[med-svn] [hyphy] 06/07: Fix more spelling errors

[Andreas Tille]

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tille pushed a commit to branch master
in repository hyphy.

commit d1071cf7cbb7017cace991ab1f46487ed4d6dee5
Author: Andreas Tille <tille at debian.org>
Date:   Fri Jul 22 15:03:41 2016 +0200

    Fix more spelling errors
---
 debian/changelog              |  1 +
 debian/patches/spelling.patch | 44 +++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 45 insertions(+)

diff --git a/debian/changelog b/debian/changelog
index c47d895..a8ac293 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -3,6 +3,7 @@ hyphy (2.2.6+dfsg-4) UNRELEASED; urgency=medium
   * Fix gcc-6 build issue by incorporating upstream patch
     Closes: #811866
   * cme fix dpkg-control
+  * Fix more spelling errors
 
  -- Andreas Tille <tille at debian.org>  Fri, 22 Jul 2016 14:40:33 +0200
 
diff --git a/debian/patches/spelling.patch b/debian/patches/spelling.patch
index 1f09415..ce8d4ba 100644
--- a/debian/patches/spelling.patch
+++ b/debian/patches/spelling.patch
@@ -31,3 +31,47 @@ Description: Fix two spelling issues
                            "Use distances",optionList.Tokenize (comma), globalPreferencesList,true);
      _hyPreferencesKeys.Insert(_hyPreferencesStartValue.makeDynamic(),((_List*)globalPreferencesList.lData[4])->lLength);
      AddItemToPreferences (0,PREFITEM_TEXTBOX,_hyPreferencesStartValue,"Sets starting values for parameters for optimization routines. If starting values are obtained by distance methods, this option is ignored.",
+--- a/src/core/batchlan.cpp
++++ b/src/core/batchlan.cpp
+@@ -7031,7 +7031,7 @@ bool    _ElementaryCommand::ConstructMPI
+ 
+ //____________________________________________________________________________________
+ bool    _ElementaryCommand::ConstructCategoryMatrix (_String&source, _ExecutionList&target)
+-// syntax: ConstructCategoryMatrix (receptacle, likelihood function, [COMPLETE/SHORT, which partitions to include -- a matrix agrument] )
++// syntax: ConstructCategoryMatrix (receptacle, likelihood function, [COMPLETE/SHORT, which partitions to include -- a matrix argument] )
+ {
+     _List pieces;
+     ExtractConditions (source,blConstructCM.sLength,pieces,',');
+--- a/src/core/calcnode.cpp
++++ b/src/core/calcnode.cpp
+@@ -2749,7 +2749,7 @@ _PMathObj _TreeTopology::Execute (long o
+         long        size   = cc->Value()/p->Value();
+ 
+         if  ((size<=4)||(size>cc->Value()/2)) {
+-            context->ReportError ("Poor choice of the 2nd numeric agrument in to $ for tree. Either the resulting cluster size is too big(>half of the tree), or too small (<4)!");
++            context->ReportError ("Poor choice of the 2nd numeric argument in to $ for tree. Either the resulting cluster size is too big(>half of the tree), or too small (<4)!");
+             return new _MathObject;
+         }
+ 
+--- a/src/core/include/calcnode.h
++++ b/src/core/include/calcnode.h
+@@ -458,7 +458,7 @@ public:
+     _AssociativeList*
+     SplitsIdentity                      (_PMathObj);
+     /* 20090609: SLKP
+-        given a tree agrument (p), the function returns an AVL with a 2x1 matrix (key "CLUSTERS")
++        given a tree argument (p), the function returns an AVL with a 2x1 matrix (key "CLUSTERS")
+         and a string (key "CONSENSUS");
+         The first cell contains the number of splits in *this
+         The second cell contains the number of splits in the argument that are present in *this
+--- a/src/lib/Link/THyPhy.h
++++ b/src/lib/Link/THyPhy.h
+@@ -58,7 +58,7 @@ SOFTWARE OR THE USE OR OTHER DEALINGS IN
+ 
+ typedef  bool _ProgressCancelHandler (char*,int,double);
+ /* if  the function returns false, then HyPhy will attempt to terminate the task and return
+-     HyPhy will also populate three agruments
++     HyPhy will also populate three arguments
+   -- char * : pointer to an (internally handled by HyPhy) string
+               that describes what task HyPhy is working on at the moment
+   -- int    : integer progress value (as in % done)

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