7eac1be70c19da4a41c076410c83af59821570fd
mmaddren
  Tue Mar 1 10:15:19 2011 -0800
removed junk files from ucscgenomics/rafile/
diff --git python/ucscgenomics/rafile/read.py python/ucscgenomics/rafile/read.py
deleted file mode 100644
index 577ddd1..0000000
--- python/ucscgenomics/rafile/read.py
+++ /dev/null
@@ -1,85 +0,0 @@
-#
-# rafile/read.py
-# 
-# takes in an RA file and creates a dictionary structure for each one. Then puts
-# all entries into 1 dictionary, which is indexed by the value of the key-value 
-# pair specified by keyField (typically the object's name) which has to be the
-# first line in each entry. An example input with its created raDict follows.
-#
-# EXAMPLE:
-#
-# INPUT:
-#     readRaFile(file, key1)
-#
-#     file:     
-#         key1 valueA
-#         key2 valueB
-#
-#         key1 valueC
-#         key2 valueD
-# 
-# OUTPUT:
-#     raDict
-#         value1
-#             key1 valueA
-#             key2 valueB
-#         value3
-#             key1 valueC
-#             key2 valueD
-#
-
-import sys
-import re
-import radict
-
-def readRaFile(filePath, keyField):
-
-    file = open(filePath, 'r')
-    raDict = radict.RaDict()
-    raEntry = radict.EntryDict()
-    raKey = None
-
-    for line in file:
-
-        line = line.strip()
-
-        # remove all commented lines
-        if (line.startswith('#')):
-            raDict.addComment(line)
-            continue
-
-        # a blank line indicates we need to move to the next entry
-        if (len(line) == 0):
-            raKey = None
-            raEntry = None
-            continue
-
-        # check if we're at the first key in a new entry
-        if (line.split()[0].strip() == keyField):
-            if len(line.split()) < 2:
-                print 'ERROR: blank key on <' + line + '>'
-                sys.exit(1) 
-
-            raKey = line.split(' ', 1)[1].strip()
-            raEntry = radict.EntryDict()
-            raEntry.add(keyField, raKey)
-            raDict.add(raKey, raEntry)
-
-        # otherwise we should be somewhere in the middle of an entry
-        elif (raEntry != None):
-            raKey = line.split()[0].strip()           
-            raVal = ''
- 
-            if len(line.split()) > 1:
-                raVal = line.split(' ', 1)[1].strip()
-
-            raEntry.add(raKey, raVal)
-
-        # we'll only get here if we didn't find the keyField at the beginning
-        else:
-            print 'Error: Key missing - <' + keyField + '> before line <' + line + '>.'
-            return None
-
-    file.close()
-    return raDict
-