diff --git a/HISTORY.md b/HISTORY.md index 9c74e22ef..178b0381e 100644 --- a/HISTORY.md +++ b/HISTORY.md @@ -1,4 +1,7 @@ -## 1.2.8 (in progress) +## 1.2.9 (in progress) + + +## 1.2.8 (14 April 2021) - Set ENCODE library complexity flags properly for ChIP-seq. Thanks to @mistrm82. - Fix greylisted peaks not being propagated to the output directory. Thanks to @mistrm82. - Better error message when no sample barcodes are found for single-cell RNA-seq. @@ -11,6 +14,14 @@ - Enable consensus peak calling for broad peaks. Thanks to @mistrm82 and @yoonsquared for pointing out this was missing. - Re-enable ATAC-seq tests, they work now. +- svprioritize for mm10 +- purecn_Dx.R - mutational signatures - still requires a manual update of deconstructsigs or release of it +- make sure purecn uses sv_regions bed to call variants +- fix misleading disambiguation fastqc read statistics (total, hg38, mm10) +- wgbs: nebemseq kit: add --maxins 1000 and --local to bismark align +- WGBS: sorted indexed deduplicated bam for ready.bam +- print error message when aligner: false and hla typing is on +- make sure that mark_duplicates is false with collapsed UMI input ## 1.2.7 (22 February 2021) - RNASeq: Add gene body coverage plots to multiqc report. diff --git a/LICENSE.txt b/LICENSE.txt index a88cce992..b0f83c70f 100644 --- a/LICENSE.txt +++ b/LICENSE.txt @@ -1,4 +1,4 @@ -Copyright (c) 2013 bcbio-nextgen contributors +Copyright (c) 2013-2021 bcbio-nextgen contributors Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the diff --git a/docs/conf.py b/docs/conf.py index f6c9bd08a..09c4cde74 100644 --- a/docs/conf.py +++ b/docs/conf.py @@ -22,11 +22,11 @@ # -- Project information ----------------------------------------------------- project = 'bcbio-nextgen' -copyright = '2020, bcbio-nextgen contributors' +copyright = '2021, bcbio-nextgen contributors' author = 'bcbio-nextgen contributors' # The full version, including alpha/beta/rc tags -version = release = '1.2.4' +version = release = '1.2.8' # -- General configuration --------------------------------------------------- diff --git a/setup.py b/setup.py index 9f2a91dad..2c7638af2 100755 --- a/setup.py +++ b/setup.py @@ -7,7 +7,7 @@ import setuptools -VERSION = '1.2.7' +VERSION = '1.2.8' # add bcbio version number and git commit hash of the current revision to version.py try: