comparison hedm_npz_to_tesr.xml @ 4:b49a8ef3351d draft

"planemo upload for repository https://github.com/ximg-chess/galaxytools/tools/hedm_npz_to_tesr commit 0db0d2633f65e2ceca2e34c8899a52b18965d059"
author ximgchess
date Thu, 01 Apr 2021 18:29:39 +0000
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3:54513f5fc836 4:b49a8ef3351d
1 <tool id="hedm_npz_to_tesr" name="HEDM to tesr" version="0.1.0" python_template_version="3.5">
2 <description>Convert HEDM npz to a Neper tesr</description>
3 <requirements>
4 <requirement type="package" version="1.19">numpy</requirement>
5 </requirements>
6 <command detect_errors="exit_code"><![CDATA[
7 $__tool_directory__/hedm_npz_to_tesr.py
8 --voxel_spacing $voxel_spacing
9 #if $names.x_name:
10 -x '$names.x_name'
11 #end if
12 #if $names.y_name:
13 -y '$names.y_name'
14 #end if
15 #if $names.z_name:
16 -z '$names.z_name'
17 #end if
18 #if $names.grain_map:
19 --grain_map '$names.grain_map'
20 #end if
21 '$input'
22 '$output'
23 ]]></command>
24 <inputs>
25 <!-- change format to approriate npz subclass when available -->
26 <param name="input" type="data" format="zip" label="HEDM npz file"/>
27 <param name="voxel_spacing" type="float" value="0.005" min="0" label="Voxel spacing"/>
28 <section name="names" expanded="false" title="Specify names used in HEDM.npz input file">
29 <param name="x_name" type="text" value="" label="Name of the X array in the input" optional="true" help="Deafault is a name containing 'X'"/>
30 <param name="y_name" type="text" value="" label="Name of the Y array in the input" optional="true" help="Deafault is a name containing 'Y'"/>
31 <param name="z_name" type="text" value="" label="Name of the Z array in the input" optional="true" help="Deafault is a name containing 'Z'"/>
32 <param name="grain_map" type="text" value="" label="Name of the grain map in the input" optional="true" help="Deafault is a name containing 'grain'"/>
33 </section>
34 </inputs>
35 <outputs>
36 <!-- output format should be changed to tesr when that is available -->
37 <data name="output" format="txt" label="${input.name.rsplit(sep='.',maxsplit=1)[0]}.tesr"/>
38 </outputs>
39 <tests>
40 <test>
41 <!-- change format to approriate npz subclass when available -->
42 <param name="input" ftype="zip" value="HEDM_map.npz"/>
43 <output name="output" file="HEDM_map.tesr"/>
44 </test>
45 </tests>
46 <help><![CDATA[
47 Create a neper compatible tesr format file from a HEDM numpy compressed file.
48 The converter will look for columns named: Xs, Ys, Zs, and grain_map by default,
49 If the input file uses different names, the user should specify them.
50 ]]></help>
51 </tool>