Mercurial > repos > cpt > cpt_intersect_adj
comparison intersect_and_adjacent.xml @ 1:f7d19040fafa draft
planemo upload commit 79bba3858aa6c0b5cc271fe69c485830acd428e2
| author | cpt |
|---|---|
| date | Sun, 11 Aug 2024 22:22:44 +0000 |
| parents | 923d2528480d |
| children | 0dbc7fbad0ab |
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| 0:923d2528480d | 1:f7d19040fafa |
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| 1 <tool id="edu.tamu.cpt.gff3.intersect_and_adjacent" name="Intersect and Adjacent" version="21.0.0"> | 1 <tool id="edu.tamu.cpt.gff3.intersect_and_adjacent" name="Intersect and Adjacent" version="21.0.0"> |
| 2 <description>Outputs nearby top-level GFF features from two GFF3 files</description> | 2 <description>Outputs nearby top-level GFF features from two GFF3 files</description> |
| 3 <macros> | 3 <macros> |
| 4 <import>macros.xml</import> | 4 <import>macros.xml</import> |
| 5 </macros> | 5 </macros> |
| 6 <expand macro="requirements"/> | |
| 6 <requirements> | 7 <requirements> |
| 7 <requirement type="package" version="3.0.2">intervaltree</requirement> | 8 <requirement type="package" version="3.0.2">intervaltree</requirement> |
| 8 </requirements> | 9 </requirements> |
| 9 <command detect_errors="aggressive"><![CDATA[ | 10 <command detect_errors="aggressive"><![CDATA[ |
| 10 python '$__tool_directory__/intersect_and_adjacent.py' | 11 python '$__tool_directory__/intersect_and_adjacent.py' |
| 11 '$gff3_data_a' | 12 '$gff3_data_a' |
| 12 '$gff3_data_b' | 13 '$gff3_data_b' |
| 13 '$window' | 14 '$window' |
| 14 '$stranding' | 15 '$stranding' |
| 15 --oa '$oa' | 16 --oa '$oa' |
| 16 --ob '$ob' | 17 --ob '$ob' |
| 17 ]]></command> | 18 ]]> |
| 19 </command> | |
| 18 <inputs> | 20 <inputs> |
| 19 <param label="GFF3 Annotations A" name="gff3_data_a" type="data" format="gff3"/> | 21 <param label="GFF3 Annotations A" name="gff3_data_a" type="data" format="gff3"/> |
| 20 <param label="GFF3 Annotations B" name="gff3_data_b" type="data" format="gff3"/> | 22 <param label="GFF3 Annotations B" name="gff3_data_b" type="data" format="gff3"/> |
| 21 <param label="Adjacency Window Size" name="window" type="integer" value="0"/> | 23 <param label="Adjacency Window Size" name="window" type="integer" value="0"/> |
| 22 <param label="Only allow adjacencies for features on the same strand" name="stranding" type="boolean" checked="false" truevalue="-stranding" falsevalue=""/> | 24 <param label="Only allow adjacencies for features on the same strand" name="stranding" type="boolean" checked="false" truevalue="-stranding" falsevalue=""/> |