Re: Bug#828850: ITP: r-bioc-deseq2 -- R package for RNA-Seq Differential Expression Analysis

[Andreas Tille <andreas@an3as.eu>]

Uploaded.  Regarding cnvkit:  If I build in a pbuilder chroot this fails with:

...
help2man --no-info --version-option=version \
        --name="a command-line toolkit for copy number analysis." \
        ./cnvkit > debian/cnvkit.1
debian/genmanpages.py 0.7.11
Traceback (most recent call last):
  File "debian/genmanpages.py", line 3, in <module>
    from cnvlib import commands
ImportError: No module named cnvlib
debian/rules:37: recipe for target 'override_dh_auto_install' failed
...


I personally stopped autogeneration of manpages since most of it needs
post-processing anyway.  So either you set PYTHONPATH properly or install
the package call help2man (perhaps using the script I commited to SVN
in trunk/helper-scripts/createmanpages) and add it statically.

Kind regards

      Andreas.


On Tue, Jun 28, 2016 at 06:51:42AM -0700, Michael R. Crusoe wrote:
> Package: wnpp
> Severity: wishlist
> Owner: Debian Med team <debian-med@lists.debian.org>
> 
> * Package name    : r-bioc-deseq2
>   Version         : 1.12.3
>   Upstream Author : Michael Love <michaelisaiahlove@gmail.com>
> * URL             : https://bioconductor.org/packages/DESeq2
> * License         : LGPL-3+
>   Programming Lang: R
>   Description     : R package for RNA-Seq Differential Expression Analysis
> 
> Differential gene expression analysis based on the negative binomial
> distribution. Estimate variance-mean dependence in count data from
> high-throughput sequencing assays and test for differential expression based
> on a model using the negative binomial distribution.
> 
> Popular bioinformatics tool/library; team maintained by Debian Med
> 
> 

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