Report forwarded
to debian-bugs-dist@lists.debian.org, reproducible-bugs@lists.alioth.debian.org, Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>: Bug#943956; Package src:snakemake.
(Fri, 01 Nov 2019 18:33:05 GMT) (full text, mbox, link).
Acknowledgement sent
to "Chris Lamb" <chris@chris-lamb.co.uk>:
New Bug report received and forwarded. Copy sent to reproducible-bugs@lists.alioth.debian.org, Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>.
(Fri, 01 Nov 2019 18:33:05 GMT) (full text, mbox, link).
Subject: snakemake: please make the build reproducible
Date: Fri, 01 Nov 2019 11:30:11 -0700
Source: snakemake
Version: 5.7.4-1
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 still not be built reproducibly. This is because my
previous patch did not cover quite everything. Do excuse the patch-to-
a-patch but please apply the following:
--- a/debian/patches/0012-reproducible-build.patch
+++ b/debian/patches/0012-reproducible-build.patch
@@ -22,6 +22,15 @@ Last-Update: 2019-07-15
raise ValueError("Path to report output has to be an HTML file.")
--- snakemake.orig/snakemake/utils.py
+++ snakemake/snakemake/utils.py
+@@ -202,7 +202,7 @@ def makedirs(dirnames):
+ def report(
+ text,
+ path,
+- stylesheet=os.path.join(os.path.dirname(__file__), "report.css"),
++ stylesheet=None,
+ defaultenc="utf8",
+ template=None,
+ metadata=None,
... and this should cover it. :)
[0] https://reproducible-builds.org/
Best wishes,
--
,''`.
: :' : Chris Lamb
`. `'` lamby@debian.org / chris-lamb.co.uk
`-
Owner recorded as "Chris Lamb" <lamby@debian.org>.
Request was from "Chris Lamb" <lamby@debian.org>
to control@bugs.debian.org.
(Fri, 01 Nov 2019 18:39:03 GMT) (full text, mbox, link).
Information forwarded
to debian-bugs-dist@lists.debian.org, Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>: Bug#943956; Package src:snakemake.
(Fri, 01 Nov 2019 22:39:06 GMT) (full text, mbox, link).
Acknowledgement sent
to "Chris Lamb" <lamby@debian.org>:
Extra info received and forwarded to list. Copy sent to Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>.
(Fri, 01 Nov 2019 22:39:06 GMT) (full text, mbox, link).
Added tag(s) fixed-upstream.
Request was from debian-bts-link@lists.debian.org
to control@bugs.debian.org.
(Thu, 07 Nov 2019 17:45:04 GMT) (full text, mbox, link).
Reply sent
to Alexandre Mestiashvili <mestia@debian.org>:
You have taken responsibility.
(Sun, 09 Feb 2020 15:51:02 GMT) (full text, mbox, link).
Notification sent
to "Chris Lamb" <chris@chris-lamb.co.uk>:
Bug acknowledged by developer.
(Sun, 09 Feb 2020 15:51:02 GMT) (full text, mbox, link).
Source: snakemake
Source-Version: 5.10.0-1
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 943956@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Alexandre Mestiashvili <mestia@debian.org> (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: Sun, 09 Feb 2020 11:57:42 +0100
Source: snakemake
Architecture: source
Version: 5.10.0-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Alexandre Mestiashvili <mestia@debian.org>
Closes: 943956
Changes:
snakemake (5.10.0-1) unstable; urgency=medium
.
* Team upload.
* New upstream version 5.10.0
Closes: #943956
* Refresh python3 patch, drop 0012-reproducible-build.patch
* d/control: add python3-nbformat, python3-toposort to Build-Depends,
bump Policy to 4.5.0
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Changed Bug submitter to '"Chris Lamb" <lamby@debian.org>' from '"Chris Lamb" <chris@chris-lamb.co.uk>'.
Request was from "Chris Lamb" <lamby@debian.org>
to control@bugs.debian.org.
(Sun, 09 Feb 2020 16:00:04 GMT) (full text, mbox, link).
Bug reopened
Request was from Alex Mestiashvili <amestia@rsh2.donotuse.de>
to control@bugs.debian.org.
(Tue, 11 Feb 2020 09:36:07 GMT) (full text, mbox, link).
No longer marked as fixed in versions snakemake/5.10.0-1.
Request was from Alex Mestiashvili <amestia@rsh2.donotuse.de>
to control@bugs.debian.org.
(Tue, 11 Feb 2020 09:36:08 GMT) (full text, mbox, link).
Information forwarded
to debian-bugs-dist@lists.debian.org, Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>: Bug#943956; Package src:snakemake.
(Tue, 11 Feb 2020 10:09:03 GMT) (full text, mbox, link).
Acknowledgement sent
to "Chris Lamb" <lamby@debian.org>:
Extra info received and forwarded to list. Copy sent to Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>.
(Tue, 11 Feb 2020 10:09:03 GMT) (full text, mbox, link).
Marked as found in versions snakemake/5.9.1-1.
Request was from "Chris Lamb" <lamby@debian.org>
to control@bugs.debian.org.
(Tue, 11 Feb 2020 10:09:09 GMT) (full text, mbox, link).
Reply sent
to "Rebecca N. Palmer" <rebecca_palmer@zoho.com>:
You have taken responsibility.
(Sun, 26 Apr 2020 13:51:07 GMT) (full text, mbox, link).
Notification sent
to "Chris Lamb" <lamby@debian.org>:
Bug acknowledged by developer.
(Sun, 26 Apr 2020 13:51:07 GMT) (full text, mbox, link).
Debbugs is free software and licensed under the terms of the GNU General
Public License version 2. The current version can be obtained
from https://bugs.debian.org/debbugs-source/.