# HG changeset patch
# User rliterman
# Date 1734636957 18000
# Node ID 6f3b67127e4451844161b90762ba982da021450a
# Parent  b87f07ac9edc952ec0185566ad555b9ad8bbaac6
"planemo upload"

diff -r b87f07ac9edc -r 6f3b67127e44 csp2_snp.xml
--- a/csp2_snp.xml	Thu Dec 19 14:02:04 2024 -0500
+++ b/csp2_snp.xml	Thu Dec 19 14:35:57 2024 -0500
@@ -48,7 +48,7 @@
         #for _, $read_file in enumerate($query_reads.list):
                 ln -sf ${read_file} ./queries/${read_file.element_identifier};
         #end for
-        export QUERY_FASTA_ARG="--reads ./queries";
+        export QUERY_READS_ARG="--reads ./queries";
 #end if
 
 #if (str($ref_reads.ref_reads_select) == "none"):
@@ -63,7 +63,7 @@
         #for _, $read_file in enumerate($ref_reads.list):
                 ln -sf ${read_file} ./references/${read_file.element_identifier};
         #end for
-        export REF_FASTA_ARG="--ref_reads ./references";
+        export REF_READS_ARG="--ref_reads ./references";
 #end if
 
 if [ -n "$trim_name" ] && [ "$trim_name" != "None" ]; then