r6141 - /1.3/generic_fns/structure/internal_pdb.py -- May 20, 2008 - 11:18

Author: bugman
Date: Tue May 20 11:01:34 2008
New Revision: 6141

URL: http://svn.gna.org/viewcvs/relax?rev=6141&view=rev
Log:
Started the conversion of the internal relax structural object to be 
independent of the PDB format.


Modified:
    1.3/generic_fns/structure/internal_pdb.py

Modified: 1.3/generic_fns/structure/internal_pdb.py
URL: 
http://svn.gna.org/viewcvs/relax/1.3/generic_fns/structure/internal_pdb.py?rev=6141&r1=6140&r2=6141&view=diff
==============================================================================
--- 1.3/generic_fns/structure/internal_pdb.py (original)
+++ 1.3/generic_fns/structure/internal_pdb.py Tue May 20 11:01:34 2008
@@ -21,7 +21,7 @@
 
###############################################################################
 
 # Module docstring.
-"""Module containing a relax specific PDB structural object."""
+"""Module containing the internal relax structural object."""
 
 
 # relax module imports.
@@ -30,8 +30,8 @@
 
 
 
-class Internal_PDB(Base_struct_API):
-    """The internal relax PDB data object.
+class Internal(Base_struct_API):
+    """The internal relax structural data object.
 
     The structural data object for this class is a dictionary of arrays.  
The keys correspond to the
     'atom_id' strings.  The elements of the array are:
@@ -52,11 +52,11 @@
     """
 
     # Identification string.
-    id = 'internal pdb'
+    id = 'internal'
 
 
     def __init__(self):
-        """Initialise the PDB object."""
+        """Initialise the structural object."""
 
         # Reinitialise the data object to an empty dictionary.
         self.structural_data = {}
@@ -164,8 +164,8 @@
 
         This method will find the atom number corresponding to both the 
atom_id and bonded_id.
         The bonded_id atom number will then be appended to the atom_id 
array.  Because the
-        connections work both ways in the PDB file, the atom_id atom number 
will be appended to the
-        bonded_id atom array as well.
+        connections work both ways, the atom_id atom number will be appended 
to the bonded_id atom
+        array as well.
 
 
         @param atom_id:     The atom identifier.  This is used as the key 
within the dictionary.