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comparison galaxy_stubs/Trajectory2RigidTransformation.xml @ 2:605370bc1def draft default tip

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author luis
date Tue, 12 Jul 2016 12:33:33 -0400
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1 <?xml version='1.0' encoding='UTF-8'?>
2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.-->
3 <!--Proposed Tool Section: [Convert, combine and store]-->
4 <tool id="Trajectory2RigidTransformation" name="Trajectory2RigidTransformation" version="1.1.0">
5 <description>converts a trajectory file into a rigid transformation file </description>
6 <macros>
7 <token name="@EXECUTABLE@">Trajectory2RigidTransformation</token>
8 <import>macros.xml</import>
9 </macros>
10 <expand macro="stdio"/>
11 <expand macro="requirements"/>
12 <command>Trajectory2RigidTransformation
13
14 #if $param_i_dcd:
15 -i_dcd $param_i_dcd
16 #end if
17 #if $param_i_pdb:
18 -i_pdb $param_i_pdb
19 #end if
20 #if $param_o:
21 -o $param_o
22 #end if
23 </command>
24 <inputs>
25 <param name="param_i_dcd" type="data" format="dcd" optional="False" value="&lt;class 'CTDopts.CTDopts._Null'&gt;" label="input trajectory file" help="(-i_dcd) "/>
26 <param name="param_i_pdb" type="data" format="pdb" optional="False" value="&lt;class 'CTDopts.CTDopts._Null'&gt;" label="input pdb-file" help="(-i_pdb) "/>
27 </inputs>
28 <expand macro="advanced_options"/>
29 <outputs>
30 <data name="param_o" format="txt"/>
31 </outputs>
32 <help>This tool converts SnapShots of a given TrajectoryFile and the reference PDBFile into a rigid transformation file.
33
34 Parameters are the input SnapShots as TrajectoryFile (-i_dcd), the corresponding reference pdb file that was originally used to create the TrajectoryFile (-i_pdb) and a naming schema for the resulting transformation file (-o).
35
36 Output of this tool is a file storing each given SnapShot as rigid transformation per line.
37
38 </help>
39 </tool>