# HG changeset patch
# User iuc
# Date 1632465973 0
# Node ID a6a46221f3f938f436e61c478def285bdb2310d7
# Parent  5e11f7180cd03a33f6458b3d7536b9658c02dd97
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/chira commit 28963347255f1df6efaa8991ad9fc17f86b30a73"

diff -r 5e11f7180cd0 -r a6a46221f3f9 chira_extract.xml
--- a/chira_extract.xml	Tue Aug 31 07:49:22 2021 +0000
+++ b/chira_extract.xml	Fri Sep 24 06:46:13 2021 +0000
@@ -9,7 +9,9 @@
         #set $genomic_fasta = ''
         #if str($annotation.annot_choice) == "yes":
             #if str($annotation.fasta_source.fasta_source_selector) == 'history':
-                #set $genomic_fasta = $annotation.fasta_source.fasta
+                ## Avoid writing FASTA index to inputdir by symlinking 
+                ln -s '${$annotation.fasta_source.fasta}' genome.fa &&
+                #set $genomic_fasta = 'genome.fa'
             #else
                 #set $genomic_fasta = $annotation.fasta_source.fasta_id.fields.path
             #end if