Mercurial > repos > triasteran > trips_create_new_organism

changeset 7:2227d8ce6f5b draft

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Uploaded
author triasteran
date Tue, 29 Mar 2022 12:42:11 +0000
parents dd580d6ff10d
children 1a1620b2a7bd
files trips_create_new_organism/create_annotation_sqlite.xml
diffstat 1 files changed, 4 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/trips_create_new_organism/create_annotation_sqlite.xml	Tue Mar 01 12:42:24 2022 +0000
+++ b/trips_create_new_organism/create_annotation_sqlite.xml	Tue Mar 29 12:42:11 2022 +0000
@@ -1,9 +1,10 @@
-<tool id="create_annotation_sqlite" name="create annotation in sqlite for trips-viz" version="0.1.4">
+<tool id="create_annotation_sqlite" name="create annotation in sqlite for trips-viz" version="0.1.5conda">
     <requirements>
-		  <container type="docker">triasteran/trips_create_annotation:latest</container>
+        <requirement type="package" version="3.1.0">python-intervaltree</requirement>
+        <requirement type="package" version="0.4.6">pysqlite3</requirement>
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
-	    create_annotation_sqlite $annotation $fasta $pseudo_utr_len $transcript $gene $output
+	  python3 '$__tool_directory__/create_annotation_sqlite.py' $annotation $fasta $pseudo_utr_len $transcript $gene $output
     ]]></command>
     <inputs>
      <param format="gtf,gff" name="annotation" type="data" label="GTF/GFF3 File"/>