Mercurial > repos > sigven > oncoenrichr

comparison oncoenrichr_wrapper.xml @ 6:60dde5746a5e draft

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author sigven
date Mon, 14 Aug 2023 23:49:08 +0000
parents 162b7482ae84
children 023155e2e66c
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5:162b7482ae84 6:60dde5746a5e
1 <tool id="oncoenrichr_wrapper" name="oncoEnrichR" version="1.4.1"> 1 <tool id="oncoenrichr_wrapper" name="oncoEnrichR" version="1.4.2">
2 <description>Cancer-dedicated gene set interpretation</description> 2 <description>Cancer-dedicated gene set interpretation</description>
3 <requirements> 3 <requirements>
4 <container type="docker">sigven/oncoenrichr:1.4.1</container> 4 <container type="docker">sigven/oncoenrichr:1.4.2</container>
5 </requirements> 5 </requirements>
6 <command detect_errors="aggressive"><![CDATA[ 6 <command detect_errors="aggressive"><![CDATA[
7 #if $query_set.query_choice.query_input == "text" 7 #if $query_set.query_choice.query_input == "text"
8 echo $query_set.query_choice.query_text | sed 's/__cn__/\n/g' > query_text.csv && 8 echo $query_set.query_choice.query_text | sed 's/__cn__/\n/g' > query_text.csv &&
9 #set input_file = './query_text.csv' 9 #set input_file = './query_text.csv'
407 ]]> 407 ]]>
408 </help> 408 </help>
409 409
410 <citations> 410 <citations>
411 <!-- Example of annotating a citation using a DOI. --> 411 <!-- Example of annotating a citation using a DOI. -->
412 <citation type="doi">10.48550/arXiv.2107.13247</citation> 412 <citation type="doi">10.1002/ijc.34666</citation>
413 <!-- Example of annotating a citation using a BibTex entry. --> 413 <!-- Example of annotating a citation using a BibTex entry. -->
414 </citations> 414 </citations>
415 </tool> 415 </tool>