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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/imagecoordinates_flipaxis/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
author imgteam
date Mon, 13 Nov 2023 22:11:12 +0000
parents f8f1100d0701
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984b342d03a6 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/imagecoordinates_flipaxis/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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1 <tool id="imagecoordinates_flipaxis" name="Switch axis coordinates" version="0.1-2">
984b342d03a6 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/imagecoordinates_flipaxis/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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2 <description></description>
984b342d03a6 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/imagecoordinates_flipaxis/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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3 <edam_operations>
984b342d03a6 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/imagecoordinates_flipaxis/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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4 <edam_operation>operation_3443</edam_operation>
984b342d03a6 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/imagecoordinates_flipaxis/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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5 </edam_operations>
984b342d03a6 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/imagecoordinates_flipaxis/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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6 <xrefs>
984b342d03a6 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/imagecoordinates_flipaxis/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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7 <xref type="bio.tools">galaxy_image_analysis</xref>
984b342d03a6 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/imagecoordinates_flipaxis/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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8 </xrefs>
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5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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9 <requirements>
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f8f1100d0701 "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 3d389fdec0db29cf6fbd783c0501455bf624fa90"
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10 <requirement type="package" version="0.23.4" >pandas</requirement>
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5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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11 </requirements>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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12 <command detect_errors="aggressive">
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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13 <![CDATA[
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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14 python "$__tool_directory__/imagecoordinates_flipaxis.py" '$input' '$output' $img_height
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d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
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15 $offset_x $offset_y
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5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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16 ]]>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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17 </command>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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18 <inputs>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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19 <param name="input" type="data" format="tabular" label="File with image coordinates"/>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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20 <param name="img_height" type="integer" value="100" label="Height of the corresponding image"/>
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d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
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21 <param name="offset_x" type="integer" value="0" label="Added offset in x direction (=width direction)" />
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
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22 <param name="offset_y" type="integer" value="0" label="Added offset in y direction (=height direction)" />
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f8f1100d0701 "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 3d389fdec0db29cf6fbd783c0501455bf624fa90"
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23 </inputs>
0
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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24 <outputs>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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25 <data name="output" format="tabular"/>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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26 </outputs>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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27 <tests>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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28 <test>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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29 <param name="input" value="table.tsv" />
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d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
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30 <output name="output" value="out.tsv" ftype="tabular" />
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5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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31 <param name="img_height" value="500"/>
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d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
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32 </test>
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
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33 <test>
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
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34 <param name="input" value="table.tsv" />
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
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35 <output name="output" value="out_offset.tsv" ftype="tabular" />
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
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36 <param name="img_height" value="500"/>
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
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37 <param name="offset_x" value="1"/>
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
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38 <param name="offset_y" value="2"/>
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5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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39 </test>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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40 </tests>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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41 <help>Makes x the horizontal axis (left to right) and y the vertical axis (bottom to top),
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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42 like in a coordinate system.</help>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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43 <citations>
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44 <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation>
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45 </citations>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
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46 </tool>