Mercurial > repos > bgruening > vpt_segment

comparison macros.xml @ 3:0811613196a2 draft default tip

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/vpt commit 1180d1e85b63beb3d2e7fd6e9c73b054a9348e7f
author bgruening
date Mon, 11 Aug 2025 08:53:09 +0000
parents a88a1e78702e
children
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2:a88a1e78702e 3:0811613196a2
1 <macros> 1 <macros>
2 <token name="@TOOL_VERSION@">1.3.0</token> 2 <token name="@TOOL_VERSION@">1.3.0</token>
3 <token name="@VERSION_SUFFIX@">2</token> 3 <token name="@VERSION_SUFFIX@">3</token>
4 <token name="@PROFILE@">23.0</token> 4 <token name="@PROFILE@">23.0</token>
5 <xml name="requirements"> 5 <xml name="requirements">
6 <requirements> 6 <requirements>
7 <container type="docker">quay.io/bgruening/vpt:1.3.0-1</container> 7 <container type="docker">quay.io/bgruening/vpt:1.3.0-2</container>
8 <yield/> 8 <yield/>
9 </requirements> 9 </requirements>
10 </xml> 10 </xml>
11 <xml name="creator"> 11 <xml name="creator">
12 <creator> 12 <creator>
15 <person givenName="Pavan" familyName="Videm" email="videmp@informatik.uni-freiburg.de" /> 15 <person givenName="Pavan" familyName="Videm" email="videmp@informatik.uni-freiburg.de" />
16 <person givenName="Björn" familyName="Grüning" email="gruening@informatik.uni-freiburg.de" /> 16 <person givenName="Björn" familyName="Grüning" email="gruening@informatik.uni-freiburg.de" />
17 </creator> 17 </creator>
18 </xml> 18 </xml>
19 <token name="@CMD@"><![CDATA[ 19 <token name="@CMD@"><![CDATA[
20 mkdir -p 'input/images' 'output/' && 20 mkdir -p 'input/images' 'input/model' 'output/' &&
21 #for $image in $input_images: 21 #for $image in $input_images:
22 ln -s '$image' 'input/images/${image.element_identifier}.${image.ext}' && 22 ln -s '$image' 'input/images/${image.element_identifier}.${image.ext}' &&
23 #end for 23 #end for
24 ln -s '$input_micron_to_mosaic' 'input/micron_to_mosaic_pixel_transform.csv' && 24 ln -s '$input_micron_to_mosaic' 'input/micron_to_mosaic_pixel_transform.csv' &&
25 ]]></token> 25 ]]></token>
26 <token name="@COMMON_ARGS@"><![CDATA[ 26 <token name="@COMMON_ARGS@"><![CDATA[
27 --processes \${GALAXY_SLOTS:-10} 27 --processes \${GALAXY_SLOTS:-10}
28 --verbose
29 --log-file 'output/log' 28 --log-file 'output/log'
30 ]]> 29 ]]>
31 </token> 30 </token>
32 <xml name="common_input"> 31 <xml name="common_input">
33 <param argument="--input_images" type="data" format="tiff" multiple="true" label="MEROSCOPE tiff images"/> 32 <param argument="--input_images" type="data" format="tiff" multiple="true" label="MEROSCOPE tiff images"/>