Patches/9v1: Difference between revisions

Revision as of 20:51, 16 August 2022

Patches on this page can be applied to Modeller 9v1 to fix some minor problems. (Use the Unix patch command, or apply them by hand.)

💡 The patches are listed in chronological order (oldest first), so you should apply them in this order to avoid problems.

atom_range.patch: correct a typo in the model.atom_range() method.
inter-het-rsr.patch: constrain HET-HET distances, e.g. to preserve DNA chains during modeling.
top-commands.patch: fixes for correct functioning of the EXPAND_ALIGNMENT and SEGMENT_MATCHING TOP commands.
rna-model.patch: experimental support for RNA/DNA modeling.
superpose-templates.patch: work around a problem where superposed template coordinates (used for multi-template automodel runs) are forgotten.

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 <!-- #acl [[Modeller Caretaker]]:read,write,revert All:read -->
-Patches on this page can be applied to Modeller 9v1 to fix some minor problems. (Use the Unix `patch` command, or apply them by hand.)
+Patches on this page can be applied to Modeller 9v1 to fix some minor problems. (Use the Unix <code>patch</code> command, or apply them by hand.)
-(!) The patches are listed in chronological order (oldest first), so you should apply them in this order to avoid problems.
+💡 The patches are listed in chronological order (oldest first), so you should apply them in this order to avoid problems.
-* [http://salilab.org/modeller/archive/patch-9v1/atom_range.patch atom_range.patch]: correct a typo in the `model.atom_range()` method.
+* [http://salilab.org/modeller/archive/patch-9v1/atom_range.patch atom_range.patch]: correct a typo in the <code>model.atom_range()</code> method.
 * [http://salilab.org/modeller/archive/patch-9v1/inter-het-rsr.patch inter-het-rsr.patch]: constrain HET-HET distances, e.g. to preserve DNA chains during modeling.
 * [http://salilab.org/modeller/archive/patch-9v1/top-commands.patch top-commands.patch]: fixes for correct functioning of the EXPAND_ALIGNMENT and SEGMENT_MATCHING TOP commands.
 * [http://salilab.org/modeller/archive/patch-9v1/rna-model.patch rna-model.patch]: experimental support for RNA/DNA modeling.
 * [http://salilab.org/modeller/archive/patch-9v1/superpose-templates.patch superpose-templates.patch]: work around a problem where superposed template coordinates (used for multi-template automodel runs) are forgotten.