diff select_on_rank.py @ 0:9d5f4f5f764b

Initial commit to toolshed

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/select_on_rank.py	Thu Jan 16 13:10:00 2014 +0100
@@ -0,0 +1,21 @@
+import csv
+import sys
+
+__author__ = "Marcel Kempenaar"
+__contact__ = "[e-mail]"
+__copyright__ = "Copyright, 2012, Netherlands Bioinformatics Centre"
+__license__ = "MIT"
+
+in_file = sys.argv[1]
+out_file = sys.argv[2]
+to_select_list = [str(select.strip()) for select in sys.argv[3].split(',') if (len(select) > 0)]
+
+data = list(csv.reader(open(in_file, 'rb'), delimiter='\t'))
+header = data.pop(0)
+header_clean = [i.lower().strip().replace(".", "").replace("%", "") for i in header]
+rank = header_clean.index("rank")
+
+writer = csv.writer(open(out_file, 'wb'), delimiter='\t')
+writer.writerow(header)
+for select in to_select_list:
+    writer.writerows([i for i in data if i[rank] == select])