Ross Lazarus c860c25f77 Remove unused test-data/rtestouts ...

Remove references in converters to g2.bx.psu.edu
Note leaving rgenetics converters and datatypes - ped still used in genomic variation tools.

2013-10-14 21:43:32 +11:00

..

annotation_profiler

Add information for UCSC data to annotation profiler.

2011-11-16 10:40:55 -05:00

data_destination

merging from central

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

data_source

Fix outdated usage of states in microbial dataset post-job hook.

2013-10-10 12:53:10 -04:00

discreteWavelet

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

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

encode

Tool help updates.

2011-09-21 04:11:07 -04:00

evolution

Migrate tools from the distribution to the tool shed, including but not limited to samtools and fastx_toolkit tools.

2013-09-26 10:05:00 -04:00

extract

Add ucsc_tools requirement for extract_genomic_dna.xml tool.

2013-09-03 12:32:02 -05:00

fasta_tools

Enable fasta_to_len conversion to use only first word in title; this is standards compliant and used by default for automatic conversion.

2012-03-08 11:09:14 -05:00

fastq

tool tip fix for fastq summary and sorter

2013-03-19 11:50:03 -04:00

filters

Merged in ghuls/galaxy-central/sort (pull request #172)

2013-08-07 13:33:27 -04:00

gatk

Covert more duplicated GATK wrapper code to macros.

2013-03-22 00:41:08 -05:00

genetrack

Update GeneTrack help.

2011-11-10 11:54:50 -05:00

genomespace

Fix for GenomeSpace Export root directory listing.

2013-06-20 16:24:33 -04:00

hyphy

Added functional test for hyphy NJ tree builder.

2010-02-04 11:56:58 -05:00

indels

Remove imports of the sets module, set has been a standard type since 2.4. There are more in tools, but they check for the existence of set() first, so will not raise a warning.

2010-09-27 21:35:03 -04:00

maf

Make maf-to-bed object-store aware

2013-03-06 12:40:31 -05:00

meme

Specify meme requirement for fimo tool.

2012-02-02 21:29:30 -06:00

metag_tools

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

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

multivariate_stats

Fixed a bug in PCA tool - standard deviation & prop variance values are now sorted by PC order.

2011-07-15 10:33:02 -04:00

mutation

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

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

new_operations

Subtract query tool: make ignoring empty end columns and whitespace optional.

2013-02-07 14:46:49 -05:00

next_gen_conversion

Fixed error in solid2fasta.xml preventing help text from displaying.

2012-09-04 10:15:18 -04:00

ngs_rna

revert bowtie2 and tophat2 wrappers

2013-10-08 13:34:54 +11:00

ngs_simulation

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

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

peak_calling

Tool help updates.

2011-11-14 13:26:29 -05:00

phenotype_association

Migrate tools from the distribution to the tool shed, including but not limited to samtools and fastx_toolkit tools.

2013-09-26 10:05:00 -04:00

plotting

Migrate tools from the distribution to the tool shed, including but not limited to samtools and fastx_toolkit tools.

2013-09-26 10:05:00 -04:00

regVariation

Migrate tools from the distribution to the tool shed, including but not limited to samtools and fastx_toolkit tools.

2013-09-26 10:05:00 -04:00

rgenetics

Remove unused test-data/rtestouts

2013-10-14 21:43:32 +11:00

solid_tools

Fix tool tip for compute quality statistics

2013-03-19 12:04:24 -04:00

sr_assembly

Velvet wrapper: fix typos, tabs -> spaces, spacing

2011-05-27 11:01:46 +02:00

sr_mapping

revert bowtie2 and tophat2 wrappers

2013-10-08 13:34:54 +11:00

stats

Require Python 2.6+ and remove various compatibility patches for 2.4 and 2.5

2013-04-09 11:57:38 -04:00

taxonomy

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

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

validation

…

vcf_tools

Adding a small check to skip the assertion of tagNumber being

2013-06-19 12:21:46 +05:30

visualization

Performance enhancements for Build custom track for UCSC genome browser tool.

2012-10-16 15:25:01 -04:00