Mercurial > repos > jfb > negative_motif_finder_7_7

comparison NMF/NMF.xml @ 3:a69be20d500d draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author jfb
date Wed, 09 Jan 2019 14:28:43 -0500
parents 83c34194a973
children 220d4359ec9b
comparison
equal deleted inserted replaced
2:83c34194a973 3:a69be20d500d
1 <tool id="kinamine_java" name="Negative-Motif-Finder 7_to_7" version="1.0.0"> 1 <tool id="kinamine_java" name="Negative-Motif-Finder 7_to_7" version="1.3.0">
2 <description>discover unphosphorylated substrates</description> 2 <description>discover unphosphorylated substrates</description>
3 <requirements> 3 <requirements>
4 <requirement type="package">R</requirement> 4 <requirement type="package">R</requirement>
5 </requirements> 5 </requirements>
6 <command><![CDATA[ 6 <command><![CDATA[
7 ln -s '$FASTA' input1.tabular && 7 ln -s '$FASTA' input1.tabular &&
8 ln -s '$positives' input2.csv && 8 ln -s '$positives' input2.csv &&
9 ln -s '$SBF' input3.csv && 9 ln -s '$SBF' input3.csv &&
10 Rscript '$__tool_directory__/NMF.R' 10 Rscript '$__tool_directory__/NMF-working-1-9-18.R'
11 ]]></command> 11 ]]></command>
12 <inputs> 12 <inputs>
13 <param format="csv" name="SBF" type="data" label="Substrate Background Frequency"/> 13 <param format="csv" name="SBF" type="data" label="Substrate Background Frequency"/>
14 <param format="tabular" name="FASTA" type="data" label="Human Proteome Reference"/> 14 <param format="tabular" name="FASTA" type="data" label="Human Proteome Reference"/>
15 <param format="csv" name="positives" type="data" label="Positive/Phosphorylated Substrate List"/> 15 <param format="csv" name="positives" type="data" label="Positive/Phosphorylated Substrate List"/>