[ARVADOS] updated: fa3fbd543823400c58d14df2e800a4a447bd3ee0

[git at public.curoverse.com]

Summary of changes:
 crunch_scripts/arvados-bcbio-nextgen.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)
 mode change 100644 => 100755 crunch_scripts/arvados-bcbio-nextgen.py

       via  fa3fbd543823400c58d14df2e800a4a447bd3ee0 (commit)
      from  5f5ef11b0cfc6f6125e9e5316933156049c43b76 (commit)

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commit fa3fbd543823400c58d14df2e800a4a447bd3ee0
Author: Peter Amstutz <peter.amstutz at curoverse.com>
Date:   Wed Jul 2 16:21:52 2014 -0400

    Fixed +x

diff --git a/crunch_scripts/arvados-bcbio-nextgen.py b/crunch_scripts/arvados-bcbio-nextgen.py
old mode 100644
new mode 100755
index cd17a13..13b1ef9
--- a/crunch_scripts/arvados-bcbio-nextgen.py
+++ b/crunch_scripts/arvados-bcbio-nextgen.py
@@ -64,7 +64,7 @@ with open("/usr/local/share/bcbio-nextgen/galaxy/tool-data/gatk_sorted_picard_in
     f.write(subst.do_substitution(p, "GRCh37\tGRCh37\tHuman (GRCh37)\t$(file $(gatk_sorted_picard_index))"))
 
 with open("/usr/local/share/bcbio-nextgen/galaxy/tool-data/picard_index.loc", "w") as f:
-    f.write(subst.do_substitution(p, "GRCh37\tGRCh37\tHuman (GRCh37)\t$(file $(picard_indices))"))
+    f.write(subst.do_substitution(p, "GRCh37\tGRCh37\tHuman (GRCh37)\t$(file $(picard_index))"))
 
 with open("/usr/local/share/bcbio-nextgen/galaxy/tool-data/sam_fa_indices.loc", "w") as f:
     f.write(subst.do_substitution(p, "index\tGRCh37\t$(file $(sam_fa_indices))"))

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