Mercurial > repos > iracooke > xtandem
changeset 19:fc1decb780ba draft
planemo upload for repository https://github.com/iracooke/protk-galaxytools/tree/master/xtandem commit 24e0fef2496984648a8a5cd5bff4d6b9b634a302-dirty
author | iracooke |
---|---|
date | Tue, 20 Oct 2015 20:47:33 -0400 |
parents | 529ea20c1e6c |
children | 9765dd041c04 |
files | repository_dependencies.xml tandem.xml tandem_to_pepxml.xml tool_dependencies.xml |
diffstat | 4 files changed, 13 insertions(+), 14 deletions(-) [+] |
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--- a/repository_dependencies.xml Sun May 24 01:12:42 2015 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,4 +0,0 @@ -<?xml version="1.0"?> -<repositories description="Proteomics datatypes"> - <repository changeset_revision="6ab4a0bf67df" name="proteomics_datatypes" owner="iracooke" toolshed="https://testtoolshed.g2.bx.psu.edu" /> - </repositories>
--- a/tandem.xml Sun May 24 01:12:42 2015 -0400 +++ b/tandem.xml Tue Oct 20 20:47:33 2015 -0400 @@ -1,8 +1,8 @@ -<tool id="proteomics_search_tandem_1" name="X!Tandem MSMS Search" version="1.1.0"> +<tool id="proteomics_search_tandem_1" name="X!Tandem MSMS Search" version="1.1.1"> <description>Run an X!Tandem Search</description> <requirements> - <container type="docker">iracooke/protk-1.4.1</container> - <requirement type="package" version="1.4.2">protk</requirement> + <container type="docker">iracooke/protk-1.4.3</container> + <requirement type="package" version="1.4.3">protk</requirement> </requirements> <command> #if $database.source_select=="built_in": @@ -44,7 +44,7 @@ $acetyl_protein_nterm $cleavage_semi $keep_spectra - --threads "\${GALAXY_SLOTS:-1}" + --threads "\${GALAXY_SLOTS:-12}" </command> <inputs> @@ -127,7 +127,7 @@ <label>Enzyme</label> <option value="[R]__pc__{P}">argc - [R]|{P}</option> <option value="[X]__pc__[D]">aspn - [X]|[D]</option> - <option value="[FLMWY]__pc__{P}">chymotrypsin - [FLMWY]|{P}</option> + <option value="[FLWY]__pc__{P}">chymotrypsin - [FLWY]|{P}</option> <option value="[R]__pc__[X]">clostripain - [R]|[X]</option> <option value="[M]__pc__{X}">cnbr - [M]|{X}</option> <option value="[AGILV]__pc__{P}">elastase - [AGILV]|{P}</option>
--- a/tandem_to_pepxml.xml Sun May 24 01:12:42 2015 -0400 +++ b/tandem_to_pepxml.xml Tue Oct 20 20:47:33 2015 -0400 @@ -1,8 +1,8 @@ -<tool id="tandem_to_pepxml_1" name="Tandem to pepXML" version="1.1.0"> +<tool id="tandem_to_pepxml_1" name="Tandem to pepXML" version="1.1.1"> <description>Converts a tandem result file to pepXML</description> <requirements> - <container type="docker">iracooke/protk-1.4.1</container> - <requirement type="package" version="1.4.2">protk</requirement> + <container type="docker">iracooke/protk-1.4.3</container> + <requirement type="package" version="1.4.3">protk</requirement> <requirement type="package" version="4.8.0">trans_proteomic_pipeline</requirement> </requirements> <command>
--- a/tool_dependencies.xml Sun May 24 01:12:42 2015 -0400 +++ b/tool_dependencies.xml Tue Oct 20 20:47:33 2015 -0400 @@ -1,6 +1,9 @@ <?xml version="1.0"?> <tool_dependency> - <package name="protk" version="1.4.2"> - <repository changeset_revision="3e1aa28972a3" name="package_protk_1_4_2" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + <package name="protk" version="1.4.3"> + <repository changeset_revision="2b240f1be1ce" name="package_protk_1_4_3" owner="iracooke" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + </package> + <package name="trans_proteomic_pipeline" version="4.8.0"> + <repository changeset_revision="3d56da50b195" name="package_tpp_4_8_0" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> </tool_dependency>