Mercurial > repos > biomonika > linkyx
changeset 5:2c693b9dbd56
toolshed3
author | biomonika <biomonika@psu.edu> |
---|---|
date | Mon, 08 Sep 2014 23:57:38 -0400 |
parents | bfe4c7bb91d4 |
children | 847477359000 |
files | tool_dependencies.xml |
diffstat | 1 files changed, 11 insertions(+), 14 deletions(-) [+] |
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line diff
--- a/tool_dependencies.xml Tue Sep 02 15:46:31 2014 -0400 +++ b/tool_dependencies.xml Mon Sep 08 23:57:38 2014 -0400 @@ -21,7 +21,7 @@ <install version="1.0"> <actions> <action type="setup_perl_environment"> - <repository changeset_revision="091a97f8c585" name="package_perl_5_18" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu"> + <repository changeset_revision="28865aa39fbb" name="package_perl_5_18" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu"> <package name="perl" version="5.18.1" /> </repository> <!-- allow downloading and installing an Perl package from cpan.org--> @@ -30,6 +30,7 @@ <package>Bio::DB::Fasta</package> <package>File::Slurp</package> <package>Bio::DB::Sam</package> + <package>PerlIO::gzip</package> </action> </actions> </install> @@ -39,27 +40,23 @@ </package> <package name="fastq_groomer" version="1.0.4"> - <repository toolshed="http://toolshed.g2.bx.psu.edu" name="fastq_groomer" owner="devteam" changeset_revision="1298445c852b" /> + <repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="fastq_groomer" owner="devteam" changeset_revision="06c42572d7c0" /> </package> - <package name="trinityrnaseq" version="0.0.1"> - <repository toolshed="http://toolshed.g2.bx.psu.edu" name="trinityrnaseq" owner="bhaas" changeset_revision="177bb1b443db" /> - </package> - - <package name="bwa_wrappers" version="1.2.3"> - <repository toolshed="http://toolshed.g2.bx.psu.edu" name="bwa_wrappers" owner="devteam" changeset_revision="b4427dbb6ced" /> + <package name="package_trinityrnaseq_2013_08_14" version="2013_08_14"> + <repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="package_trinityrnaseq_2013_08_14" owner="jjohnson" changeset_revision="df23c0ef83a6" /> </package> - <package name="sam_to_bam" version="1.1.4"> - <repository toolshed="http://toolshed.g2.bx.psu.edu" name="sam_to_bam" owner="devteam" changeset_revision="8176b2575aa1" /> + <package name="package_bwa_0_7_7" version="0.7.7"> + <repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="package_bwa_0_7_7" owner="iuc" changeset_revision="f3d4522dd273" /> </package> - <package name="samtools_sort" version="1.0.2"> - <repository toolshed="http://toolshed.g2.bx.psu.edu" name="samtools_sort" owner="iuc" changeset_revision="38ea74bd4054" /> + <package name="sam_to_bam" version="1.1.3"> + <repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="sam_to_bam" owner="devteam" changeset_revision="7095d651c95f" /> </package> - <package name="picard" version="1.56.0"> - <repository toolshed="http://toolshed.g2.bx.psu.edu" name="picard" owner="devteam" changeset_revision="ab1f60c26526" /> + <package name="picard1106" version="1.106"> + <repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="picard1106" owner="devteam" changeset_revision="5d881472c379" /> </package> </tool_dependency> \ No newline at end of file