Mercurial > repos > lecorguille > xcms_retcor

annotate macros.xml @ 7:cd3097f1d9be draft

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planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 1bf8810447bdd1268f67bfb64ead95ce82d8d85c
author lecorguille
date Fri, 08 Apr 2016 06:18:11 -0400
parents fcd93f47dcbf
children c7ae34138ee2
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1 <?xml version="1.0"?>
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2 <macros>
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3 <xml name="requirements">
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4 <requirements>
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5 <requirement type="package" version="3.1.2">R</requirement>
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6 <requirement type="package" version="0.4_1">r-snow</requirement>
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7 <requirement type="package" version="1.44.0">bioconductor-xcms</requirement>
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8 <requirement type="package" version="1.1_4">r-batch</requirement>
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9 </requirements>
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10 </xml>
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11 <xml name="stdio">
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12 <stdio>
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13 <exit_code range="1" level="fatal" />
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14 </stdio>
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15 </xml>
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16
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17 <token name="@COMMAND_XCMS_SCRIPT@">
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18 LANG=C Rscript $__tool_directory__/xcms.r
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19 </token>
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20
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21 <token name="@COMMAND_LOG_EXIT@">
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22 ;
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23 return=\$?;
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24 mv log.txt $log;
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25 cat $log;
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26 sh -c "exit \$return"
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27 </token>
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28
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29 <token name="@HELP_AUTHORS@">
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30 .. class:: infomark
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31
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32 **Authors** Colin A. Smith csmith@scripps.edu, Ralf Tautenhahn rtautenh@gmail.com, Steffen Neumann sneumann@ipb-halle.de, Paul Benton hpaul.benton08@imperial.ac.uk and Christopher Conley cjconley@ucdavis.edu
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33
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34 .. class:: infomark
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35
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36 **Galaxy integration** ABiMS TEAM - UPMC/CNRS - Station biologique de Roscoff and Yann Guitton yann.guitton@oniris-nantes.fr - part of Workflow4Metabolomics.org [W4M]
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38 | Contact support@workflow4metabolomics.org for any questions or concerns about the Galaxy implementation of this tool.
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39
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40 ---------------------------------------------------
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41
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42 </token>
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44
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45 <xml name="citation">
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46 <citations>
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47 <citation type="doi">10.1021/ac051437y</citation>
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48 <citation type="doi">10.1093/bioinformatics/btu813</citation>
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49 </citations>
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50 </xml>
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51 </macros>