47 #include <OpenMS/TRANSFORMATIONS/FEATUREFINDER/SUPERHIRN/SuperHirnConfig.h>
71 std::vector<std::string>
AC;
102 static const double mono_mass[26];
103 static const char AA[20];
114 MS2Info(std::string, std::string,
float);
115 MS2Info(std::string, std::string,
int,
float);
116 MS2Info(std::string, std::string,
float,
int,
int);
132 void add_modification(
int,
double);
133 std::map<int, double>::iterator get_Modification_list_start();
135 std::map<int, double>::iterator get_Modification_list_end();
137 std::map<int, double>::iterator find_Modification(
int pos);
139 std::map<int, double> * get_Modification_list();
141 bool check_MODIFICATION();
144 void set_THEO_MASS_from_SQ();
145 double get_THEO_MZ();
149 void set_SQ(std::string in);
155 bool get_PROTEO_TYPE();
160 int get_TRYPTIC_STATE();
164 bool compare_AC(std::string);
166 bool search_AC_pattern(std::string);
172 std::string get_SQ();
174 std::string get_MOD_SQ();
176 std::string get_TOTAL_SQ();
178 std::string get_AC();
180 std::vector<std::string> get_ALL_AC();
182 std::vector<std::string>::iterator get_ALL_AC_START();
184 std::vector<std::string>::iterator get_ALL_AC_END();
186 bool find_AC(std::string);
187 void set_AC(std::string);
188 float get_PEP_PROB();
190 void set_PEP_PROB(
float in);
192 double get_MONO_MZ();
194 void set_MONO_MZ(
double);
196 double get_NEUTRAL_MR();
198 void set_NEUTRAL_MR(
double);
202 void set_CHRG(
int in);
206 int get_SCAN_START();
208 void set_SCAN_START(
int in);
212 void set_SCAN_END(
int in);
216 double get_DELTA_CN();
218 void set_DELTA_CN(
double in);
222 void set_XCORR(
double in);
224 void set_MS2_TYPE_TAG(std::string in);
226 std::string get_MS2_TYPE_TAG();
229 double getRetentionTime();
231 void setRetentionTime(
double in);
233 double get_MONO_AA_MASS(
int);
235 std::string get_PREV_AA();
237 void set_PREV_AA(std::string in);