Package: wnpp
Severity: wishlist
Owner: Michael R. Crusoe mcru...@asu.edu
* Package name: sga
Version : 0.9.35
Upstream Author : Jared Simpson j...@sanger.ac.uk
* URL : https://github.com/jts/sga
* License : GPLv3
Programming Lang: C++
Description : A
X-Debbugs-Cc: debian-...@lists.debian.org
X-Debbugs-Cc: debian-de...@lists.debian.org
Package: wnpp
Severity: wishlist
Owner: debian-...@lists.debian.org
* Package name: bamtools
Version : 2.2
Upstream Author : Derek Barnett derekwbarn...@gmail.com
* URL :
And here's the package,
https://github.com/mr-c/bamtools/tree/debian
My packaging skills are a bit rusty, so your feedback would be appreciated.
On Tue, Nov 6, 2012 at 1:28 PM, Michael Crusoe michael.cru...@gmail.com wrote:
X-Debbugs-Cc: debian-...@lists.debian.org
X-Debbugs-Cc: debian-de
Package: wnpp
Severity: wishlist
Owner: Debian Med team debian-...@lists.debian.org
X-Debbugs-Cc: debian-de...@lists.debian.org, debian-...@lists.debian.org
* Package name: transdecoder
Version : 2.0.1
Upstream Author : Brian Haas bh...@broadinstitute.org
* URL :
Package: wnpp
Severity: wishlist
Owner: Debian Med team debian-...@lists.debian.org
X-Debbugs-Cc: debian-de...@lists.debian.org, debian-...@lists.debian.org
* Package name: rsem
Version : 1.2.19
Upstream Author : Bo Li bli25 [at] berkeley [dot] edu
* URL :
Package: wnpp
Severity: wishlist
Owner: Debian Med team debian-...@lists.debian.org
X-Debbugs-Cc: debian-de...@lists.debian.org, debian-...@lists.debian.org
* Package name: express
Version : 1.5.1
Upstream Author : Adam Roberts Lior Pachter ask.x...@gmail.com
* URL :
Package: wnpp
Severity: wishlist
Owner: Debian Med team debian-...@lists.debian.org
X-Debbugs-Cc: debian-de...@lists.debian.org, debian-...@lists.debian.org
* Package name: r-bioc-ebseq
Version : 1.6.0
Upstream Author : Ning Leng nl...@wisc.edu
* URL :
Package: wnpp
Severity: wishlist
Owner: Debian Med team debian-...@lists.debian.org
X-Debbugs-Cc: debian-de...@lists.debian.org, debian-...@lists.debian.org
* Package name: r-cran-blockmodeling
Version : 0.1.8
Upstream Author : Ales Ziberna ales.ziberna at gmail.com
* URL
Package: wnpp
Severity: wishlist
Owner: Debian Med team debian-...@lists.debian.org
X-Debbugs-Cc: debian-de...@lists.debian.org, debian-...@lists.debian.org
* Package name: parafly
Version : 0.0.2013.01.21
Upstream Author : Brian Haas bh...@broadinstitute.org
* URL :
Just three jars for now (+ an embedded collections15): jung-api.jar,
jung-graph-impl.jar,
and jung-algorithms.jar
Vcs-Browser: http://anonscm.debian.org/gitweb/?p=debian-med/libjung-java.git
Vcs-Git: git://anonscm.debian.org/debian-med/libjung-java.git
Patches welcome
Package: wnpp
Severity: wishlist
Owner: Debian Med team debian-...@lists.debian.org
X-Debbugs-Cc: debian-de...@lists.debian.org, debian-...@lists.debian.org
* Package name: jaligner
Version : 1.0
Upstream Author : Ahmed Moustafa ah...@users.sf.net
* URL :
Package: wnpp
Severity: wishlist
Owner: Debian Med team debian-...@lists.debian.org
X-Debbugs-CC: debian-...@lists.debian.org
* Package name: python-bz2file
Version : 0.98
Upstream Author : Nadeem Vawda nadeem.va...@gmail.com
* URL : https://github.com/nvawda/bz2file
Package: wnpp
Owner: "Debian Ruby Team"
Severity: wishlist
X-Debbugs-CC: debian-r...@lists.debian.org
* Package name: ruby-yell
Version : 2.0.5
Upstream Author : Rudolf Schmidt
* URL : https://github.com/rudionrails/yell
* License
Package: wnpp
Owner: "Debian Ruby Team"
Severity: wishlist
X-Debbugs-CC: debian-r...@lists.debian.org
* Package name: ruby-facade
Version : 1.0.7
Upstream Author : Daniel J. Berger
* URL : https://github.com/djberg96/facade
* License
Package: wnpp
Owner: "Debian Ruby Team"
Severity: wishlist
X-Debbugs-CC: debian-r...@lists.debian.org
* Package name: ruby-fix-trinity-output
Version : 1.0.0
Upstream Author : Chris Boursnell
* URL :
Oops, I thought I had renamed the source package to libcereal.
What's the best way to correct this situation? The package is already in
the NEW queue: http://ftp-master.debian.org/new/cereal_1.1.2-1.html
Whoops, totally missed that macs2 was already packaged as `macs` (I only
search for macs2 as that was the name in PyPI).
FYI: upstream has stopped updating the GitHub tags & releases and switched
to PyPI.
Differences between macs 2.0.9 and macs2 version 2.1.0 in my package
- Upstream's license
Package: wnpp
Owner: "Debian Med Team"
Severity: wishlist
X-Debbugs-CC: debian-...@lists.debian.org
* Package name: macs2
Version : 2.1.0.20150731
Upstream Author : Tao Liu
* URL : http://github.com/taoliu/MACS/
*
Package: wnpp
Owner: "Debian Ruby Team"
Severity: wishlist
X-Debbugs-CC: debian-r...@lists.debian.org
* Package name: transrate
Version : 1.0.1
Upstream Author : - Richard Smith-Unna, Chris Boursnell, Rob Patro,
Julian Hibberd, Steven Kelly
* URL
Package: wnpp
Owner: "Debian Ruby Team"
Severity: wishlist
X-Debbugs-CC: debian-r...@lists.debian.org
* Package name: ruby-threach
Version : 0.2.0
Upstream Author : Bill Dueber
* URL :
Package: wnpp
Owner: "Debian Ruby Team"
Severity: wishlist
X-Debbugs-CC: debian-r...@lists.debian.org
* Package name: ruby-crb-blast
Version : 0.6.4
Upstream Author : Chris Boursnell & Richard Smith-Unna
* URL :
Package: wnpp
Owner: "Debian Ruby Team"
Severity: wishlist
X-Debbugs-CC: debian-r...@lists.debian.org
* Package name: ruby-pathname2
Version : 1.7.4
Upstream Author : Daniel J. Berger
* URL :
Package: wnpp
Owner: "Debian Ruby Team"
Severity: wishlist
X-Debbugs-CC: debian-r...@lists.debian.org
* Package name: ruby-fixwhich
Version : 1.0.2
Upstream Author : Erik Hollensbe & Richard Smith-Unna
* URL :
Control: block 777697 by -1
retitle: ITP: berkeley-express -- Streaming quantification for
high-throughput sequencing
Package is in the NEW queue under new name:
https://ftp-master.debian.org/new/berkeley-express_1.5.1-1.html
Package: wnpp
Owner: "Debian Med Team"
Severity: wishlist
X-Debbugs-CC: debian-...@lists.debian.org
* Package name: libgff-dev
Version : 1.0
Upstream Author : Rob Patro
* URL :
Package: wnpp
Owner: "Debian Med Team"
Severity: wishlist
X-Debbugs-CC: debian-...@lists.debian.org
* Package name: libspdlog-dev
Version : 1.4
Upstream Author : Gabi Melman
* URL :
Package: wnpp
Owner: "Debian Med Team"
Severity: wishlist
X-Debbugs-CC: debian-...@lists.debian.org
* Package name: snap-aligner
Version : 0.18~1.0~beta.18
Upstream Author : The SNAP Team
* URL : http://snap.cs.berkeley.edu/
* License
Package: wnpp
Owner: "Debian Med Team"
Severity: wishlist
X-Debbugs-CC: debian-...@lists.debian.org
* Package name: salmon
Version : 0.4.2
Upstream Author : Rob Patro, Carl Kingsford and Steve Mount
* URL :
Package: wnpp
Owner: "Debian Med Team"
Severity: wishlist
X-Debbugs-CC: debian-...@lists.debian.org
* Package name: cereal
Version : 1.1.2
Upstream Author : Randolph Voorhies, Shane Grant <
cereal...@googlegroups.com>
* URL :
mat...@debian.org> wrote:
> [ /me is just doing housekeeping of wnpp bugs and removing
> inconsistencies ]
>
> (please keep me in CC if you want to reply to me)
>
> On Wed, Sep 30, 2015 at 03:24:25PM -0700, Michael Crusoe wrote:
> > Oops, I thought I had renamed t
Package: wnpp
Severity: wishlist
Owner: anton.kho...@ukr.net
* Package name: python-galaxyxml
Version : 0.1
Upstream Author : Eric Rasche
* URL : https://github.com/erasche/galaxyxml
* License : Apache-2.0
Programming Lang: Python
You are welcome!
git+ssh://git.debian.org/git/debian-med/easel.git is ready for review
2017-04-19 20:11 GMT+03:00 Andreas Tille :
> Very sensible! Thanks for working on this
> Andreas.
>
> On Wed, Apr 19, 2017 at 10:06:57AM -0700, Michael R. Crusoe wrote:
> > Package:
g...@salsa.debian.org:med-team/libdeflate.git
Thanks!
În lun., 15 oct. 2018 la 14:12, Michael R. Crusoe
a scris:
> Package: wnpp
> Severity: wishlist
> Owner: Debian Med team
>
> * Package name: libdeflate
> Version : 1.0
> Upstream Author : Eric Biggers
> * URL :
Thank you for the information.
I'm already using this for schema_salad. I'll patch out the need for it and
request removal of this package when Py3.6 is retired.
--
Michael R. Crusoe
În vin., 7 dec. 2018, 01:57 Piotr Ożarowski [Michael Crusoe, 2018-12-06]
> > How soon is soon?
>
How soon is soon?
--
Michael R. Crusoe
Co-founder & Lead,
Common Workflow Language project
https://impactstory.org/u/-0002-2961-9670
m...@commonwl.org
În joi, 6 dec. 2018, 19:27 Piotr Ożarowski > The typing module was added to the standard library in Python 3.5 on a
> > provisional basis
Correction: This package is maintained by Debian Med Packaging Team at
https://salsa.debian.org/med-team/seqan3
Thanks Andrej!
I recently learned that mypyc is being rolled into the main mypy package
upstream, so I'm holding off for the next release of mypy
--
Michael R. Crusoe
Co-founder & Lead,
Common Workflow Language project
m...@commonwl.org
On Wed, Sep 11, 2019, 21:40 Andrej Shadura
wrote:
> Hi,
I have 1.20.0 in my local repository, not yet pushed
According to my build logs that did not succeed either.
I'll update my local copy to 1.21 as well, and then I'll compare the patch
modifications; pushing up the diff if that seems useful
On Sun, Jan 12, 2020 at 11:43 AM Andreas Tille wrote:
shot than
Debian's
#use_packaged_protobuf ?
On Mon, Jan 13, 2020 at 11:20 AM Michael Crusoe
wrote:
> I have 1.20.0 in my local repository, not yet pushed
>
> According to my build logs that did not succeed either.
>
> I'll update my local copy to 1.21 as well, and then I'l
bowtie2 segfaults for me if eatmydata and/or cowbuilder are being used, so
try with clearing out LD_PRELOAD first
On Fri, 15 Jan 2021 at 11:22, Andreas Tille wrote:
> On Fri, Jan 15, 2021 at 11:16:48AM +0100, Michael Crusoe wrote:
> > bowtie2 segfaults for me if eatmydata and/or cowbuilder are being used,
> so
> > try with clearing out LD_PRELOAD first
>
> Ahhh, this makes perfectly
That's great news, please go for it!
--
Michael R. Crusoe ; he/him
https://orcid.org/-0002-2961-9670
CWL Project Leader, Software Freedom Conservancy, Common Workflow Language
project
Promovendus, VU Amsterdam, Computer Systems & Bioinformatics
Project Leader FAIR Service Architecture in
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