Mercurial > repos > imgteam > split_labelmap
annotate split_labelmap.xml @ 1:9db1c22dbe17 draft
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/split_labelmaps/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
author | imgteam |
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date | Mon, 13 Nov 2023 22:12:26 +0000 |
parents | 597b7ef44b05 |
children | 7a2e2e3cf836 |
rev | line source |
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9db1c22dbe17
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/split_labelmaps/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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1 <tool id="ip_split_labelmap" name="Split label map using morphological operators" version="0.2-2"> |
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597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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2 <description></description> |
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9db1c22dbe17
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/split_labelmaps/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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3 <edam_operations> |
9db1c22dbe17
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/split_labelmaps/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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4 <edam_operation>operation_3443</edam_operation> |
9db1c22dbe17
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/split_labelmaps/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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5 </edam_operations> |
9db1c22dbe17
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/split_labelmaps/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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6 <xrefs> |
9db1c22dbe17
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/split_labelmaps/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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7 <xref type="bio.tools">galaxy_image_analysis</xref> |
9db1c22dbe17
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/split_labelmaps/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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8 </xrefs> |
9db1c22dbe17
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/split_labelmaps/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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9 <requirements> |
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597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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10 <requirement type="package" version="0.14.2">scikit-image</requirement> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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11 <requirement type="package" version="1.15.4">numpy</requirement> |
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9db1c22dbe17
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/split_labelmaps/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
imgteam
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12 <requirement type="package" version="0.15.1">tifffile</requirement> |
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597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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13 </requirements> |
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9db1c22dbe17
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/split_labelmaps/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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14 <command detect_errors="aggressive"> |
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597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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15 <![CDATA[ |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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16 python '$__tool_directory__/split_labelmap.py' '$input' '$output' |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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17 ]]> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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18 </command> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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19 <inputs> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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20 <param name="input" type="data" format="tiff,png,jpg,bmp" label="Image containing labels"/> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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21 </inputs> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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22 <outputs> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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23 <data name="output" format="tiff"/> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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24 </outputs> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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25 <tests> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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26 <test> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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27 <param name="input" value="sample_seg.tif"/> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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28 <output name="output" value="out.tif" ftype="tiff" compare="sim_size"/> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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29 </test> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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30 </tests> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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31 <help> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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32 **What it does** |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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33 |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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34 Takes a labeled image and outputs a similar file where the labeled parts |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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35 of the image that touch (or overlap) are separated by at least 1 pixel (at most 2). |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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36 </help> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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37 <citations> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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38 <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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39 </citations> |
597b7ef44b05
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/split_labelmaps/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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40 </tool> |