Restore copy constructor on CodonAlphabet.

Julien Y. Dutheil · Julien Y. Dutheil · commit 65b8f8b3fabf · 2025-12-03T14:15:03.000+01:00
diff --git a/Doxyfile b/Doxyfile
@@ -1,3 +1,7 @@
+# SPDX-FileCopyrightText: The Bio++ Development Group
+#
+# SPDX-License-Identifier: CECILL-2.1
+
 # Doxyfile 1.9.8
 
 # This file describes the settings to be used by the documentation system
diff --git a/src/Bpp/Seq/Alphabet/CodonAlphabet.h b/src/Bpp/Seq/Alphabet/CodonAlphabet.h
@@ -30,7 +30,7 @@ class CodonAlphabet :
   public AbstractAlphabet
 {
 protected:
-  const std::shared_ptr<const NucleicAlphabet> nAlph_;
+  std::shared_ptr<const NucleicAlphabet> nAlph_; //Note: this cannot be const, otherwise copy-constructor cannot work.
 
 public:
   // Constructor and destructor.

Original file line number	Diff line number	Diff line change
`@@ -30,7 +30,7 @@ class CodonAlphabet :`
`30`	`30`	`public AbstractAlphabet`
`31`	`31`	`{`
`32`	`32`	`protected:`
`33`		`- const std::shared_ptr<const NucleicAlphabet> nAlph_;`
	`33`	`+ std::shared_ptr<const NucleicAlphabet> nAlph_; //Note: this cannot be const, otherwise copy-constructor cannot work.`
`34`	`34`
`35`	`35`	`public:`
`36`	`36`	`// Constructor and destructor.`