Mercurial > repos > jjohnson > encyclopedia_walnut

comparison encyclopedia_walnut.xml @ 7:7556b19daa48 draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/encyclopedia/tools/encyclopedia commit dd611a143e4e003a5fb085cdf93ae477cc5ea0b1"
author jjohnson
date Wed, 26 Aug 2020 14:42:51 -0400
parents 0172dfa08216
children
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6:0172dfa08216 7:7556b19daa48
7 <command detect_errors="aggressive"><![CDATA[ 7 <command detect_errors="aggressive"><![CDATA[
8 @CMD_IMPORTS@ 8 @CMD_IMPORTS@
9 @LINK_SCAN_INPUT@ 9 @LINK_SCAN_INPUT@
10 @LINK_FASTA_INPUT@ 10 @LINK_FASTA_INPUT@
11 @LINK_TARGET_FASTA@ 11 @LINK_TARGET_FASTA@
12 EncyclopeDIA -Djava.awt.headless=true -Xmx12g -walnut 12 EncyclopeDIA -Djava.awt.headless=true -Xmx\$[ \${GALAXY_MEMORY_MB:-20480} / 1024 ]g -walnut
13 @SCAN_INPUT@ 13 @SCAN_INPUT@
14 @FASTA_INPUT@ 14 @FASTA_INPUT@
15 @TARGET_FASTA@ 15 @TARGET_FASTA@
16 @COMMON_OPTIONS@ 16 @COMMON_OPTIONS@
17 @MASS_LIBRARY_TOLERANCE@ 17 @MASS_LIBRARY_TOLERANCE@
63 </outputs> 63 </outputs>
64 <tests> 64 <tests>
65 <test> 65 <test>
66 <param name="scan_input" ftype="mzml" value="BCS_hela_narrow_3_1.mzML"/> 66 <param name="scan_input" ftype="mzml" value="BCS_hela_narrow_3_1.mzML"/>
67 <param name="fasta" ftype="fasta" value="uniprot_tiny_human.fasta"/> 67 <param name="fasta" ftype="fasta" value="uniprot_tiny_human.fasta"/>
68 <param name="select_outputs" values="log,features,pecan"/> 68 <param name="select_outputs" value="log,features,pecan"/>
69 <output name="features" ftype="tabular"> 69 <output name="features" ftype="tabular">
70 <assert_contents> 70 <assert_contents>
71 <has_text text="LHYNEGLNIK"/> 71 <has_text text="LHYNEGLNIK"/>
72 </assert_contents> 72 </assert_contents>
73 </output> 73 </output>