Your message dated Sun, 03 Feb 2019 07:34:42 +0000
with message-id <[email protected]>
and subject line Bug#921122: fixed in pbbam 0.19.0+dfsg-2
has caused the Debian Bug report #921122,
regarding pbbam: failing autopkgtests depend on generated files in source tree
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.
(NB: If you are a system administrator and have no idea what this
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--
921122: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=921122
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: pbbam
Version: 0.19.0+dfsg-1
Severity: serious
Tags: patch
Justification: autopkgtest failures block migration
User: [email protected]
Usertags: origin-ubuntu disco ubuntu-patch
Dear Afif,
Since the upload of 0.18.0+dfsg-1, pbbam's autopkgtests have been
consistently failing because the following code in debian/rules finds no
files in the tree:
synthetic_movie_all_path=`find $$PWD -name
synthetic_movie_all.subreadset.xml` ; \
The file synthetic_movie_all.subreadset.xml is generated at build time, but
depended on by the autopkgtests, which are run against an unbuilt source
tree.
The simplest way to fix this is to change the autopkgtest to use the
'build-needed' restriction, which causes the package to be built from source
during the autopkgtest. There may be more efficient ways to just rebuild
only this data file used by the tests, but I'm not familiar with the meson
build system used by this package so I don't know the right way to do that.
Since regressed autopkgtests are now blockers for testing migration, I've
marked this bug as serious.
Please consider including the attached patch in Debian.
Thanks,
--
Steve Langasek Give me a lever long enough and a Free OS
Debian Developer to set it on, and I can move the world.
Ubuntu Developer https://www.debian.org/
[email protected] [email protected]
diff -Nru pbbam-0.19.0+dfsg/debian/control pbbam-0.19.0+dfsg/debian/control
--- pbbam-0.19.0+dfsg/debian/control 2019-01-31 17:13:14.000000000 -0800
+++ pbbam-0.19.0+dfsg/debian/control 2019-02-01 12:15:46.000000000 -0800
@@ -1,6 +1,5 @@
Source: pbbam
-Maintainer: Ubuntu Developers <[email protected]>
-XSBC-Original-Maintainer: Debian Med Packaging Team
<[email protected]>
+Maintainer: Debian Med Packaging Team
<[email protected]>
Uploaders: Afif Elghraoui <[email protected]>
Section: science
Priority: optional
diff -Nru pbbam-0.19.0+dfsg/debian/tests/control
pbbam-0.19.0+dfsg/debian/tests/control
--- pbbam-0.19.0+dfsg/debian/tests/control 2019-01-31 23:33:01.000000000
-0800
+++ pbbam-0.19.0+dfsg/debian/tests/control 2019-02-01 12:15:46.000000000
-0800
@@ -8,3 +8,4 @@
Restrictions:
rw-build-tree,
allow-stderr,
+ build-needed,
--- End Message ---
--- Begin Message ---
Source: pbbam
Source-Version: 0.19.0+dfsg-2
We believe that the bug you reported is fixed in the latest version of
pbbam, 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 [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <[email protected]> (supplier of updated pbbam 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 [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Sun, 03 Feb 2019 08:00:29 +0100
Source: pbbam
Binary: pbbamtools libpbbam0.19.0 libpbbam-dev
Architecture: source amd64
Version: 0.19.0+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Description:
libpbbam-dev - Pacific Biosciences binary alignment/map (BAM) library (headers)
libpbbam0.19.0 - Pacific Biosciences binary alignment/map (BAM) library
pbbamtools - processing Pacific Biosciences binary alignment/map files
Closes: 921122
Changes:
pbbam (0.19.0+dfsg-2) unstable; urgency=medium
.
* Team upload.
.
[ Steve Langasek ]
* Provide generated files to autopkgtest
Closes: #921122
.
[ Andreas Tille ]
* debhelper 12
* Standards-Version: 4.3.0
* Secure URI in copyright format
* Remove trailing whitespace in debian/copyright
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Files:
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libpbbam0.19.0-dbgsym_0.19.0+dfsg-2_amd64.deb
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