[ARVADOS] updated: 9060fbf9984b5e05081931c4c30846fd304ebced

[git at public.curoverse.com]

Summary of changes:
 crunch_scripts/arvados-bcbio-nextgen.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

       via  9060fbf9984b5e05081931c4c30846fd304ebced (commit)
      from  f888eee63ff962201154114efae87f3342ec2aa7 (commit)

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commit 9060fbf9984b5e05081931c4c30846fd304ebced
Author: Peter Amstutz <peter.amstutz at curoverse.com>
Date:   Wed Jul 2 16:24:44 2014 -0400

    open for writing

diff --git a/crunch_scripts/arvados-bcbio-nextgen.py b/crunch_scripts/arvados-bcbio-nextgen.py
index b8fb76f..feb8ce0 100755
--- a/crunch_scripts/arvados-bcbio-nextgen.py
+++ b/crunch_scripts/arvados-bcbio-nextgen.py
@@ -19,7 +19,7 @@ shutil.copy("/usr/local/share/bcbio-nextgen/config/bcbio_system.yaml", "/usr/loc
 
 os.mkdir("/usr/local/share/bcbio-nextgen/galaxy/tool-data")
 
-with open("/usr/local/share/bcbio-nextgen/galaxy/tool-data/tool_data_table_conf.xml") as f:
+with open("/usr/local/share/bcbio-nextgen/galaxy/tool-data/tool_data_table_conf.xml", "w") as f:
     f.write('''<tables>
     <!-- Locations of indexes in the BWA mapper format -->
     <table name="bwa_indexes" comment_char="#">

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