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annotate json2yolosegment.xml @ 0:252fd085940d draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
author bgruening
date Fri, 13 Jun 2025 11:23:35 +0000
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children dfda27273ead
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252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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1 <tool id="json2yolosegment" name="Convert AnyLabeling JSON to YOLO text" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="24.2">
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2 <description>with ultralytics</description>
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3 <macros>
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4 <import>macros.xml</import>
252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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5 </macros>
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6 <expand macro="creator" />
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7 <expand macro="edam" />
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8 <command detect_errors="aggressive">
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9 <![CDATA[
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10 mkdir ./input ./output &&
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12 #for $filename in $in_json:
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13 ln -s '$filename' './input/${filename.element_identifier}' &&
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14 #end for
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252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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16 python '$__tool_directory__/json2yolosegment.py' -i ./input/ -o ./output -c '$class_name'
252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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17
252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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18 ]]>
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19 </command>
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20 <inputs>
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21 <param name="in_json" type="data" format="json" multiple="true" label="Input label files" help="The label file is the output of AnyLabeling in JSON format."/>
252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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22 <param name="class_name" type="data" format="txt" label="Class file" help="Class names text file, contains the names of classes, one class per row."/>
252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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23 </inputs>
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24 <outputs>
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25 <collection name="output_yolo" type="list" label="YOLO text files">
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26 <discover_datasets pattern="(?P&lt;name&gt;.+)\.txt" visible="true" directory="./output" format="txt"/>
252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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27 </collection>
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28 </outputs>
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29 <tests>
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30 <test>
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31 <param name="in_json" value="in_json.json,in_json1.json" />
252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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32 <param name="class_name" value="class_names.txt" />
252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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33 <output_collection name="output_yolo">
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34 <element name="in_json">
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35 <assert_contents>
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36 <has_n_lines n="1" />
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37 <has_text text="0.8532289628180039" />
252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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38 </assert_contents>
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39 </element>
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40 <element name="in_json1">
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41 <assert_contents>
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42 <has_n_lines n="1" />
252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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43 <has_text text="0.7710371819960861" />
252fd085940d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
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44 </assert_contents>
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45 </element>
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46 </output_collection>
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47 </test>
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48 </tests>
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49 <help>
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50 <![CDATA[
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51 **What it does**
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52 This tool converts label files generated by AnyLabeling into YOLO supported text files.
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53 ]]>
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54 </help>
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55 <expand macro="citations" />
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56 </tool>