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comparison macros.xml @ 8:53923784176c draft

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planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 960f403303e1691bdd6137c46895feb333b36a82
author lecorguille
date Mon, 04 Jul 2016 08:45:48 -0400
parents 0888f7ef739a
children 5590b80e6e13
comparison
equal deleted inserted replaced
7:451ff602a957 8:53923784176c
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <macros> 2 <macros>
3 <xml name="requirements"> 3 <xml name="requirements">
4 <requirements> 4 <requirements>
5 <requirement type="package" version="3.1.2">R</requirement> 5 <requirement type="package" version="3.1.2">R</requirement>
6 <requirement type="package" version="0.4_1">r-snow</requirement> 6 <requirement type="package" version="0.4_1">r-snow</requirement>
7 <requirement type="package" version="1.44.0">bioconductor-xcms</requirement> 7 <requirement type="package" version="1.46.0">bioconductor-xcms</requirement>
8 <requirement type="package" version="1.1_4">r-batch</requirement> 8 <requirement type="package" version="1.1_4">r-batch</requirement>
9 </requirements> 9 </requirements>
10 </xml> 10 </xml>
11 <xml name="stdio"> 11 <xml name="stdio">
12 <stdio> 12 <stdio>
13 <exit_code range="1" level="fatal" /> 13 <exit_code range="1" level="fatal" />
23 return=\$?; 23 return=\$?;
24 mv log.txt $log; 24 mv log.txt $log;
25 cat $log; 25 cat $log;
26 sh -c "exit \$return" 26 sh -c "exit \$return"
27 </token> 27 </token>
28
29 <!-- zipfile load for planemo test -->
30
31 <token name="@COMMAND_ZIPFILE_LOAD@">
32 #if $zipfile_load_conditional.zip_file:
33 zipfile $zipfile_load_conditional.zip_file
34 #end if
35 </token>
36
37 <xml name="zipfile_load">
38 <conditional name="zipfile_load_conditional">
39 <param name="zipfile_load_select" type="select" label="Resubmit your zip file" help="Use only if you get a message which say that your original zip file have been deleted on the server." >
40 <option value="no" >no need</option>
41 <option value="yes" selected="peakgroups">yes</option>
42 </param>
43 <when value="no">
44 </when>
45 <when value="yes">
46 <param name="zip_file" type="data" format="no_unzip.zip,zip" label="Zip file" />
47 </when>
48 </conditional>
49 </xml>
50
51
28 52
29 <token name="@HELP_AUTHORS@"> 53 <token name="@HELP_AUTHORS@">
30 .. class:: infomark 54 .. class:: infomark
31 55
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 56 **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