Mercurial > repos > imgteam > voronoi_tesselation

annotate voronoi_tessellation.xml @ 1:e7fdea8385f0 draft

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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit c045f067a57e8308308cf6329060c7ccd3fc372f
author imgteam
date Thu, 04 Apr 2024 15:26:55 +0000
parents 8b74843c136e
children 412d7478ec92
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8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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1 <tool id="voronoi_tessellation" name="Compute Voronoi tessellation" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="23.0">
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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2 <description>with scikit-image</description>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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3 <macros>
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4 <import>creators.xml</import>
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8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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5 <token name="@TOOL_VERSION@">0.22.0</token>
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e7fdea8385f0 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit c045f067a57e8308308cf6329060c7ccd3fc372f
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6 <token name="@VERSION_SUFFIX@">1</token>
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8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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7 </macros>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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8 <edam_operations>
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9 <edam_operation>operation_3443</edam_operation>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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10 </edam_operations>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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11 <xrefs>
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12 <xref type="bio.tools">scikit-image</xref>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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13 <xref type="biii">scikit-image</xref>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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14 </xrefs>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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15 <requirements>
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e7fdea8385f0 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit c045f067a57e8308308cf6329060c7ccd3fc372f
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16 <requirement type="package" version="@TOOL_VERSION@">scikit-image</requirement>
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8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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17 <requirement type="package" version="1.26.4">numpy</requirement>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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18 <requirement type="package" version="1.12.0">scipy</requirement>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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19 </requirements>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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20 <command><![CDATA[
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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21
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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22 ## Inputs
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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24 python '$__tool_directory__/voronoi_tessellation.py' '$input'
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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26 ## Outputs
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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27
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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28 ./result.tiff
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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29
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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30 ]]>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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31 </command>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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32 <inputs>
1
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33 <param name="input" type="data" format="png,tiff" label="Input image" help="Must be a label map." />
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8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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34 </inputs>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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35 <outputs>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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36 <data format="tiff" name="result" from_work_dir="result.tiff" />
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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37 </outputs>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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38 <tests>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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39 <test>
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40 <param name="input" value="input1.tiff" />
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e7fdea8385f0 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit c045f067a57e8308308cf6329060c7ccd3fc372f
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41 <output name="result" ftype="tiff">
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42 <assert_contents>
e7fdea8385f0 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit c045f067a57e8308308cf6329060c7ccd3fc372f
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43
e7fdea8385f0 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit c045f067a57e8308308cf6329060c7ccd3fc372f
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44 <has_image_width width="10"/>
e7fdea8385f0 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit c045f067a57e8308308cf6329060c7ccd3fc372f
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45 <has_image_height height="10"/>
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46 <has_image_channels channels="1"/>
e7fdea8385f0 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit c045f067a57e8308308cf6329060c7ccd3fc372f
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47 <has_image_n_labels n="4"/>
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48 <has_image_n_labels n="0" labels="0"/>
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49
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50 </assert_contents>
e7fdea8385f0 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit c045f067a57e8308308cf6329060c7ccd3fc372f
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51 </output>
0
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52 </test>
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53 </tests>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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54 <help>
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55
1
e7fdea8385f0 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit c045f067a57e8308308cf6329060c7ccd3fc372f
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56 **Computes Voronoi tessellations for labeled images.**
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57
0
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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58 Voronoi tessellations are also known as Vornoi diagrams, or Dirichlet tessellations.
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59 Zero labels are treated as image background.
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60
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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61 </help>
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62 <citations>
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63 <citation type="doi">10.7717/peerj.453</citation>
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64 </citations>
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65 </tool>