Changeset 3835

Timestamp:

Aug 8, 2019, 3:36:46 AM (4 years ago)

Author:

Peter

Message:

fixes #929

Location:

branches/0.16-stable

Files:

• NEWS (modified) (1 diff)
• test/cigar.cc (modified) (1 diff)
• yat/utility/Aligner.cc (modified) (2 diffs)
• yat/utility/Aligner.h (modified) (3 diffs)

branches/0.16-stable/NEWS

@@ -6 +6 @@
 
 version 0.16.2 (released NOT YET)
+  - utility::Aligner::Cigar::begin(void) and ::end(void) are now
+    implemented (see bug #929)
 
   A complete list of closed tickets can be found here [[br]]

branches/0.16-stable/test/cigar.cc

@@ -77 +77 @@
     suite.err() << "error: incorrect string\n";
   }
+  for (utility::Aligner::Cigar::const_iterator c=cig.begin();c!=cig.end();++c){
+    std::string str(BAM_CIGAR_STR);
+    assert(*c < str.size());
+    suite.out() << str[*c];
+  }
+  suite.out() << "\n";
 
   if (!suite.add(cig.length()==17))

branches/0.16-stable/yat/utility/Aligner.cc

@@ -2 +2 @@
 
 /*
-  Copyright (C) 2012, 2014, 2016 Peter Johansson
+  Copyright (C) 2012, 2014, 2016, 2019 Peter Johansson
 
   This file is part of the yat library, http://dev.thep.lu.se/yat
@@ -158 +158 @@
   // ================ Cigar =======================
 
+  Aligner::Cigar::const_iterator Aligner::Cigar::begin(void) const
+  {
+    return const_iterator(cigar_.begin());
+  }
+
+
   void Aligner::Cigar::clear(void)
   {
     cigar_.clear();
+  }
+
+
+  Aligner::Cigar::const_iterator Aligner::Cigar::end(void) const
+  {
+    return const_iterator(cigar_.end());
   }
 

branches/0.16-stable/yat/utility/Aligner.h

@@ -7 +7 @@
   Copyright (C) 2012 Peter Johansson
   Copyright (C) 2013 Jari Häkkinen, Peter Johansson
-  Copyright (C) 2014, 2016 Peter Johansson
+  Copyright (C) 2014, 2016, 2019 Peter Johansson
 
   This file is part of the yat library, http://dev.thep.lu.se/yat
@@ -190 +190 @@
 
          \since New in yat 0.13
+
+         \note was not implemented prior 0.16.2
        */
       const_iterator begin(void) const;
@@ -202 +204 @@
 
          \since New in yat 0.13
+
+         \note was not implemented prior 0.16.2
        */
       const_iterator end(void) const;