Ian Schenck 73d609cf31 Merged

2009-01-21 11:45:50 -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

merging from central

2008-10-28 11:28:15 -04:00

data_source

merging from central

2009-01-15 11:03:19 -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

remove the usage of hast tables in the fasta-tools

2009-01-19 15:47:02 -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

merging from central

2008-12-02 10:55:17 -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

More changes to mutability tool.

2009-01-15 13:10:04 -05:00

sr_mapping

Initial GeneTrack commit. Most parts are in, but dependencies will still be a problem.

2009-01-19 17:45:28 -05:00

stats

Removed an option from grouping tool, which is now part of the LCA tool under Taxonomy.

2009-01-16 13:30:01 -05:00

taxonomy

Lca commit. The tool itself is written by guru with minor modification made by me.

2009-01-21 09:51:06 -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

Made Genetrack load only if the dependencies import

2009-01-21 11:45:30 -05:00