Greg Von Kuster d0d7875192 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

..

best_regression_subsets.py

Adding a new set of toolss to perform multiple linear regression analysis.

2008-09-20 18:14:24 -04:00

best_regression_subsets.xml

Removed lzo requirement from two tools- getIndels and qualityFilter.

2009-02-03 15:06:21 -05:00

featureCounter.py

Bug fixes, miscellaneous cleanup for flanking_features, windowSplitter, quality_filter, featureCounter, get_flanks.

2008-05-27 14:28:49 +00:00

featureCounter.xml

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

getIndelRates_3way.py

Modified INDEL tools under Regional variation section.

2008-09-22 12:02:35 -04:00

getIndelRates_3way.xml

Modified help message for indel rate tool.

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

getIndels_2way.xml

Added tool dependencies to xml.

2008-04-25 19:40:16 +00:00

getIndels_3way.xml

Modified help for \"get Indels\" tool, and made some small changes to the perl script.

2009-03-08 14:25:19 -04:00

getIndels.py

Fixes to get functional tests working.

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

linear_regression.py

A tiny bug fix for linear regression tool.

2009-04-30 11:07:34 -04:00

linear_regression.xml

Bug fixed in linear regression tool, and new option added to grouping tool.

2009-04-21 10:53:34 -04:00

maf_cpg_filter.py

Added an option to mask non-CpG sites to the \"Mask CpG sites\" tool.

2009-04-27 11:59:42 -04:00

maf_cpg_filter.xml

Added an option to mask non-CpG sites to the \"Mask CpG sites\" tool.

2009-04-27 11:59:42 -04:00

microsats_alignment_level.py

Adding tools to fetch microsatellites and estimate their mutabilities.

2008-09-24 18:20:39 -04:00

microsats_alignment_level.xml

Adding tools to fetch microsatellites and estimate their mutabilities.

2008-09-24 18:20:39 -04:00

microsats_mutability.py

More changes to mutability tool.

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

microsats_mutability.xml

Adding modified hyphy functional test output files, which have changed as the new version of HYPHY is installed on Galaxy. Also changing version numbers for all the affected tools.

2009-01-27 16:17:22 -05:00

parseMAF_smallIndels.pl

Modified help for \"get Indels\" tool, and made some small changes to the perl script.

2009-03-08 14:25:19 -04:00

quality_filter.py

Fixes to get functional tests working.

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

quality_filter.xml

Rewrite of dynamic options for select lists. There are no more 'special cases' and new filters are much easier to incorporate, as neeeded.

2008-05-29 17:38:46 +00:00

qv_to_bqv.py

Removed the remainder of the tool version subdirectories.

2008-03-03 18:38:57 +00:00

qv_to_bqv.xml

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

rcve.py

Adding a new set of toolss to perform multiple linear regression analysis.

2008-09-20 18:14:24 -04:00

rcve.xml

Removed lzo requirement from two tools- getIndels and qualityFilter.

2009-02-03 15:06:21 -05:00

substitution_rates.py

Adding tools to compute Substitution rates.

2008-09-21 17:36:28 -04:00

substitution_rates.xml

Adding tools to compute Substitution rates.

2008-09-21 17:36:28 -04:00

substitutions.py

Adding tools to compute Substitution rates.

2008-09-21 17:36:28 -04:00

substitutions.xml

Adding tools to compute Substitution rates.

2008-09-21 17:36:28 -04:00

windowSplitter.py

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

windowSplitter.xml

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