diff options
| -rwxr-xr-x | src/score_mers.py | 9 |
1 files changed, 7 insertions, 2 deletions
diff --git a/src/score_mers.py b/src/score_mers.py index 1d3456b..c2e18ff 100755 --- a/src/score_mers.py +++ b/src/score_mers.py @@ -31,7 +31,8 @@ else: exit() # import our variables -cpus = int(os.environ.get("cpus", cpu_count())); +cpus = int(os.environ.get("cpus", cpu_count())); +debug = int(os.environ.get("debug", False)); min_mer_range = int(os.environ.get("min_mer_range", 6)); max_mer_range = int(os.environ.get("max_mer_range", 12)); min_mer_count = int(os.environ.get("min_mer_count", 0)); @@ -231,9 +232,13 @@ def load_end_points(fn): end_points = [0] cmd = "sequence_end_points < " + fn - print cmd + + if debug: + print "loading sequence end points" + print "executing: " + cmd points_fh = Popen(cmd, stdout=PIPE, shell=True) + for line in points_fh.stdout: end_points.append(int(line)) |