Fixing some pylint comments

create_db.py

@@ -5,7 +5,6 @@ Un fichier pour faire des tests
 """
 
 import os
-import sys
 import argparse
 
 import sequence
@@ -14,27 +13,27 @@ import lib.trx as trx_lib
 import lib.database as database
 
 if __name__ == "__main__":
-    dbcursor = database.PGCursor()
+    DBCURSOR = database.PGCursor()
 
     # Use argparse to parse arguments. We first create a parser.
-    parser = argparse.ArgumentParser(description="ToDo")
+    PARSER = argparse.ArgumentParser(description="ToDo")
 
     # Adding arguments to the parser
-    parser.add_argument("-a", "--alphabet", type=str, default="dna", help="Alphabet (DNA, RNA, prot): Unambiguous IUPAC alphabet that will be used.", action="store")
-    parser.add_argument("-A", "--alpha", type=float, default=0.05, help="Alpha parameter for statistic analysis", action="store")
-    parser.add_argument("-c", "--centering", type=int, default=72, help="Centering parameter", action="store")
-    parser.add_argument("-g", "--graph", type=int, default=None, help="Plot graphs................. There, it's done.", action="store")
-    parser.add_argument("-s", "--sliding", type=int, default=72, help="Sl______iding parameter", action="store")
-    parser.add_argument("-t", "--trx-scale-file", type=str, default=trx_lib.scale_file, help="Path to trx scale file", action="store")
-    parser.add_argument("datadir", type=str, help="Path to the data directory.", action="store")
+    PARSER.add_argument("-a", "--alphabet", type=str, default="dna", help="Alphabet (DNA, RNA, prot): Unambiguous IUPAC alphabet that will be used.", action="store")
+    PARSER.add_argument("-A", "--alpha", type=float, default=0.05, help="Alpha parameter for statistic analysis", action="store")
+    PARSER.add_argument("-c", "--centering", type=int, default=72, help="Centering parameter", action="store")
+    PARSER.add_argument("-g", "--graph", type=int, default=None, help="Plot graphs................. There, it's done.", action="store")
+    PARSER.add_argument("-s", "--sliding", type=int, default=72, help="Sl______iding parameter", action="store")
+    PARSER.add_argument("-t", "--trx-scale-file", type=str, default=trx_lib.scale_file, help="Path to trx scale file", action="store")
+    PARSER.add_argument("datadir", type=str, help="Path to the data directory.", action="store")
 
     # Then, parse it
-    args = parser.parse_args()
-    if not args.datadir:
+    ARGS = PARSER.parse_args()
+    if not ARGS.datadir:
         raise EnvironmentError("You have to give a data directory.")
 
-    for directory in os.listdir(args.datadir):
-        cur_dir = os.path.join(args.datadir, directory)
+    for directory in os.listdir(ARGS.datadir):
+        cur_dir = os.path.join(ARGS.datadir, directory)
         md_parameters = {}
         label = ""
         fasta_file = None
@@ -51,5 +50,5 @@ if __name__ == "__main__":
         print label
         print fasta_file
         print md_parameters
-        seq = sequence.Sequence(fasta_file, md_parameters, label, alphabet=args.alphabet, trx_scale_path=args.trx_scale_file, sliding=args.sliding, centering=args.centering, alpha=args.alpha, graph=args.graph)
-        dbcursor.store_sequence(seq)
+        seq = sequence.Sequence(fasta_file, md_parameters, label, alphabet=ARGS.alphabet, trx_scale_path=ARGS.trx_scale_file, sliding=ARGS.sliding, centering=ARGS.centering, alpha=ARGS.alpha, graph=ARGS.graph)
+        DBCURSOR.store_sequence(seq)