woldlab.caltech.edu Git - htsworkflow.git/history - htsworkflow/pipelines/runfolder.py

[htsworkflow.git] / htsworkflow / pipelines / runfolder.py

2013-12-05	Diane Trout	Recent IPAR xml config blocks include the runfolder...	blob \| commitdiff \| raw
2013-02-01	Diane Trout	Make a sample key list to go along with our lane list	blob \| commitdiff \| raw \| diff to current
2013-01-16	Diane Trout	Support scanning HiSeq runs with multiple analyses.	blob \| commitdiff \| raw \| diff to current
2013-01-15	Diane Trout	Start making documentation for htsworkflow.	blob \| commitdiff \| raw \| diff to current
2013-01-09	Diane Trout	A better resolution to a possible circular dependency.	blob \| commitdiff \| raw \| diff to current
2013-01-08	Diane Trout	Merge branch 'django1.4' of mus.cacr.caltech.edu:htswor...	blob \| commitdiff \| raw \| diff to current
2013-01-08	Diane Trout	Try to make Aligned result directories optional in...	blob \| commitdiff \| raw \| diff to current
2012-08-06	Diane Trout	Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow	blob \| commitdiff \| raw \| diff to current
2012-07-25	Diane Trout	Actually we want to capture the unanalyzed lanes if...	blob \| commitdiff \| raw \| diff to current
2012-07-19	Diane Trout	Update save_raw_data to SampleKey api	blob \| commitdiff \| raw \| diff to current
2012-07-16	Diane Trout	Remove default sequence-format so the new auto-detector...	blob \| commitdiff \| raw \| diff to current
2012-07-14	Diane Trout	Attempt to guess raw sequence type for a run.	blob \| commitdiff \| raw \| diff to current
2012-07-12	Diane Trout	Clean up flowcell ID detection and add support for...	blob \| commitdiff \| raw \| diff to current
2012-07-10	Diane Trout	Guess genome name for building compressed mapping count...	blob \| commitdiff \| raw \| diff to current
2012-07-05	Diane Trout	Massively rework eland file finding and indexing.	blob \| commitdiff \| raw \| diff to current
2012-06-30	Diane Trout	Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow	blob \| commitdiff \| raw \| diff to current
2012-06-30	Diane Trout	Support multiple having an eland file split into multip...	blob \| commitdiff \| raw \| diff to current
2012-06-21	Diane Trout	Merge ssh://jumpgate.caltech.edu/var/htsworkflow/htswor...	blob \| commitdiff \| raw \| diff to current
2012-06-12	Diane Trout	Add a software (name) property to firecrest, ipar,...	blob \| commitdiff \| raw \| diff to current
2012-06-11	Diane Trout	Return a gerald version number as a number and not...	blob \| commitdiff \| raw \| diff to current
2012-05-25	Diane Trout	Merge ssh://jumpgate.caltech.edu/var/htsworkflow/htswor...	blob \| commitdiff \| raw \| diff to current
2012-05-25	Diane Trout	Merge ssh://jumpgate.caltech.edu/var/htsworkflow/htswor...	blob \| commitdiff \| raw \| diff to current
2012-05-15	Diane Trout	Fix bugs introduduced by the improved HiSeq runfolder...	blob \| commitdiff \| raw \| diff to current
2012-05-12	Diane Trout	Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow	blob \| commitdiff \| raw \| diff to current
2012-05-10	Diane Trout	Minimal changes needed to get raw data archived for...	blob \| commitdiff \| raw \| diff to current
2012-04-13	Diane Trout	Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow	blob \| commitdiff \| raw \| diff to current
2012-03-27	Diane Trout	Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow	blob \| commitdiff \| raw \| diff to current
2012-03-23	Diane Trout	Apparently I forgot to remove a parameter why creating...	blob \| commitdiff \| raw \| diff to current
2012-03-02	Diane Trout	Core functions for saving and finding fastq files gener...	blob \| commitdiff \| raw \| diff to current
2011-11-05	Diane Trout	Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow	blob \| commitdiff \| raw \| diff to current
2011-11-04	Diane Trout	Use a logger initialized to the module name much more...	blob \| commitdiff \| raw \| diff to current
2011-10-10	Diane Trout	Remove ReadPrep and Thumbnail_Images being generated...	blob \| commitdiff \| raw \| diff to current
2011-10-06	Diane Trout	Add the ability to specify a flowcell id instead of...	blob \| commitdiff \| raw \| diff to current
2011-06-30	Diane Trout	Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow	blob \| commitdiff \| raw \| diff to current
2011-06-11	Diane Trout	Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow	blob \| commitdiff \| raw \| diff to current
2011-06-10	Brandon W. King	The srf/qseq --raw-format patch.	blob \| commitdiff \| raw \| diff to current
2011-06-09	Diane Trout	Add a method to return the runfolder name.	blob \| commitdiff \| raw \| diff to current
2010-09-24	Diane Trout	Handle the case when a sequencing lane lacks any yield...	blob \| commitdiff \| raw \| diff to current
2009-12-11	Diane Trout	Modify the srf utility to tar.bz2 the qseq files instea...	blob \| commitdiff \| raw \| diff to current
2009-10-08	Diane Trout	Add the ability not to build srf files.	blob \| commitdiff \| raw \| diff to current
2009-10-02	Diane Trout	Test the updated version of extract results that builds...	blob \| commitdiff \| raw \| diff to current
2009-09-30	Diane Trout	Add building srf files to runfolder as part of --extrac...	blob \| commitdiff \| raw \| diff to current
2009-09-10	Diane Trout	Don't crash if there are no lane result summary entries...	blob \| commitdiff \| raw \| diff to current
2009-06-17	Diane Trout	Add support for extracting data out of Illumina's new...	blob \| commitdiff \| raw \| diff to current
2009-05-05	Diane Trout	Handle lanes that were only sequenced.	blob \| commitdiff \| raw \| diff to current
2009-04-24	Diane Trout	add --clean option to runfolder	blob \| commitdiff \| raw \| diff to current
2009-03-31	Diane Trout	Use the image directory name to detect what type of...	blob \| commitdiff \| raw \| diff to current
2009-03-30	Diane Trout	IPAR detection is more reliable than firecrest so do...	blob \| commitdiff \| raw \| diff to current
2009-03-30	Diane Trout	Allow specifying a run instead of just scanning the...	blob \| commitdiff \| raw \| diff to current
2009-03-28	Diane Trout	For pipeline 1.1rc1 or 1.3.2, look for the matrix files...	blob \| commitdiff \| raw \| diff to current
2009-03-10	Diane Trout	Improve support for eland searching a single fasta...	blob \| commitdiff \| raw \| diff to current
2009-02-12	Diane Trout	Add load_pipeline_run_xml, a little function that feeds...	blob \| commitdiff \| raw \| diff to current
2009-01-30	Diane Trout	Try to make runfolder results extraction more robust	blob \| commitdiff \| raw \| diff to current
2009-01-06	Diane Trout	Look in Temp directories for some of the files we have...	blob \| commitdiff \| raw \| diff to current
2008-12-24	Diane Trout	Handle paired-end eland files.	blob \| commitdiff \| raw \| diff to current
2008-11-06	Diane Trout	Process eland extended (or multi) read files.	blob \| commitdiff \| raw \| diff to current
2008-10-30	Diane Trout	Add support for scanning for results in the IPAR directory.	blob \| commitdiff \| raw \| diff to current
2008-10-15	Diane Trout	rename pipeline to pipelines to imply that we can proce...	blob \| commitdiff \| raw \| diff to current

htsworkflow sequencing LIMS software

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