Mercurial > repos > iuc > gff_to_prot

annotate convert_gff.xml @ 2:5b78f251c69f draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 4730eda34222a432a14bf1d1dd090b15e61a494c-dirty
author iuc
date Tue, 12 Mar 2019 15:00:26 -0400
parents f6c407e41a33
children a6aa24fe733c
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f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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1 <?xml version="1.0"?>
f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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2 <tool id="gff_to_prot" name="Convert GFF3" version="1.0.0">
f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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3 <description>to prot_table for TRANSIT</description>
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iuc
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4 <macros>
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iuc
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5 <import>macros.xml</import>
5b78f251c69f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 4730eda34222a432a14bf1d1dd090b15e61a494c-dirty
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6 </macros>
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f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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7 <command detect_errors="exit_code">$__tool_directory__/gff_to_prot.py '$input' '$output'</command>
f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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8 <inputs>
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9 <param name="input" type="data" format="gff3" label="GenBank GFF file" />
f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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10 </inputs>
f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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11 <outputs>
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12 <data name="output" format="tabular" />
f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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13 </outputs>
f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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14 <tests>
f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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15 <test>
f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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16 <param name="input" ftype="gff3" value="gff_to_prot-in1.gff3" />
f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
iuc
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17 <output name="output" file="gff_to_prot-out1.txt" />
f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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18 </test>
f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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19 </tests>
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21 <help>
5b78f251c69f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 4730eda34222a432a14bf1d1dd090b15e61a494c-dirty
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22 <![CDATA[
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23 .. class:: infomark
5b78f251c69f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 4730eda34222a432a14bf1d1dd090b15e61a494c-dirty
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5b78f251c69f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 4730eda34222a432a14bf1d1dd090b15e61a494c-dirty
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5b78f251c69f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 4730eda34222a432a14bf1d1dd090b15e61a494c-dirty
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26 **What it does**
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28 -------------------
5b78f251c69f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 4730eda34222a432a14bf1d1dd090b15e61a494c-dirty
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5b78f251c69f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 4730eda34222a432a14bf1d1dd090b15e61a494c-dirty
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30 Convert Gff3 files coming from Genbank in prot_table file that can be used as an input for TRANSIT tools.
5b78f251c69f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 4730eda34222a432a14bf1d1dd090b15e61a494c-dirty
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5b78f251c69f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 4730eda34222a432a14bf1d1dd090b15e61a494c-dirty
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32 ]]></help>
5b78f251c69f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 4730eda34222a432a14bf1d1dd090b15e61a494c-dirty
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33 <expand macro="citations" />
5b78f251c69f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 4730eda34222a432a14bf1d1dd090b15e61a494c-dirty
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34
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f6c407e41a33 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit 9ffba16c072c7dafe4ef0b70cd2ef166fbe903d0-dirty
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35 </tool>