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BigString.h
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34 
35 
36 #ifndef OPENMS_DATASTRUCTURES_BIGSTRING_H
37 #define OPENMS_DATASTRUCTURES_BIGSTRING_H
38 
39 #include <vector>
41 
42 namespace OpenMS
43 {
44 
50  class OPENMS_DLLAPI BigString
51  {
52 
53 public:
54 
55  typedef std::pair<String, String> FASTAEntry;
56 
60  BigString();
61 
65  BigString(const BigString & bs);
66 
70  virtual ~BigString();
71 
76  void add(FASTAEntry const & new_entry);
77 
82  void setSeparator(const char sep);
83 
88  char getSeparator();
89 
94  Size size();
95 
100  Size length();
101 
110  void getPeptide(FASTAEntry & entry, Size start, Size length);
111 
116  const String & getBigString() const;
117 
118 protected:
119 
127  Size getIndex_(Size index, Size start, Size end);
128 
134  Size getIndex_(Size index);
135 
137 
138  char separator_;
139 
141 
143 
144  std::vector<Size> sep_indices_;
145 
146  std::vector<String> FASTA_header_;
147 
148  };
149 }
150 #endif // OPENMS_DATASTRUCTURES_BIGSTRING_H
std::vector< String > FASTA_header_
vector with headers of FASTAEntry
Definition: BigString.h:146
A more convenient string class.
Definition: String.h:56
std::vector< Size > sep_indices_
indices of separators
Definition: BigString.h:144
concatenates Proteins given as FASTAEntry to one big string separated by a unique character (by defau...
Definition: BigString.h:50
String big_string_
concatenated String
Definition: BigString.h:136
Size count_
number of Strings added to big_string
Definition: BigString.h:140
char separator_
separator sign
Definition: BigString.h:138
size_t Size
Size type e.g. used as variable which can hold result of size()
Definition: Types.h:144
std::pair< String, String > FASTAEntry
Definition: BigString.h:55
Size len_
length of the big_string
Definition: BigString.h:142

OpenMS / TOPP release 1.11.1 Documentation generated on Thu Nov 14 2013 11:19:11 using doxygen 1.8.5