Greg Von Kuster 86c7a80c31 Add support for NCBI Blast XML data format.

2009-01-07 12:20:35 -05:00

..

annotation_profiler

Annotation profiler: Better handling of the case where regions extend beyond known chromosome boundaries.

2008-10-30 14:46:57 -04:00

data_destination

Add new EpiGRAPH tools that point to EpiGRAPH production server.

2008-10-28 11:27:42 -04:00

data_source

Rename gbrowse_elegans to wormbase_test, add a config for the wormbase production server.

2008-12-15 10:37:39 -05:00

emboss_5

Forgot to eliminate the emboss path...

2008-04-25 19:07:26 +00:00

encode

Completed an old FIXME in DefaultToolAction.execute() - metadata no longer added to "incoming". Tool config params changed from things like$input_chromCol to ${input.metadata.chromCol}.

2008-07-23 15:27:39 -04:00

extract

Added Validator to a bunch of tools..

2008-10-17 13:02:26 -04:00

fasta_tools

(no commit message)

2008-11-18 11:23:09 -05:00

filters

Bug fixes for compare, Group and filter tools.

2008-12-02 11:41:25 -05:00

hyphy

Revert 2715.

2008-06-04 13:02:15 +00:00

maf

Call set_size() before set_peek() on datasets, changes to set_peek() to not read entire files for some datatypes.

2008-12-02 10:50:54 -05:00

metag_tools

Add support for NCBI Blast XML data format.

2009-01-07 12:20:35 -05:00

new_operations

Added more test-cases to GOPS JOIN to include cases with different cut-offs for overlap.

2008-12-12 12:12:59 -05:00

plotting

Add functioal test baseline support for the repeat construct, more work needed ( e.g., multiple repeat elements, refresh_on_change when the input to be refreshed is within a repeat construct ). Added functional tests for some tools that use this construct.

2008-11-10 14:22:01 -05:00

regVariation

Modified help message for indel rate tool.

2008-10-06 09:33:52 -04:00

sr_mapping

update xml files for short reads mapping tools.

2008-10-15 15:51:13 -04:00

stats

Added a new option to the grouping tool to facilitate picking of random entries from columns not chosen for either grouping or aggregate operations.

2009-01-06 11:11:24 -05:00

taxonomy

update poisson test tool for R warnings.

2008-11-14 13:21:02 -05:00

validation

Eliminated all Python2.4 references, added necessary assert statements to ensure minimum version of Python 2.4.

2008-03-28 15:24:50 +00:00

visualization

Update GMAJ help.

2008-12-04 15:09:57 -05:00