Mercurial > repos > iuc > idr_download_by_ids

comparison idr_download_by_ids.xml @ 2:17b1cd0f4812 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/idr_download commit 7d7d50f41a9da71b0f45f8b710e52696689a8d85"
author iuc
date Tue, 14 Apr 2020 10:27:25 -0400
parents 9340cbc7796c
children 381f248febba
comparison
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1:9340cbc7796c 2:17b1cd0f4812
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="idr_download_by_ids" name="IDR Download" version="0.10" profile="18.09"> 2 <tool id="idr_download_by_ids" name="IDR Download" version="0.20" profile="18.09">
3 <description>- download images from the Image Data Resource using image IDs</description> 3 <description>- download images from the Image Data Resource using image IDs</description>
4 <macros> 4 <macros>
5 <xml name="region_spec" token_pos="upper-left corner"> 5 <xml name="region_spec" token_pos="upper-left corner">
6 <param name="x_coord" type="integer" value="0" min="0" 6 <param name="x_coord" type="integer" value="0" min="0"
7 label="x-coordinate of region @POS@" /> 7 label="x-coordinate of region @POS@" />
15 help="Set to zero to extend the rectangle maximally along the y-axis of the image" /> 15 help="Set to zero to extend the rectangle maximally along the y-axis of the image" />
16 </xml> 16 </xml>
17 </macros> 17 </macros>
18 <requirements> 18 <requirements>
19 <requirement type="package" version="5.6.0">python-omero</requirement> 19 <requirement type="package" version="5.6.0">python-omero</requirement>
20 <requirement type="package" version="3.1.3">matplotlib</requirement> 20 <requirement type="package" version="0.4.2">pylibtiff</requirement>
21 </requirements> 21 </requirements>
22 <command detect_errors="exit_code"><![CDATA[ 22 <command detect_errors="exit_code"><![CDATA[
23 mkdir downloads && cd downloads && 23 mkdir downloads && cd downloads &&
24 #if str($image_ids.source) == 'link': 24 #if str($image_ids.source) == 'link':
25 python -c 'print("${image_ids.id_spec}".replace(",", "|").split("?show=")[-1].replace("|", "\n"))' 25 python -c 'print("${image_ids.id_spec}".replace(",", "|").split("?show=")[-1].replace("|", "\n"))'
152 </conditional> 152 </conditional>
153 <param name="frame" value="20" /> 153 <param name="frame" value="20" />
154 <output_collection name="output_file" type="list" count="3"> 154 <output_collection name="output_file" type="list" count="3">
155 <element name="171101_LeadingEdgeDeletionPSMMovies01_15_R3D__9036711__0__0__1024__1024"> 155 <element name="171101_LeadingEdgeDeletionPSMMovies01_15_R3D__9036711__0__0__1024__1024">
156 <assert_contents> 156 <assert_contents>
157 <has_size value="4194510" /> 157 <has_size value="2097286" />
158 </assert_contents> 158 </assert_contents>
159 </element> 159 </element>
160 </output_collection> 160 </output_collection>
161 <output name="out_log"> 161 <output name="out_log">
162 <assert_contents> 162 <assert_contents>
189 <param name="frame" value="20" /> 189 <param name="frame" value="20" />
190 <param name="skip_failed" value="true" /> 190 <param name="skip_failed" value="true" />
191 <output_collection name="output_file" type="list" count="2"> 191 <output_collection name="output_file" type="list" count="2">
192 <element name="171101_LeadingEdgeDeletionPSMMovies01_15_R3D__9036711__0__0__1024__1024"> 192 <element name="171101_LeadingEdgeDeletionPSMMovies01_15_R3D__9036711__0__0__1024__1024">
193 <assert_contents> 193 <assert_contents>
194 <has_size value="4194510" /> 194 <has_size value="2097286" />
195 </assert_contents> 195 </assert_contents>
196 </element> 196 </element>
197 </output_collection> 197 </output_collection>
198 <output name="out_log"> 198 <output name="out_log">
199 <assert_contents> 199 <assert_contents>