Mercurial > repos > imgteam > concat_channels

annotate concat_channels.xml @ 2:212627bfb759 draft

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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/concat_channels/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
author imgteam
date Mon, 13 Nov 2023 22:10:47 +0000
parents d42501109c05
children 4c43875c790c
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212627bfb759 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/concat_channels/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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1 <tool id="ip_concat_channels" name="Concatenate images or channels" version="0.2-2">
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2 <description></description>
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212627bfb759 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/concat_channels/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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3 <edam_operations>
212627bfb759 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/concat_channels/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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4 <edam_operation>operation_3443</edam_operation>
212627bfb759 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/concat_channels/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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5 </edam_operations>
212627bfb759 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/concat_channels/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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6 <xrefs>
212627bfb759 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/concat_channels/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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7 <xref type="bio.tools">galaxy_image_analysis</xref>
212627bfb759 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/concat_channels/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
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8 </xrefs>
0
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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9 <requirements>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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10 <requirement type="package" version="0.14.2">scikit-image</requirement>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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11 <requirement type="package" version="1.15.4">numpy</requirement>
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d42501109c05 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit b2acc1845a25828181597fe5b6982fe116a7796d
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12 <requirement type="package" version="0.15.1">tifffile</requirement>
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30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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13 </requirements>
1
d42501109c05 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit b2acc1845a25828181597fe5b6982fe116a7796d
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14 <command detect_errors="aggressive">
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30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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15 <![CDATA[
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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16 python '$__tool_directory__/concat_channels.py'
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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17 #for $input in $inputs
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d42501109c05 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit b2acc1845a25828181597fe5b6982fe116a7796d
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18 '$input'
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19 #end for
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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20 -o '$output' --axis '$axis'
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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21 ]]>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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22 </command>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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23 <inputs>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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24 <param name="inputs" type="data" multiple="true" format="tiff,png,jpg,bmp" label="Binary Image Files" help="one or multiple binary image fiels"/>
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25 <param name="axis" type="select" label="Concatenation Axis">
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26 <option value="0">0</option>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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27 <option value="2">2</option>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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28 </param>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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29 </inputs>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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30 <outputs>
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31 <data format="tiff" name="output"/>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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32 </outputs>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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33 <tests>
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34 <test>
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35 <param name="inputs" value="sample1.png,sample2.png"/>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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36 <param name="axis" value="0"/>
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37 <output name="output" value="res.tiff" ftype="tiff" compare="sim_size"/>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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38 </test>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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39 </tests>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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40 <help>
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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41 **What it does**
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42
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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43 This tool concatenates images.
30517f733f7b planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/concat_channels/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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44 </help>
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45 <citations>
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46 <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation>
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47 </citations>
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48 </tool>