Fix invalid escape sequences (W605)

Related to #147

Author: speleo3

scripts/ccp4_contact.py

@@ -30,7 +30,7 @@
 
 def parseCONTACTContacts(f):
     # Lys    24A  ca  Asp   263D  CG   ...  4.94    [   -1B   ]   3: -X,  Y+1/2,  -Z+1/2
-    conParser = re.compile("(\S*)\s*(\d+)([A-Z])\s*(\w+)")
+    conParser = re.compile(r"(\S*)\s*(\d+)([A-Z])\s*(\w+)")
     s1 = []
     s2 = []
     for line in f:

scripts/ccp4_ncont.py

@@ -31,7 +31,7 @@
 def parseNCONTContacts(f):
     # /1/B/ 282(PHE). / CE1[ C]:  /1/E/ 706(GLN). / O  [ O]:   3.32
     # * in the second group is needed when chain code is blank
-    conParser = re.compile("\s*/(\d+)/([a-zA-Z0-9]*)/\s*(\d+).*?/\s*([a-zA-Z0-9]*).*?:")
+    conParser = re.compile(r"\s*/(\d+)/([a-zA-Z0-9]*)/\s*(\d+).*?/\s*([a-zA-Z0-9]*).*?:")
     mode = 0
     s1 = []
     s2 = []

scripts/flatten_obj.py

@@ -277,7 +277,7 @@ def flatten_obj(name="",selection="",state=0,rename=0,quiet=1,chain_map=""):
                 cmd.create(prefix, obj, state, 1)
 
         # renumber all states
-        statere = re.compile("^%s_(.*)_(\d+)$" % metaprefix) # matches split object names
+        statere = re.compile(r"^%s_(.*)_(\d+)$" % metaprefix) # matches split object names
 
         warn_lowercase = False
 

scripts/plot_noe.py

@@ -56,10 +56,10 @@ def plot_noe(filename, line_color=None, line_width='1.0', advanced_coloring=0, s
     if advanced_coloring == 1:
         cmd.set("group_auto_mode", 2)
 
-    rgx_assi = re.compile("\s*[asignASIGN]+\s+.*")
-    rgx_or = re.compile("\s*[orOR]+\s+.*")
-    rgx_bracket = re.compile("(\(|\))")
-    rgx_tick = re.compile("(\w)\'")
+    rgx_assi = re.compile(r"\s*[asignASIGN]+\s+.*")
+    rgx_or = re.compile(r"\s*[orOR]+\s+.*")
+    rgx_bracket = re.compile(r"(\(|\))")
+    rgx_tick = re.compile(r"(\w)'")
 
     restraint_line = None
     restraint_block = []
@@ -68,17 +68,17 @@ def plot_noe(filename, line_color=None, line_width='1.0', advanced_coloring=0, s
     for line in open(filename):
         if rgx_assi.match(line):
             if restraint_line:
-                restraint_block.append(rgx_tick.sub("\g<1>^", rgx_bracket.sub(" ", restraint_line)))
+                restraint_block.append(rgx_tick.sub(r"\g<1>^", rgx_bracket.sub(" ", restraint_line)))
                 restraints_blocks.append(restraint_block)
             restraint_block = []
             restraint_line = line
         elif rgx_or.match(line):
-            restraint_block.append(rgx_tick.sub("\g<1>^", rgx_bracket.sub(" ", restraint_line)))
+            restraint_block.append(rgx_tick.sub(r"\g<1>^", rgx_bracket.sub(" ", restraint_line)))
             restraint_line = line
         else:
             restraint_line += line
 
-    restraint_block.append(rgx_tick.sub("\g<1>^", rgx_bracket.sub(" ", restraint_line)))
+    restraint_block.append(rgx_tick.sub(r"\g<1>^", rgx_bracket.sub(" ", restraint_line)))
     restraints_blocks.append(restraint_block)
 
     for restraint_block in restraints_blocks: