Author: bugman
Date: Mon Jan 12 14:15:39 2009
New Revision: 8408
URL: http://svn.gna.org/viewcvs/relax?rev=8408&view=rev
Log:
Removed atom_add() and atom_connect() from the base API structure.
Modified:
branches/multi_structure/generic_fns/structure/api_base.py
Modified: branches/multi_structure/generic_fns/structure/api_base.py
URL:
http://svn.gna.org/viewcvs/relax/branches/multi_structure/generic_fns/structure/api_base.py?rev=8408&r1=8407&r2=8408&view=diff
==============================================================================
--- branches/multi_structure/generic_fns/structure/api_base.py (original)
+++ branches/multi_structure/generic_fns/structure/api_base.py Mon Jan 12
14:15:39 2009
@@ -77,60 +77,6 @@
@keyword struct_index: The index of the structural container, used
for replacing the
structure.
@type struct_index: int or None.
- """
-
- # Raise the error.
- raise RelaxImplementError
-
-
- def atom_add(self, pdb_record=None, atom_num=None, atom_name=None,
res_name=None, chain_id=None, res_num=None, pos=[None, None, None],
segment_id=None, element=None, struct_index=None):
- """Prototype method stub for adding an atom to the structural data
object.
-
- This method will create the key-value pair for the given atom.
-
-
- @keyword pdb_record: The optional PDB record name, e.g. 'ATOM',
'HETATM', or 'TER'.
- @type pdb_record: str or None
- @keyword atom_num: The atom number.
- @type atom_num: int or None
- @keyword atom_name: The atom name, e.g. 'H1'.
- @type atom_name: str or None
- @keyword res_name: The residue name.
- @type res_name: str or None
- @keyword chain_id: The chain identifier.
- @type chain_id: str or None
- @keyword res_num: The residue number.
- @type res_num: int or None
- @keyword pos: The position vector of coordinates.
- @type pos: list (length = 3)
- @keyword segment_id: The segment identifier.
- @type segment_id: str or None
- @keyword element: The element symbol.
- @type element: str or None
- @keyword struct_index: The index of the structure to add the atom to.
If not supplied and
- multiple structures or models are loaded, then
the atom will be
- added to all structures.
- @type struct_index: None or int
- """
-
- # Raise the error.
- raise RelaxImplementError
-
-
- def atom_connect(self, index1=None, index2=None, struct_index=None):
- """Prototype method stub for connecting two atoms within the data
structure object.
-
- This method should connect the atoms corresponding to the indices.
-
-
- @keyword index1: The index of the first atom.
- @type index1: int
- @keyword index2: The index of the second atom.
- @type index2: int
- @keyword struct_index: The index of the structure to connect the
atoms of. If not supplied
- and multiple structures or models are loaded,
then the atoms will be
- connected within all structures.
- @type struct_index: None or int
"""
# Raise the error.
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