| 2011-02-07 |
Diane Trout | Merge branch 'master' into debianized debianized |
tree | commitdiff |
| 2011-02-07 |
Diane Trout | Add in a little bit of qseq2fastq testing code. More... |
tree | commitdiff |
| 2011-02-07 |
Diane Trout | Add documentation about which Phred format we're generating |
tree | commitdiff |
| 2011-02-03 |
Diane Trout | Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow |
tree | commitdiff |
| 2011-01-25 |
Diane Trout | Fix typo in a function name. |
tree | commitdiff |
| 2010-11-01 |
Diane Trout | Only complane about missing genomes if we _wanted_... |
tree | commitdiff |
| 2010-11-01 |
Diane Trout | Check for s_${lane}_02_matrix.txt as well as s_${lane... |
tree | commitdiff |
| 2010-10-27 |
Diane Trout | The WITH_SEQUENCE flag needs to be lower-case "true". |
tree | commitdiff |
| 2010-10-22 |
Diane Trout | Report version number derived from git tag. |
tree | commitdiff |
| 2010-10-19 |
Diane Trout | Set WITH_SEQUENCE as both a per-lane AND global parameter 0.4.5 |
tree | commitdiff |
| 2010-10-08 |
Diane Trout | WITH_SEQUENCE is actually a global GERALD option, remov... |
tree | commitdiff |
| 2010-10-07 |
Diane Trout | Update gerald config file generation. |
tree | commitdiff |
| 2010-09-24 |
Diane Trout | Handle the case when a sequencing lane lacks any yield... |
tree | commitdiff |
| 2010-09-10 |
Diane Trout | Add support for CASAVA 1.7 |
tree | commitdiff |
| 2010-06-10 |
Diane Trout | Extend htsworkflow.pipelines.sequences to also try... |
tree | commitdiff |
| 2010-06-10 |
Diane Trout | Move the code to scan the sequence file archive to... |
tree | commitdiff |
| 2010-06-10 |
Diane Trout | Move the knowledge of the urls for the REST API to... |
tree | commitdiff |
| 2010-04-23 |
Diane Trout | Update summary script to read from the GERALD Summary... |
tree | commitdiff |
| 2010-02-22 |
Diane Trout | there is no such thing as sequence_extended. I was... |
tree | commitdiff |
| 2010-01-21 |
Diane Trout | Update test code to deal with the switch to storing... |
tree | commitdiff |
| 2009-12-11 |
Diane Trout | Modify the srf utility to tar.bz2 the qseq files instea... |
tree | commitdiff |
| 2009-11-10 |
Diane Trout | Don't add the post_run_command unless the option and... |
tree | commitdiff |
| 2009-10-17 |
Diane Trout | Figure out the absolute path to the runfolder for passi... |
tree | commitdiff |
| 2009-10-08 |
Diane Trout | Add the ability not to build srf files. |
tree | commitdiff |
| 2009-10-06 |
Diane Trout | Use eland_extended or eland_pair instead of eland for... |
tree | commitdiff |
| 2009-10-06 |
Diane Trout | Default to sequencing if we don't have a genome for... |
tree | commitdiff |
| 2009-10-02 |
Diane Trout | Test the updated version of extract results that builds... |
tree | commitdiff |
| 2009-09-30 |
Diane Trout | Add building srf files to runfolder as part of --extrac... |
tree | commitdiff |
| 2009-09-26 |
Diane Trout | The config file should also set the SEQUENCE_FORMAT |
tree | commitdiff |
| 2009-09-26 |
Diane Trout | HttpRequest.getcode doesn't exist in python 2.4, use... |
tree | commitdiff |
| 2009-09-26 |
Diane Trout | Implement a client side config file generator. |
tree | commitdiff |
| 2009-09-16 |
Diane Trout | Replace some prints with logging.info messages and |
tree | commitdiff |
| 2009-09-10 |
Diane Trout | Don't crash if there are no lane result summary entries... |
tree | commitdiff |
| 2009-09-10 |
Diane Trout | Report if the Summary.htm file is missing the Lane... |
tree | commitdiff |
| 2009-06-19 |
Diane Trout | I started using ResultLane, so stop treating it like... |
tree | commitdiff |
| 2009-06-17 |
Diane Trout | Add support for extracting data out of Illumina's new... |
tree | commitdiff |
| 2009-06-17 |
Diane Trout | Loading really old run xml files caused the website... |
tree | commitdiff |
| 2009-06-17 |
Diane Trout | remove spurious debug print statements |
tree | commitdiff |
| 2009-05-11 |
Diane Trout | Fix parameter list for base class. |
tree | commitdiff |
| 2009-05-05 |
Diane Trout | Handle lanes that were only sequenced. |
tree | commitdiff |
| 2009-05-05 |
Diane Trout | Return NaN, NaN if a mean +/- deviation value was undef... |
tree | commitdiff |
| 2009-04-24 |
Diane Trout | add --clean option to runfolder |
tree | commitdiff |
| 2009-03-31 |
Diane Trout | Use the image directory name to detect what type of... |
tree | commitdiff |
| 2009-03-31 |
Diane Trout | Don't attempt to save xml for a matrix in firecrest... |
tree | commitdiff |
| 2009-03-31 |
Diane Trout | remove some useless debugging print statements |
tree | commitdiff |
| 2009-03-30 |
Diane Trout | Add unit test to check that the crosstalk matrix was... |
tree | commitdiff |
| 2009-03-30 |
Diane Trout | IPAR detection is more reliable than firecrest so do... |
tree | commitdiff |
| 2009-03-30 |
Diane Trout | Allow specifying a run instead of just scanning the... |
tree | commitdiff |
| 2009-03-28 |
Diane Trout | For pipeline 1.1rc1 or 1.3.2, look for the matrix files... |
tree | commitdiff |
| 2009-03-28 |
Diane Trout | Move sample data from simulate_runfolder into testdata |
tree | commitdiff |
| 2009-03-18 |
Diane Trout | Generate a gerald config file, even if the genome is... |
tree | commitdiff |
| 2009-03-16 |
Diane Trout | Parse runfolders generated with IPAR 1.3 and pipeline... |
tree | commitdiff |
| 2009-03-10 |
Diane Trout | Improve support for eland searching a single fasta... |
tree | commitdiff |
| 2009-02-17 |
Diane Trout | remove cfg_defaults. It was part of an idea I was start... |
tree | commitdiff |
| 2009-02-13 |
Diane Trout | save longer comment describing change |
tree | commitdiff |
| 2009-02-13 |
Diane Trout | Aparently some more recent version of multi eland stopped |
tree | commitdiff |
| 2009-02-13 |
Diane Trout | Merge in the library list, detail, and results download... |
tree | commitdiff |
| 2009-02-12 |
Diane Trout | make our API docstrings more epydoc friendly |
tree | commitdiff |
| 2009-02-12 |
Diane Trout | Add load_pipeline_run_xml, a little function that feeds... |
tree | commitdiff |
| 2009-01-30 |
Diane Trout | Try to make runfolder results extraction more robust |
tree | commitdiff |
| 2009-01-30 |
Diane Trout | Update to not hard code the config file name and the... |
tree | commitdiff |
| 2009-01-06 |
Diane Trout | Look in Temp directories for some of the files we have... |
tree | commitdiff |
| 2008-12-24 |
Diane Trout | Handle paired-end eland files. |
tree | commitdiff |
| 2008-12-24 |
Diane Trout | remove a debug print statement |
tree | commitdiff |
| 2008-12-23 |
Diane Trout | change from hand coded formatting functions to the... |
tree | commitdiff |
| 2008-12-23 |
Diane Trout | Use the right URLError attribute names for error messages |
tree | commitdiff |
| 2008-12-18 |
Diane Trout | rename config file to something that doesn't include... |
tree | commitdiff |
| 2008-12-10 |
Diane Trout | The summary parsing code now seems to handle paired... |
tree | commitdiff |
| 2008-12-09 |
Diane Trout | Test 1.1rc1 style runs, which unfortunately require... |
tree | commitdiff |
| 2008-12-03 |
Diane Trout | Add test code to see if runfolder can handle something... |
tree | commitdiff |
| 2008-12-03 |
Diane Trout | Add code to create a paired end Summary.htm file |
tree | commitdiff |
| 2008-12-03 |
Diane Trout | Store the bustard pathname when searching for run folders |
tree | commitdiff |
| 2008-11-06 |
Diane Trout | Updated ipar_100 test case to deal with the using U0... |
tree | commitdiff |
| 2008-11-06 |
Diane Trout | Process eland extended (or multi) read files. |
tree | commitdiff |
| 2008-10-30 |
Diane Trout | The htsworkflow.pipelines.gerald module was getting... |
tree | commitdiff |
| 2008-10-30 |
Diane Trout | Add support for scanning for results in the IPAR directory. |
tree | commitdiff |
| 2008-10-15 |
Diane Trout | rename pipeline to pipelines to imply that we can proce... |
tree | commitdiff |
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projects / htsworkflow.git / history