diff osra.py @ 22:70b28a917515 draft

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/chemicaltoolbox/osra commit a44c0a13283e873a740eabcad04f021208290dfe-dirty

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/osra.py	Sun Nov 01 10:31:25 2015 -0500
@@ -0,0 +1,27 @@
+#!usr/bin/env python
+
+import os, sys
+import subprocess
+
+"""
+    OSRA_DATA_FILES is set during the toolshed Installation
+    If it is not set, use the standard configuration of OSRA. 
+    That means we need to delete argument 4-7.
+    That script is a hack, because we do not know the content of OSRA_DATA_FILES at xml evaluation time.
+
+    osra -f $oformat $infile 
+        -l \$OSRA_DATA_FILES/spelling.txt -a \$OSRA_DATA_FILES/superatom.txt
+        > $outfile
+"""
+
+if not os.path.exists(sys.argv[7]):
+    # OSRA_DATA_FILES path is not set or the spelling file is not existent
+    sys.argv.pop(7) # superatom.txt path
+    sys.argv.pop(6) # -a
+    sys.argv.pop(5) # speling.txt path
+    sys.argv.pop(4) # -l
+
+sys.argv[0] = 'osra'
+subprocess.call(sys.argv, stdout=sys.stdout)
+
+