:orphan: .. _docs_gp_relnote_2_0_0: .. spelling:word-list:: timestamp GenPipes 2.0.0 Release Notes ============================ May the *genomic analysis and bioinformatics* **force** be with you! This is the first Python release of GenPipes! What's new? ------------ * Complete redesign of the pipelines in Python for DNA-Seq, RNA-Seq, RNA-Seq De Novo Assembly, PacBio Assembly. ChIP-Seq pipeline will be available in the next release. * Pipelines now share a common list of options * Option and step description is available with --help * Config .ini files can be provided as a list with default one set for abacus and Homo sapiens genome; custom ones can be added for other clusters and/or genomes; `refer to latest configuration file details here `_. * 2 job schedulers are available to submit jobs: PBS for job submission on a cluster, batch for simple command line script * Smart job up-to-date status is computed given a step range: if a job is not up to date, all dependent subsequent jobs are created as well * Option to force job creation even if they are up to date * New input readset file format. Cf: https://bitbucket.org/mugqic/genpipes/src/master/README.md * Log-leveled messages to track job creation, input/output files, up-to-date status * Bash script output with version, timestamp and number of created jobs * Option to specify output directory * and many more... Quick! Where can I find it? I can't wait! ------------------------------------------ This version tarball is in: https://bitbucket.org/mugqic/genpipes/downloads/mugqic_pipelines-2.0.0.tar.gz The module mugqic/mugqic_pipelines/2.0.0 is installed on abacus, guillimin and mammouth clusters. The source code is in Bitbucket: https://bitbucket.org/mugqic/mugqic_pipelines