Release of GenPipes 5.1.0

[Mareike Janiak]

A new release of GenPipes, 5.1.0 is now available.

 

What's new? 

==========

This is a bug-fix medium release : 

* DNASeq

     - fixed an error in the cnvkit_batch step (somatic protocols) that occurred when more than one sample pair was included in the readset file

     - fixed an issue with missing dependencies that occurred in paired somatic protocols when using the same normal sample with multiple tumor samples. This error was introduced in GenPipes v.5.0.

     - improved documentation for using the pair file in somatic protocols

     - improved error messages when using paired protocols to ensure that users know that the patient/pair name used has to be unique

* Batch mode

     - added a proper line break in the genpipes file header when using batch mode

Where to find it?

============ 

* The source code for this version is in bitbucket : 

https://bitbucket.org/mugqic/genpipes/downloads/genpipes-5.1.0.tar.gz

* GenPipes is now distributed as a package via pypi:

https://pypi.org/project/c3g-genpipes/

* The module genpipes/5.1.0 is installed on Abacus (MGC), Béluga, Graham, Cedar and Narval Alliance clusters.

 

* The source code is in bitbucket :

https://bitbucket.org/mugqic/genpipes

 

* For more documentation, please refer to :

https://genpipes.readthedocs.io/

Where is the detailed ChangeLog? 

========================== 

A ChangeLog (CHANGELOG.md) is available in the archive as well as in the repository.

 

Since we use git, there are many ways to get the details in many formats. 

One of our preferred ways is to use a script written by the author of the Ray assembler: Sébastien Boisvert, 

which lists the commits by tag and author: 

https://raw.github.com/sebhtml/ray/master/scripts/dump-ChangeLog.sh 

--

Mareike Janiak

Bioinformatics Analyst - Technical Development

Canadian Centre for Computational Genomics (C3G)