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annotate repeat_channels.xml @ 0:7cdb50fee601 draft default tip

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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
author imgteam
date Thu, 25 Apr 2024 10:57:53 +0000
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7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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1 <tool id="repeat_channels" name="Convert single-channel to multi-channel image" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="22.05">
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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2 <description>with NumPy</description>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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3 <macros>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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4 <import>creators.xml</import>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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5 <import>tests.xml</import>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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6 <token name="@TOOL_VERSION@">1.26.4</token>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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7 <token name="@VERSION_SUFFIX@">0</token>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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8 </macros>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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9 <creator>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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10 <expand macro="creators/bmcv"/>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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11 </creator>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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12 <edam_operations>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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13 <edam_operation>operation_3443</edam_operation>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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14 </edam_operations>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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15 <xrefs>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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16 <xref type="bio.tools">galaxy_image_analysis</xref>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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17 </xrefs>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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18 <requirements>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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19 <requirement type="package" version="1.26.4">numpy</requirement>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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20 <requirement type="package" version="0.18.1">scikit-image</requirement>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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21 <requirement type="package" version="0.1">giatools</requirement>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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22 </requirements>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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23 <command><![CDATA[
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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24
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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25 ## Inputs
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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26
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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27 python '$__tool_directory__/repeat_channels.py'
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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28 '$input'
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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29 '$count'
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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30
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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31 ## Outputs
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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32
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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33 ./output.tif
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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34
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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35 ]]>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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36 </command>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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37 <inputs>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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38 <param name="input" type="data" format="tiff,png" label="Input image (single-channel)" />
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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39 <param name="count" type="integer" value="3" min="1" label="Number of channels" />
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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40 </inputs>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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41 <outputs>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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42 <data format="tiff" name="output" from_work_dir="output.tif" />
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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43 </outputs>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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44 <tests>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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45 <test>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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46 <param name="input" value="input1.tif" />
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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47 <param name="count" value="3" />
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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48 <expand macro="tests/intensity_image_diff" name="output" value="input1_c3.tif" ftype="tiff" />
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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49 </test>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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50 </tests>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
imgteam
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51 <help>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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52
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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53 **Convert single-channel to multi-channel image.**
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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54
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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55 This tools converts a single-channel image to a multi-channel image by repeating the channel multiple times.
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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56
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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57 </help>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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58 <citations>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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59 <citation type="doi">10.1038/s41586-020-2649-2</citation>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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60 </citations>
7cdb50fee601 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/repeat_channels/ commit 60cf803236ef94f414056823688e6fd008b7a1b6
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61 </tool>