# HG changeset patch
# User jackcurragh
# Date 1650185111 0
# Node ID d70696d3341e512dae517d308b31e72a15722b1e
# Parent  f089034be679e5e3d07544641adc63d0b9f9ef5f
Uploaded

diff -r f089034be679 -r d70696d3341e trips_create_annotation/create_annotation_sqlite.py
--- a/trips_create_annotation/create_annotation_sqlite.py	Wed Apr 13 10:58:41 2022 +0000
+++ b/trips_create_annotation/create_annotation_sqlite.py	Sun Apr 17 08:45:11 2022 +0000
@@ -32,7 +32,7 @@
 
 
 # old_exons = SqliteDict(
-#     "/home/DATA/www/tripsviz/tripsviz/trips_annotations/mus_musculus/transcriptomic_to_genomic.sqlite"
+#     "/home/data2/www/tripsviz/tripsviz/trips_annotations/mus_musculus/transcriptomic_to_genomic.sqlite"
 # )
 
 
diff -r f089034be679 -r d70696d3341e trips_create_annotation/test-data/notinfasta.csv
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/trips_create_annotation/test-data/notinfasta.csv	Sun Apr 17 08:45:11 2022 +0000
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diff -r f089034be679 -r d70696d3341e trips_create_annotation/test-data/test_org.sqlite
Binary file trips_create_annotation/test-data/test_org.sqlite has changed
diff -r f089034be679 -r d70696d3341e trips_create_annotation/test-data/test_organism.sqlite
diff -r f089034be679 -r d70696d3341e trips_create_annotation/trips_create_annotation.xml
--- a/trips_create_annotation/trips_create_annotation.xml	Wed Apr 13 10:58:41 2022 +0000
+++ b/trips_create_annotation/trips_create_annotation.xml	Sun Apr 17 08:45:11 2022 +0000
@@ -1,10 +1,10 @@
-<tool id="trips_create_annotation" name="Create TRIPS-Viz annotation" version="1.1">
+<tool id="trips_create_annotation" name="Create TRIPS-Viz annotation" version="1.0">
     <description>Covert GFF3/GTF and transcriptome FASTA to custom annotation sqlite</description>
     <requirements>
         <requirement type="package" version="0.19.0">pysam</requirement>
         <requirement type="package" version="2.0.0">sqlitedict</requirement>
         <requirement type="package" version="3.37.1">sqlite</requirement>
-        <requirement type="package" version="3.0.2">python-intervaltree</requirement>
+        <requirement type="package" version="3.0.2">intervaltree</requirement>
 
     </requirements>
     <command><![CDATA[
@@ -23,13 +23,13 @@
     </outputs>
     <tests>
         <test>
-        <param name="input1" value="test_organism" ftype="text"/>
+        <param name="input1" value="test_org" ftype="text"/>
         <param name="input2" value="test.gtf" ftype="gff"/>
         <param name="input3" value="test.fasta" ftype="fasta"/>
         <param name="input4" value="0" ftype="integer"/>
-        <param name="input5" value="YAL012W" ftype="text"/>
+        <param name="input5" value="YDL248W" ftype="text"/>
         <param name="input6" value="YDL248W" ftype="text"/>
-        <output name="output1" file="test_organism.sqlite" ftype="sqlite" lines_diff="4" />
+        <output name="output1" file="test_org.sqlite" ftype="sqlite" lines_diff="4" />
         </test>
     </tests>
     <help>