3490ef0050c153878f44604a21efc64b68cbed07cbf4a1cfa2424dbe1688c92 25200 ghmm_0.9~rc3-11.debian.tar.xz
Files:
 4e2db5a83bbd5b2a7cc6476657c0c4d7 770526 ghmm_0.9~rc3.orig.tar.gz
 099470c5e79c6621c34edfdf992277d4 25200 ghmm_0.9~rc3-11.debian.tar.xz

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Tue Jan 28 20:01:42 UTC 2025  I: Checking whether the package is not for us
Tue Jan 28 20:01:42 UTC 2025  I: Starting 1st build on remote node virt32z-armhf-rb.debian.net.
Tue Jan 28 20:01:42 UTC 2025  I: Preparing to do remote build '1' on virt32z-armhf-rb.debian.net.
Tue Jan 28 20:04:31 UTC 2025  I: Deleting $TMPDIR on virt32z-armhf-rb.debian.net.
I: pbuilder: network access will be disabled during build
I: Current time: Tue Jan 28 08:01:48 -12 2025
I: pbuilder-time-stamp: 1738094508
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: Copying source file
I: copying [ghmm_0.9~rc3-11.dsc]
I: copying [./ghmm_0.9~rc3.orig.tar.gz]
I: copying [./ghmm_0.9~rc3-11.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./ghmm_0.9~rc3-11.dsc: unsupported subcommand
dpkg-source: info: extracting ghmm in ghmm-0.9~rc3
dpkg-source: info: unpacking ghmm_0.9~rc3.orig.tar.gz
dpkg-source: info: unpacking ghmm_0.9~rc3-11.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying fix_imp_func_issue.patch
dpkg-source: info: applying buildError.patch
dpkg-source: info: applying pythonpaths.patch
dpkg-source: info: applying fix_libxml2_config.patch
dpkg-source: info: applying 2to3.patch
dpkg-source: info: applying python3_build_system.patch
dpkg-source: info: applying lapacke.patch
dpkg-source: info: applying python3_syntax.patch
dpkg-source: info: applying fix-test-mcmc.patch
dpkg-source: info: applying python3.12.patch
dpkg-source: info: applying gcc-14.patch
dpkg-source: info: applying python3.12-syntax.patch
dpkg-source: info: applying python3.13-build-fix.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/12198/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='armhf'
  DEBIAN_FRONTEND='noninteractive'
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 '
  DISTRIBUTION='trixie'
  HOME='/root'
  HOST_ARCH='armhf'
  IFS=' 	
  '
  INVOCATION_ID='647c80e5ca8e4c40a1e1d56b4bc9dd5b'
  LANG='C'
  LANGUAGE='en_US:en'
  LC_ALL='C'
  MAIL='/var/mail/root'
  OPTIND='1'
  PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games'
  PBCURRENTCOMMANDLINEOPERATION='build'
  PBUILDER_OPERATION='build'
  PBUILDER_PKGDATADIR='/usr/share/pbuilder'
  PBUILDER_PKGLIBDIR='/usr/lib/pbuilder'
  PBUILDER_SYSCONFDIR='/etc'
  PPID='12198'
  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.RChFkPUn/pbuilderrc_zZ1o --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.RChFkPUn/b1 --logfile b1/build.log ghmm_0.9~rc3-11.dsc'
  SUDO_GID='110'
  SUDO_UID='103'
  SUDO_USER='jenkins'
  TERM='unknown'
  TZ='/usr/share/zoneinfo/Etc/GMT+12'
  USER='root'
  _='/usr/bin/systemd-run'
  http_proxy='http://10.0.0.15:3142/'
I: uname -a
  Linux virt32z 6.1.0-30-armmp-lpae #1 SMP Debian 6.1.124-1 (2025-01-12) armv7l GNU/Linux
I: ls -l /bin
  lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/12198/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: armhf
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: dpkg-dev (>= 1.22.5), debhelper-compat (= 13), dh-sequence-python3, d-shlibs (>= 0.106~), python3-dev, python3-setuptools, pkgconf, libxml2-dev, libgsl-dev, liblapacke-dev, zlib1g-dev, swig
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19568 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 dh-sequence-python3; however:
  Package dh-sequence-python3 is not installed.
 pbuilder-satisfydepends-dummy depends on d-shlibs (>= 0.106~); however:
  Package d-shlibs is not installed.
 pbuilder-satisfydepends-dummy depends on python3-dev; however:
  Package python3-dev is not installed.
 pbuilder-satisfydepends-dummy depends on python3-setuptools; however:
  Package python3-setuptools is not installed.
 pbuilder-satisfydepends-dummy depends on pkgconf; however:
  Package pkgconf is not installed.
 pbuilder-satisfydepends-dummy depends on libxml2-dev; however:
  Package libxml2-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libgsl-dev; however:
  Package libgsl-dev is not installed.
 pbuilder-satisfydepends-dummy depends on liblapacke-dev; however:
  Package liblapacke-dev is not installed.
 pbuilder-satisfydepends-dummy depends on zlib1g-dev; however:
  Package zlib1g-dev is not installed.
 pbuilder-satisfydepends-dummy depends on swig; however:
  Package swig 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} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libblas-dev{a} libblas3{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgsl-dev{a} libgsl28{a} libgslcblas0{a} libicu-dev{a} libicu72{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack-dev{a} liblapack3{a} liblapacke{a} liblapacke-dev{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libpkgconf3{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} libtmglib-dev{a} libtmglib3{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} libxml2-dev{a} m4{a} man-db{a} media-types{a} netbase{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} python3{a} python3-autocommand{a} python3-dev{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} swig{a} tzdata{a} zlib1g-dev{a} 
The following packages are RECOMMENDED but will NOT be installed:
  ca-certificates curl javascript-common libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 
0 packages upgraded, 86 newly installed, 0 to remove and 0 not upgraded.
Need to get 54.3 MB of archives. After unpacking 220 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian trixie/main armhf libpython3.13-minimal armhf 3.13.1-3 [844 kB]
Get: 2 http://deb.debian.org/debian trixie/main armhf libexpat1 armhf 2.6.4-1 [83.5 kB]
Get: 3 http://deb.debian.org/debian trixie/main armhf python3.13-minimal armhf 3.13.1-3 [1840 kB]
Get: 4 http://deb.debian.org/debian trixie/main armhf python3-minimal armhf 3.13.1-2 [27.0 kB]
Get: 5 http://deb.debian.org/debian trixie/main armhf media-types all 10.1.0 [26.9 kB]
Get: 6 http://deb.debian.org/debian trixie/main armhf netbase all 6.4 [12.8 kB]
Get: 7 http://deb.debian.org/debian trixie/main armhf tzdata all 2024b-6 [257 kB]
Get: 8 http://deb.debian.org/debian trixie/main armhf libffi8 armhf 3.4.6-1 [20.0 kB]
Get: 9 http://deb.debian.org/debian trixie/main armhf readline-common all 8.2-6 [69.4 kB]
Get: 10 http://deb.debian.org/debian trixie/main armhf libreadline8t64 armhf 8.2-6 [146 kB]
Get: 11 http://deb.debian.org/debian trixie/main armhf libpython3.13-stdlib armhf 3.13.1-3 [1850 kB]
Get: 12 http://deb.debian.org/debian trixie/main armhf python3.13 armhf 3.13.1-3 [740 kB]
Get: 13 http://deb.debian.org/debian trixie/main armhf libpython3-stdlib armhf 3.13.1-2 [9952 B]
Get: 14 http://deb.debian.org/debian trixie/main armhf python3 armhf 3.13.1-2 [28.0 kB]
Get: 15 http://deb.debian.org/debian trixie/main armhf sensible-utils all 0.0.24 [24.8 kB]
Get: 16 http://deb.debian.org/debian trixie/main armhf libmagic-mgc armhf 1:5.45-3+b1 [314 kB]
Get: 17 http://deb.debian.org/debian trixie/main armhf libmagic1t64 armhf 1:5.45-3+b1 [98.5 kB]
Get: 18 http://deb.debian.org/debian trixie/main armhf file armhf 1:5.45-3+b1 [42.3 kB]
Get: 19 http://deb.debian.org/debian trixie/main armhf gettext-base armhf 0.23.1-1 [238 kB]
Get: 20 http://deb.debian.org/debian trixie/main armhf libuchardet0 armhf 0.0.8-1+b2 [65.6 kB]
Get: 21 http://deb.debian.org/debian trixie/main armhf groff-base armhf 1.23.0-7 [1095 kB]
Get: 22 http://deb.debian.org/debian trixie/main armhf bsdextrautils armhf 2.40.4-1 [84.6 kB]
Get: 23 http://deb.debian.org/debian trixie/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB]
Get: 24 http://deb.debian.org/debian trixie/main armhf man-db armhf 2.13.0-1 [1382 kB]
Get: 25 http://deb.debian.org/debian trixie/main armhf m4 armhf 1.4.19-5 [272 kB]
Get: 26 http://deb.debian.org/debian trixie/main armhf autoconf all 2.72-3 [493 kB]
Get: 27 http://deb.debian.org/debian trixie/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get: 28 http://deb.debian.org/debian trixie/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get: 29 http://deb.debian.org/debian trixie/main armhf autopoint all 0.23.1-1 [770 kB]
Get: 30 http://deb.debian.org/debian trixie/main armhf d-shlibs all 0.109 [11.1 kB]
Get: 31 http://deb.debian.org/debian trixie/main armhf libdebhelper-perl all 13.23 [90.6 kB]
Get: 32 http://deb.debian.org/debian trixie/main armhf libtool all 2.5.4-2 [539 kB]
Get: 33 http://deb.debian.org/debian trixie/main armhf dh-autoreconf all 20 [17.1 kB]
Get: 34 http://deb.debian.org/debian trixie/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get: 35 http://deb.debian.org/debian trixie/main armhf libfile-stripnondeterminism-perl all 1.14.1-1 [19.6 kB]
Get: 36 http://deb.debian.org/debian trixie/main armhf dh-strip-nondeterminism all 1.14.1-1 [8584 B]
Get: 37 http://deb.debian.org/debian trixie/main armhf libelf1t64 armhf 0.192-4 [184 kB]
Get: 38 http://deb.debian.org/debian trixie/main armhf dwz armhf 0.15-1+b2 [106 kB]
Get: 39 http://deb.debian.org/debian trixie/main armhf libunistring5 armhf 1.3-1 [444 kB]
Get: 40 http://deb.debian.org/debian trixie/main armhf libicu72 armhf 72.1-6 [9086 kB]
Get: 41 http://deb.debian.org/debian trixie/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.2+b1 [605 kB]
Get: 42 http://deb.debian.org/debian trixie/main armhf gettext armhf 0.23.1-1 [1560 kB]
Get: 43 http://deb.debian.org/debian trixie/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 44 http://deb.debian.org/debian trixie/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get: 45 http://deb.debian.org/debian trixie/main armhf debhelper all 13.23 [919 kB]
Get: 46 http://deb.debian.org/debian trixie/main armhf python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 47 http://deb.debian.org/debian trixie/main armhf python3-more-itertools all 10.6.0-1 [65.3 kB]
Get: 48 http://deb.debian.org/debian trixie/main armhf python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 49 http://deb.debian.org/debian trixie/main armhf python3-typeguard all 4.4.1-1 [37.0 kB]
Get: 50 http://deb.debian.org/debian trixie/main armhf python3-inflect all 7.3.1-2 [32.4 kB]
Get: 51 http://deb.debian.org/debian trixie/main armhf python3-jaraco.context all 6.0.0-1 [7984 B]
Get: 52 http://deb.debian.org/debian trixie/main armhf python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 53 http://deb.debian.org/debian trixie/main armhf python3-pkg-resources all 75.6.0-1 [222 kB]
Get: 54 http://deb.debian.org/debian trixie/main armhf python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 55 http://deb.debian.org/debian trixie/main armhf python3-zipp all 3.21.0-1 [10.6 kB]
Get: 56 http://deb.debian.org/debian trixie/main armhf python3-setuptools all 75.6.0-1 [720 kB]
Get: 57 http://deb.debian.org/debian trixie/main armhf dh-python all 6.20250108 [113 kB]
Get: 58 http://deb.debian.org/debian trixie/main armhf icu-devtools armhf 72.1-6 [189 kB]
Get: 59 http://deb.debian.org/debian trixie/main armhf libblas3 armhf 3.12.0-4 [111 kB]
Get: 60 http://deb.debian.org/debian trixie/main armhf libblas-dev armhf 3.12.0-4 [121 kB]
Get: 61 http://deb.debian.org/debian trixie/main armhf libexpat1-dev armhf 2.6.4-1 [140 kB]
Get: 62 http://deb.debian.org/debian trixie/main armhf libgfortran5 armhf 14.2.0-12 [263 kB]
Get: 63 http://deb.debian.org/debian trixie/main armhf libgslcblas0 armhf 2.8+dfsg-5 [85.5 kB]
Get: 64 http://deb.debian.org/debian trixie/main armhf libgsl28 armhf 2.8+dfsg-5 [812 kB]
Get: 65 http://deb.debian.org/debian trixie/main armhf libgsl-dev armhf 2.8+dfsg-5 [1030 kB]
Get: 66 http://deb.debian.org/debian trixie/main armhf libicu-dev armhf 72.1-6 [10.1 MB]
Get: 67 http://deb.debian.org/debian trixie/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB]
Get: 68 http://deb.debian.org/debian trixie/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB]
Get: 69 http://deb.debian.org/debian trixie/main armhf libjs-sphinxdoc all 8.1.3-4 [30.4 kB]
Get: 70 http://deb.debian.org/debian trixie/main armhf liblapack3 armhf 3.12.0-4 [1828 kB]
Get: 71 http://deb.debian.org/debian trixie/main armhf liblapack-dev armhf 3.12.0-4 [1930 kB]
Get: 72 http://deb.debian.org/debian trixie/main armhf libtmglib3 armhf 3.12.0-4 [90.2 kB]
Get: 73 http://deb.debian.org/debian trixie/main armhf liblapacke armhf 3.12.0-4 [306 kB]
Get: 74 http://deb.debian.org/debian trixie/main armhf libtmglib-dev armhf 3.12.0-4 [93.5 kB]
Get: 75 http://deb.debian.org/debian trixie/main armhf liblapacke-dev armhf 3.12.0-4 [293 kB]
Get: 76 http://deb.debian.org/debian trixie/main armhf libpkgconf3 armhf 1.8.1-4 [31.8 kB]
Get: 77 http://deb.debian.org/debian trixie/main armhf libpython3.13 armhf 3.13.1-3 [1869 kB]
Get: 78 http://deb.debian.org/debian trixie/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1+b1 [905 kB]
Get: 79 http://deb.debian.org/debian trixie/main armhf libpython3.13-dev armhf 3.13.1-3 [3802 kB]
Get: 80 http://deb.debian.org/debian trixie/main armhf libpython3-dev armhf 3.13.1-2 [10.2 kB]
Get: 81 http://deb.debian.org/debian trixie/main armhf libxml2-dev armhf 2.12.7+dfsg+really2.9.14-0.2+b1 [723 kB]
Get: 82 http://deb.debian.org/debian trixie/main armhf pkgconf-bin armhf 1.8.1-4 [29.2 kB]
Get: 83 http://deb.debian.org/debian trixie/main armhf pkgconf armhf 1.8.1-4 [26.1 kB]
Get: 84 http://deb.debian.org/debian trixie/main armhf python3.13-dev armhf 3.13.1-3 [504 kB]
Get: 85 http://deb.debian.org/debian trixie/main armhf python3-dev armhf 3.13.1-2 [26.1 kB]
Get: 86 http://deb.debian.org/debian trixie/main armhf swig armhf 4.3.0-0.1 [1440 kB]
Fetched 54.3 MB in 5s (11.5 MB/s)
Preconfiguring packages ...
Selecting previously unselected package libpython3.13-minimal:armhf.
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Setting up libpython3.13-dev:armhf (3.13.1-3) ...
Setting up python3-typing-extensions (4.12.2-2) ...
Setting up python3-more-itertools (10.6.0-1) ...
Setting up libpython3-dev:armhf (3.13.1-2) ...
Setting up python3-jaraco.functools (4.1.0-1) ...
Setting up python3-jaraco.context (6.0.0-1) ...
Setting up python3.13-dev (3.13.1-3) ...
Setting up python3-typeguard (4.4.1-1) ...
Setting up debhelper (13.23) ...
Setting up python3-inflect (7.3.1-2) ...
Setting up python3-jaraco.text (4.0.0-1) ...
Setting up python3-dev (3.13.1-2) ...
Setting up python3-pkg-resources (75.6.0-1) ...
Setting up python3-setuptools (75.6.0-1) ...
Setting up dh-python (6.20250108) ...
Processing triggers for libc-bin (2.40-6) ...
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/ghmm-0.9~rc3/ && 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  > ../ghmm_0.9~rc3-11_source.changes
dpkg-buildpackage: info: source package ghmm
dpkg-buildpackage: info: source version 0.9~rc3-11
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Nilesh Patra <nilesh@debian.org>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
 debian/rules clean
dh clean
   debian/rules override_dh_auto_clean
make[1]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
if [ -r Makefile ]; then /usr/bin/make clean; fi
find . -name Makefile -delete
find . \( -name "*.o" -o -name "*.lo" \) -delete
rm -f ghmmwrapper/ghmmwrapper.py ghmmwrapper/ghmmwrapper_wrap.c
rm -rf HMMEd/build/ ghmmwrapper/build/ HMMEd/HMMEd.egg-info HMMEd/dist
rm -rf ghmmwrapper/ghmmwrapper.egg-info ghmmwrapper/dist
rm -f config.h config.log config.status
rm -f libtool stamp-h1 tests/chmm_test.2JNcXz
rm -f tools/ghmm-config
rm -rf ghmm/.deps/ tests/.deps/ tools/.deps/
rm -rf ghmm/ghmmconfig.h
make[1]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
   dh_clean
	rm -f debian/debhelper-build-stamp
	rm -rf debian/.debhelper/
	rm -f -- debian/ghmm.substvars debian/libghmm-dev.substvars debian/libghmm1t64.substvars debian/files
	rm -fr -- debian/ghmm/ debian/tmp/ debian/libghmm-dev/ debian/libghmm1t64/
	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
   dh_update_autotools_config
	cp -an --reflink=auto config.guess debian/.debhelper/bucket/files/9be3de218833c076786b919dc34aab691611f4cd73316e7705f2673e2c41921b.tmp
	mv debian/.debhelper/bucket/files/9be3de218833c076786b919dc34aab691611f4cd73316e7705f2673e2c41921b.tmp debian/.debhelper/bucket/files/9be3de218833c076786b919dc34aab691611f4cd73316e7705f2673e2c41921b
	cp -f /usr/share/misc/config.guess ./config.guess
	cp -an --reflink=auto config.sub debian/.debhelper/bucket/files/3cd488ca40af79af9b139188c440d64d3cf52eee56f4908907b61e12850646cf.tmp
	mv debian/.debhelper/bucket/files/3cd488ca40af79af9b139188c440d64d3cf52eee56f4908907b61e12850646cf.tmp debian/.debhelper/bucket/files/3cd488ca40af79af9b139188c440d64d3cf52eee56f4908907b61e12850646cf
	cp -f /usr/share/misc/config.sub ./config.sub
   dh_autoreconf
	find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a  -type f -exec md5sum {} + -o -type l -printf "symlink  %p
" > debian/autoreconf.before
	grep -q ^XDT_ configure.in
	autoreconf -f -i
autoreconf: warning: autoconf input should be named 'configure.ac', not 'configure.in'
aclocal: warning: autoconf input should be named 'configure.ac', not 'configure.in'
libtoolize: putting auxiliary files in '.'.
libtoolize: copying file './ltmain.sh'
libtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.in,
libtoolize: and rerunning libtoolize and aclocal.
libtoolize: Consider adding '-I m4' to ACLOCAL_AMFLAGS in Makefile.am.
aclocal: warning: autoconf input should be named 'configure.ac', not 'configure.in'
configure.in:40: warning: file 'version.m4' included several times
configure.in:47: warning: 'AM_CONFIG_HEADER': this macro is obsolete.
configure.in:47: You should use the 'AC_CONFIG_HEADERS' macro instead.
./lib/autoconf/general.m4:2434: AC_DIAGNOSE is expanded from...
aclocal.m4:9951: AM_CONFIG_HEADER is expanded from...
configure.in:47: the top level
configure.in:63: warning: The macro 'AM_PROG_LIBTOOL' is obsolete.
configure.in:63: You should run autoupdate.
aclocal.m4:123: AM_PROG_LIBTOOL is expanded from...
configure.in:63: the top level
configure.in:75: warning: The macro 'AC_HELP_STRING' is obsolete.
configure.in:75: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
configure.in:75: the top level
configure.in:93: warning: The macro 'AC_HELP_STRING' is obsolete.
configure.in:93: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
configure.in:93: the top level
configure.in:104: warning: The macro 'AC_LANG_C' is obsolete.
configure.in:104: You should run autoupdate.
./lib/autoconf/c.m4:72: AC_LANG_C is expanded from...
configure.in:104: the top level
configure.in:111: warning: The macro 'AC_HEADER_STDC' is obsolete.
configure.in:111: You should run autoupdate.
./lib/autoconf/headers.m4:663: AC_HEADER_STDC is expanded from...
configure.in:111: the top level
configure.in:117: warning: The macro 'AC_HEADER_TIME' is obsolete.
configure.in:117: You should run autoupdate.
./lib/autoconf/headers.m4:702: AC_HEADER_TIME is expanded from...
configure.in:117: the top level
configure.in:136: warning: The macro 'AC_HELP_STRING' is obsolete.
configure.in:136: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
configure.in:136: the top level
configure.in:135: warning: The macro 'AC_TRY_RUN' is obsolete.
configure.in:135: You should run autoupdate.
./lib/autoconf/general.m4:2995: AC_TRY_RUN is expanded from...
acinclude.m4:10: AM_PATH_GSL is expanded from...
lib/m4sugar/m4sh.m4:697: AS_IF is expanded from...
./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from...
configure.in:135: the top level
configure.in:135: warning: The macro 'AC_TRY_LINK' is obsolete.
configure.in:135: You should run autoupdate.
./lib/autoconf/general.m4:2918: AC_TRY_LINK is expanded from...
acinclude.m4:10: AM_PATH_GSL is expanded from...
lib/m4sugar/m4sh.m4:697: AS_IF is expanded from...
./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from...
configure.in:135: the top level
configure.in:135: warning: The macro 'AC_TRY_COMPILE' is obsolete.
configure.in:135: You should run autoupdate.
./lib/autoconf/general.m4:2845: AC_TRY_COMPILE is expanded from...
lib/m4sugar/m4sh.m4:697: AS_IF is expanded from...
./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from...
configure.in:135: the top level
configure.in:135: warning: The macro 'AC_TRY_LINK' is obsolete.
configure.in:135: You should run autoupdate.
./lib/autoconf/general.m4:2918: AC_TRY_LINK is expanded from...
lib/m4sugar/m4sh.m4:697: AS_IF is expanded from...
./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from...
configure.in:135: the top level
configure.in:194: warning: The macro 'AC_HELP_STRING' is obsolete.
configure.in:194: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
configure.in:194: the top level
configure.in:207: warning: The macro 'AC_HELP_STRING' is obsolete.
configure.in:207: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
configure.in:207: the top level
configure.in:284: warning: The macro 'AC_HELP_STRING' is obsolete.
configure.in:284: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
./lib/autoconf/general.m4:1553: AC_ARG_WITH is expanded from...
configure.in:284: the top level
configure.in:315: warning: AC_OUTPUT should be used without arguments.
configure.in:315: You should run autoupdate.
autoheader: warning: autoconf input should be named 'configure.ac', not 'configure.in'
automake: warning: autoconf input should be named 'configure.ac', not 'configure.in'
configure.in:62: installing './compile'
configure.in:49: installing './missing'
ghmm/Makefile.am:77: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS')
automake: warning: autoconf input should be named 'configure.ac', not 'configure.in'
ghmm/Makefile.am: installing './depcomp'
tests/Makefile.am:51: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS')
parallel-tests: installing './test-driver'
tools/Makefile.am:48: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS')
	find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a  -type f -exec md5sum {} + -o -type l -printf "symlink  %p
" > debian/autoreconf.after
   debian/rules override_dh_auto_configure
make[1]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
dh_auto_configure --sourcedirectory=/build/reproducible-path/ghmm-0.9~rc3 -- --enable-lapacke
	./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --enable-lapacke
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a race-free mkdir -p... /usr/bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether gcc accepts -g... yes
checking for gcc option to enable C11 features... none needed
checking whether gcc understands -c and -o together... yes
checking whether make supports the include directive... yes (GNU style)
checking dependency style of gcc... none
checking build system type... arm-unknown-linux-gnueabihf
checking host system type... arm-unknown-linux-gnueabihf
checking how to print strings... printf
checking for a sed that does not truncate output... /usr/bin/sed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for fgrep... /usr/bin/grep -F
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
checking how to convert arm-unknown-linux-gnueabihf file names to arm-unknown-linux-gnueabihf format... func_convert_file_noop
checking how to convert arm-unknown-linux-gnueabihf file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for file... file
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ranlib... ranlib
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for a working dd... /usr/bin/dd
checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
checking for mt... no
checking if : is a manifest tool... no
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for sys/time.h... yes
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for gawk... (cached) mawk
checking for doxygen... no
checking for rm... /usr/bin/rm
checking for pkg-config... /usr/bin/pkg-config
checking for expect... no
checking for runtest... no
configure: obsolete features disabled
configure: unsupported features disabled
checking for pthread_join in -lpthread... yes
checking for egrep... (cached) /usr/bin/grep -E
checking for an ANSI C-conforming const... yes
checking for size_t... yes
checking whether struct tm is in sys/time.h or time.h... time.h
checking for sqrt in -lm... yes
checking for exp in -lm... yes
checking for pow in -lm... yes
configure: "not using gsl"
checking for cos in -lm... yes
configure: "not using diagonal covariance matrix hack"
checking for lapacke with pkg-config... yes
configure: using internal Mersenne-Twister random number generator
checking for python3... /usr/bin/python3
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating ghmm/Makefile
config.status: creating ghmm/ghmmconfig.h
config.status: creating tools/Makefile
config.status: creating tests/Makefile
config.status: creating tests/data/Makefile
config.status: creating tools/ghmm-config
config.status: creating ghmmwrapper/Makefile
config.status: creating HMMEd/Makefile
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
/usr/bin/rm: cannot remove 'libtoolT': No such file or directory
dh_auto_configure --buildsystem=pybuild --sourcedirectory=HMMEd
	pybuild --configure -i python{version} -p 3.13 --dir HMMEd
I: pybuild base:311: python3.13 setup.py config 
make[1]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
	rm -f debian/ghmm.debhelper.log debian/libghmm-dev.debhelper.log debian/libghmm1t64.debhelper.log
   debian/rules override_dh_auto_build
make[1]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
dh_auto_build
	make -j3
make[2]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
make  all-recursive
make[3]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
Making all in ghmm
make[4]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/ghmm'
Making all in .
make[5]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/ghmm'
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o rng.lo rng.c
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o randvar.lo randvar.c
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o matrixop.lo matrixop.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c randvar.c  -fPIC -DPIC -o .libs/randvar.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c rng.c  -fPIC -DPIC -o .libs/rng.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c matrixop.c  -fPIC -DPIC -o .libs/matrixop.o
rng.c: In function 'ghmm_rng_init':
rng.c:67:3: warning: argument 2 null where non-null expected [-Wnonnull]
   67 |   initstate(1, ighmm_rng_state, sizeof(ghmm_rng_state_t));
      |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from rng.c:40:
/usr/include/stdlib.h:530:14: note: in a call to function 'initstate' declared 'nonnull'
  530 | extern char *initstate (unsigned int __seed, char *__statebuf,
      |              ^~~~~~~~~
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c rng.c -o rng.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o gauss_tail.lo gauss_tail.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c randvar.c -o randvar.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c matrixop.c -o matrixop.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c gauss_tail.c  -fPIC -DPIC -o .libs/gauss_tail.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c gauss_tail.c -o gauss_tail.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o mes.lo mes.c
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o ghmm_internals.lo ghmm_internals.c
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o mprintf.lo mprintf.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c mes.c  -fPIC -DPIC -o .libs/mes.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c ghmm_internals.c  -fPIC -DPIC -o .libs/ghmm_internals.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c mprintf.c  -fPIC -DPIC -o .libs/mprintf.o
ghmm_internals.c: In function 'ighmm_log_out':
ghmm_internals.c:69:17: warning: '__builtin_strncat' specified bound depends on the length of the source argument [-Wstringop-overflow=]
   69 |       message = strncat(message, error_str, slen);
      |                 ^
In function 'process_external_log',
    inlined from 'ighmm_log_out' at ghmm_internals.c:83:5:
ghmm_internals.c:64:14: note: length computed here
   64 |   int slen = strlen(error_str);
      |              ^~~~~~~~~~~~~~~~~
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c ghmm_internals.c -o ghmm_internals.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o vector.lo vector.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c vector.c  -fPIC -DPIC -o .libs/vector.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c mes.c -o mes.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c vector.c -o vector.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c mprintf.c -o mprintf.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o matrix.lo matrix.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c matrix.c  -fPIC -DPIC -o .libs/matrix.o
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o scanner.lo scanner.c
matrix.c: In function 'ighmm_cmatrix_stat_free':
matrix.c:176:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  176 |   mes_check_ptr (matrix, return (-1));
      |                                     ^
matrix.c: In function 'ighmm_dmatrix_stat_free':
matrix.c:214:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  214 |   mes_check_ptr (matrix, return (-1));
      |                                     ^
matrix.c: In function 'ighmm_cmatrix_3d_free':
matrix.c:270:35: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  270 |   mes_check_ptr(matrix, return(-1));
      |                                   ^
matrix.c: In function 'ighmm_cmatrix_free':
matrix.c:285:36: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  285 |   mes_check_ptr(matrix, return (-1));
      |                                    ^
matrix.c: In function 'ighmm_dmatrix_free':
matrix.c:343:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  343 |   mes_check_ptr (matrix, return (-1));
      |                                     ^
matrix.c: In function 'ighmm_dmatrix_3d_free':
matrix.c:378:35: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  378 |   mes_check_ptr(matrix, return(-1));
      |                                   ^
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c scanner.c  -fPIC -DPIC -o .libs/scanner.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c scanner.c -o scanner.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o linkedlist.lo linkedlist.c
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o sequence.lo sequence.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c matrix.c -o matrix.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c linkedlist.c  -fPIC -DPIC -o .libs/linkedlist.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sequence.c  -fPIC -DPIC -o .libs/sequence.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c linkedlist.c -o linkedlist.o >/dev/null 2>&1
sequence.c: In function 'ghmm_dseq_subseq_free':
sequence.c:685:33: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  685 |   mes_check_ptr (sq, return (-1));
      |                                 ^
sequence.c: In function 'ghmm_cseq_subseq_free':
sequence.c:715:34: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  715 |   mes_check_ptr (sqd, return (-1));
      |                                  ^
sequence.c: In function 'ghmm_dseq_free':
sequence.c:1189:30: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
 1189 |   mes_check_ptr(sq, return -1);
      |                              ^
sequence.c: In function 'ghmm_cseq_free':
sequence.c:1226:31: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
 1226 |   mes_check_ptr(sqd, return -1);
      |                               ^
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o psequence.lo psequence.c
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o xmlreader.lo xmlreader.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c psequence.c  -fPIC -DPIC -o .libs/psequence.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c xmlreader.c  -fPIC -DPIC -o .libs/xmlreader.o
psequence.c: In function 'ghmm_dpseq_free':
psequence.c:78:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
   78 |   mes_check_ptr(seq, return(-1));
      |                                ^
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c psequence.c -o psequence.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o xmlwriter.lo xmlwriter.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c xmlwriter.c  -fPIC -DPIC -o .libs/xmlwriter.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sequence.c -o sequence.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c xmlwriter.c -o xmlwriter.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c xmlreader.c -o xmlreader.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o model.lo model.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c model.c  -fPIC -DPIC -o .libs/model.o
model.c: In function 'ghmm_dmodel_free':
model.c:632:33: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  632 |   mes_check_ptr (mo, return (-1));
      |                                 ^
model.c:634:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  634 |   mes_check_ptr (m, return (-1));
      |                                ^
model.c: In function 'ghmm_dstate_clean':
model.c:1758:35: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
 1758 |   mes_check_ptr (my_state, return;);
      |                                   ^
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o foba.lo foba.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c foba.c  -fPIC -DPIC -o .libs/foba.o
foba.c: In function 'ghmm_dmodel_backward':
foba.c:286:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  286 |     mes_check_0 (scale[t], goto STOP);
      |                                     ^
foba.c: In function 'ghmm_dmodel_label_backward':
foba.c:848:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  848 |     mes_check_0 (scale[t], goto STOP);
      |                                     ^
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o viterbi.lo viterbi.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c viterbi.c  -fPIC -DPIC -o .libs/viterbi.o
viterbi.c: In function 'viterbi_free':
viterbi.c:71:31: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
   71 |     mes_check_ptr(v, return -1);
      |                               ^
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c viterbi.c -o viterbi.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c foba.c -o foba.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o reestimate.lo reestimate.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c reestimate.c  -fPIC -DPIC -o .libs/reestimate.o
reestimate.c: In function 'reestimate_free':
reestimate.c:79:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
   79 |   mes_check_ptr (r, return (-1));
      |                                ^
reestimate.c: In function 'reestimate_setlambda':
reestimate.c:306:38: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  306 |   mes_check_0 (r->pi_denom, goto STOP);
      |                                      ^
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c model.c -o model.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c reestimate.c -o reestimate.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o gradescent.lo gradescent.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c gradescent.c  -fPIC -DPIC -o .libs/gradescent.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c gradescent.c -o gradescent.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o kbest.lo kbest.c
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o discrime.lo discrime.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c kbest.c  -fPIC -DPIC -o .libs/kbest.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c discrime.c  -fPIC -DPIC -o .libs/discrime.o
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o modelutil.lo modelutil.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c modelutil.c  -fPIC -DPIC -o .libs/modelutil.o
modelutil.c: In function 'topo_free':
modelutil.c:89:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
   89 |   mes_check_ptr (v, return (-1));
      |                                ^
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c modelutil.c -o modelutil.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c kbest.c -o kbest.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o cluster.lo cluster.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c cluster.c  -fPIC -DPIC -o .libs/cluster.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c cluster.c -o cluster.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o root_finder.lo root_finder.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c root_finder.c  -fPIC -DPIC -o .libs/root_finder.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c root_finder.c -o root_finder.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o smodel.lo smodel.c
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o sfoba.lo sfoba.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c smodel.c  -fPIC -DPIC -o .libs/smodel.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sfoba.c  -fPIC -DPIC -o .libs/sfoba.o
smodel.c: In function 'ghmm_cmodel_free':
smodel.c:765:34: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  765 |   mes_check_ptr (smo, return (-1));
      |                                  ^
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sfoba.c -o sfoba.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o sviterbi.lo sviterbi.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c discrime.c -o discrime.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sviterbi.c  -fPIC -DPIC -o .libs/sviterbi.o
sviterbi.c: In function 'sviterbi_free':
sviterbi.c:89:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
   89 |   mes_check_ptr (v, return (-1));
      |                                ^
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sviterbi.c -o sviterbi.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c smodel.c -o smodel.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o sreestimate.lo sreestimate.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sreestimate.c  -fPIC -DPIC -o .libs/sreestimate.o
sreestimate.c: In function 'sreestimate_free':
sreestimate.c:174:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  174 |   mes_check_ptr (r, return (-1));
      |                                ^
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o scluster.lo scluster.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sreestimate.c -o sreestimate.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c scluster.c  -fPIC -DPIC -o .libs/scluster.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c scluster.c -o scluster.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o sgenerate.lo sgenerate.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sgenerate.c  -fPIC -DPIC -o .libs/sgenerate.o
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o smixturehmm.lo smixturehmm.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c smixturehmm.c  -fPIC -DPIC -o .libs/smixturehmm.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c smixturehmm.c -o smixturehmm.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o smap_classify.lo smap_classify.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c smap_classify.c  -fPIC -DPIC -o .libs/smap_classify.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c smap_classify.c -o smap_classify.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o sdmodel.lo sdmodel.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sgenerate.c -o sgenerate.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sdmodel.c  -fPIC -DPIC -o .libs/sdmodel.o
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o sdfoba.lo sdfoba.c
sdmodel.c: In function 'ghmm_dsmodel_free':
sdmodel.c:211:33: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  211 |   mes_check_ptr (mo, return (-1));
      |                                 ^
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sdfoba.c  -fPIC -DPIC -o .libs/sdfoba.o
sdfoba.c: In function 'ghmm_dsmodel_backward':
sdfoba.c:336:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  336 |     mes_check_0 (scale[t], goto STOP);
      |                                     ^
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o sdviterbi.lo sdviterbi.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sdviterbi.c  -fPIC -DPIC -o .libs/sdviterbi.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sdfoba.c -o sdfoba.o >/dev/null 2>&1
sdviterbi.c: In function 'sdviterbi_free':
sdviterbi.c:111:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  111 |   mes_check_ptr (v, return (-1));
      |                                ^
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sdmodel.c -o sdmodel.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o pmodel.lo pmodel.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c pmodel.c  -fPIC -DPIC -o .libs/pmodel.o
pmodel.c: In function 'ghmm_dpmodel_free':
pmodel.c:127:31: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  127 |   mes_check_ptr(mo, return(-1));
      |                               ^
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c sdviterbi.c -o sdviterbi.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c pmodel.c -o pmodel.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o pviterbi.lo pviterbi.c
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o pviterbi_propagate.lo pviterbi_propagate.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c pviterbi.c  -fPIC -DPIC -o .libs/pviterbi.o
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o fbgibbs.lo fbgibbs.c
pviterbi.c: In function 'pviterbi_free':
pviterbi.c:151:30: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  151 |   mes_check_ptr(v, return(-1));
      |                              ^
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c pviterbi_propagate.c  -fPIC -DPIC -o .libs/pviterbi_propagate.o
pviterbi_propagate.c: In function 'pviterbi_propagate_free':
pviterbi_propagate.c:255:30: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  255 |   mes_check_ptr(v, return(-1));
      |                              ^
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c fbgibbs.c  -fPIC -DPIC -o .libs/fbgibbs.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c pviterbi.c -o pviterbi.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c fbgibbs.c -o fbgibbs.o >/dev/null 2>&1
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c pviterbi_propagate.c -o pviterbi_propagate.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o cfbgibbs.lo cfbgibbs.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c cfbgibbs.c  -fPIC -DPIC -o .libs/cfbgibbs.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -c cfbgibbs.c -o cfbgibbs.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=link gcc -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -version-info 1:0:0 -Wl,-z,relro -Wl,-z,now -o libghmm.la -rpath /usr/lib/arm-linux-gnueabihf rng.lo randvar.lo matrixop.lo gauss_tail.lo mes.lo ghmm_internals.lo mprintf.lo vector.lo matrix.lo scanner.lo linkedlist.lo sequence.lo psequence.lo xmlreader.lo xmlwriter.lo model.lo foba.lo viterbi.lo reestimate.lo gradescent.lo kbest.lo discrime.lo modelutil.lo cluster.lo root_finder.lo smodel.lo sfoba.lo sviterbi.lo sreestimate.lo scluster.lo sgenerate.lo smixturehmm.lo smap_classify.lo sdmodel.lo sdfoba.lo sdviterbi.lo pmodel.lo pviterbi.lo pviterbi_propagate.lo fbgibbs.lo cfbgibbs.lo  -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
libtool: link: gcc -shared  -fPIC -DPIC  .libs/rng.o .libs/randvar.o .libs/matrixop.o .libs/gauss_tail.o .libs/mes.o .libs/ghmm_internals.o .libs/mprintf.o .libs/vector.o .libs/matrix.o .libs/scanner.o .libs/linkedlist.o .libs/sequence.o .libs/psequence.o .libs/xmlreader.o .libs/xmlwriter.o .libs/model.o .libs/foba.o .libs/viterbi.o .libs/reestimate.o .libs/gradescent.o .libs/kbest.o .libs/discrime.o .libs/modelutil.o .libs/cluster.o .libs/root_finder.o .libs/smodel.o .libs/sfoba.o .libs/sviterbi.o .libs/sreestimate.o .libs/scluster.o .libs/sgenerate.o .libs/smixturehmm.o .libs/smap_classify.o .libs/sdmodel.o .libs/sdfoba.o .libs/sdviterbi.o .libs/pmodel.o .libs/pviterbi.o .libs/pviterbi_propagate.o .libs/fbgibbs.o .libs/cfbgibbs.o   -lm -lpthread -llapacke -lxml2  -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now   -Wl,-soname -Wl,libghmm.so.1 -o .libs/libghmm.so.1.0.0
libtool: link: (cd ".libs" && rm -f "libghmm.so.1" && ln -s "libghmm.so.1.0.0" "libghmm.so.1")
libtool: link: (cd ".libs" && rm -f "libghmm.so" && ln -s "libghmm.so.1.0.0" "libghmm.so")
libtool: link: ar cr .libs/libghmm.a  rng.o randvar.o matrixop.o gauss_tail.o mes.o ghmm_internals.o mprintf.o vector.o matrix.o scanner.o linkedlist.o sequence.o psequence.o xmlreader.o xmlwriter.o model.o foba.o viterbi.o reestimate.o gradescent.o kbest.o discrime.o modelutil.o cluster.o root_finder.o smodel.o sfoba.o sviterbi.o sreestimate.o scluster.o sgenerate.o smixturehmm.o smap_classify.o sdmodel.o sdfoba.o sdviterbi.o pmodel.o pviterbi.o pviterbi_propagate.o fbgibbs.o cfbgibbs.o
libtool: link: ranlib .libs/libghmm.a
libtool: link: ( cd ".libs" && rm -f "libghmm.la" && ln -s "../libghmm.la" "libghmm.la" )
make[5]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/ghmm'
make[4]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/ghmm'
Making all in tools
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make  all-recursive
make[5]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tools'
Making all in .
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gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o probdist.o probdist.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o cluster.o cluster.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o scluster.o scluster.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o smix_hmm.o smix_hmm.c
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o cluster cluster.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o probdist probdist.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o scluster scluster.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o cluster cluster.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o probdist probdist.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o scluster scluster.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o smix_hmm smix_hmm.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o smix_hmm smix_hmm.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
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Making all in tests
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gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o randvar_test.o randvar_test.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o root_finder_test.o root_finder_test.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o coin_toss_test.o coin_toss_test.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o two_states_three_symbols.o two_states_three_symbols.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o libxml-test.o libxml-test.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o chmm.o chmm.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o chmm_test.o chmm_test.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o shmm_viterbi_test.o shmm_viterbi_test.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o test_gsl_ran_gaussian_tail.o test_gsl_ran_gaussian_tail.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o sequences_test.o sequences_test.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o sequences_old_format.o sequences_old_format.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o label_higher_order_test.o label_higher_order_test.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o read_fa.o read_fa.c
gcc -DHAVE_CONFIG_H -I. -I.. -I..  -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2  -c -o mcmc.o mcmc.c
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o randvar_test randvar_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o root_finder_test root_finder_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o coin_toss_test coin_toss_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o randvar_test randvar_test.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o root_finder_test root_finder_test.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o coin_toss_test coin_toss_test.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o two_states_three_symbols two_states_three_symbols.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o libxml-test libxml-test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o two_states_three_symbols two_states_three_symbols.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o chmm chmm.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o libxml-test libxml-test.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o chmm_test chmm_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o chmm chmm.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o shmm_viterbi_test shmm_viterbi_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o test_gsl_ran_gaussian_tail test_gsl_ran_gaussian_tail.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o chmm_test chmm_test.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o shmm_viterbi_test shmm_viterbi_test.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o test_gsl_ran_gaussian_tail test_gsl_ran_gaussian_tail.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o sequences_test sequences_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o sequences_old_format sequences_old_format.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o label_higher_order_test label_higher_order_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o sequences_old_format sequences_old_format.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o sequences_test sequences_test.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o label_higher_order_test label_higher_order_test.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o read_fa read_fa.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
/bin/bash ../libtool  --tag=CC   --mode=link gcc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf  -I/usr/include/libxml2   -Wl,-z,relro -Wl,-z,now -o mcmc mcmc.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread  -llapacke  -lxml2 
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libtool: link: gcc -g -O2 -Werror=implicit-function-declaration "-ffile-prefix-map=/build/reproducible-path/ghmm-0.9~rc3=." -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/arm-linux-gnueabihf -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -o mcmc mcmc.o  ../ghmm/.libs/libghmm.a -lm -lpthread -llapacke -lxml2
make[5]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tests'
make[4]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tests'
Making all in ghmmwrapper
make[4]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/ghmmwrapper'
Making all in .
make[5]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/ghmmwrapper'
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make[5]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/ghmmwrapper'
/usr/bin/python3 setup.py build
file ghmmwrapper.py (for module ghmmwrapper) not found
file ghmmwrapper.py (for module ghmmwrapper) not found
ghmmwrapper_wrap.c: In function 'delete_ghmm_alphabet':
ghmmwrapper_wrap.c:3778:23: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
 3778 |             for(i=0; i<self->size; ++i)
      |                       ^
ghmmwrapper_wrap.c: In function 'ghmm_cmodel_getStateName':
ghmmwrapper_wrap.c:4031:16: warning: the comparison will always evaluate as 'true' for the pointer operand in 'self->s + (sizetype)(index * 64)' must not be NULL [-Waddress]
 4031 |             if((self->s + index) && index < self->N) return (self->s + index)->desc;
      |                ^
ghmmwrapper_wrap.c:4031:43: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
 4031 |             if((self->s + index) && index < self->N) return (self->s + index)->desc;
      |                                           ^
ghmmwrapper_wrap.c: In function 'ghmm_dbackground_setName':
ghmmwrapper_wrap.c:4064:20: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
 4064 |           if(index < self->n){
      |                    ^
ghmmwrapper_wrap.c: In function 'ghmm_dmodel_getStateName':
ghmmwrapper_wrap.c:4112:16: warning: the comparison will always evaluate as 'true' for the pointer operand in 'self->s + (sizetype)(index * 56)' must not be NULL [-Waddress]
 4112 |             if((self->s + index) && index < self->N) return (self->s + index)->desc;
      |                ^
ghmmwrapper_wrap.c:4112:43: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
 4112 |             if((self->s + index) && index < self->N) return (self->s + index)->desc;
      |                                           ^
ghmmwrapper_wrap.c: In function 'int_matrix_alloc':
ghmmwrapper_wrap.c:4223:28: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
 4223 |                 for (i=0; i<rows; ++i) mat[i] = malloc(cols * sizeof(int));
      |                            ^
ghmmwrapper_wrap.c: In function 'int_matrix_free':
ghmmwrapper_wrap.c:4230:28: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
 4230 |                 for (i=0; i<rows; ++i) free(mat[i]);
      |                            ^
ghmmwrapper_wrap.c: In function 'double_matrix_alloc':
ghmmwrapper_wrap.c:4243:28: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
 4243 |                 for (i=0; i<rows; ++i) mat[i] = malloc(cols * sizeof(double));
      |                            ^
ghmmwrapper_wrap.c: In function 'double_matrix_free':
ghmmwrapper_wrap.c:4250:28: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
 4250 |                 for (i=0; i<rows; ++i) free(mat[i]);
      |                            ^
ghmmwrapper_wrap.c: In function '_wrap_list2int_array':
ghmmwrapper_wrap.c:26182:21: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
26182 |       for (i = 0; i < arg2; i++) {
      |                     ^
ghmmwrapper_wrap.c: In function '_wrap_int_array2list':
ghmmwrapper_wrap.c:26242:18: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
26242 |       for (i=0; i<*arg3; i++) {
      |                  ^
ghmmwrapper_wrap.c: In function '_wrap_list2double_array':
ghmmwrapper_wrap.c:26276:21: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
26276 |       for (i = 0; i < arg2; i++) {
      |                     ^
ghmmwrapper_wrap.c: In function '_wrap_double_array2list':
ghmmwrapper_wrap.c:26343:18: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
26343 |       for (i=0; i<*arg3; i++) {
      |                  ^
pclasschange.c: In function 'set_to_lt_sum':
pclasschange.c:97:7: warning: array subscript 'threshold_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
   97 |     td->seq_index = seq_index;
      |       ^~
pclasschange.c:96:10: note: object of size 4 allocated by 'calloc'
   96 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c:98:7: warning: array subscript 'threshold_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
   98 |     td->threshold = threshold;
      |       ^~
pclasschange.c:96:10: note: object of size 4 allocated by 'calloc'
   96 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c:99:7: warning: array subscript 'threshold_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
   99 |     td->offset_x = offset_x;
      |       ^~
pclasschange.c:96:10: note: object of size 4 allocated by 'calloc'
   96 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c:100:7: warning: array subscript 'threshold_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
  100 |     td->offset_y = offset_y;
      |       ^~
pclasschange.c:96:10: note: object of size 4 allocated by 'calloc'
   96 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c: In function 'set_to_gt_sum':
pclasschange.c:112:7: warning: array subscript 'threshold_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
  112 |     td->seq_index = seq_index;
      |       ^~
pclasschange.c:111:10: note: object of size 4 allocated by 'calloc'
  111 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c:113:7: warning: array subscript 'threshold_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
  113 |     td->threshold = threshold;
      |       ^~
pclasschange.c:111:10: note: object of size 4 allocated by 'calloc'
  111 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c:114:7: warning: array subscript 'threshold_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
  114 |     td->offset_x = offset_x;
      |       ^~
pclasschange.c:111:10: note: object of size 4 allocated by 'calloc'
  111 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c:115:7: warning: array subscript 'threshold_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
  115 |     td->offset_y = offset_y;
      |       ^~
pclasschange.c:111:10: note: object of size 4 allocated by 'calloc'
  111 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c: In function 'set_to_boolean_and':
pclasschange.c:127:7: warning: array subscript 'boolean_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
  127 |     td->seq_index = seq_index;
      |       ^~
pclasschange.c:126:10: note: object of size 4 allocated by 'calloc'
  126 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c:128:7: warning: array subscript 'boolean_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
  128 |     td->offset_x = offset_x;
      |       ^~
pclasschange.c:126:10: note: object of size 4 allocated by 'calloc'
  126 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c:129:7: warning: array subscript 'boolean_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
  129 |     td->offset_y = offset_y;
      |       ^~
pclasschange.c:126:10: note: object of size 4 allocated by 'calloc'
  126 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c: In function 'set_to_boolean_or':
pclasschange.c:141:7: warning: array subscript 'boolean_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
  141 |     td->seq_index = seq_index;
      |       ^~
pclasschange.c:140:10: note: object of size 4 allocated by 'calloc'
  140 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c:142:7: warning: array subscript 'boolean_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
  142 |     td->offset_x = offset_x;
      |       ^~
pclasschange.c:140:10: note: object of size 4 allocated by 'calloc'
  140 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
pclasschange.c:143:7: warning: array subscript 'boolean_user_data[0]' is partly outside array bounds of 'unsigned char[4]' [-Warray-bounds=]
  143 |     td->offset_y = offset_y;
      |       ^~
pclasschange.c:140:10: note: object of size 4 allocated by 'calloc'
  140 |     td = calloc (1, sizeof (td));
      |          ^~~~~~~~~~~~~~~~~~~~~~~
make[4]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/ghmmwrapper'
Making all in HMMEd
make[4]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/HMMEd'
Making all in .
make[5]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/HMMEd'
make[5]: Nothing to be done for 'all-am'.
make[5]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/HMMEd'
/usr/bin/python3 setup.py build
make[4]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/HMMEd'
make[4]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
make[4]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
make[3]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
make[2]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
dh_auto_build --buildsystem=pybuild --sourcedirectory=HMMEd
	pybuild --build -i python{version} -p 3.13 --dir HMMEd
I: pybuild base:311: /usr/bin/python3 setup.py build 
make[1]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
	rm -f debian/ghmm.debhelper.log debian/libghmm-dev.debhelper.log debian/libghmm1t64.debhelper.log
   debian/rules override_dh_auto_test
make[1]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
/usr/bin/make --directory=tests
make[2]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tests'
Making all in data
make[3]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tests/data'
Making all in .
make[4]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tests/data'
make[4]: Nothing to be done for 'all-am'.
make[4]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tests/data'
make[3]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tests/data'
make[3]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tests'
make[3]: Nothing to be done for 'all-am'.
make[3]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tests'
make[2]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tests'
make[1]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
   create-stamp debian/debhelper-build-stamp
   dh_prep
	rm -f -- debian/ghmm.substvars debian/libghmm-dev.substvars debian/libghmm1t64.substvars
	rm -fr -- debian/.debhelper/generated/ghmm/ debian/ghmm/ debian/tmp/ debian/.debhelper/generated/libghmm-dev/ debian/libghmm-dev/ debian/.debhelper/generated/libghmm1t64/ debian/libghmm1t64/
   debian/rules override_dh_auto_install
make[1]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
dh_auto_install
	install -m0755 -d /build/reproducible-path/ghmm-0.9\~rc3/debian/tmp
	make -j1 install DESTDIR=/build/reproducible-path/ghmm-0.9\~rc3/debian/tmp AM_UPDATE_INFO_DIR=no
make[2]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
Making install in ghmm
make[3]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/ghmm'
Making install in .
make[4]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/ghmm'
make[5]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/ghmm'
 /usr/bin/mkdir -p '/build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/lib/arm-linux-gnueabihf'
 /bin/bash ../libtool   --mode=install /usr/bin/install -c   libghmm.la '/build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/libghmm.so.1.0.0 /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/lib/arm-linux-gnueabihf/libghmm.so.1.0.0
libtool: install: (cd /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libghmm.so.1.0.0 libghmm.so.1 || { rm -f libghmm.so.1 && ln -s libghmm.so.1.0.0 libghmm.so.1; }; })
libtool: install: (cd /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libghmm.so.1.0.0 libghmm.so || { rm -f libghmm.so && ln -s libghmm.so.1.0.0 libghmm.so; }; })
libtool: install: /usr/bin/install -c .libs/libghmm.lai /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/lib/arm-linux-gnueabihf/libghmm.la
libtool: install: /usr/bin/install -c .libs/libghmm.a /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/lib/arm-linux-gnueabihf/libghmm.a
libtool: install: chmod 644 /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/lib/arm-linux-gnueabihf/libghmm.a
libtool: install: ranlib /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/lib/arm-linux-gnueabihf/libghmm.a
libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabihf'
 /usr/bin/mkdir -p '/build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/include/ghmm'
 /usr/bin/install -c -m 644 ghmm.h ghmmconfig.h sequence.h psequence.h xmlreader.h xmlwriter.h model.h foba.h viterbi.h gradescent.h kbest.h discrime.h cluster.h scluster.h reestimate.h sfoba.h sviterbi.h smodel.h sdmodel.h sdfoba.h sreestimate.h sgenerate.h smixturehmm.h smap_classify.h pmodel.h pviterbi.h pviterbi_propagate.h rng.h scanner.h obsolete.h unsupported.h fbgibbs.h cfbgibbs.h '/build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/include/ghmm'
make[5]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/ghmm'
make[4]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/ghmm'
make[3]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/ghmm'
Making install in tools
make[3]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tools'
make  install-recursive
make[4]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tools'
Making install in .
make[5]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tools'
make[6]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tools'
 /usr/bin/mkdir -p '/build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/bin'
  /bin/bash ../libtool   --mode=install /usr/bin/install -c probdist cluster scluster smix_hmm '/build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/bin'
libtool: install: /usr/bin/install -c probdist /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/bin/probdist
libtool: install: /usr/bin/install -c cluster /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/bin/cluster
libtool: install: /usr/bin/install -c scluster /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/bin/scluster
libtool: install: /usr/bin/install -c smix_hmm /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/bin/smix_hmm
 /usr/bin/mkdir -p '/build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/bin'
 /usr/bin/install -c ghmm-config '/build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/bin'
make[6]: Nothing to be done for 'install-data-am'.
make[6]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tools'
make[5]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tools'
make[4]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tools'
make[3]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tools'
Making install in tests
make[3]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tests'
Making install in data
make[4]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tests/data'
Making install in .
make[5]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tests/data'
make[6]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tests/data'
make[6]: Nothing to be done for 'install-exec-am'.
make[6]: Nothing to be done for 'install-data-am'.
make[6]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tests/data'
make[5]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tests/data'
make[4]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tests/data'
make[4]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tests'
make[5]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/tests'
make[5]: Nothing to be done for 'install-exec-am'.
make[5]: Nothing to be done for 'install-data-am'.
make[5]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tests'
make[4]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tests'
make[3]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/tests'
Making install in ghmmwrapper
make[3]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/ghmmwrapper'
Making all in .
make[4]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/ghmmwrapper'
make[4]: Nothing to be done for 'all-am'.
make[4]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/ghmmwrapper'
/usr/bin/python3 setup.py build
/usr/bin/python3 setup.py install --prefix=/build/reproducible-path/ghmm-0.9~rc3/debian/tmp//usr
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!

        ********************************************************************************
        Please avoid running ``setup.py`` directly.
        Instead, use pypa/build, pypa/installer or other
        standards-based tools.

        See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
        ********************************************************************************

!!
  self.initialize_options()
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: EasyInstallDeprecationWarning: easy_install command is deprecated.
!!

        ********************************************************************************
        Please avoid running ``setup.py`` and ``easy_install``.
        Instead, use pypa/build, pypa/installer or other
        standards-based tools.

        See https://github.com/pypa/setuptools/issues/917 for details.
        ********************************************************************************

!!
  self.initialize_options()
TEST FAILED: /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/local/lib/python3.13/dist-packages/ does NOT support .pth files
bad install directory or PYTHONPATH

You are attempting to install a package to a directory that is not
on PYTHONPATH and which Python does not read ".pth" files from.  The
installation directory you specified (via --install-dir, --prefix, or
the distutils default setting) was:

    /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/local/lib/python3.13/dist-packages/

and your PYTHONPATH environment variable currently contains:

    ''

Here are some of your options for correcting the problem:

* You can choose a different installation directory, i.e., one that is
  on PYTHONPATH or supports .pth files

* You can add the installation directory to the PYTHONPATH environment
  variable.  (It must then also be on PYTHONPATH whenever you run
  Python and want to use the package(s) you are installing.)

* You can set up the installation directory to support ".pth" files by
  using one of the approaches described here:

  https://setuptools.pypa.io/en/latest/deprecated/easy_install.html#custom-installation-locations


Please make the appropriate changes for your system and try again.
build/bdist.linux-armv7l/egg/modhmmer.py:185: SyntaxWarning: invalid escape sequence '\s'
  self.acc = gotoLine(f,re.compile("^NAME\s+([\w+\s*]+)" ) ).group(1)  # NAME as unique model identifier
zip_safe flag not set; analyzing archive contents...
__pycache__._ghmmwrapper.cpython-313: module references __file__
__pycache__.ghmm.cpython-313: module references __file__
/build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/local/lib/python3.13/dist-packages/ghmmwrapper-0.8-py3.13-linux-armv7l.egg/modhmmer.py:185: SyntaxWarning: invalid escape sequence '\s'
  self.acc = gotoLine(f,re.compile("^NAME\s+([\w+\s*]+)" ) ).group(1)  # NAME as unique model identifier
make[3]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/ghmmwrapper'
Making install in HMMEd
make[3]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3/HMMEd'
/usr/bin/python3 setup.py install --prefix=/build/reproducible-path/ghmm-0.9~rc3/debian/tmp//usr
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!

        ********************************************************************************
        Please avoid running ``setup.py`` directly.
        Instead, use pypa/build, pypa/installer or other
        standards-based tools.

        See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
        ********************************************************************************

!!
  self.initialize_options()
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: EasyInstallDeprecationWarning: easy_install command is deprecated.
!!

        ********************************************************************************
        Please avoid running ``setup.py`` and ``easy_install``.
        Instead, use pypa/build, pypa/installer or other
        standards-based tools.

        See https://github.com/pypa/setuptools/issues/917 for details.
        ********************************************************************************

!!
  self.initialize_options()
TEST FAILED: /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/local/lib/python3.13/dist-packages/ does NOT support .pth files
bad install directory or PYTHONPATH

You are attempting to install a package to a directory that is not
on PYTHONPATH and which Python does not read ".pth" files from.  The
installation directory you specified (via --install-dir, --prefix, or
the distutils default setting) was:

    /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/local/lib/python3.13/dist-packages/

and your PYTHONPATH environment variable currently contains:

    ''

Here are some of your options for correcting the problem:

* You can choose a different installation directory, i.e., one that is
  on PYTHONPATH or supports .pth files

* You can add the installation directory to the PYTHONPATH environment
  variable.  (It must then also be on PYTHONPATH whenever you run
  Python and want to use the package(s) you are installing.)

* You can set up the installation directory to support ".pth" files by
  using one of the approaches described here:

  https://setuptools.pypa.io/en/latest/deprecated/easy_install.html#custom-installation-locations


Please make the appropriate changes for your system and try again.
zip_safe flag not set; analyzing archive contents...
make[3]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3/HMMEd'
make[3]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
make[4]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
make[4]: Nothing to be done for 'install-exec-am'.
 /usr/bin/mkdir -p '/build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/share/ghmm'
 /usr/bin/install -c -m 644 doc/ghmm.dtd.1.0 '/build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/share/ghmm'
make[4]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
make[3]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
make[2]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
dh_auto_install --buildsystem=pybuild --sourcedirectory=HMMEd
	install -m0755 -d /build/reproducible-path/ghmm-0.9\~rc3/debian/tmp
	pybuild --install -i python{version} -p 3.13 --dir HMMEd --dest-dir=/build/reproducible-path/ghmm-0.9\~rc3/debian/tmp
I: pybuild base:311: /usr/bin/python3 setup.py install --root '/build/reproducible-path/ghmm-0.9~rc3/debian/python3-HMMEd' 
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!

        ********************************************************************************
        Please avoid running ``setup.py`` directly.
        Instead, use pypa/build, pypa/installer or other
        standards-based tools.

        See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
        ********************************************************************************

!!
  self.initialize_options()
make[1]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
	rm -f debian/ghmm.debhelper.log debian/libghmm-dev.debhelper.log debian/libghmm1t64.debhelper.log
   debian/rules override_dh_install
make[1]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
d-shlibmove --commit \
	    --t64 \
	    --multiarch \
	    --devunversioned \
	    --exclude-la \
	    --override s/libgsl23-dev/libgsl-dev/ \
	    --override s/liblapacke3-dev/liblapacke-dev/ \
	    --movedev debian/tmp/usr/include usr \
	    debian/tmp/usr/lib/*/*.so
Library package automatic movement utility
 --> liblapacke-dev package exists.
 --> libxml2-dev package exists.
set -e
install -d -m 755 debian/libghmm-dev/usr/lib/arm-linux-gnueabihf
install -d -m 755 debian/libghmm1t64/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libghmm.a debian/libghmm-dev/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libghmm.so debian/libghmm-dev/usr/lib/arm-linux-gnueabihf
mv /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/lib/arm-linux-gnueabihf/libghmm.so.1 debian/libghmm1t64/usr/lib/arm-linux-gnueabihf
mv /build/reproducible-path/ghmm-0.9~rc3/debian/tmp/usr/lib/arm-linux-gnueabihf/libghmm.so.1.0.0 debian/libghmm1t64/usr/lib/arm-linux-gnueabihf
PKGDEV=libghmm-dev
PKGSHL=libghmm1t64
install -d -m 755 debian/libghmm-dev/usr
mv debian/tmp/usr/include debian/libghmm-dev/usr
dh_install
	install -m0755 -d debian/ghmm//usr
	cp --reflink=auto -a debian/tmp/usr/bin debian/ghmm//usr/
	install -m0755 -d debian/ghmm//usr/share/ghmm
	cp --reflink=auto -a debian/tmp/usr/share/ghmm/ghmm.dtd.1.0 debian/ghmm//usr/share/ghmm/
	install -m0755 -d debian/libghmm-dev/usr/include/ghmm
	cp --reflink=auto -a ./ghmm/ghmm_internals.h ./ghmm/matrix.h ./ghmm/matrixop.h ./ghmm/mes.h ./ghmm/randvar.h debian/libghmm-dev/usr/include/ghmm/
cd /build/reproducible-path/ghmm-0.9~rc3/debian/ghmm/usr/bin/ && mv cluster ghmm-cluster
sed -i -e 's@ [^ ]*-f\(file\|debug\)-prefix-map=[^ ]*@@g' \
	/build/reproducible-path/ghmm-0.9~rc3/debian/ghmm/usr/bin/ghmm-config
find debian -name libghmm.la -delete
# temporarily copy over ghmmwrapper to the pybuild created dir
mkdir -p debian/python3-HMMEd/usr/lib/python3/dist-packages
mv debian/tmp/usr/local/lib/python3.*/dist-packages/ghmmwrapper-0.8-py3*.egg debian/python3-HMMEd/usr/lib/python3/dist-packages/ghmm
rm -rf debian/tmp/usr/local
find debian -type d -name __pycache__ | xargs rm -rf
make[1]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
   dh_installdocs
	install -m0755 -d debian/ghmm/usr/share/doc/ghmm
	install -m0755 -d debian/ghmm/usr/share/doc/ghmm
	cp --reflink=auto -a ./debian/tests/run-unit-test debian/ghmm/usr/share/doc/ghmm
	cp --reflink=auto -a ./debian/tests/ghmm_test.py debian/ghmm/usr/share/doc/ghmm
	chmod -R u\+rw,go=rX debian/ghmm/usr/share/doc
	install -p -m0644 debian/README.Debian debian/ghmm/usr/share/doc/ghmm/README.Debian
	install -p -m0644 debian/copyright debian/ghmm/usr/share/doc/ghmm/copyright
	install -m0755 -d debian/libghmm-dev/usr/share/doc/libghmm-dev
	install -p -m0644 debian/copyright debian/libghmm-dev/usr/share/doc/libghmm-dev/copyright
	install -m0755 -d debian/libghmm1t64/usr/share/doc/libghmm1t64
	install -p -m0644 debian/copyright debian/libghmm1t64/usr/share/doc/libghmm1t64/copyright
   dh_installchangelogs
	install -m0755 -d debian/ghmm/usr/share/doc/ghmm
	install -p -m0644 debian/.debhelper/generated/ghmm/dh_installchangelogs.dch.trimmed debian/ghmm/usr/share/doc/ghmm/changelog.Debian
	install -m0755 -d debian/libghmm-dev/usr/share/doc/libghmm-dev
	install -p -m0644 debian/.debhelper/generated/libghmm-dev/dh_installchangelogs.dch.trimmed debian/libghmm-dev/usr/share/doc/libghmm-dev/changelog.Debian
	install -m0755 -d debian/libghmm1t64/usr/share/doc/libghmm1t64
	install -p -m0644 debian/.debhelper/generated/libghmm1t64/dh_installchangelogs.dch.trimmed debian/libghmm1t64/usr/share/doc/libghmm1t64/changelog.Debian
   dh_installexamples
	install -m0755 -d debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./debian/tests/ghmm_test.py debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./debian/tests/autopkgtest.mk debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/chmm.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/chmm_test.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/coin_toss_test.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/label_higher_order_test.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/libxml-test.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/mcmc.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/randvar_test.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/read_fa.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/root_finder_test.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/sequences_old_format.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/sequences_test.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/shmm_viterbi_test.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/test_gsl_ran_gaussian_tail.c debian/ghmm/usr/share/doc/ghmm/examples
	cp --reflink=auto -a ./tests/two_states_three_symbols.c debian/ghmm/usr/share/doc/ghmm/examples
	rm -f debian/ghmm.debhelper.log debian/libghmm-dev.debhelper.log debian/libghmm1t64.debhelper.log
   debian/rules execute_after_dh_installexamples
make[1]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
# convert sequences_test.c from its national encoding
iconv -f ISO-8859-1 -t UTF-8 tests/sequences_test.c \
	-o debian/ghmm/usr/share/doc/ghmm/examples/sequences_test.c
make[1]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
   debian/rules override_dh_python3
make[1]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
# We do not provide a package python3-HMMEd thus copy the pybuild installed files over to ghmm
mv debian/python3-HMMEd/usr/bin/* debian/ghmm/usr/bin
mv debian/python3-HMMEd/usr/lib debian/ghmm/usr
dh_python3 -p ghmm
D: dh_python3 dh_python3:180: version: 6.20250108
D: dh_python3 dh_python3:181: argv: ['/usr/bin/dh_python3', '-p', 'ghmm']
D: dh_python3 dh_python3:182: options: Namespace(guess_deps=True, skip_private=False, verbose=True, arch=None, package=['ghmm'], no_package=None, remaining_packages=False, compile_all=False, vrange=None, regexpr=None, accept_upstream_versions=False, depends=None, depends_section=None, recommends=None, recommends_section=None, suggests=None, suggests_section=None, requires=None, shebang=None, ignore_shebangs=False, clean_dbg_pkg=True, no_ext_rename=False, no_shebang_rewrite=False, private_dir=None, O=None)
D: dh_python3 dh_python3:183: supported Python versions: 3.12,3.13 (default=3.13)
D: dh_python3 debhelper:174: source=ghmm, binary packages=['ghmm']
D: dh_python3 dh_python3:205: processing package ghmm...
D: dh_python3 fs:50: moving files from debian/ghmm/usr/lib/python3.13/dist-packages to debian/ghmm/usr/lib/python3/dist-packages/
D: dh_python3 tools:101: fix_shebang (debian/ghmm/usr/bin/ghmm-config): doesn't look like a shebang: #! /bin/sh
D: dh_python3 tools:101: fix_shebang (debian/ghmm/usr/bin/smix_hmm): cannot parse binary file
D: dh_python3 tools:101: fix_shebang (debian/ghmm/usr/bin/probdist): cannot parse binary file
D: dh_python3 tools:101: fix_shebang (debian/ghmm/usr/bin/ghmm-cluster): cannot parse binary file
D: dh_python3 tools:101: fix_shebang (debian/ghmm/usr/bin/scluster): cannot parse binary file
D: dh_python3 fs:338: package ghmm details = {'requires.txt': set(), 'egg-info': {'debian/ghmm/usr/lib/python3/dist-packages/HMMEd-0.8.egg-info/PKG-INFO'}, 'dist-info': set(), 'nsp.txt': set(), 'shebangs': {/usr/bin/python3}, 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': {Version('3.13')}, 'ext_no_version': set()}
D: dh_python3 depends:103: generating dependencies for package ghmm
D: dh_python3 depends:253: D={'python3 (>= 3.13~)', 'python3:any', 'python3 (<< 3.14)'}; R=[]; S=[]; E=[], B=[]; RT=[]
make[1]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
   dh_lintian
	install -m0755 -d debian/libghmm1t64/usr/share/lintian/overrides
	install -p -m0644 debian/libghmm1t64.lintian-overrides debian/libghmm1t64/usr/share/lintian/overrides/libghmm1t64
   dh_perl
   dh_link
	install -m0755 -d debian/ghmm/usr/lib/ghmm/bin
	rm -f debian/ghmm/usr/lib/ghmm/bin/cluster
	ln -s ../../../bin/ghmm-cluster debian/ghmm/usr/lib/ghmm/bin/cluster
	rm -f debian/libghmm-dev/usr/lib/arm-linux-gnueabihf/libghmm.so
	ln -s libghmm.so.1.0.0 debian/libghmm-dev/usr/lib/arm-linux-gnueabihf/libghmm.so
	rm -f debian/libghmm1t64/usr/lib/arm-linux-gnueabihf/libghmm.so.1
	ln -s libghmm.so.1.0.0 debian/libghmm1t64/usr/lib/arm-linux-gnueabihf/libghmm.so.1
   dh_strip_nondeterminism
   dh_compress
	cd debian/ghmm
	cd debian/libghmm-dev
	cd debian/libghmm1t64
	chmod a-x usr/share/doc/ghmm/changelog.Debian
	chmod a-x usr/share/doc/libghmm-dev/changelog.Debian
	gzip -9nf usr/share/doc/ghmm/changelog.Debian
	chmod a-x usr/share/doc/libghmm1t64/changelog.Debian
	gzip -9nf usr/share/doc/libghmm-dev/changelog.Debian
	cd '/build/reproducible-path/ghmm-0.9~rc3'
	gzip -9nf usr/share/doc/libghmm1t64/changelog.Debian
	cd '/build/reproducible-path/ghmm-0.9~rc3'
	cd '/build/reproducible-path/ghmm-0.9~rc3'
	rm -f debian/ghmm.debhelper.log
   debian/rules execute_before_dh_fixperms
make[1]: Entering directory '/build/reproducible-path/ghmm-0.9~rc3'
chmod -v -x debian/ghmm/usr/share/doc/ghmm/examples/*.c
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/chmm.c' changed from 0755 (rwxr-xr-x) to 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/chmm_test.c' retained as 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/coin_toss_test.c' changed from 0755 (rwxr-xr-x) to 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/label_higher_order_test.c' retained as 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/libxml-test.c' retained as 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/mcmc.c' retained as 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/randvar_test.c' retained as 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/read_fa.c' retained as 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/root_finder_test.c' changed from 0755 (rwxr-xr-x) to 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/sequences_old_format.c' retained as 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/sequences_test.c' retained as 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/shmm_viterbi_test.c' changed from 0755 (rwxr-xr-x) to 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/test_gsl_ran_gaussian_tail.c' changed from 0755 (rwxr-xr-x) to 0644 (rw-r--r--)
mode of 'debian/ghmm/usr/share/doc/ghmm/examples/two_states_three_symbols.c' changed from 0755 (rwxr-xr-x) to 0644 (rw-r--r--)
make[1]: Leaving directory '/build/reproducible-path/ghmm-0.9~rc3'
   dh_fixperms
	find debian/ghmm ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
	find debian/libghmm-dev ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
	find debian/libghmm1t64 ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
	find debian/libghmm-dev/usr/share/doc -type f -a -true -a ! -regex 'debian/libghmm-dev/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/ghmm/usr/share/doc -type f -a -true -a ! -regex 'debian/ghmm/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/libghmm1t64/usr/share/doc -type f -a -true -a ! -regex 'debian/libghmm1t64/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/libghmm-dev/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755
	find debian/ghmm/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755
	find debian/libghmm1t64/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755
	find debian/libghmm-dev/usr/include -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/ghmm -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/libghmm1t64/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/libghmm-dev -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/ghmm/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x
	find debian/libghmm1t64 -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/libghmm-dev/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w
	find debian/ghmm/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w
	find debian/libghmm1t64/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w
   dh_missing
   dh_dwz -a
	dwz -- debian/libghmm1t64/usr/lib/arm-linux-gnueabihf/libghmm.so.1.0.0
	install -m0755 -d debian/ghmm/usr/lib/debug/.dwz/arm-linux-gnueabihf
	dwz -mdebian/ghmm/usr/lib/debug/.dwz/arm-linux-gnueabihf/ghmm.debug -M/usr/lib/debug/.dwz/arm-linux-gnueabihf/ghmm.debug -- debian/ghmm/usr/bin/ghmm-cluster debian/ghmm/usr/bin/probdist debian/ghmm/usr/bin/scluster debian/ghmm/usr/bin/smix_hmm debian/ghmm/usr/lib/python3/dist-packages/ghmm/_ghmmwrapper.cpython-313-arm-linux-gnueabihf.so
	objcopy --compress-debug-sections debian/ghmm/usr/lib/debug/.dwz/arm-linux-gnueabihf/ghmm.debug
	chmod 0644 -- debian/ghmm/usr/lib/debug/.dwz/arm-linux-gnueabihf/ghmm.debug
   dh_strip -a
	strip --strip-debug --remove-section=.comment --remove-section=.note --enable-deterministic-archives -R .gnu.lto_\* -R .gnu.debuglto_\* -N __gnu_lto_slim -N __gnu_lto_v1 debian/libghmm-dev/usr/lib/arm-linux-gnueabihf/libghmm.a
	install -m0755 -d debian/.debhelper/libghmm1t64/dbgsym-root/usr/lib/debug/.build-id/af
	objcopy --only-keep-debug --compress-debug-sections debian/libghmm1t64/usr/lib/arm-linux-gnueabihf/libghmm.so.1.0.0 debian/.debhelper/libghmm1t64/dbgsym-root/usr/lib/debug/.build-id/af/3ded43ca18954d81826295a791ac1c85b0cef9.debug
	install -m0755 -d debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/d8
	objcopy --only-keep-debug --compress-debug-sections debian/ghmm/usr/lib/python3/dist-packages/ghmm/_ghmmwrapper.cpython-313-arm-linux-gnueabihf.so debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/d8/f406d9231c6ed2eb355b1c663d1842e13ea796.debug
	chmod 0644 -- debian/.debhelper/libghmm1t64/dbgsym-root/usr/lib/debug/.build-id/af/3ded43ca18954d81826295a791ac1c85b0cef9.debug
	strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libghmm1t64/usr/lib/arm-linux-gnueabihf/libghmm.so.1.0.0
	objcopy --add-gnu-debuglink debian/.debhelper/libghmm1t64/dbgsym-root/usr/lib/debug/.build-id/af/3ded43ca18954d81826295a791ac1c85b0cef9.debug debian/libghmm1t64/usr/lib/arm-linux-gnueabihf/libghmm.so.1.0.0
	install -m0755 -d debian/.debhelper/libghmm1t64/dbgsym-root/usr/share/doc
	ln -s libghmm1t64 debian/.debhelper/libghmm1t64/dbgsym-root/usr/share/doc/libghmm1t64-dbgsym
	install -m0755 -d debian/.debhelper/libghmm1t64
	chmod 0644 -- debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/d8/f406d9231c6ed2eb355b1c663d1842e13ea796.debug
	strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/ghmm/usr/lib/python3/dist-packages/ghmm/_ghmmwrapper.cpython-313-arm-linux-gnueabihf.so
	objcopy --add-gnu-debuglink debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/d8/f406d9231c6ed2eb355b1c663d1842e13ea796.debug debian/ghmm/usr/lib/python3/dist-packages/ghmm/_ghmmwrapper.cpython-313-arm-linux-gnueabihf.so
	install -m0755 -d debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/bd
	objcopy --only-keep-debug --compress-debug-sections debian/ghmm/usr/bin/smix_hmm debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/bd/41e932aba0f759c5d2a5d0333c0376c5aae769.debug
	chmod 0644 -- debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/bd/41e932aba0f759c5d2a5d0333c0376c5aae769.debug
	strip --remove-section=.comment --remove-section=.note debian/ghmm/usr/bin/smix_hmm
	objcopy --add-gnu-debuglink debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/bd/41e932aba0f759c5d2a5d0333c0376c5aae769.debug debian/ghmm/usr/bin/smix_hmm
	install -m0755 -d debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/f8
	objcopy --only-keep-debug --compress-debug-sections debian/ghmm/usr/bin/probdist debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/f8/1b59d85831ee9f71d1d844a3fe43ea3f43fded.debug
	chmod 0644 -- debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/f8/1b59d85831ee9f71d1d844a3fe43ea3f43fded.debug
	strip --remove-section=.comment --remove-section=.note debian/ghmm/usr/bin/probdist
	objcopy --add-gnu-debuglink debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/f8/1b59d85831ee9f71d1d844a3fe43ea3f43fded.debug debian/ghmm/usr/bin/probdist
	install -m0755 -d debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/49
	objcopy --only-keep-debug --compress-debug-sections debian/ghmm/usr/bin/ghmm-cluster debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/49/c5ddf5138e945aa6086d617961ac63d9629796.debug
	chmod 0644 -- debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/49/c5ddf5138e945aa6086d617961ac63d9629796.debug
	strip --remove-section=.comment --remove-section=.note debian/ghmm/usr/bin/ghmm-cluster
	objcopy --add-gnu-debuglink debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/49/c5ddf5138e945aa6086d617961ac63d9629796.debug debian/ghmm/usr/bin/ghmm-cluster
	install -m0755 -d debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/7b
	objcopy --only-keep-debug --compress-debug-sections debian/ghmm/usr/bin/scluster debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/7b/f80043e53ee36b1819c58043a8b82eae207bce.debug
	chmod 0644 -- debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/7b/f80043e53ee36b1819c58043a8b82eae207bce.debug
	strip --remove-section=.comment --remove-section=.note debian/ghmm/usr/bin/scluster
	objcopy --add-gnu-debuglink debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.build-id/7b/f80043e53ee36b1819c58043a8b82eae207bce.debug debian/ghmm/usr/bin/scluster
	install -m0755 -d debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.dwz
	cp --reflink=auto -a debian/ghmm/usr/lib/debug/.dwz/arm-linux-gnueabihf debian/.debhelper/ghmm/dbgsym-root/usr/lib/debug/.dwz
	rm -fr debian/ghmm/usr/lib/debug/.dwz
	rmdir -p --ignore-fail-on-non-empty debian/ghmm/usr/lib/debug
	install -m0755 -d debian/.debhelper/ghmm/dbgsym-root/usr/share/doc
	ln -s ghmm debian/.debhelper/ghmm/dbgsym-root/usr/share/doc/ghmm-dbgsym
	install -m0755 -d debian/.debhelper/ghmm
   dh_makeshlibs -a
	rm -f debian/ghmm/DEBIAN/shlibs
	rm -f debian/libghmm-dev/DEBIAN/shlibs
	rm -f debian/libghmm1t64/DEBIAN/shlibs
	install -m0755 -d debian/libghmm1t64/DEBIAN
	echo "libghmm 1 libghmm1t64 (>= 0.9~rc3)" >> debian/libghmm1t64/DEBIAN/shlibs
	chmod 0644 -- debian/libghmm1t64/DEBIAN/shlibs
	mv debian/.debhelper/generated/libghmm1t64/triggers.new debian/.debhelper/generated/libghmm1t64/triggers
	echo t64:Provides= >> debian/libghmm1t64.substvars
   dh_shlibdeps -a
	install -m0755 -d debian/libghmm1t64/DEBIAN
	dpkg-shlibdeps -Tdebian/libghmm1t64.substvars debian/libghmm1t64/usr/lib/arm-linux-gnueabihf/libghmm.so.1.0.0
	install -m0755 -d debian/ghmm/DEBIAN
	dpkg-shlibdeps -Tdebian/ghmm.substvars debian/ghmm/usr/bin/smix_hmm debian/ghmm/usr/bin/probdist debian/ghmm/usr/bin/ghmm-cluster debian/ghmm/usr/bin/scluster debian/ghmm/usr/lib/python3/dist-packages/ghmm/_ghmmwrapper.cpython-313-arm-linux-gnueabihf.so
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 from: /lib/ld-linux-armhf.so.3
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 from: /lib/ld-linux-armhf.so.3
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged
   dh_installdeb
	install -m0755 -d debian/ghmm/DEBIAN
	printf '#!/bin/sh\nset -e\n' > debian/ghmm/DEBIAN/postinst
	cat debian/ghmm.postinst.debhelper >> debian/ghmm/DEBIAN/postinst
	chmod 0755 -- debian/ghmm/DEBIAN/postinst
	printf '#!/bin/sh\nset -e\n' > debian/ghmm/DEBIAN/prerm
	cat debian/ghmm.prerm.debhelper >> debian/ghmm/DEBIAN/prerm
	chmod 0755 -- debian/ghmm/DEBIAN/prerm
	install -m0755 -d debian/libghmm-dev/DEBIAN
	install -m0755 -d debian/libghmm1t64/DEBIAN
	install -p -m0644 debian/.debhelper/generated/libghmm1t64/triggers debian/libghmm1t64/DEBIAN/triggers
   dh_gencontrol
	install -m0755 -d debian/libghmm-dev/DEBIAN
	echo misc:Depends= >> debian/libghmm-dev.substvars
	echo misc:Pre-Depends= >> debian/libghmm-dev.substvars
	dpkg-gencontrol -plibghmm-dev -ldebian/changelog -Tdebian/libghmm-dev.substvars -cdebian/control -Pdebian/libghmm-dev
	install -m0755 -d debian/ghmm/DEBIAN
	echo misc:Depends= >> debian/ghmm.substvars
	echo misc:Pre-Depends= >> debian/ghmm.substvars
	install -m0755 -d debian/.debhelper/ghmm/dbgsym-root/DEBIAN
	dpkg-gencontrol -pghmm -ldebian/changelog -Tdebian/ghmm.substvars -cdebian/control -Pdebian/.debhelper/ghmm/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=ghmm-dbgsym "-DDepends=ghmm (= \${binary:Version})" "-DDescription=debug symbols for ghmm" "-DBuild-Ids=49c5ddf5138e945aa6086d617961ac63d9629796 7bf80043e53ee36b1819c58043a8b82eae207bce bd41e932aba0f759c5d2a5d0333c0376c5aae769 d8f406d9231c6ed2eb355b1c663d1842e13ea796 f81b59d85831ee9f71d1d844a3fe43ea3f43fded" -DSection=debug -UMulti-Arch -UReplaces -UBreaks
	install -m0755 -d debian/libghmm1t64/DEBIAN
	echo misc:Depends= >> debian/libghmm1t64.substvars
	echo misc:Pre-Depends= >> debian/libghmm1t64.substvars
	install -m0755 -d debian/.debhelper/libghmm1t64/dbgsym-root/DEBIAN
	dpkg-gencontrol -plibghmm1t64 -ldebian/changelog -Tdebian/libghmm1t64.substvars -cdebian/control -Pdebian/.debhelper/libghmm1t64/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=libghmm1t64-dbgsym "-DDepends=libghmm1t64 (= \${binary:Version})" "-DDescription=debug symbols for libghmm1t64" -DBuild-Ids=af3ded43ca18954d81826295a791ac1c85b0cef9 -DSection=debug -UMulti-Arch -UReplaces -UBreaks
dpkg-gencontrol: warning: Depends field of package libghmm-dev: substitution variable ${shlibs:Depends} used, but is not defined
dpkg-gencontrol: warning: package libghmm-dev: substitution variable ${devlibs:Depends} unused, but is defined
	chmod 0644 -- debian/libghmm-dev/DEBIAN/control
	chmod 0644 -- debian/.debhelper/libghmm1t64/dbgsym-root/DEBIAN/control
	dpkg-gencontrol -plibghmm1t64 -ldebian/changelog -Tdebian/libghmm1t64.substvars -cdebian/control -Pdebian/libghmm1t64
	chmod 0644 -- debian/.debhelper/ghmm/dbgsym-root/DEBIAN/control
	dpkg-gencontrol -pghmm -ldebian/changelog -Tdebian/ghmm.substvars -cdebian/control -Pdebian/ghmm
	chmod 0644 -- debian/libghmm1t64/DEBIAN/control
	chmod 0644 -- debian/ghmm/DEBIAN/control
   dh_md5sums
	install -m0755 -d debian/libghmm-dev/DEBIAN
	install -m0755 -d debian/ghmm/DEBIAN
	cd debian/libghmm-dev >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
	cd debian/ghmm >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
	install -m0755 -d debian/libghmm1t64/DEBIAN
	cd debian/libghmm1t64 >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
	chmod 0644 -- debian/ghmm/DEBIAN/md5sums
	install -m0755 -d debian/.debhelper/ghmm/dbgsym-root/DEBIAN
	chmod 0644 -- debian/libghmm1t64/DEBIAN/md5sums
	install -m0755 -d debian/.debhelper/libghmm1t64/dbgsym-root/DEBIAN
	chmod 0644 -- debian/libghmm-dev/DEBIAN/md5sums
	cd debian/.debhelper/ghmm/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
	cd debian/.debhelper/libghmm1t64/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
	chmod 0644 -- debian/.debhelper/ghmm/dbgsym-root/DEBIAN/md5sums
	chmod 0644 -- debian/.debhelper/libghmm1t64/dbgsym-root/DEBIAN/md5sums
   dh_builddeb
	dpkg-deb --root-owner-group --build debian/ghmm ..
	dpkg-deb --root-owner-group --build debian/libghmm-dev ..
	dpkg-deb --root-owner-group --build debian/.debhelper/libghmm1t64/dbgsym-root ..
dpkg-deb: building package 'ghmm' in '../ghmm_0.9~rc3-11_armhf.deb'.
dpkg-deb: building package 'libghmm-dev' in '../libghmm-dev_0.9~rc3-11_armhf.deb'.
dpkg-deb: building package 'libghmm1t64-dbgsym' in '../libghmm1t64-dbgsym_0.9~rc3-11_armhf.deb'.
	dpkg-deb --root-owner-group --build debian/libghmm1t64 ..
dpkg-deb: building package 'libghmm1t64' in '../libghmm1t64_0.9~rc3-11_armhf.deb'.
	dpkg-deb --root-owner-group --build debian/.debhelper/ghmm/dbgsym-root ..
dpkg-deb: building package 'ghmm-dbgsym' in '../ghmm-dbgsym_0.9~rc3-11_armhf.deb'.
 dpkg-genbuildinfo --build=binary -O../ghmm_0.9~rc3-11_armhf.buildinfo
 dpkg-genchanges --build=binary -O../ghmm_0.9~rc3-11_armhf.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/12198 and its subdirectories
I: Current time: Tue Jan 28 08:04:24 -12 2025
I: pbuilder-time-stamp: 1738094664
Tue Jan 28 20:04:33 UTC 2025  I: 1st build successful. Starting 2nd build on remote node ff64a-armhf-rb.debian.net.
Tue Jan 28 20:04:33 UTC 2025  I: Preparing to do remote build '2' on ff64a-armhf-rb.debian.net.
Tue Jan 28 20:19:31 UTC 2025  I: Deleting $TMPDIR on ff64a-armhf-rb.debian.net.
Tue Jan 28 20:19:33 UTC 2025  I: ghmm_0.9~rc3-11_armhf.changes:
Format: 1.8
Date: Tue, 14 Jan 2025 18:47:58 +0530
Source: ghmm
Binary: ghmm ghmm-dbgsym libghmm-dev libghmm1t64 libghmm1t64-dbgsym
Architecture: armhf
Version: 0.9~rc3-11
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Nilesh Patra <nilesh@debian.org>
Description:
 ghmm       - General Hidden-Markov-Model library - tools
 libghmm-dev - General Hidden-Markov-Model library - header files
 libghmm1t64 - General Hidden-Markov-Model library
Closes: 1092058
Changes:
 ghmm (0.9~rc3-11) unstable; urgency=medium
 .
   * Team Upload.
   * Fixup build with python 3.13 (Closes: #1092058)
Checksums-Sha1:
 bb3b6a7fd29531aeb9be18d5756e5209a5c2c376 585420 ghmm-dbgsym_0.9~rc3-11_armhf.deb
 a6d7a003a9a9928f5dceaf803009edc063417926 7800 ghmm_0.9~rc3-11_armhf.buildinfo
 0b3644009eedf233661c0305af37aa0f7b54748b 145940 ghmm_0.9~rc3-11_armhf.deb
 203b7e966ad1d989771920c5587a92649f2e2a3f 167392 libghmm-dev_0.9~rc3-11_armhf.deb
 2a820f0c9e486bbad2106ce1650ac33e674f53d4 316088 libghmm1t64-dbgsym_0.9~rc3-11_armhf.deb
 4d566a0cd0b31dbe8e1e2555ebe70acafaa92b09 117812 libghmm1t64_0.9~rc3-11_armhf.deb
Checksums-Sha256:
 1918026471207cceb72d118d208045dbe2bba8780da9c86a856801f3266238e2 585420 ghmm-dbgsym_0.9~rc3-11_armhf.deb
 afb9160b364a057a8224d66cfa213cb3bcaef7d38ef4af5048527096e9517b09 7800 ghmm_0.9~rc3-11_armhf.buildinfo
 d267b6cfa3ec78bb6c698e1a82fcd3b8632ade77b4307838cc586028c0252644 145940 ghmm_0.9~rc3-11_armhf.deb
 f1ff328b8d7d757194a3cf0191a9a5bec7c11339128a74fdfee8df394d4cfcfa 167392 libghmm-dev_0.9~rc3-11_armhf.deb
 927bcd542ffbffcdf21468f2addb8e8a1f4d953f1c7e12db1b4e321725e1b23c 316088 libghmm1t64-dbgsym_0.9~rc3-11_armhf.deb
 819602f31fc028c7e87e941b24db046573334094aaf779141cc9b73cb88d40f7 117812 libghmm1t64_0.9~rc3-11_armhf.deb
Files:
 0381a7dd468a965d4df757cb2e2d0b36 585420 debug optional ghmm-dbgsym_0.9~rc3-11_armhf.deb
 63fd77c530d765f5eef6207731febc4c 7800 science optional ghmm_0.9~rc3-11_armhf.buildinfo
 a692fe0de4784bc3007128263b10d165 145940 science optional ghmm_0.9~rc3-11_armhf.deb
 a9ff9c7cbddaf721544c4d851bb2c57c 167392 libdevel optional libghmm-dev_0.9~rc3-11_armhf.deb
 12a48c706ff921fab701781e7f77f2d8 316088 debug optional libghmm1t64-dbgsym_0.9~rc3-11_armhf.deb
 b71c60c4ead0c96d5bcdd1abded374a7 117812 libs optional libghmm1t64_0.9~rc3-11_armhf.deb
Tue Jan 28 20:19:34 UTC 2025  I: diffoscope 286 will be used to compare the two builds:
Running as unit: rb-diffoscope-armhf_14-9647.service
# Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.RChFkPUn/ghmm_0.9~rc3-11.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.RChFkPUn/ghmm_0.9~rc3-11.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.RChFkPUn/ghmm_0.9~rc3-11.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.RChFkPUn/b1/ghmm_0.9~rc3-11_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.RChFkPUn/b2/ghmm_0.9~rc3-11_armhf.changes

## command (total time: 0.000s)
       0.000s      1 call     cmp (internal)

## has_same_content_as (total time: 0.000s)
       0.000s      1 call     diffoscope.comparators.binary.FilesystemFile

## main (total time: 0.003s)
       0.003s      2 calls    outputs
       0.000s      1 call     cleanup
Finished with result: success
Main processes terminated with: code=exited/status=0
Service runtime: 226ms
CPU time consumed: 226ms
Tue Jan 28 20:19:35 UTC 2025  I: diffoscope 286 found no differences in the changes files, and a .buildinfo file also exists.
Tue Jan 28 20:19:35 UTC 2025  I: ghmm from trixie built successfully and reproducibly on armhf.
Tue Jan 28 20:19:36 UTC 2025  I: Submitting .buildinfo files to external archives:
Tue Jan 28 20:19:36 UTC 2025  I: Submitting 12K	b1/ghmm_0.9~rc3-11_armhf.buildinfo.asc
Tue Jan 28 20:19:37 UTC 2025  I: Submitting 12K	b2/ghmm_0.9~rc3-11_armhf.buildinfo.asc
Tue Jan 28 20:19:38 UTC 2025  I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit.
Tue Jan 28 20:19:38 UTC 2025  I: Done submitting .buildinfo files.
Tue Jan 28 20:19:38 UTC 2025  I: Removing signed ghmm_0.9~rc3-11_armhf.buildinfo.asc files:
removed './b1/ghmm_0.9~rc3-11_armhf.buildinfo.asc'
removed './b2/ghmm_0.9~rc3-11_armhf.buildinfo.asc'