Debian Bug report logs - #932116
snakemake: please make the build reproducible

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Message #5 received at submit@bugs.debian.org (full text, mbox, reply):

From: "Chris Lamb" <lamby@debian.org>

To: submit@bugs.debian.org

Subject: snakemake: please make the build reproducible

Date: Mon, 15 Jul 2019 09:43:15 -0300

[Message part 1 (text/plain, inline)]

Source: snakemake
Version: 5.5.3-1
Severity: wishlist
Tags: patch
User: reproducible-builds@lists.alioth.debian.org
Usertags: buildpath
X-Debbugs-Cc: reproducible-bugs@lists.alioth.debian.org

Hi,

Whilst working on the Reproducible Builds effort [0], we noticed
that snakemake could not be built reproducibly.

This is because it encoded the absolute buildpath in a Python keyword
argument which, when rendered in the documention, made the package
contents change when built from different locations.

Patch attached.

 [0] https://reproducible-builds.org/


Regards,

-- 
      ,''`.
     : :'  :     Chris Lamb
     `. `'`      lamby@debian.org / chris-lamb.co.uk
       `-

[snakemake.diff.txt (text/plain, attachment)]

Message #8 received at 932116-submitter@bugs.debian.org (full text, mbox, reply):

From: Dylan Aïssi <noreply@salsa.debian.org>

To: 932116-submitter@bugs.debian.org

Subject: Bug#932116 marked as pending in snakemake

Date: Tue, 16 Jul 2019 06:16:22 +0000

Control: tag -1 pending

Hello,

Bug #932116 in snakemake reported by you has been fixed in the
Git repository and is awaiting an upload. You can see the commit
message below and you can check the diff of the fix at:

https://salsa.debian.org/med-team/snakemake/commit/703c50a3f500e83b1253f79237bd607ee426127c

------------------------------------------------------------------------
Apply patch from Chris Lamb to make the build reproducible (Closes: #932116)
------------------------------------------------------------------------

(this message was generated automatically)
-- 
Greetings

https://bugs.debian.org/932116

Message #15 received at 932116-close@bugs.debian.org (full text, mbox, reply):

From: michael.crusoe@gmail.com (Michael R. Crusoe)

To: 932116-close@bugs.debian.org

Subject: Bug#932116: fixed in snakemake 5.5.4-1

Date: Fri, 06 Sep 2019 04:07:05 +0000

Source: snakemake
Source-Version: 5.5.4-1

We believe that the bug you reported is fixed in the latest version of
snakemake, 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 932116@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Michael R. Crusoe <michael.crusoe@gmail.com> (supplier of updated snakemake 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 ftpmaster@ftp-master.debian.org)


-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512

Format: 1.8
Date: Wed, 31 Jul 2019 11:24:24 +0200
Source: snakemake
Architecture: source
Version: 5.5.4-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Michael R. Crusoe <michael.crusoe@gmail.com>
Closes: 932116 933527
Changes:
 snakemake (5.5.4-1) unstable; urgency=medium
 .
   [ Dylan Aïssi ]
   * Apply patch from Chris Lamb to make the build reproducible
      (Closes: #932116).
 .
   [ Michael R. Crusoe ]
   * New upstream release
   * debian/control: Add missing build-deps (as shown in errors during the
                     documentation building)
   * debian/README.source: Document missing (optional?) dependencies
   * debian/rules: Fix test invocation, as almost all tests were missed;
                   Document what is known about the skipped tests
   * Apply patch from upstream to fix duplicated argument (Closes: #933527)
 .
   [ Andreas Tille ]
   * debhelper-compat 12
   * Standards-Version: 4.4.0
   * Respect DEB_BUILD_OPTIONS in override_dh_auto_test target
   * Remove obsolete fields Name, Contact from debian/upstream/metadata.
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 524d3d0a84023471a59fec1b45c024c7f5c128f7 267776 snakemake_5.5.4-1.debian.tar.xz
 015b532517ff3f86de1f1a0129a7b393bd14d809 15930 snakemake_5.5.4-1_source.buildinfo
Checksums-Sha256:
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 8c331aa998ea60a125c73dbaad7b64b266c4f2efe1da5985cc3e18fe645da18f 15930 snakemake_5.5.4-1_source.buildinfo
Files:
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 3636a8bd8c0d9b785b4e84bfa6180558 11537347 science optional snakemake_5.5.4.orig.tar.gz
 fd33594ed83d2d957185d3deb25c6136 267776 science optional snakemake_5.5.4-1.debian.tar.xz
 b750df9077573f100dd424ecb181a5db 15930 science optional snakemake_5.5.4-1_source.buildinfo

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