Jeremy Goecks 66d1892364 More JS file reorganization: (a) move IE and rgenetics into their own directories; (b) move additional external libraries to libs.

2012-08-21 16:54:19 -04:00

..

listFiles.py

Adding rg test outputs and updated tools

2010-03-26 14:42:15 -04:00

plinkbinJZ.py

Adding rg test outputs and updated tools

2010-03-26 14:42:15 -04:00

rgCaCo.py

minor tweaks to rgCaCo.py

2011-03-27 19:50:50 -04:00

rgCaCo.xml

Adding plink requirement tag for various rgenetics tools requiring

2012-02-06 15:43:05 -06:00

rgClean.py

Adding rg test outputs and updated tools

2010-03-26 14:42:15 -04:00

rgClean.xml

Adding plink requirement tag for various rgenetics tools requiring

2012-02-06 15:43:05 -06:00

rgClustalw.py

python wrapper for clustalw tool

2011-03-23 19:14:14 -04:00

rgClustalw.xml

Add requirement tag for clustalw2.

2012-02-06 10:59:14 -06:00

rgEigPCA.py

Removed redundant code from rgEigPCA.py now that it takes a pre-converted ldindep dataset.

2010-05-20 12:41:51 -04:00

rgEigPCA.xml

Revised rgenetics tools to remove post job hooks

2011-03-25 13:12:21 -04:00

rgfakePed.py

removed python2.4 from rgfakePed.py

2011-05-16 10:03:47 -04:00

rgfakePed.xml

repairs to rgfakePed tool for generating null genotype data - since removing the _code.py trick of renaming composite file components means all of the parts (eg map and ped) acquire the default name of RgeneticsData, that's what the tool has to create - rather than sensibly named components based on the title - since only way to fix this wart is to reintroduce a bigger wart using the post execution hook, decided to just go with that default base_name to make things more sustanable in the long term

2011-05-16 09:12:19 -04:00

rgfakePhe.py

Adjust image links in tools to work with a proxy prefix [Brad Chapman]. Fixes #141

2010-12-14 14:22:13 -05:00

rgfakePhe.xml

fix for missing html ref in picard_reordersam and for data index srma_indexes in gcbias

2011-04-28 16:25:09 -04:00

rgFastQC.py

Added unicode and raw flags to the re.sub string - not tested with unicode name yet..

2012-08-11 09:42:48 +10:00

rgFastQC.xml

Added sanitisation of the only user controllable parameter and removed use of shell in subprocess.popen to

2012-08-10 20:53:00 +10:00

rgGLM_code.py

Revised rgenetics tools to remove post job hooks

2011-03-25 13:12:21 -04:00

rgGLM.py

Revised rgenetics tools to remove post job hooks

2011-03-25 13:12:21 -04:00

rgGLM.xml

Adding plink requirement tag for various rgenetics tools requiring

2012-02-06 15:43:05 -06:00

rgGRR.py

More JS file reorganization: (a) move IE and rgenetics into their own directories; (b) move additional external libraries to libs.

2012-08-21 16:54:19 -04:00

rgGRR.xml

Revised rgenetics tools to remove post job hooks

2011-03-25 13:12:21 -04:00

rgGTOOL.py

Adding rg test outputs and updated tools

2010-03-26 14:42:15 -04:00

rgGTOOL.xml

Revised rgenetics tools to remove post job hooks

2011-03-25 13:12:21 -04:00

rgHaploView.py

title not alt for popups on thumbnails for Haploview outputs

2011-04-15 09:35:41 -04:00

rgHaploView.xml

rgHaploView tool version upgrade - now shows thumbnail of ld plots

2010-11-09 12:12:32 -05:00

rgLDIndep_code.py

Revised rgenetics tools to remove post job hooks

2011-03-25 13:12:21 -04:00

rgLDIndep.py

Adding rg test outputs and updated tools

2010-03-26 14:42:15 -04:00

rgLDIndep.xml

Adding plink requirement tag for various rgenetics tools requiring

2012-02-06 15:43:05 -06:00

rgManQQ_code.py

Adding rg test outputs and updated tools

2010-03-26 14:42:15 -04:00

rgManQQ.py

fixes for rgManQQ plots to create a compressed PDF using GS as the downloadable artifact - much more useful for publication

2011-08-04 10:57:03 +10:00

rgManQQ.xml

Use mako template in tool help so that dynamic image paths can be used. Fixes #141

2012-08-07 09:40:51 -04:00

rgPedSub.py

Adding rg test outputs and updated tools

2010-03-26 14:42:15 -04:00

rgPedSub.xml

Revised rgenetics tools to remove post job hooks

2011-03-25 13:12:21 -04:00

rgQC.py

Fix for pdfnup blathering to stdout causing buildbot to barf

2010-08-31 08:25:44 -04:00

rgQC.xml

Adding plink requirement tag for various rgenetics tools requiring

2012-02-06 15:43:05 -06:00

rgQQ_code.py

Revised rgenetics tools to remove post job hooks

2011-03-25 13:12:21 -04:00

rgQQ.py

Adding rg test outputs and updated tools

2010-03-26 14:42:15 -04:00

rgQQ.xml

Revised rgenetics tools to remove post job hooks

2011-03-25 13:12:21 -04:00

rgRegion.py

Adding rg test outputs and updated tools

2010-03-26 14:42:15 -04:00

rgRegion.xml

fixed some configuration files

2011-04-13 21:02:06 +02:00

rgTDT.py

Revised rgenetics tools to remove post job hooks

2011-03-25 13:12:21 -04:00

rgTDT.xml

Adding plink requirement tag for various rgenetics tools requiring

2012-02-06 15:43:05 -06:00

rgtest_one_tool.sh

rg LD tool fixes

2010-09-06 17:00:16 -04:00

rgtest.sh

rg LD tool fixes

2010-09-06 17:00:16 -04:00

rgutils.py

Remove bogus makeGFF from rgutils

2011-03-25 13:26:40 -04:00

rgWebLogo3.py

WebLogo3 wrapper repair to a string format edge case. Reports are good for finding these - user hadn't reported...

2011-08-20 14:27:30 +10:00

rgWebLogo3.xml

Use mako template in tool help so that dynamic image paths can be used. Fixes #141

2012-08-07 09:40:51 -04:00