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annotate points2label.xml @ 1:9bd039f46843 draft

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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit b2acc1845a25828181597fe5b6982fe116a7796d
author imgteam
date Mon, 22 Jul 2019 05:04:37 -0400
parents dcc8c1d6af48
children 30ca5d5d03ec
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9bd039f46843 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit b2acc1845a25828181597fe5b6982fe116a7796d
imgteam
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1 <tool id="ip_points_to_label" name="Points to Label" version="0.3">
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dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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2 <description>Points to Label Image</description>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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3 <requirements>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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4 <requirement type="package" version="1.15.4">numpy</requirement>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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5 <requirement type="package" version="0.14.2">scikit-image</requirement>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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6 <requirement type="package" version="0.23.4">pandas</requirement>
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9bd039f46843 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit b2acc1845a25828181597fe5b6982fe116a7796d
imgteam
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7 <requirement type="package" version="0.15.1">tifffile</requirement>
9bd039f46843 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit b2acc1845a25828181597fe5b6982fe116a7796d
imgteam
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8 </requirements>
9bd039f46843 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit b2acc1845a25828181597fe5b6982fe116a7796d
imgteam
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9 <command detect_errors="aggressive">
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dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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10 <![CDATA[
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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11 python '$__tool_directory__/points2label.py' '$input' '$output' '$org_file' $has_header
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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12 ]]>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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13 </command>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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14 <inputs>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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15 <param name="input" type="data" format="tabular" label="Point CSV file"/>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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16 <param name="org_file" type="data" format="tiff" label="Original label image file"/>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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17 <param name="has_header" type="boolean" checked="false" truevalue="--has_header True" falsevalue="" optional="true" label="Does point file contain header?" />
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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18 </inputs>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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19 <outputs>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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20 <data name="output" format="tiff"/>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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21 </outputs>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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22 <tests>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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23 <test>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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24 <param name="input" value="points.tsv"/>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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25 <param name="org_file" value="galaxyIcon_noText.tif"/>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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26 <output name="output" file="out.tif" ftype="tiff" compare="sim_size"/>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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27 </test>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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28 </tests>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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29 <help>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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30 **What it does**
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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31
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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32 This tool converts points to a label image.
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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33 </help>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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34 <citations>
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35 <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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36 </citations>
dcc8c1d6af48 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/points2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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37 </tool>