returned
> > exit code 13
> > debian/rules:22: recipe for target 'override_dh_auto_test' failed
Upstream has now fixed this issue, and I've cherry-picked the fix into the
package as a patch. I've pushed to git.d.o, so an (urgent) upload would be much
appreciated.
Merry Christmas all!
Cheers
K
---
Kevin Murray
Hi Ghis,
On 11:39 06/12, Ghislain Vaillant wrote:
> On Sun, 4 Dec 2016 11:08:35 +1100 Kevin Murray <kdmf...@gmail.com> wrote:
> I can do it if time is limited for you. I am dealing with a different chain of
> package dependencies which would require keepalive being packaged t
Hi Andreas,
On 17:44 04/12, Andreas Tille wrote:
> Kevin Murray added a Closes statement to its latest commits to iqtree.
> This is the according bug report. :-) Kevin, please tell me if you
> consider iqtree ready for Upload.
I was just waiting on the BTS to give me a bug numbe
Hi,
I had a look at the build of cwltool, and it appears it depends upon the
`keepalive` python package. I will file an RFS bug for this (and prepare a
package as time permits).
Cheers,
K
---
Kevin Murray
ve now prepared the package of the latest upstream release, so a review &
upload would be required. Thanks in advance!
Cheers,
K
---
Kevin Murray
___
> Debian-med-packaging mailing list
> debian-med-packag...@lists.alioth.debian.org
> http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-packaging
---
Kevin Murray
building this
package in pbuider chroots, related to a missing /dev/shm. I have never
experienced the issues you report though.
Cheers,
K
[1]:
https://bitbucket.org/snakemake/snakemake/issues/426/random-test-hangs-during-debian-package
---
Kevin Murray
Hi all,
AFAICT I think I should have fixed the issues in skbio. I've filed an ROM bug,
and updated to latest upstream. Could I please get an upload and see if the
test failure goes away?
Cheers,
Kevin
---
Kevin Murray
Hi Andreas,
On 19:15 15/11, Kevin Murray wrote:
> I will also (but haven't yet) see if I can get it to build against libssw.
Well that turned out to be far easier than I expected. I've pushed a patch that
uses libssw from debian. So let's see if this fixes the build. And we also need
to rem
ary packages preventing a testing transition,
which I'm not sure how to deal with.
Cheers,
K
---
Kevin Murray
n/listinfo/debian-med-packaging
---
Kevin Murray
Hi Daniel,
I've prepared the update. I'll push as soon as git.debian.org returns to the
internet.
Cheers,
K
---
Kevin Murray
python-falcon depends on:
ii libc6 2.21-9
ii python2.7.11-1
ii python-mimeparse 0.1.4-1
ii python-six1.10.0-2
pn python:any
python-falcon recommends no packages.
python-falcon suggests no packages.
-- no debconf information
---
Kevin Murray
Hi Dmitry,
Thanks for your advice.
On 10:19 23/02, Dmitry Shachnev wrote:
> Hi Kevin,
>
> On Tue, Feb 23, 2016 at 02:34:11PM +1100, Kevin Murray wrote:
> > I have recently needed to use a python3-only sphinx build process on a
> > system with both python-sphinx & py
l: Linux 4.3.0-1-amd64 (SMP w/4 CPU cores)
Locale: LANG=en_AU.UTF-8, LC_CTYPE=en_AU.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)
---
Kevin Murray
0xA4B4EE6A
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: libqcpp
Version : 0.1.9
Upstream Author : Kevin Murray <s...@kdmurray.id.au>
* URL : https://github.com/kdmurray91/libqcpp
* License : LGPL
Program
n: 111 Failure total: 3 Failures: 3 Errors: 0
> make[1]: *** [unittests] Error 1
>
> Could you please take a look?
>
> Thanks!
>
---
Kevin Murray
0xA4B4EE6A
. That makes sense, now you mention it.
Cheers,
Kevin
---
Kevin Murray
0xA4B4EE6A
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: hail
Version : 0.1.1
Upstream Author : Kevin Murray
* URL : https://github.com/kdmurray91/hail
* License : GPL
Programming Lang: C
Description : Effic
Package: libeigen3-doc
Version: 3.3~beta1-1
Severity: normal
Dear Maintainer,
When viewing the HTML documentation pages, a grey box (which should contain the
navbar) obscures the text of the page. In addition, the version displayed does
not correspond to the package version (documentation says
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: scrm
Version : 1.6.1
Upstream Author : Paul R. Staab <deve...@paulstaab.de>
* URL : https://github.com/scrm/scrm
* License : GPL
Programming Lang: C++
Source: libqes
Version: 0.1.20-1
Severity: important
Tags: upstream
Dear Maintainer,
An upstream bug causes a test failure on systems with char == unsigned char
(e.g. ARM). Importing the new upstream release 0.1.21 should fix this issue.
Cheers,
K
-- System Information:
Debian Release:
thought it's not ready for upload.
Cheers,
Kevin
---
Kevin Murray
0xA4B4EE6A
Package: axe-demultiplexer
Version: 0.3.0+dfsg-2
Severity: important
Tags: upstream
Dear Maintainer,
An upstream bug prevents tests passing on 32-bit systems. Upstream has fixed
this in the latest release.
Cheers,
Kevin
-- System Information:
Debian Release: stretch/sid
APT prefers unstable
Hi all,
On 13:22 21/12, Kevin Murray wrote:
> Hi Andreas,
>
> On 09:07 06/12, Andreas Tille wrote:
> > Hi Kevin,
> >
> > any news about building the docs? I have reset the target distribution to
> > UNRELEASED since it does not build in a pbuilder chroot.
>
Thanks!
Cheers,
Kevin
---
Kevin Murray
0xA4B4EE6A
Hi all,
I'm working on this bug to find the root of the issue and fix it.
Cheers,
Kevin
---
Kevin Murray
0xA4B4EE6A
Hi Tiago and Konstantin
You are both correct, yes. Sorry, and thanks for correcting this (though it's
correct in d/control and d/copyright).
Cheers,
K
On 11:41 01/12, Tiago Ilieve wrote:
> Kevin,
>
> On 1 December 2015 at 00:33, Kevin Murray <s...@kdmurray.id.au> wrote:
&g
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: dawg
Version : 1.2.0
Upstream Author : Reed A. Cartwright
* URL : http://scit.us/projects/dawg
* License : GPL-2
Programming Lang: C++
Description : p
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: libzstd
Version : 0.4.0
Upstream Author : Yann Collet
* URL : https://github.com/Cyan4973
* License : BSD
Programming Lang: C
Description : fast lo
Package: python-skbio
Version: 0.4.0-3
Severity: normal
Tags: patch
Hi all,
I noticed today that scikit-bio (python-skbio in Debian) has no documentation
packaged, despite upstream having quite rich Sphinx documentation. I'm fixing
this, and will push to git soon (patch not so much attached as
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: libqes
Version : 0.1.20
Upstream Author : Kevin Murray <s...@kdmurray.id.au>
* URL : https://github.com/kdmurray91/libqes
* License : GPL-3+
Program
X-Debbugs-CC: Debian Med Packaging
<debian-med-packag...@lists.alioth.debian.org>
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: partitionfinder
Version : 2.0.0
Upstream Author : Brett Calcott and Rob Lanfear
* URL
ought I responded to this already.
I'm fixing this upstream so that the binary name doesn't change; it will now be
`axe-demux` everywhere. I've re-released. I've decided to re-do the entire
packaging too, so that we don't bundle libqes or a cut-down gsl. I have a
couple of questions about this but
Package: dwgsim
Version: 0.1.11-1
Severity: grave
Justification: renders package unusable
Hi all,
I somehow managed not to add the debian/dwgsim.install file to git. Due to the
upstream makefile not having an install rule, this lead to a Debian package
with no binary. I have fixed this in git.
team.
>
OK, sure, I'll contact the DPMT about this and the remainder of the python
modules needed to build seqan's docs.
Cheers,
Kevin
---
Kevin Murray
GPG pubkey: http://www.kdmurray.id.au/static/A4B4EE6A.asc
FPR: 656C 0632 1EAB 2C3F 3837 9767 17C2 8EB1 A4B4 EE6A
ackage it under DPMT umbrella
>
I think this is just waiting on some of its dependencies I'm packaging. I'll
contact the DPMT about co-maintainership. I think they are all ready for
review, though there are probably issues to address.
Cheers,
Kevin
---
Kevin Murray
GPG pubkey: http://www.kdm
Hi Aaron,
I'm both the Debian packager and upstream, so I'll take this on. It's almost
certainly an upstream issue in the unit tests. I don't test on anything other
than amd64 Debian unfortunately.
Cheers,
K
---
Kevin Murray
GPG pubkey: http://www.kdmurray.id.au/static/A4B4EE6A.asc
FPR: 656C
ld aid making the switch smoother.
>
> Thanks,
>
> Scott K
I've applied the patch and added a (Closes: ) in d/changelog. Can a DD upload
please?
Cheers,
Kevin
---
Kevin Murray
GPG pubkey: http://www.kdmurray.id.au/static/A4B4EE6A.asc
FPR: 656C 0632 1EAB 2C3F 3837 9767 17C2 8EB1 A4B4 EE6A
e is that no-one in such teams has packaged it yet, and I am only
packaging it as a build-depend of SeqAn, which is very much a Debian Med
package.
Though I understand if the team would rather this be maintained elsewhere.
Cheers,
K
---
Kevin Murray
GPG pubkey: http://www.kdmurray.id.au/stati
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: python-oset
Version : 0.1.3
Upstream Author : Carlos Martin, Raymond Hettinger
* URL : https://gitorious.com/sleipnir/python-oset
* License : BSD
Programmin
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: pybtex-docutils
Version : 0.2.1
Upstream Author : Matthias C. M. Troffaes
* URL : https://github.com/mcmtroffaes/pybtex-docutils
* License : Expat
Programmin
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: python-latexcodec
Version : 1.0.1
Upstream Author : Matthias C. M. Troffaes
* URL : https://github.com/mcmtroffaes/pybtex-docutils
* License : Expat
Programmin
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: python-sphinxcontrib.bibtex
Version : 0.3.2
Upstream Author : Matthias C. M. Troffaes
* URL :
https://github.com/mcmtroffaes/sphinxcontrib-bibtex/blob/develop/LICEN
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: dwgsim
Version : 0.1.11
Upstream Author : Nils Homer
* URL : https://github.com/nh13/DWGSIM
* License : GPLv2, MIT/X
Programming Lang: C
Description :
Package: wnpp
Severity: wishlist
Owner: Kevin Murray <s...@kdmurray.id.au>
* Package name: snakemake
Version : 3.4
Upstream Author : Johannes Köster <johannes.koes...@tu-dortmund.de>
* URL : https://bitbucket.org/johanneskoester/snakemake
* License
Package: wnpp
Severity: wishlist
Owner: Kevin Murray s...@kdmurray.id.au
* Package name: axe-demultiplexer
Version : 0.2.8
Upstream Author : Kevin Murray s...@kdmurray.id.au
* URL : https://github.com/kdmurray91/axe
* License : GPL3+
Programming Lang: C
Package: sphinxcontrib-autoprogram
Version: 0.1.1-1
Severity: important
Hi all,
The python3 packaging of khmer will need a python3 version of
sphinxcontrib.autoprogram. This is a bug to let you know that I'm
working on this.
Cheers,
Kevin
-- System Information:
Debian Release: stretch/sid
Charles,
On 09:23 10/07, Charles Plessy wrote:
Le Thu, Jul 09, 2015 at 04:15:35PM +1000, Kevin Murray a écrit :
Package: wgsim
Severity: serious
Justification: Policy 7.6.1
Hi all,
I have inadvertently packaged wgsim for Debian without realising that it
already is packaged
) package and offer my apologies for not having inspected samtools
throughly.
Kevin Murray
-- System Information:
Debian Release: stretch/sid
APT prefers unstable
APT policy: (500, 'unstable'), (500, 'testing'), (500, 'stable'), (500,
'oldstable'), (1, 'experimental')
Architecture: amd64 (x86_64
package: wnpp
Severity: wishlist
Owner: 'Kevin Murray' s...@kdmurray.id.au
*Package Name : wgsim
Version : 0.3.1-r13
Upstream Author : Heng Li
*URL : https://github.com/lh3/wgsim
*License : MIT
*Description : wgsim simulates sequencing reads from a reference genome.
Wgsim is a small tool
familiar with its development and code base to maintain
this package.
I've made the package, and uploaded it to mentors.debian.net (see above
dget/webpage links).
Please let me know how I can improve!
Thanks,
Kevin Murray
s...@kdmurray.id.au
I'm an FSF member -- Help us support software freedom
package: wnpp
Severity: wishlist
Owner: 'Kevin Murray' s...@kdmurray.id.au
*Package Name : scythe
Version : 0.994-1
Upstream Author : Vince Buffalo
*URL : https://github.com/vsbuffalo/scythe
*License : MIT
*Description : Bayesian adaptor trimmer for sequencing reads
I am packaging
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