94 bool isDdaRun()
const;
100 bool isDiaRun()
const;
106 [[deprecated(
"Please use getMassSpectrumCstSPtrByGlobalScanIndex")]] pappso::
108 getMassSpectrumCstSPtrByRawIndex(std::size_t raw_index);
112 getMassSpectrumCstSPtrByGlobalScanIndex(std::size_t index);
118 std::size_t scanNum);
122 [[deprecated(
"Please use getFrameCount")]] std::size_t
123 getTotalNumberOfFrames()
const;
126 std::size_t getFrameCount()
const;
130 [[deprecated(
"Please use getTotalScanCount")]] std::size_t
131 getTotalNumberOfScans()
const;
135 std::size_t getTotalScanCount()
const;
138 [[deprecated(
"Please use getMsLevelByGlobalScanIndex")]]
unsigned int
139 getMsLevelBySpectrumIndex(std::size_t index);
142 unsigned int getMsLevelByGlobalScanIndex(std::size_t index);
144 [[deprecated(
"Please use getQualifiedMassSpectrumByGlobalScanIndex")]]
void
145 getQualifiedMassSpectrumByRawIndex(
const MsRunIdCstSPtr &msrun_id,
147 std::size_t global_scan_index,
148 bool want_binary_data);
151 void getQualifiedMassSpectrumByGlobalScanIndex(
154 std::size_t global_scan_index,
155 bool want_binary_data);
156 Trace getTicChromatogram()
const;
159 std::vector<std::size_t> getTimsMS1FrameIdsInRtRange(
double rt_begin,
160 double rt_end)
const;
162 std::vector<std::size_t> getTimsMS2FrameIdsInRtRange(
double rt_begin,
163 double rt_end)
const;
186 [[deprecated(
"Please use getScanByGlobalScanIndex")]]
TimsDataFastMap &
187 getRawMsBySpectrumIndex(std::size_t index);
197 "Please use getRetentionTimeLineInSeconds")]]
virtual std::vector<double>
198 getRetentionTimeLine()
const;
200 virtual std::vector<double> getRetentionTimeLineInSeconds()
const;
203 const std::vector<FrameIdDescr> &getFrameIdDescrList()
const;
204 const std::vector<TimsFrameRecord> &getTimsFrameRecordList()
const;
207 const QDir &getTimsDataDirectory()
const;
214 QSqlDatabase openDatabaseConnection()
const;
221 "Please use getScanCoordinatesByGlobalScanIndex")]] std::pair<std::size_t,
223 getScanCoordinateFromRawIndex(std::size_t spectrum_index)
const;
226 std::pair<std::size_t, std::size_t>
227 getScanCoordinatesByGlobalScanIndex(std::size_t index)
const;
229 [[deprecated(
"Please use getGlobalScanIndexByScanCoordinates")]] std::size_t
230 getRawIndexFromCoordinate(std::size_t frame_id, std::size_t scan_num)
const;
234 std::size_t getGlobalScanIndexByScanCoordinates(std::size_t frame_id,
235 std::size_t index)
const;
249 void fillFrameIdDescrList();
260 std::size_t m_cacheSize = 60;