Mercurial > repos > earlhaminst > blast_parser

annotate blast_parser.xml @ 6:fea757b85172 draft default tip

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planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/main/tools/blast_parser commit d96cd7ee9c686c185b6734aa08ab5a891cc44149-dirty
author earlhaminst
date Mon, 03 Mar 2025 17:48:20 +0000
parents e14f71c3a70e
children
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fea757b85172 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/main/tools/blast_parser commit d96cd7ee9c686c185b6734aa08ab5a891cc44149-dirty
earlhaminst
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1 <tool id="blast_parser" name="BLAST parser" version="0.2.0">
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earlhaminst
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2 <description>
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3 Convert 12- or 24-column BLAST output into 3-column hcluster_sg input
87eda806422d planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/blast_parser commit 75c6b4d9bd23cdd5f8e5626b1b01f2abba32c274-dirty
earlhaminst
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4 </description>
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earlhaminst
parents: 5
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5 <requirements>
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earlhaminst
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6 <requirement type="package" version="3.13">python</requirement>
fea757b85172 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/main/tools/blast_parser commit d96cd7ee9c686c185b6734aa08ab5a891cc44149-dirty
earlhaminst
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7 </requirements>
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8 <command detect_errors="exit_code">
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9 <![CDATA[
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earlhaminst
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10 python3 '$__tool_directory__/blast_parser.py'
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earlhaminst
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11 -i '$input'
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earlhaminst
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12 -o '$output'
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earlhaminst
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13 #if $reciprocal
70df762b48a8 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/blast_parser commit 32272744ad83a704fd427b48aae574496a279901-dirty
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14 -r
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earlhaminst
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15 #end if
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16 ]]>
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17 </command>
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19 <inputs>
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20 <param name="input" type="data" format="tabular" label="Tabular data" help="BLAST 12 column tabular format data"/>
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earlhaminst
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21 <param name="reciprocal" type="boolean" checked="false" label="Reciprocal results" help="returns only reciprocal results"/>
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22 </inputs>
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24 <outputs>
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25 <data name="output" format="tabular" label="$tool.name on ${on_string}" />
87eda806422d planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/blast_parser commit 75c6b4d9bd23cdd5f8e5626b1b01f2abba32c274-dirty
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26 </outputs>
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28 <tests>
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29 <test>
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30 <param name="input" ftype="tabular" value="input.tabular" />
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31 <param name="reciprocal" value="false" />
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32 <output name="output" file="output.tabular" />
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33 </test>
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34 <test>
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35 <param name="input" ftype="tabular" value="input.tabular" />
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earlhaminst
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36 <param name="reciprocal" value="true" />
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earlhaminst
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37 <output name="output" file="output2.tabular" />
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earlhaminst
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38 </test>
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39 </tests>
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40 <help>
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41 <![CDATA[
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earlhaminst
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42 Simple tool to convert a 12- or 24-column BLAST output into a 3-column format (qseqid, sseqid, round(-1 * log10(evalue)/2)) usable as input for the hcluster_sg tool.
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43 ]]>
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44 </help>
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45 <citations>
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46 <citation type="doi">https://doi.org/10.1093/gigascience/giy005</citation>
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47 </citations>
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48 </tool>