Mercurial > repos > yhoogstrate > varscan_mpileup2snp_from_bam
changeset 75:c09dd61c0239 draft
Uploaded
author | yhoogstrate |
---|---|
date | Tue, 10 Jun 2014 09:48:26 -0400 |
parents | f04ca3ca089f |
children | 344f5b5ddfd3 |
files | tool_dependencies.xml varscan_mpileup2snp_from_bam.xml |
diffstat | 2 files changed, 13 insertions(+), 1 deletions(-) [+] |
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--- a/tool_dependencies.xml Wed May 21 04:10:41 2014 -0400 +++ b/tool_dependencies.xml Tue Jun 10 09:48:26 2014 -0400 @@ -40,9 +40,19 @@ </readme> </package> + <!-- <package name="package_samtools_0_1_19" version="0.1.19"> <repository changeset_revision="40250a414486" name="package_samtools_0_1_19" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> </package> + --> + + <package name="ncurses" version="5.9"> + <repository changeset_revision="40250a414486" name="package_samtools_0_1_19" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> + </package> + + <package name="samtools" version="0.1.19"> + <repository changeset_revision="40250a414486" name="package_samtools_0_1_19" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> + </package> <package name="varscan" version="2.3.6"> <repository changeset_revision="f82940004c84" name="varscan_version_2" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
--- a/varscan_mpileup2snp_from_bam.xml Wed May 21 04:10:41 2014 -0400 +++ b/varscan_mpileup2snp_from_bam.xml Tue Jun 10 09:48:26 2014 -0400 @@ -5,7 +5,9 @@ <requirement type="package" version="5.9">ncurses</requirement> <requirement type="package" version="0.1.19a">samtools_parallel_mpileup_0_1_19a</requirement> <requirement type="package" version="2.3.6">varscan</requirement> - <requirement type="package" version="0.1.19">package_samtools_0_1_19</requirement> + <!-- <requirement type="package" version="0.1.19">package_samtools_0_1_19</requirement> --> + <requirement type="package" version="5.9">ncurses</requirement> + <requirement type="package" version="0.1.19">samtools</requirement> </requirements> <command> #if $reference_genome_source.source_select == "attribute" and len({ alignment.metadata.dbkey:True for alignment in $alignments }.keys()) != 1