Consistent View/ Map Inspect - Revision history

Pyadmin: 12 revisions

2014-03-28T02:15:11Z

12 revisions

2010-04-09T00:10:44Z

2010-04-07T21:20:18Z

2010-04-07T19:26:43Z

2010-04-07T19:19:21Z

2010-04-07T19:09:49Z

2010-04-07T19:05:55Z

2010-04-07T18:34:39Z

2010-04-07T18:34:05Z

2010-04-07T18:23:52Z

@@ Line 1,116: / Line 1,116: @@
      R_prime = (kr.inverse() * std_view.rotmat)
-     print "delta",std_view.origin_of_rotation - residue.CA
+     if verbose: print "delta",std_view.origin_of_rotation - residue.CA
      test = residue.CA + (kr.inverse() * std_view.difference_to_this_CA)

@@ Line 1,121: / Line 1,121: @@
      print "delta",std_view.origin_of_rotation - residue.CA
      test = residue.CA + (kr.inverse() * std_view.difference_to_this_CA)
      if verbose:

@@ Line 7: / Line 7: @@
 Three components are needed:
-* A Python module, support.py, giving matrix algebra & Kabsch-style structure alignment.  This module must be in the current working directory, and PyMol started from the command line, e.g., on MacOSX:
+* A Python module, support.py, giving matrix algebra & Kabsch-style structure alignment (source code given below).  This module must be in the current working directory, and PyMol started from the command line, e.g., on MacOSX:
 <pre>

@@ Line 148: / Line 148: @@
 '''METHODOLOGY'''
-Four atoms of the current residue (N, CA, CB, and C) are used for a Kabsch-style alignment against a reference orientation.  For glycines, a hypothetical beta-carbon is modelled (but not shown) based on tetrahedral geometry.   A known limitation of this approach is that the alignment is very local, i.e., neighboring residues may not precisely align between structures.
+Four atoms of the current residue (N, CA, CB, and C) are used for a Kabsch-style alignment against a reference orientation.  For glycines, a hypothetical beta-carbon is modelled (but not shown) based on tetrahedral geometry.   A known limitation of the approach is that the alignment is very local, i.e., neighboring residues may not precisely align between structures.
 '''SUPPORTING MODULE'''

@@ Line 9: / Line 9: @@
 * A Python module, support.py, giving matrix algebra & Kabsch-style structure alignment.  This module must be in the current working directory, and PyMol started from the command line, e.g., on MacOSX:
-<source>
+<source lang="html">
 /Applications/MacPyMol.app/Contents/MacOS/MacPyMOL
 </source>

← Older revision	Revision as of 02:15, 28 March 2014
(No difference)

← Older revision		Revision as of 18:34, 7 April 2010
Line 4:		Line 4:

	'''INSTALLATION'''		'''INSTALLATION'''
		+
		+	Three components are needed:
		+
		+	* A Python module, support.py, giving matrix algebra & Kabsch-style structure alignment. This module must be in the current working directory, and PyMol started from the command line, e.g., on MacOSX:
		+
		+	<source>
		+	/Applications/MacPyMol.app/Contents/MacOS/MacPyMOL
		+	</source>

	"Author: Nick Sauter"		"Author: Nick Sauter"

← Older revision	Revision as of 18:23, 7 April 2010
(No difference)