Merge pull request #63 from broadinstitute/dp-fix-novoalign-ntfs

ignore errors with os.chmod on non-unix file systems (ie, fat32)
broadinstitute · Jan 11, 2015 · bb67368 · bb67368
2 parents 4a0d7d2 + 49f60be
commit bb67368
Showing 1 changed file with 5 additions and 2 deletions.
diff --git a/tools/novoalign.py b/tools/novoalign.py
@@ -87,5 +87,8 @@ def index_fasta(self, fasta):
         cmd = [novoindex, outfname, fasta]
         log.debug(' '.join(cmd))
         subprocess.check_call(cmd)
-        mode = os.stat(outfname).st_mode & ~stat.S_IXUSR & ~stat.S_IXGRP & ~stat.S_IXOTH
-        os.chmod(outfname, mode)
+        try:
+            mode = os.stat(outfname).st_mode & ~stat.S_IXUSR & ~stat.S_IXGRP & ~stat.S_IXOTH
+            os.chmod(outfname, mode)
+        except PermissionError:
+            pass