| Previous changeset 2:c90b52773d2e (2022-10-08) Next changeset 4:7989264b5780 (2023-06-20) |
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Commit message:
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/segmetrics/ commit baee438adb94f6e8b6c3e45e8413c36f9d1dadee |
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modified:
run-segmetrics.py segmetrics.xml |
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added:
test-data/results1.tsv test-data/results2.tsv |
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| diff -r c90b52773d2e -r c496306c1cba run-segmetrics.py --- a/run-segmetrics.py Sat Oct 08 19:54:28 2022 +0000 +++ b/run-segmetrics.py Sat Oct 08 21:54:40 2022 +0000 |
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| @@ -128,6 +128,6 @@ # write results with open(args.results, 'w', newline='') as fout: - csv_writer = csv.writer(fout, delimiter=',', quotechar='"', quoting=csv.QUOTE_MINIMAL) + csv_writer = csv.writer(fout, delimiter='\t', quotechar='"', quoting=csv.QUOTE_MINIMAL) for row in rows: csv_writer.writerow(row) |
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| diff -r c90b52773d2e -r c496306c1cba segmetrics.xml --- a/segmetrics.xml Sat Oct 08 19:54:28 2022 +0000 +++ b/segmetrics.xml Sat Oct 08 21:54:40 2022 +0000 |
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| @@ -1,4 +1,4 @@ -<tool id="ip_segmetrics" name="SegMetrics" version="0.11.3-1" profile="20.05"> +<tool id="ip_segmetrics" name="SegMetrics" version="0.11.3-2" profile="20.05"> <description>image segmentation and object detection performance measures</description> <requirements> <requirement type="package" version="0.11.3">segmetrics</requirement> @@ -9,7 +9,7 @@ python '$__tool_directory__/run-segmetrics.py' '$input_seg' '$input_gt' - ./results.csv + ./results.tsv $unzip $is_seg_unique $is_gt_unique @@ -66,20 +66,20 @@ </inputs> <outputs> - <data format="csv" name="results" from_work_dir="results.csv" /> + <data format="tsv" name="results" from_work_dir="results.tsv" /> </outputs> <tests> <test> <param name="input_seg" value="input2.png"/> <param name="input_gt" value="input1.png"/> - <output name="results" value="results1.csv" ftype="csv" compare="diff"/> + <output name="results" value="results1.tsv" ftype="tsv" compare="diff"/> <param name="is_seg_unique" value="True"/> <param name="is_gt_unique" value="True"/> </test> <test> <param name="input_seg" value="input1.zip"/> <param name="input_gt" value="input2.zip"/> - <output name="results" value="results2.csv" ftype="csv" compare="diff"/> + <output name="results" value="results2.tsv" ftype="tsv" compare="diff"/> <param name="is_seg_unique" value="True"/> <param name="is_gt_unique" value="True"/> <param name="unzip" value="True"/> |
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| diff -r c90b52773d2e -r c496306c1cba test-data/results1.tsv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/results1.tsv Sat Oct 08 21:54:40 2022 +0000 |
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| @@ -0,0 +1,2 @@ + Dice SEG Jaccard index Ob. HSD (sym) Ob. NSD Split Merge Spurious Missing + 0.5473684210526316 0.291005291005291 1.6238374627624792 141.68949443548658 0.8175405481022531 0 1 2 0 |
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| diff -r c90b52773d2e -r c496306c1cba test-data/results2.tsv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/results2.tsv Sat Oct 08 21:54:40 2022 +0000 |
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| @@ -0,0 +1,4 @@ + Dice SEG Jaccard index Ob. HSD (sym) Ob. NSD Split Merge Spurious Missing +directory/img1.png 0.5473684210526316 0.14285714285714285 1.6238374627624792 142.42099468121046 0.7765050343914003 1 0 0 2 +directory/img2.png 0.5473684210526316 0.291005291005291 1.6238374627624792 141.68949443548658 0.8175405481022531 0 1 2 0 + 0.5473684210526316 0.2169312169312169 1.6238374627624792 142.0552445583485 0.7970227912468267 1 1 2 2 |