Mercurial > repos > jjohnson > encyclopedia_library_to_blib

comparison encyclopedia_library_to_blib.xml @ 4:4850741d1dff draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/encyclopedia/tools/encyclopedia commit 96a023cccea27c30ff61caf271a3c79b92db1873"
author jjohnson
date Tue, 07 Jul 2020 11:55:40 -0400
parents 058db6d8a1b3
children
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3:e0d2d05ea5d7 4:4850741d1dff
2 <description>Convert EncyclopeDIA Library to BLIB for Skyline</description> 2 <description>Convert EncyclopeDIA Library to BLIB for Skyline</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements" /> 6 <expand macro="requirements" />
7 <command detect_errors="exit_code"><![CDATA[ 7 <command detect_errors="aggressive"><![CDATA[
8 EncyclopeDIA -convert -libtoblib 8 EncyclopeDIA -convert -libtoblib
9 -i '$i' 9 -i '$i'
10 -o '$output' 10 -o '$output'
11 #if $istest == 'yes' 11 #if $istest == 'yes'
12 && sqlite3 -readonly '$output' 'SELECT distinct peptideSeq FROM RefSpectra;' > '$test_output' 12 && sqlite3 -readonly '$output' 'SELECT distinct peptideSeq FROM RefSpectra;' > '$test_output'