James Taylor 95100849be Merge.

2009-08-19 17:51:46 -04:00

..

annotation_profiler

Missed adding chrominfo.py, due to my hardcoded paths in test environ. Should be good now?

2009-04-23 14:42:35 -04:00

data_destination

merging from central

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

data_source

Deprecated code corrections for supporting Python 2.6. Many of the Python 2.6 eggs are still throwing DeprecationWarning messages, so some things still won't work. Eggs for 2.6 need to be re-scrambled after corrections are made.

2009-08-14 15:37:31 -04:00

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

Committing changes to 'extract genomic dna' tool - twobit file will be opened only once per job. (Courtesy: Gordon).

2009-07-20 16:57:55 -04:00

fasta_tools

Fixed for functional tests for new version of fasta_filter_by_length tool contributed by James Casbon.

2009-07-23 14:31:11 -04:00

fastx_toolkit

Integration of Assaf Gordon's Solexa toolkit into Galaxy - (all tools except 3 are working fine).

2009-02-20 14:17:46 -05:00

filters

Testing framework will now click the add button for nested repeats when repeat content has been specfied.

2009-08-05 11:54:34 -04:00

hyphy

Fixes to get functional tests working.

2009-02-03 18:34:27 -05:00

maf

Accidently commited a testing change, removed

2009-04-29 14:47:18 -04:00

metag_tools

Fix megablast wrapper never cleaning up tempfiles.

2009-08-03 16:23:37 -04:00

new_operations

Merge.

2009-08-19 17:51:46 -04:00

next_gen_conversion

Renamed test files and fixed output datatype problem with solid-to-fastq tool

2009-08-04 16:32:57 -04:00

plotting

Fix bar chart output format.

2009-08-03 16:38:27 -04:00

regVariation

Deprecated code corrections for supporting Python 2.6. Many of the Python 2.6 eggs are still throwing DeprecationWarning messages, so some things still won't work. Eggs for 2.6 need to be re-scrambled after corrections are made.

2009-08-14 15:37:31 -04:00

solid_tools

MAQ mapping pipeline for SOLiD data

2009-05-13 21:54:45 -04:00

sr_mapping

Added fastqsanger data format and required bwa_wrapper to take only that format as input

2009-07-30 12:06:24 -04:00

stats

Deprecated code corrections for supporting Python 2.6. Many of the Python 2.6 eggs are still throwing DeprecationWarning messages, so some things still won't work. Eggs for 2.6 need to be re-scrambled after corrections are made.

2009-08-14 15:37:31 -04:00

taxonomy

Fixed finf_diag_hits plus a ttypo correction

2009-04-21 09:36:42 -04:00

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

Deprecated code corrections for supporting Python 2.6. Many of the Python 2.6 eggs are still throwing DeprecationWarning messages, so some things still won't work. Eggs for 2.6 need to be re-scrambled after corrections are made.

2009-08-14 15:37:31 -04:00