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Dynamically respond to the number of lanes.
[htsworkflow.git] / htsworkflow / pipelines /
2013-10-17 Diane TroutDynamically respond to the number of lanes. tree | commitdiff
2013-01-16 dianeAdd more entries to genome version detection map. tree | commitdiff
2012-11-29 Diane TroutRemove prints that were being called in test code. tree | commitdiff
2012-11-28 Diane TroutConvert to unittest2 tree | commitdiff
2012-11-28 Diane TroutConvert to unittest2 tree | commitdiff
2012-11-16 Diane TroutFurther attempts to validate RDF models. tree | commitdiff
2012-09-24 Diane TroutMerge changing lane_number to string and sequence findi... tree | commitdiff
2012-09-19 Diane TroutUse htsworkflow ontology to validate various RDF using... tree | commitdiff
2012-09-18 Diane TroutMerge ssh://jumpgate.caltech.edu/var/htsworkflow/htswor... tree | commitdiff
2012-09-18 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2012-09-18 Diane TroutProgress using rdf model to link fastqs with flowcell... tree | commitdiff
2012-08-31 Diane TroutOlder rdf library doesn't like unicode strings as nodes tree | commitdiff
2012-08-31 Diane TroutAllow option to save/restore a sequence class to a... tree | commitdiff
2012-08-06 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2012-08-06 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2012-08-06 Diane TroutTest proper setting of sequence project variable tree | commitdiff
2012-08-02 Diane TroutTest more of the sequences class. tree | commitdiff
2012-07-25 Diane TroutActually we want to capture the unanalyzed lanes if... tree | commitdiff
2012-07-19 Diane TroutAdapt building qseq or srf archives to use SampleKey... tree | commitdiff
2012-07-19 Diane TroutUpdate save_raw_data to SampleKey api tree | commitdiff
2012-07-19 Diane TroutAdd in a few more genomes to detection code tree | commitdiff
2012-07-16 Diane TroutRemove default sequence-format so the new auto-detector... tree | commitdiff
2012-07-14 Diane TroutAttempt to guess raw sequence type for a run. tree | commitdiff
2012-07-13 Diane TroutFix a refactoring error tree | commitdiff
2012-07-12 Diane TroutLook for RTAConfig.xml file generated by pipeline 1... tree | commitdiff
2012-07-12 Diane TroutUse lane 1s matrix when pipeline was set to build matri... tree | commitdiff
2012-07-12 Diane TroutClean up flowcell ID detection and add support for... tree | commitdiff
2012-07-12 Diane TroutRe-enable some suppressed tests and update them for... tree | commitdiff
2012-07-12 Diane Troutwhitespace fix. tree | commitdiff
2012-07-11 Diane TroutTest reading the xml out of a file too. tree | commitdiff
2012-07-10 Diane TroutFix import statement and typos for genomemap tree | commitdiff
2012-07-10 Diane TroutCreate a class to convert contig names into genome... tree | commitdiff
2012-07-10 Diane TroutGuess genome name for building compressed mapping count... tree | commitdiff
2012-07-07 Diane TroutUse sample keys when looking up lane parameters. tree | commitdiff
2012-07-06 Diane TroutA few python 2.6 test case incompatibilities. tree | commitdiff
2012-07-06 Diane TroutSwitch to regular dictionary instead of ordered dictionary. tree | commitdiff
2012-07-05 Diane TroutMassively rework eland file finding and indexing. tree | commitdiff
2012-07-05 Diane TroutRename chromosome in hiseq test set to match our fake... tree | commitdiff
2012-06-30 Diane TroutDisable debug messages for each scanned eland file... tree | commitdiff
2012-06-30 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2012-06-30 Diane TroutSupport multiple having an eland file split into multip... tree | commitdiff
2012-06-30 Diane TroutSome minor tweaks to rta 1.12 testing. tree | commitdiff
2012-06-30 Diane TroutProperly code in tabs for simulated hiseq export files tree | commitdiff
2012-06-30 Diane TroutUse different tags indicating gerald or casava style... tree | commitdiff
2012-06-21 Diane TroutMerge ssh://jumpgate.caltech.edu/var/htsworkflow/htswor... tree | commitdiff
2012-06-12 Diane TroutAdd a software (name) property to firecrest, ipar,... tree | commitdiff
2012-06-11 Diane TroutReturn a gerald version number as a number and not... tree | commitdiff
2012-06-02 Diane TroutSplit lane parameters into seperate classes for GA... tree | commitdiff
2012-05-25 Diane TroutMerge ssh://jumpgate.caltech.edu/var/htsworkflow/htswor... tree | commitdiff
2012-05-25 Diane TroutMerge ssh://jumpgate.caltech.edu/var/htsworkflow/htswor... tree | commitdiff
2012-05-16 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2012-05-16 Diane Troutupdate summary.py to extract data from HiSeq runs. tree | commitdiff
2012-05-15 Diane TroutFix bugs introduduced by the improved HiSeq runfolder... tree | commitdiff
2012-05-12 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2012-05-10 Diane TroutMinimal changes needed to get raw data archived for... tree | commitdiff
2012-04-13 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2012-04-12 Diane TroutExtend the adapter id field to support the dual indexed... tree | commitdiff
2012-03-27 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2012-03-26 Diane TroutSwitch to lxml for parsing the summary file. tree | commitdiff
2012-03-23 Diane TroutApparently I forgot to remove a parameter why creating... tree | commitdiff
2012-03-08 Diane TroutActually if I provide an output file, I want to write... tree | commitdiff
2012-03-07 Diane TroutForgot to add split attribute to __eq__ test. tree | commitdiff
2012-03-06 Diane TroutSupport scanning for split fastq files generated by... tree | commitdiff
2012-03-06 Diane TroutAdd module to convert multiple fastq files into a singl... tree | commitdiff
2012-03-05 Diane TroutUse named tuple for sequence flowcell/start/stop/projec... tree | commitdiff
2012-03-02 Diane TroutCore functions for saving and finding fastq files gener... tree | commitdiff
2012-03-01 Diane TroutRemove some debug prints tree | commitdiff
2012-03-01 Diane TroutSimulate a HiSeq runfolder. tree | commitdiff
2011-12-20 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2011-12-20 Diane Troutwhitespace reformatting tree | commitdiff
2011-12-20 Diane TroutRemove eXecute bit from modules tree | commitdiff
2011-11-22 Diane TroutAdd a method to override command used to convert srf... tree | commitdiff
2011-11-05 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2011-11-04 Diane TroutUse a logger initialized to the module name much more... tree | commitdiff
2011-10-21 Diane TroutYes generate regular gerald config file. tree | commitdiff
2011-10-10 Diane TroutRemove ReadPrep and Thumbnail_Images being generated... tree | commitdiff
2011-10-10 Diane TroutDon't need to duplicate %t tile in srf command tree | commitdiff
2011-10-06 Diane TroutAdd the ability to specify a flowcell id instead of... tree | commitdiff
2011-10-04 Diane TroutAdd support for flowcells analyzed with Casava 1.7 tree | commitdiff
2011-09-19 Diane TroutOutput samples that don't have index sequence as well. tree | commitdiff
2011-09-19 Diane TroutPython 2.6's DictWriter doesn't have writeheader, so... tree | commitdiff
2011-09-17 Diane TroutAdd support for tracking the multiplex index sequence. 0.5.4 tree | commitdiff
2011-09-12 Diane TroutAdd support for first-gen HiSeq flowcells (e.g. ABXX) tree | commitdiff
2011-06-30 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2011-06-23 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2011-06-22 Diane TroutMove parse_flowcell_id out of frontend.samples.results tree | commitdiff
2011-06-11 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2011-06-11 Diane TroutConvert Rami's DataRun feature to something useful... tree | commitdiff
2011-06-10 Brandon W. KingThe srf/qseq --raw-format patch. tree | commitdiff
2011-06-09 Diane TroutMove test srf files to testdata directory so I can... tree | commitdiff
2011-06-09 Diane TroutAdd a method to return the runfolder name. tree | commitdiff
2011-05-26 Diane TroutMerge branch 'add-condition' tree | commitdiff
2011-05-09 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2011-05-09 Diane TroutReport missing directory names to help diagnose sequenc... tree | commitdiff
2011-04-18 Diane TroutBe more flexible with fastq filenames. tree | commitdiff
2011-02-17 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2011-02-15 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
2011-02-07 Diane TroutAdd in a little bit of qseq2fastq testing code. More... tree | commitdiff
2011-02-07 Diane TroutAdd documentation about which Phred format we're generating tree | commitdiff
2011-02-03 Diane TroutMerge branch 'master' of mus.cacr.caltech.edu:htsworkflow tree | commitdiff
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htsworkflow sequencing LIMS software