Mercurial > repos > thomaswollmann > detection_viz
annotate detection_viz.xml @ 1:ff66bae1f7f8 draft default tip
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit 787ebcc8daa1834214bc92c201c921c704ef2d1f
author | thomaswollmann |
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date | Mon, 07 Jan 2019 05:36:36 -0500 |
parents | 629d9e8ca64c |
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629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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1 <tool id="detection_viz" name="Detection Visualization" version="0.1"> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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2 <description>Detection Visualization</description> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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3 <requirements> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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4 <requirement type="package" version="0.14.1" >scikit-image</requirement> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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5 <requirement type="package" version="3.0.2" >matplotlib</requirement> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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6 </requirements> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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7 <command> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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8 <![CDATA[ |
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ff66bae1f7f8
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit 787ebcc8daa1834214bc92c201c921c704ef2d1f
thomaswollmann
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9 python '$__tool_directory__/detection_viz.py' '$input' ./tmp.png |
ff66bae1f7f8
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit 787ebcc8daa1834214bc92c201c921c704ef2d1f
thomaswollmann
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10 --stroke_size $thickness --circle_radius $circle_radius $tp $fn $fp |
ff66bae1f7f8
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit 787ebcc8daa1834214bc92c201c921c704ef2d1f
thomaswollmann
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11 && mv ./tmp.png '$output' |
ff66bae1f7f8
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit 787ebcc8daa1834214bc92c201c921c704ef2d1f
thomaswollmann
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12 ]]> |
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629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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13 </command> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
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14 <inputs> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
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15 <param name="input" type="data" format="tiff,png,jpg,bmp" label="Binary Image File"/> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
diff
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16 <param name="tp" type="boolean" checked="false" falsevalue="" truevalue="--tp"/> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
diff
changeset
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17 <param name="fn" type="boolean" checked="false" falsevalue="" truevalue="--fn"/> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
diff
changeset
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18 <param name="fp" type="boolean" checked="false" falsevalue="" truevalue="--fp"/> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
diff
changeset
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19 <param name="thickness" type="float" value="3.0" label="Stroke thickness"/> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
diff
changeset
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20 <param name="circle_radius" type="float" value="50.0" label="Circle radius"/> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
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21 </inputs> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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22 <outputs> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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23 <data format="png" name="output"/> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
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24 </outputs> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
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25 <tests> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
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26 <test> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
diff
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27 <param name="input" value="sample.png"/> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
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28 <output name="output" value="out.png" ftype="png"/> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
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29 </test> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
parents:
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changeset
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30 </tests> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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31 <help>Draws circles of different colors around detected true positives, false negatives and false positives.</help> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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32 <citations> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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33 <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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34 </citations> |
629d9e8ca64c
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/detection_viz/ commit a0ba841e8b3aee770a3243155bedfac0adf9a5a6
thomaswollmann
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35 </tool> |