Delete unneeded directory

[jabaws.git] / website / archive / binaries / mac / src / muscle / seq.h

diff --git a/website/archive/binaries/mac/src/muscle/seq.h b/website/archive/binaries/mac/src/muscle/seq.h
deleted file mode 100644 (file)
index 2e8fb7d..0000000
--- a/website/archive/binaries/mac/src/muscle/seq.h
+++ /dev/null
@@ -1,85 +0,0 @@
-#ifndef Seq_h\r
-#define Seq_h\r
-\r
-#include <vector>\r
-\r
-class TextFile;\r
-class MSA;\r
-\r
-typedef std::vector<char> CharVect;\r
-\r
-class Seq : public CharVect\r
-       {\r
-public:\r
-       Seq()\r
-               {\r
-               m_ptrName = 0;\r
-       // Start with moderate size to avoid\r
-       // thrashing the heap.\r
-               reserve(200);\r
-               }\r
-       virtual ~Seq()\r
-               {\r
-               delete[] m_ptrName;\r
-               }\r
-\r
-private:\r
-// Not implemented; prevent use of copy c'tor and assignment.\r
-       Seq(const Seq &);\r
-       Seq &operator=(const Seq &);\r
-\r
-public:\r
-       void Clear()\r
-               {\r
-               clear();\r
-               delete[] m_ptrName;\r
-               m_ptrName = 0;\r
-               m_uId = uInsane;\r
-               }\r
-       const char *GetName() const\r
-               {\r
-               return m_ptrName;\r
-               }\r
-       unsigned GetId() const\r
-               {\r
-               if (uInsane == m_uId)\r
-                       Quit("Seq::GetId, id not set");\r
-               return m_uId;\r
-               }\r
-       void SetId(unsigned uId) { m_uId = uId; }\r
-\r
-       bool FromFASTAFile(TextFile &File);\r
-       void ToFASTAFile(TextFile &File) const;\r
-       void ExtractUngapped(MSA &msa) const;\r
-\r
-       void FromString(const char *pstrSeq, const char *pstrName);\r
-       void Copy(const Seq &rhs);\r
-       void CopyReversed(const Seq &rhs);\r
-       void StripGaps();\r
-       void StripGapsAndWhitespace();\r
-       void ToUpper();\r
-       void SetName(const char *ptrName);\r
-       unsigned GetLetter(unsigned uIndex) const;\r
-       unsigned Length() const { return (unsigned) size(); }\r
-       bool Eq(const Seq &s) const;\r
-       bool EqIgnoreCase(const Seq &s) const;\r
-       bool EqIgnoreCaseAndGaps(const Seq &s) const;\r
-       bool HasGap() const;\r
-       unsigned GetUngappedLength() const;\r
-       void LogMe() const;\r
-       char GetChar(unsigned uIndex) const { return operator[](uIndex); }\r
-       void SetChar(unsigned uIndex, char c) { operator[](uIndex) = c; }\r
-       void AppendChar(char c) { push_back(c); }\r
-       void FixAlpha();\r
-\r
-#ifndef        _WIN32\r
-       reference at(size_type i) { return operator[](i); }\r
-       const_reference at(size_type i) const { return operator[](i); }\r
-#endif\r
-\r
-private:\r
-       char *m_ptrName;\r
-       unsigned m_uId;\r
-       };\r
-\r
-#endif // Seq.h\r