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comparison msconvert.xml.template @ 3:7e41529ee90c

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added repo and tool dependencies
author galaxyp
date Thu, 20 Jun 2013 16:08:23 -0400
parents 10f4a0356342
children
comparison
equal deleted inserted replaced
2:50e30fb68be2 3:7e41529ee90c
5 <!-- BEGIN_VERSION_DEFAULT --> 5 <!-- BEGIN_VERSION_DEFAULT -->
6 <description>Convert and filter a mass spec peak list</description> 6 <description>Convert and filter a mass spec peak list</description>
7 <!-- END_VERSION_DEFAULT --> 7 <!-- END_VERSION_DEFAULT -->
8 8
9 <command interpreter="python"> 9 <command interpreter="python">
10 #set $ext = $input.ext
11 #if $ext.startswith("m:")
12 #set $ext = $ext[len("m:"):]
13 #end if
10 msconvert_wrapper.py 14 msconvert_wrapper.py
11 --input=${input} 15 --input=${input}
12 #if hasattr($input, 'display_name') 16 #if hasattr($input, 'display_name')
13 --input_name='${input.display_name}' 17 --input_name='${input.display_name}'
14 #end if 18 #end if
15 --output=${output} 19 --output=${output}
16 ## BEGIN_VERSION_DEFAULT 20 ## BEGIN_VERSION_DEFAULT
17 --fromextension=${input.ext} 21 --fromextension=$ext
18 ## END_VERSION_DEFAULT 22 ## END_VERSION_DEFAULT
19 23
20 ## BEGIN_VERSION_RAW 24 ## BEGIN_VERSION_RAW
21 --fromextension=RAW 25 --fromextension=RAW
22 ## END_VERSION_RAW 26 ## END_VERSION_RAW
361 </data> 365 </data>
362 </outputs> 366 </outputs>
363 367
364 <requirements> 368 <requirements>
365 <requirement type="package">proteowizard</requirement> 369 <requirement type="package">proteowizard</requirement>
370 <!-- BEGIN_VERSION_RAW -->
371 <requirement type="platform">windows</requirement>
372 <!-- END_VERSION_RAW -->
366 </requirements> 373 </requirements>
367 374
368 <help> 375 <help>
369 **What it does** 376 **What it does**
370 377