1 new changeset in galaxy-central:

http://bitbucket.org/galaxy/galaxy-central/changeset/b26e5c6ff96d/ changeset: r5101:b26e5c6ff96d user: natefoo date: 2011-02-21 22:25:35 summary: Update bowtie_wrapper and bowtie_color_wrapper to use test data from the external test data repository affected #: 2 files (428 bytes)

--- a/tools/sr_mapping/bowtie_color_wrapper.xml Mon Feb 21 15:54:22 2011 -0500 +++ b/tools/sr_mapping/bowtie_color_wrapper.xml Mon Feb 21 16:25:35 2011 -0500 @@ -396,8 +396,7 @@ chrM_color needs to be the base location/name of the index files. --><param name="genomeSource" value="indexed" /> - <!-- this is the backwards-compatible "unique value" for this index, not an actual path --> - <param name="index" value="/galaxy/data/equCab2_chrM/bowtie_index/cs/chrM" /> + <param name="index" value="equCab2chrM" /><param name="sPaired" value="single" /><param name="sInput1" ftype="fastqcssanger" value="bowtie_in1.fastqcssanger" /><param name="sSettingsType" value="preSet" /> @@ -466,8 +465,7 @@ chrM_base is the index files' location/base name. --><param name="genomeSource" value="indexed" /> - <!-- this is the backwards-compatible "unique value" for this index, not an actual path --> - <param name="index" value="/galaxy/data/equCab2_chrM/bowtie_index/cs/chrM" /> + <param name="index" value="equCab2chrM" /><param name="sPaired" value="single" /><param name="sInput1" ftype="fastqcssanger" value="bowtie_in1.fastqcssanger" /><param name="sSettingsType" value="full" />

--- a/tools/sr_mapping/bowtie_wrapper.xml Mon Feb 21 15:54:22 2011 -0500 +++ b/tools/sr_mapping/bowtie_wrapper.xml Mon Feb 21 16:25:35 2011 -0500 @@ -379,8 +379,7 @@ chrM_base needs to be the base location/name of the index files. --><param name="genomeSource" value="indexed" /> - <!-- this is the backwards-compatible "unique value" for this index, not an actual path --> - <param name="index" value="/galaxy/data/equCab2_chrM/bowtie_index/chrM" /> + <param name="index" value="equCab2chrM" /><param name="sPaired" value="single" /><param name="sInput1" ftype="fastqsanger" value="bowtie_in2.fastqsanger" /><param name="sSettingsType" value="preSet" /> @@ -448,7 +447,7 @@ --><param name="genomeSource" value="indexed" /><!-- this is the backwards-compatible "unique value" for this index, not an actual path --> - <param name="index" value="/galaxy/data/equCab2_chrM/bowtie_index/chrM" /> + <param name="index" value="equCab2chrM" /><param name="sPaired" value="single" /><param name="sInput1" ftype="fastqsanger" value="bowtie_in2.fastqsanger" /><param name="sSettingsType" value="full" />

Repository URL: https://bitbucket.org/galaxy/galaxy-central/

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