Mercurial > repos > iuc > imagej2_convert_format

comparison imagej2_convert_format.xml @ 0:312e8ce708b1 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload commit 4bf97847c35c4dcf9638008b9b4b6c4e10015f19
author iuc
date Tue, 09 Jun 2015 12:21:40 -0400
parents
children 14d09b0ab9e1
comparison
equal deleted inserted replaced
-1:000000000000 0:312e8ce708b1
1 <?xml version='1.0' encoding='UTF-8'?>
2 <tool id="imagej2_convert_format" name="Convert image format" version="1.0.0">
3 <description>with bioformats</description>
4 <macros>
5 <import>imagej2_macros.xml</import>
6 </macros>
7 <expand macro="python_bioformats_requirements" />
8 <command interpreter="python">
9 <![CDATA[
10 imagej2_convert_format.py
11 --in_fname "$input"
12 --input_datatype $input.ext
13 --max_heap_size_type $set_max_heap_size.max_heap_size_type
14 --max_heap_size $set_max_heap_size.max_heap_size
15 --output_datatype $output_datatype
16 --out_fname "$output"
17 ]]>
18 </command>
19 <inputs>
20 <expand macro="max_heap_size_type_conditional" />
21 <param format="bmp,eps,gif,html,jpg,pcx,pgm,png,psd,tiff" name="input" type="data" label="Select image"/>
22 <param name="output_datatype" type="select" label="Convert to format">
23 <option value="jpg" selected="true">jpg</option>
24 <option value="png">png</option>
25 <option value="tiff">tiff</option>
26 </param>
27 </inputs>
28 <outputs>
29 <data name="output" format="jpg">
30 <actions>
31 <action type="format">
32 <option type="from_param" name="output_datatype" />
33 </action>
34 </actions>
35 </data>
36 </outputs>
37 <tests>
38 <test>
39 <param name="input" value="dot_blot.jpg" ftype="jpg" />
40 <param name="max_heap_size_type" value="megabytes" />
41 <param name="max_heap_size" value="256" />
42 <param name="input_datatype" value="jpg" />
43 <param name="output_datatype" value="png" />
44 <output name="output" file="dot_blot.png" ftype="png" />
45 </test>
46 <test>
47 <param name="input" value="dot_blot.png" ftype="png" />
48 <param name="input_datatype" value="png" />
49 <param name="output_datatype" value="tiff" />
50 <output name="output" file="dot_blot.tiff" ftype="tiff" />
51 </test>
52 <test>
53 <param name="input" value="dot_blot.tiff" ftype="tiff" />
54 <param name="input_datatype" value="tiff" />
55 <param name="output_datatype" value="jpg" />
56 <output name="output" file="dot_blot.jpg" ftype="jpg" />
57 </test>
58 </tests>
59 <help>
60 **What it does**
61
62 <![CDATA[
63 Converts an image file from one format to another where supported input and output formats are the
64 intersection of the relative formats supported by both Galaxy and Bioformats.
65
66 Go `here <https://www.openmicroscopy.org/site/support/bio-formats5.1/supported-formats.html>`_ for Bioformats image formats.
67 ]]>
68
69 </help>
70 <expand macro="citations" />
71 </tool>