Your message dated Thu, 02 Jul 2020 07:03:31 +0000
with message-id <e1jqtfr-0000tq...@fasolo.debian.org>
and subject line Bug#962190: fixed in primer3 2.4.0-3
has caused the Debian Bug report #962190,
regarding primer3: please disable Big Endian tests on autopkgtests too
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--
962190: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=962190
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: primer3
Version: 2.4.0-2
Severity: serious
Hello, can you please apply the same on autopkgtests? now autopkgtests failures
are considered RC buggy
something like this might work:
--- primer3-2.4.0/debian/changelog 2018-05-28 15:44:30.000000000 +0200
+++ primer3-2.4.0/debian/changelog 2020-06-04 11:47:04.000000000 +0200
@@ -1,3 +1,9 @@
+primer3 (2.4.0-2.1) unstable; urgency=medium
+
+ * Also skip autopkgtests that fail on big endian (see: 890993,) Closes: #-1
+
+ -- Gianfranco Costamagna <locutusofb...@debian.org> Thu, 04 Jun 2020
11:47:04 +0200
+
primer3 (2.4.0-2) unstable; urgency=medium
[ Liubov Chuprikova ]
diff -Nru primer3-2.4.0/debian/tests/run-unit-test
primer3-2.4.0/debian/tests/run-unit-test
--- primer3-2.4.0/debian/tests/run-unit-test 2018-05-28 15:44:30.000000000
+0200
+++ primer3-2.4.0/debian/tests/run-unit-test 2020-06-04 11:47:04.000000000
+0200
@@ -8,6 +8,13 @@
AUTOPKGTEST_TMP=`mktemp -d /tmp/${pkg}-test.XXXXXX`
fi
+BUILDARCH=$(dpkg-architecture -q DEB_BUILD_ARCH_ENDIAN)
+
+P3CORE_FAILED_TESTS='primer_masker' \
+ 'primer_masker_formatted'
+
+FAILED_TESTS=testmasker
+
cp -a /usr/share/doc/${pkg}/examples/* $AUTOPKGTEST_TMP
cd $AUTOPKGTEST_TMP
@@ -19,6 +26,16 @@
ln -s /usr/bin/ntthal ./src/ntthal
ln -s /usr/bin/oligotm ./src/oligotm
+if [ $BUILDARCH = big ]; then
+ cp -a test/p3test.pl test/p3test.pl~
+ cp -a test/Makefile test/Makefile~
+ # exclude tests known to fail on big endian
+ # See README.source for further explanation.
+ for tst in $(P3CORE_FAILED_TESTS) ; do sed -i "/$${tst}/d" test/p3test.pl ;
done
+ sed -i "0,/$(FAILED_TESTS)/s///" test/Makefile
+ sed -i "/$(FAILED_TESTS)/,/endif/d" test/Makefile
+fi
+
cd test/;
echo "testcmdline:"
@@ -36,4 +53,12 @@
echo "testtm:"
perl oligotm_test.pl ${TESTOPTS}
+cd ..
+
+if [ $BUILDARCH = big ]; then
+ # restore original test file
+ mv test/p3test.pl~ test/p3test.pl
+ mv test/Makefile~ test/Makefile
+fi
+
echo "PASS"
On Tue, 29 May 2018 17:36:48 +0000 Liubov Chuprikova <chuprikov...@gmail.com>
wrote:
> Source: primer3
> Source-Version: 2.4.0-2
>
> We believe that the bug you reported is fixed in the latest version of
> primer3, which is due to be installed in the Debian FTP archive.
>
> A summary of the changes between this version and the previous one is
> attached.
>
> Thank you for reporting the bug, which will now be closed. If you
> have further comments please address them to 890...@bugs.debian.org,
> and the maintainer will reopen the bug report if appropriate.
>
> Debian distribution maintenance software
> pp.
> Liubov Chuprikova <chuprikov...@gmail.com> (supplier of updated primer3
> package)
>
> (This message was generated automatically at their request; if you
> believe that there is a problem with it please contact the archive
> administrators by mailing ftpmas...@ftp-master.debian.org)
>
>
> -----BEGIN PGP SIGNED MESSAGE-----
> Hash: SHA512
>
> Format: 1.8
> Date: Mon, 28 May 2018 13:44:30 +0000
> Source: primer3
> Binary: primer3 primer3-examples
> Architecture: source
> Version: 2.4.0-2
> Distribution: unstable
> Urgency: medium
> Maintainer: Debian Med Packaging Team
> <debian-med-packag...@lists.alioth.debian.org>
> Changed-By: Liubov Chuprikova <chuprikov...@gmail.com>
> Description:
> primer3 - tool to design flanking oligo nucleotides for DNA amplification
> primer3-examples - tool to design flanking oligo nucleotides for DNA
> amplification (
> Closes: 890993
> Changes:
> primer3 (2.4.0-2) unstable; urgency=medium
> .
> [ Liubov Chuprikova ]
> * Team upload.
> * Skip tests that fail on big endian
> Closes: #890993
> * Added d/README.source with explanation why some tests are skipped
> * debian/patches/p3test_fix_exit_status.patch: Fix test to show correct
> exit
> status
> .
> [ Andreas Tille ]
> * Point Vcs fields to salsa.debian.org
> * Standards-Version: 4.1.4
> Checksums-Sha1:
> ed7288049fca41a312d5d528d3e57e0b51be9bdc 2117 primer3_2.4.0-2.dsc
> 9d7f7874ef42796bd45181a610ad4d2d9193ef02 12060 primer3_2.4.0-2.debian.tar.xz
> 60fe57fc774ab8b537785d4c6d07e54647aabd70 5964 primer3_2.4.0-2_amd64.buildinfo
> Checksums-Sha256:
> 541ec07c9092995dd359620326630c45135321868ee2c2350ef61e1d4d67628d 2117
> primer3_2.4.0-2.dsc
> 96247e4223393e0056a8886209b1bb37abfa7dc7fb00eca4e3e695daf62dd71e 12060
> primer3_2.4.0-2.debian.tar.xz
--- End Message ---
--- Begin Message ---
Source: primer3
Source-Version: 2.4.0-3
Done: Andreas Tille <ti...@debian.org>
We believe that the bug you reported is fixed in the latest version of
primer3, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to 962...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <ti...@debian.org> (supplier of updated primer3 package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmas...@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Thu, 02 Jul 2020 08:10:35 +0200
Source: primer3
Architecture: source
Version: 2.4.0-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Andreas Tille <ti...@debian.org>
Closes: 962190
Changes:
primer3 (2.4.0-3) unstable; urgency=medium
.
[ Gianfranco Costamagna ]
* Also skip autopkgtests that fail on big endian (see: 890993)
Closes: #962190
.
[ Andreas Tille ]
* Standards-Version: 4.5.0 (routine-update)
* debhelper-compat 13 (routine-update)
* Secure URI in copyright format (routine-update)
* Respect DEB_BUILD_OPTIONS in override_dh_auto_test target (routine-
update)
* Remove trailing whitespace in debian/changelog (routine-update)
* Add salsa-ci file (routine-update)
* Rules-Requires-Root: no (routine-update)
* Trim trailing whitespace.
* debian/copyright: use spaces rather than tabs to start continuation lines.
* Set fields Upstream-Name, Upstream-Contact in debian/copyright.
* Set upstream metadata fields: Bug-Database, Bug-Submit, Repository,
Repository-Browse.
* Remove obsolete fields Contact, Name from debian/upstream/metadata (already
present in machine-readable debian/copyright).
* Fix day-of-week for changelog entry 0.9-0.2.
Checksums-Sha1:
0cbce295f6aa7d94d8a33f656a212658fbcf20ba 2126 primer3_2.4.0-3.dsc
b292ec844b0495cb726f31e84102a036a05a320e 12636 primer3_2.4.0-3.debian.tar.xz
7e16de4082d95f1d7c7e5809a2e5021e0d600f3a 6025 primer3_2.4.0-3_amd64.buildinfo
Checksums-Sha256:
5895809715d6f74133530e7f9fabee7caa054a67f6b62c440195daf9dfecce4e 2126
primer3_2.4.0-3.dsc
7f74a6e2cd8e17f32962472b9439dbc89099966aa8586e4dc8a37db04a7be0e1 12636
primer3_2.4.0-3.debian.tar.xz
f2d824afd3b9d6494ec95288ddcc0a561895b28947d1f8743e778bf9d4c1e054 6025
primer3_2.4.0-3_amd64.buildinfo
Files:
cbdf7b9815e7e040e9e35bf0e5a8f53c 2126 science optional primer3_2.4.0-3.dsc
3a752ff5fd7489021d2535533e5cc246 12636 science optional
primer3_2.4.0-3.debian.tar.xz
a330e4d16c936bb9d599a8b8780d2209 6025 science optional
primer3_2.4.0-3_amd64.buildinfo
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