Class SessionHandler¶

Defined in File SessionHandler.h

Nested Relationships¶

Nested Types¶

Inheritance Relationships¶

Base Types¶

public SmartPeak::ISequenceObserver (Struct ISequenceObserver)
public SmartPeak::ITransitionsObserver (Struct ITransitionsObserver)
public SmartPeak::IFeaturesObserver (Struct IFeaturesObserver)

Class Documentation¶

class SessionHandler : public SmartPeak::ISequenceObserver, public SmartPeak::ITransitionsObserver, public SmartPeak::IFeaturesObserver ¶

Public Functions

virtual void onFeaturesUpdated() override¶: IFeaturesObserver

virtual void onSequenceUpdated() override¶: ISequenceObserver

virtual void onTransitionsUpdated() override¶: ITransitionsObserver

void setMinimalDataAndFilters(const SequenceHandler &sequence_handler)¶

void setInjectionExplorer(GenericTableData &generic_table_data)¶: set the InjectionExplorer-specific data

void setTransitionExplorer(GenericTableData &generic_table_data)¶: set the TransitionExplorer-specific data

void setFeatureExplorer()¶: set the FeatureExplorer-specific data

void setSpectrumExplorer(GenericTableData &generic_table_data)¶: set the SpectrumExplorer-specific data

void setSequenceTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the SequenceTable-specific data

void setTransitionsTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the TransitionsTable-specific data

void setSpectrumTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the SpectrumTable-specific data

void setWorkflowTable(const std::vector<ApplicationHandler::Command> &commands, GenericTableData &generic_table_data)¶: set the WorkflowTable-specific data

void setQuantMethodTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the QuantMethodTable-specific data

void setStdsConcsTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the StdsConcsTable-specific data

void setComponentFiltersTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentFiltersTable-specific data

void setComponentGroupFiltersTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentGroupFiltersTable-specific data

void setComponentQCsTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentQCsTable-specific data

void setComponentGroupQCsTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentGroupQCsTable-specific data

void setComponentRSDFiltersTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentFiltersTable-specific data

void setComponentGroupRSDFiltersTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentGroupFiltersTable-specific data

void setComponentRSDQCsTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentQCsTable-specific data

void setComponentGroupRSDQCsTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentGroupQCsTable-specific data

void setComponentBackgroundFiltersTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentFiltersTable-specific data

void setComponentGroupBackgroundFiltersTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentGroupFiltersTable-specific data

void setComponentBackgroundQCsTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentQCsTable-specific data

void setComponentGroupBackgroundQCsTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentGroupQCsTable-specific data

void setComponentRSDEstimationsTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentEstimationsTable-specific data

void setComponentGroupRSDEstimationsTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentGroupEstimationsTable-specific data

void setComponentBackgroundEstimationsTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentEstimationsTable-specific data

void setComponentGroupBackgroundEstimationsTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶: set the ComponentGroupEstimationsTable-specific data

bool setFeatureTable(const SequenceHandler &sequence_handler, GenericTableData &generic_table_data)¶

void setFeatureMatrix(const SequenceHandler &sequence_handler)¶

void getChromatogramScatterPlot(const SequenceHandler &sequence_handler, GraphVizData &result, const std::pair<float, float> &range, const std::set<std::string> &sample_names, const std::set<std::string> &component_names) const¶

void getChromatogramTIC(const SequenceHandler &sequence_handler, GraphVizData &result, const std::pair<float, float> &range, const std::set<std::string> &sample_names) const¶

void getChromatogramXIC(const SequenceHandler &sequence_handler, GraphVizData &result, const std::pair<float, float> &range, const std::set<std::string> &sample_names, const std::set<std::string> &component_names, float mz) const¶

void getSpectrumScatterPlot(const SequenceHandler &sequence_handler, GraphVizData &result, const std::pair<float, float> &range, const std::set<std::string> &sample_names, const std::set<std::string> &component_group_names) const¶

void getSpectrumMSMSPlot(const SequenceHandler &sequence_handler, GraphVizData &result, const std::pair<float, float> &range, const std::set<std::string> &sample_names, const std::set<std::string> &component_group_names, const float rt, const int ms_level, const bool has_convex_hull_only) const¶

void setFeatureLinePlot()¶

void getHeatMap(const SequenceHandler &sequence_handler, HeatMapData &result, const std::string &feature_name)¶

bool setCalibratorsScatterLinePlot(const SequenceHandler &sequence_handler, CalibrationData &result)¶

Eigen::Tensor<std::string, 1> getInjectionExplorerHeader()¶

Eigen::Tensor<std::string, 2> getInjectionExplorerBody()¶

Eigen::Tensor<std::string, 1> getTransitionExplorerHeader()¶

Eigen::Tensor<std::string, 2> getTransitionExplorerBody()¶

Eigen::Tensor<std::string, 1> getSpectrumExplorerHeader()¶

Eigen::Tensor<std::string, 2> getSpectrumExplorerBody()¶

Eigen::Tensor<bool, 1> getSequenceTableFilters()¶

Eigen::Tensor<bool, 1> getTransitionsTableFilters()¶

Eigen::Tensor<bool, 1> getSpectrumTableFilters()¶

Eigen::Tensor<bool, 1> getFiltersTable(const Eigen::Tensor<std::string, 2> &to_filter) const¶

Eigen::Tensor<bool, 1> getGroupFiltersTable(const Eigen::Tensor<std::string, 2> &to_filter) const¶

std::set<std::string> getSelectInjectionNamesWorkflow(const SequenceHandler &sequence_handler)¶

std::set<std::string> getSelectSequenceSegmentNamesWorkflow(const SequenceHandler &sequence_handler)¶

std::set<std::string> getSelectSampleGroupNamesWorkflow(const SequenceHandler &sequence_handler)¶

Eigen::Tensor<std::string, 1> getSelectSampleNamesTable()¶

Eigen::Tensor<std::string, 1> getSelectSampleNamesPlot()¶

Eigen::Tensor<std::string, 1> getSelectTransitionsTable() const¶

Eigen::Tensor<std::string, 1> getSelectTransitionGroupsTable() const¶

Eigen::Tensor<std::string, 1> getSelectTransitionsPlot()¶

Eigen::Tensor<std::string, 1> getSelectTransitionGroupsPlot()¶

Eigen::Tensor<std::string, 1> getSelectFeatureMetaValuesTable()¶

Eigen::Tensor<std::string, 1> getSelectFeatureMetaValuesPlot()¶

Eigen::Tensor<std::string, 1> getSelectSpectrumPlot()¶

int getNSelectedSampleNamesTable()¶

int getNSelectedSampleNamesPlot()¶

int getNSelectedTransitionsTable()¶

int getNSelectedTransitionsPlot()¶

int getNSelectedFeatureMetaValuesTable()¶

int getNSelectedFeatureMetaValuesPlot()¶

Public Members

ExplorerData injection_explorer_data¶

ExplorerData transition_explorer_data¶

ExplorerData spectrum_explorer_data¶

ExplorerData feature_explorer_data¶

GenericTableData feature_table¶

GenericTableData sequence_table¶

GenericTableData transitions_table¶

GenericTableData spectrum_table¶

GenericTableData feature_pivot_table¶

Eigen::Tensor<float, 2> feat_sample_data¶

Eigen::Tensor<float, 2> feat_value_data¶

Eigen::Tensor<std::string, 1> feat_line_series_names¶

std::string feat_line_x_axis_title¶

std::string feat_line_y_axis_title¶

float feat_line_sample_min¶

float feat_line_sample_max¶

float feat_value_min¶

float feat_value_max¶

Eigen::Tensor<std::string, 1> feat_row_labels¶

Eigen::Tensor<std::string, 1> feat_col_labels¶

struct CalibrationData¶

Public Members

Points matching_points_¶

Points excluded_points_¶

std::vector<std::vector<float>> conc_fit_data¶

std::vector<std::vector<float>> feature_fit_data¶

std::vector<std::string> series_names¶

std::string x_axis_title¶

std::string y_axis_title¶

float conc_min¶

float conc_max¶

float feature_min¶

float feature_max¶

struct Points¶

Public Functions

inline void clear()¶

Public Members

std::vector<std::vector<float>> concentrations_¶

std::vector<std::vector<float>> features_¶

std::vector<std::vector<std::string>> injections_¶

std::vector<std::vector<OpenMS::AbsoluteQuantitationStandards::featureConcentration>> feature_concentrations_¶

struct ExplorerData¶

Public Members

Eigen::Tensor<std::string, 1> checkbox_headers¶

Eigen::Tensor<bool, 2> checkbox_body¶

Eigen::Tensor<bool, 1> checked_rows¶

struct GenericTableData¶

Public Functions

inline void clear()¶

Public Members

Eigen::Tensor<std::string, 1> headers_¶

Eigen::Tensor<std::string, 2> body_¶

struct GraphVizData¶

Public Functions

inline void reset(const std::string &x_axis_title, const std::string &y_axis_title, const std::optional<std::string> &z_axis_title, int max_nb_points)¶

inline bool addData(const std::vector<float> &x_data, const std::vector<float> &y_data, const std::string &data_name)¶

inline bool addScatterData(const std::vector<float> &x_data, const std::vector<float> &y_data, const std::string &data_name)¶

Public Members

std::vector<std::string> series_names_area_¶

std::vector<std::vector<float>> x_data_area_¶

std::vector<std::vector<float>> y_data_area_¶

std::vector<std::string> series_names_scatter_¶

std::vector<std::vector<float>> x_data_scatter_¶

std::vector<std::vector<float>> y_data_scatter_¶

std::string x_axis_title_¶

std::string y_axis_title_¶

std::vector<float> z_data_area_¶

std::optional<std::string> z_axis_title_¶

float x_min_ = 0.0f¶

float x_max_ = 0.0f¶

float y_min_ = 0.0f¶

float y_max_ = 0.0f¶

bool points_overflow_ = false¶

int nb_points_ = 0¶

int max_nb_points_ = 0¶

struct HeatMapData¶

Public Members

Eigen::Tensor<float, 2, Eigen::RowMajor> feat_heatmap_data¶

Eigen::Tensor<std::string, 1> feat_heatmap_row_labels¶

Eigen::Tensor<std::string, 1> feat_heatmap_col_labels¶

std::string feat_heatmap_x_axis_title¶

std::string feat_heatmap_y_axis_title¶

float feat_value_min_¶

float feat_value_max_¶

std::string selected_feature_¶

Eigen::Tensor<std::string, 1> selected_sample_names_¶

Eigen::Tensor<std::string, 1> selected_transitions_¶

Eigen::Tensor<std::string, 1> selected_transition_groups_¶