Cosmetic changes for new neighbor/walk feature set

ViennaRNA · Mar 8, 2017 · 5d818b8 · 5d818b8
1 parent aa45db8
commit 5d818b8
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Showing 10 changed files with 3,271 additions and 2,448 deletions.
diff --git a/doc/refman.include/00-module_order.dox b/doc/refman.include/00-module_order.dox
@@ -36,6 +36,8 @@
  *  @defgroup   soft_constraints          Soft constraints
  *  @ingroup    constraints
  *
+ *  @defgroup   landscape                 The RNA secondary structure landscape
+ *
  *  @defgroup   mfe_fold                  Minimum Free Energy (MFE) algorithms
  *
  *  @defgroup   pf_fold                   Partition function and equilibrium properties
@@ -91,7 +93,11 @@
  *
  *  @defgroup   inverse_fold              Inverse Folding (Design)
  *
- *  @defgroup   paths                     Refolding paths between secondary structues
+ *  @defgroup   neighbors                 Neighborhood relation and move sets for secondary structures
+ *  @ingroup    landscape
+ *
+ *  @defgroup   paths                     Refolding paths of secondary structures
+ *  @ingroup    landscape
  *
  *  @defgroup   probing_data              Experimental structure probing data
  *

diff --git a/misc/uncrustify.cfg b/misc/uncrustify.cfg
@@ -24,7 +24,7 @@ nl_after_func_body              = 3        # number
 nl_after_func_proto             = 3        # number
 
 # Whether to fully split long function protos/calls at commas
-#ls_func_split_full              = true    # false/true
+ls_func_split_full              = true    # false/true
 
 # Whether to put a newline after brace open.
 # This also adds a newline before the matching brace close.
@@ -57,7 +57,7 @@ align_var_def_star_style        = 1        # number
 nl_func_var_def_blk             = 1        # number
 
 # Try to limit code width to N number of columns
-#code_width                      = 80        # number
+code_width                      = 100        # number
 
 #
 # Blank line options