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comparison segmetrics.xml @ 3:c496306c1cba draft

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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/segmetrics/ commit baee438adb94f6e8b6c3e45e8413c36f9d1dadee
author imgteam
date Sat, 08 Oct 2022 21:54:40 +0000
parents 3a7310406943
children 7989264b5780
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2:c90b52773d2e 3:c496306c1cba
1 <tool id="ip_segmetrics" name="SegMetrics" version="0.11.3-1" profile="20.05"> 1 <tool id="ip_segmetrics" name="SegMetrics" version="0.11.3-2" profile="20.05">
2 <description>image segmentation and object detection performance measures</description> 2 <description>image segmentation and object detection performance measures</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="0.11.3">segmetrics</requirement> 4 <requirement type="package" version="0.11.3">segmetrics</requirement>
5 <requirement type="package" version="0.18.1">scikit-image</requirement> 5 <requirement type="package" version="0.18.1">scikit-image</requirement>
6 </requirements> 6 </requirements>
7 <command detect_errors="aggressive"> 7 <command detect_errors="aggressive">
8 <![CDATA[ 8 <![CDATA[
9 python '$__tool_directory__/run-segmetrics.py' 9 python '$__tool_directory__/run-segmetrics.py'
10 '$input_seg' 10 '$input_seg'
11 '$input_gt' 11 '$input_gt'
12 ./results.csv 12 ./results.tsv
13 $unzip 13 $unzip
14 $is_seg_unique 14 $is_seg_unique
15 $is_gt_unique 15 $is_gt_unique
16 $measures.dice 16 $measures.dice
17 $measures.seg 17 $measures.seg
64 <param name="fn" type="boolean" checked="true" truevalue="-measure-fn" falsevalue="" label="Missing objects per image" /> 64 <param name="fn" type="boolean" checked="true" truevalue="-measure-fn" falsevalue="" label="Missing objects per image" />
65 </section> 65 </section>
66 66
67 </inputs> 67 </inputs>
68 <outputs> 68 <outputs>
69 <data format="csv" name="results" from_work_dir="results.csv" /> 69 <data format="tsv" name="results" from_work_dir="results.tsv" />
70 </outputs> 70 </outputs>
71 <tests> 71 <tests>
72 <test> 72 <test>
73 <param name="input_seg" value="input2.png"/> 73 <param name="input_seg" value="input2.png"/>
74 <param name="input_gt" value="input1.png"/> 74 <param name="input_gt" value="input1.png"/>
75 <output name="results" value="results1.csv" ftype="csv" compare="diff"/> 75 <output name="results" value="results1.tsv" ftype="tsv" compare="diff"/>
76 <param name="is_seg_unique" value="True"/> 76 <param name="is_seg_unique" value="True"/>
77 <param name="is_gt_unique" value="True"/> 77 <param name="is_gt_unique" value="True"/>
78 </test> 78 </test>
79 <test> 79 <test>
80 <param name="input_seg" value="input1.zip"/> 80 <param name="input_seg" value="input1.zip"/>
81 <param name="input_gt" value="input2.zip"/> 81 <param name="input_gt" value="input2.zip"/>
82 <output name="results" value="results2.csv" ftype="csv" compare="diff"/> 82 <output name="results" value="results2.tsv" ftype="tsv" compare="diff"/>
83 <param name="is_seg_unique" value="True"/> 83 <param name="is_seg_unique" value="True"/>
84 <param name="is_gt_unique" value="True"/> 84 <param name="is_gt_unique" value="True"/>
85 <param name="unzip" value="True"/> 85 <param name="unzip" value="True"/>
86 </test> 86 </test>
87 </tests> 87 </tests>