Mercurial > repos > galaxyp > msconvert
comparison msconvert3.xml @ 3:7e41529ee90c
added repo and tool dependencies
author | galaxyp |
---|---|
date | Thu, 20 Jun 2013 16:08:23 -0400 |
parents | 861e3f0c2bb6 |
children | 001e77708ec9 |
comparison
equal
deleted
inserted
replaced
2:50e30fb68be2 | 3:7e41529ee90c |
---|---|
2 <!-- BEGIN_VERSION_DEFAULT --> | 2 <!-- BEGIN_VERSION_DEFAULT --> |
3 <description>Convert and filter a mass spec peak list</description> | 3 <description>Convert and filter a mass spec peak list</description> |
4 <!-- END_VERSION_DEFAULT --> | 4 <!-- END_VERSION_DEFAULT --> |
5 | 5 |
6 <command interpreter="python"> | 6 <command interpreter="python"> |
7 #set $ext = $input.ext | |
8 #if $ext.startswith("m:") | |
9 #set $ext = $ext[len("m:"):] | |
10 #end if | |
7 msconvert_wrapper.py | 11 msconvert_wrapper.py |
8 --input=${input} | 12 --input=${input} |
9 #if hasattr($input, 'display_name') | 13 #if hasattr($input, 'display_name') |
10 --input_name='${input.display_name}' | 14 --input_name='${input.display_name}' |
11 #end if | 15 #end if |
12 --output=${output} | 16 --output=${output} |
13 ## BEGIN_VERSION_DEFAULT | 17 ## BEGIN_VERSION_DEFAULT |
14 --fromextension=${input.ext} | 18 --fromextension=$ext |
15 ## END_VERSION_DEFAULT | 19 ## END_VERSION_DEFAULT |
16 | 20 |
17 | 21 |
18 --toextension=${output_type} | 22 --toextension=${output_type} |
19 | 23 |