Release of GenPipes 4.6.0
Mareike Janiak
A new release of GenPipes, 4.6.0 is now available.
What's new?
==========
This is a medium release :
* Throughout:
- Bug fixes and improved module loading in qiime protocol
- Reverted BisSNP to v.0.82.2 because v.1.0.0 was outputting malformed vcf files
- added gzipping of BisSNP output files
* TumorPair :
- fixed a bug with PCGR when pair name is longer than 35 characters
- improved restarts
* RNASeq :
- fixed a bug with PCGR when sample name is longer than 35 characters
- minor changes to resource requests to improve efficiency
* ChipSeq :
- fixed an error that caused the same blacklist file to be used regardless of species and genome version specified. Use of a blacklist is now optional and users can now specify their desired blacklist file in their config file.
* CovSeq :
- updated default version of amplicon scheme to v.5.3.2
- updated pandoc version for report generation
Where to find it?
============
* The source code for this version is in bitbucket :
https://bitbucket.org/mugqic/genpipes/downloads/genpipes-4.6.0.tar.gz
* The module mugqic/genpipes/4.6.0 is installed on Abacus (MGC), Béluga, Graham, Cedar and Narval Compute Canada 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