sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
102f5a496c777fbc385de531887c438ed550fd9e8b94bd15bb652057340f325b | C++ | 40,607 | 1,179 | #include "us_mpi_analysis.h"
#include "us_util.h"
#include "us_math2.h"
#include "us_settings.h"
void US_MPI_Analysis::dmga_master( void )
{
current_dataset = 0;
datasets_to_process = data_sets.size();
max_depth = 0;
calculated_solutes.clear();
// Set noise and debug flags
simulation_v... |
4bac9a9b0545c0e28e1cac9c63232044194ec4caedb815aa8f43d9cfa6b6fb44 | C++ | 40,667 | 1,175 | //! \file us_export.cpp
#include <QApplication>
#include "us_export.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_gui_util.h"
#include "us_constants.h"
#include "us_passwd.h"
#include "us_load_auc.h"
#include "us_util.h"
#include "us_investigator.h"
#include "us_report.h"
#include "us_license.... |
8c1c39a8f1c3ff651dc789c88c6c71ae4c96af1a01a4d5c7d7b56a924a8ff1e8 | C++ | 41,472 | 1,272 | #include "us_mpi_analysis.h"
#include "us_lamm_astfvm.h"
#include "us_math2.h"
QDateTime elapsedd = QDateTime::currentDateTime();
#define ELAPSEDNOW (elapsedd.msecsTo(QDateTime::currentDateTime()))
#define ELAPSEDSEC (elapsedd.secsTo(QDateTime::currentDateTime()))
#define DbTimMsg(a) DbTiming << my_rank << generation ... |
3e9d65ad3e3bc7a095eb9b93c8d6d19bfb6a372b12265f980e86e84e2b79851c | C++ | 42,223 | 1,135 | /// \file min_cut_graph.cpp
///
/// unit tests for min_cut_graph construction and utility functions
///
#include <algorithm>
#include <random>
#include <xg.hpp>
#include <stdio.h>
#include <iostream>
#include "../algorithms/min_cut_graph.hpp"
#include <vector>
#include "catch.hpp"
#include <unordered_set>
#include "s... |
8de0c8363ebb76dee1bbf16c190245e83fcb095dc4b6634f67c2d19523abf241 | C++ | 42,365 | 1,046 | //------------------------------------------------------------------------------
//
// Intan Technologies RHX Data Acquisition Software
// Version 3.5.2
//
// Copyright (c) 2020-2026 Intan Technologies
//
// This file is part of the Intan Technologies RHX Data Acquisition Software.
//
// This program is free softw... |
8b1e82a73490d30b36f00f9b7bc44b8cbc17150e5e2d7027d42a81311c8692e8 | C++ | 42,554 | 1,015 | /** \file sim_main.cpp
*
* Defines the "vg sim" subcommand, which generates potential reads from a graph.
*/
#include <omp.h>
#include <unistd.h>
#include <getopt.h>
#include <list>
#include <fstream>
#include <algorithm>
#include <regex>
#include "subcommand.hpp"
#include "../vg.hpp"
#include "../aligner.hpp"
... |
ba845933d0b76b5f652a93626436631d621f740dbdf6efa95efd77d0b86d04c7 | C++ | 42,556 | 997 | /**
* \file alignment_emitter.cpp
*
* Implements a system for emitting alignments and groups of alignments in multiple formats.
*/
#include "hts_alignment_emitter.hpp"
#include "surjecting_alignment_emitter.hpp"
#include "back_translating_alignment_emitter.hpp"
#include "alignment.hpp"
#include "vg/io/json2pb.h"
#... |
71b3472e01357603252c348a7c439b80a0bddd10715bb2544d9430c490269f07 | C++ | 42,808 | 1,115 | /*
General functions
References: https://stackoverflow.com/questions/34218040/how-to-read-a-csv-file-data-into-an-array
https://iq.opengenus.org/split-string-in-cpp/
https://www.mathsisfun.com/algebra/trig-finding-angle-right-triangle.html
https://www.emathhelp.net/calculators/algebra-2/rotation-calculator/?px=20... |
901fcdfc82c60f5005d9cf6acb3e86747b1b729d36ab123b9f692ea942efb5c9 | C++ | 43,120 | 968 | /**
* \file chain_items.cpp
* Non-template function implementations for chaining pieces of a read-to-graph alignment.
*/
#include "chain_items.hpp"
#include "crash.hpp"
#include <handlegraph/algorithms/dijkstra.hpp>
#include <structures/immutable_list.hpp>
#include <structures/min_max_heap.hpp>
#include <algorit... |
9328226f76265f6f74b73ea20e170c8f11318d0033b513d2f75490465cb622db | C++ | 43,223 | 1,284 | //! \file us_mwl_species_sim.cpp
#include <QApplication>
#include "us_mwl_species_sim.h"
#include "us_data_loader.h"
#include "us_select_runs.h"
#include "us_astfem_rsa.h"
#include "us_astfem_math.h"
#include "us_license_t.h"
#include "us_license.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_u... |
83b5f49fe6b1beae30530836607e48b60f637edaff5b462b056419aa60447447 | C++ | 43,384 | 964 | //------------------------------------------------------------------------------
//
// Intan Technologies RHX Data Acquisition Software
// Version 3.5.2
//
// Copyright (c) 2020-2026 Intan Technologies
//
// This file is part of the Intan Technologies RHX Data Acquisition Software.
//
// This program is free softw... |
6b39a6f89b9e3b06b3b78a8c5d5eea271f47f5dd29b3feb43748bd4b20c399a7 | C++ | 43,417 | 911 | #include "traversal_clusters.hpp"
#include "traversal_finder.hpp"
#include "integrated_snarl_finder.hpp"
#include "snarl_distance_index.hpp"
#include "snarls.hpp"
#include "clip.hpp"
#include "algorithms/dfs.hpp"
//#define debug
namespace vg {
using namespace bdsg;
/// Length-weighted similarity of two snarl allele... |
f5df6da6ee31205d14abfe8aaa74f2ddb4d9b930c9eb9b0f85e261d1827e5ca6 | C++ | 43,661 | 937 | // surject_main.cpp: define the "vg surject" subcommand, which forces alignments into linear space
#include <omp.h>
#include <unistd.h>
#include <getopt.h>
#include <ctime>
#include <atomic>
#include <optional>
#include <string>
#include <vector>
#include <set>
#include "subcommand.hpp"
#include <bdsg/hash_graph.hp... |
58c7e47bd6025ff17b0453d67e10b3653742c7ca39dc97817039b7883d91dde0 | C++ | 44,048 | 1,353 | //! \file us_pcsa.cpp
#include <QApplication>
#include <QtSvg>
#include "us_pcsa.h"
#include "us_resids_bitmap.h"
#include "us_license_t.h"
#include "us_license.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_gui_util.h"
#include "us_matrix.h"
#include "us_constants.h"
#include "us_analyte_gui.h... |
34c5f2f4f2cd60987896e8e2162c5af418bb371ee31f39a2cccd8b4b9da5e811 | C++ | 44,273 | 1,309 | //! \file us_modelmetrics.cpp
#include "us_modelmetrics.h"
#include "us_constants.h"
#include "us_gui_util.h"
#ifndef DbgLv
#define DbgLv(a) if(dbg_level>=a)qDebug()
#endif
//! \brief Main program for US_ModelMetrics. Loads translators and starts
// the class US_ModelMetrics
int main( int argc, char* argv[]... |
6f395872897b3ff0c63bc88ced8221a50c8af24166003103ba19610c9f51e3d2 | C++ | 44,522 | 815 | //------------------------------------------------------------------------------
//
// Intan Technologies RHX Data Acquisition Software
// Version 3.5.2
//
// Copyright (c) 2020-2026 Intan Technologies
//
// This file is part of the Intan Technologies RHX Data Acquisition Software.
//
// This program is free softw... |
cc1c4398cfd6dd8aae23a13c72d536ec9cbdabb81ee189638fb8d7ca336d9eb9 | C++ | 44,531 | 1,091 | /** \file
* The net handle encoding of SnarlManagerDecomposition, and the walks that
* survey which traversals of each snarl and chain are realizable.
*/
#include "snarl_manager_decomposition.hpp"
#include <algorithm>
#include <array>
#include <cassert>
#include <deque>
#include <set>
#include <stdexcept>
#include... |
7119002437d5190878019ed11ba3cf0f14dee26dfcb017cadbc0d663a581d994 | C++ | 44,543 | 1,014 | #include <unordered_set>
#include "cactus.hpp"
#include "vg.hpp"
#include "handle.hpp"
#include "algorithms/dfs.hpp"
//#define debug
namespace vg {
using namespace std;
// Cactus
// Step 1) Get undirected adjacency connected components of VG *sides*
// (note we can't put NodeSides in header, so leave this functio... |
9b1ec03e2def25242e48d229bc2b5532558647120d452935290ec09fb7c254a9 | C++ | 44,880 | 1,340 | //! \file test_us_solve_sim.cpp
// test_us_solve_sim.cpp - Unit tests for US_SolveSim noise removal and NNLS
#include "qt_test_base.h"
#include "us_astfem_math.h"
#include "us_constants.h"
#include "us_math2.h"
#include "us_sim_cache.h"
#include "us_solve_sim.h"
#include <QTemporaryDir>
#include <QVector>
#include <alg... |
9e56e0a5ff4c49d2b0009b7597a6a8d9ec40f5a6f6eea26bd588f6f39fdc0b1f | C++ | 45,159 | 1,198 | //------------------------------------------------------------------------------
//
// Intan Technologies RHX Data Acquisition Software
// Version 3.5.2
//
// Copyright (c) 2020-2026 Intan Technologies
//
// This file is part of the Intan Technologies RHX Data Acquisition Software.
//
// This program is free softw... |
0b6cdadd8b51d379b1db8721f8b9caa3454e5d8e0628adfb9345f6dcb1c634b1 | C++ | 46,154 | 1,252 | #include "us_sim_params_gui.h"
#include "us_constants.h"
#include "us_gui_settings.h"
#include "us_settings.h"
//!< level-conditioned debug print
#define DbgLv(a) if(dbg_level>=a)qDebug()
US_SimParamsGui::US_SimParamsGui(
US_SimulationParameters& params )
: US_WidgetsDialog( nullptr, Qt::WindowFlags() ), sim... |
b751557a2011036d2078c983d5465f7b21e08669095aa7592a2bffcf81c7564b | C++ | 46,165 | 1,505 | //! \file us_solutedata.cpp
#include "us_solutedata.h"
#include "us_ga_init.h"
#include "us_defines.h"
#include "us_math2.h"
#include "us_settings.h"
#include "us_constants.h"
// bucket vertex LessThan routine
bool buck_vx_lessthan( const bucket &buck1, const bucket &buck2 )
{ // TRUE iff (sx1<sx2) || (sx1==sx2 &&... |
c7d0cd247331f5bcb747ec882dbc6f3b807cb91fe084bfeaf1671683fe7149b1 | C++ | 46,166 | 981 | #include "snarl_caller.hpp"
#include "genotypekit.hpp"
//#define debug
namespace vg {
SnarlCaller::~SnarlCaller() {
}
function<bool(const SnarlTraversal&, int)> SnarlCaller::get_skip_allele_fn() const {
// default implementation says don't skip anything
return [](const SnarlTraversal&, int) { assert(false);... |
a22f298c9d2486b64b77eeb75bc457a78fe43f077da773e439c418b50b9ac903 | C++ | 46,326 | 1,367 | //! \file us_data_tree.cpp
#include "us_data_tree.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_constants.h"
#include "us_passwd.h"
#include "us_editor.h"
#include "us_noise.h"
#include "us_util.h"
const QColor colorRed( 240, 0, 0 );
const QColor colorBlue( 0, 0, 255 );
const QColor... |
384775124bf40961df0218678a6da0f2bc27283861f2a5a5b6552b75e20262c9 | C++ | 46,844 | 1,445 | //! \file us_load_auc.cpp
#include "us_load_auc.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_investigator.h"
#include "us_passwd.h"
#include "us_util.h"
#include "us_editor.h"
US_LoadAUC::US_LoadAUC( bool local, QMap<QString,QString>& prot_det, QVector< US_DataIO::RawData >& rData,
QStrin... |
8d2543be42a9e9e00f2d0b2091469a7ab0e767feb1156d73bef7a112f0e977f8 | C++ | 46,949 | 1,375 | //! \file us_extinction_gui.cpp
//
#include "us_extinction_gui.h"
#include "us_license_t.h"
#include "us_license.h"
#include "us_settings.h"
#include "us_buffer_gui.h"
#include "us_gui_util.h"
// Constructor
US_Extinction::US_Extinction(QString buffer, const QString& text, const QString& text_e280, QWidget* parent)
:... |
bedf022a4cde4238a53093c994962038625b2d85447d42f6b2a7ea7f7e29747d | C++ | 47,352 | 1,092 | /** \file paths_main.cpp
*
* Defines the "vg paths" subcommand, which reads paths in the graph.
*/
#include <omp.h>
#include <unistd.h>
#include <getopt.h>
#include <algorithm>
#include <iostream>
#include <fstream>
#include "subcommand.hpp"
#include "../crash.hpp"
#include "../vg.hpp"
#include "../xg.hpp"
#inc... |
7286ff32b14d9ad20b57a2026824bae3f01738ebcce81df90fb121a4065f295e | C++ | 48,378 | 767 | ////////////////////////////////////////////////////////////////////////////////
// //
// This file is part of ModelBlocks. Copyright 2009, ModelBlocks developers. //
// ... |
37ac173063f966eb7e04b964782ef279a1663e02146e2b276de76240d536d14f | C++ | 49,159 | 1,490 | //! \file us_reporter.cpp
#include <QApplication>
#include <QtSvg>
#include "us_reporter.h"
#include "us_sync_db.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_constants.h"
#include "us_license_t.h"
#include "us_license.h"
#include "us_passwd.h"
#include "us_editor.h"
#include "us_util.h"
#incl... |
bffd960978fff35ed570ee30d5a8537c254102cd257b6fa18b0b1004cccdb8dc | C++ | 49,299 | 1,428 | //! \file us_density_match.cpp
#include <QApplication>
#include "us_density_match.h"
#include "us_remove_models.h"
#include "us_model_params.h"
#include "us_select_runs.h"
#include "us_model.h"
#include "us_license_t.h"
#include "us_license.h"
#include "us_solution_vals.h"
#include "us_settings.h"
#include "us_gui_se... |
0b25bba81a77c34b8528fa3e0acdec84ec4f866fb1f5da55da37a502291c8db8 | C++ | 49,528 | 1,641 | #include "us_mpi_analysis.h"
#include "us_math2.h"
QDateTime elapsed = QDateTime::currentDateTime();
#define ELAPSEDNOW (elapsed.msecsTo(QDateTime::currentDateTime()))
#define ELAPSEDSEC (elapsed.secsTo(QDateTime::currentDateTime()))
#define DbTimMsg(a) DbTiming << my_rank << generation << ELAPSEDNOW << a;
#define DRT... |
52ba1686f113c36c9f93bc2738bb0493f6fb1c57a5f5577f836b9438456d8e12 | C++ | 50,134 | 1,170 | #include "variant_adder.hpp"
#include "banded_global_aligner.hpp"
#include "mapper.hpp"
#include "algorithms/prune.hpp"
//#define debug
namespace vg {
using namespace std;
using namespace vg::io;
VariantAdder::VariantAdder(VG& graph) : graph(graph), sync([&](VG& g) -> VG& {
// Dice nodes in the graph for GC... |
56be90ccbe908500373f7fbfc28ffb895369e706583f7d279edec70b333f1dea | C++ | 50,153 | 1,509 | //! file us_globalequil.cpp
#include <QApplication>
#include "us_images.h"
#include "us_license_t.h"
#include "us_license.h"
#include "us_data_loader.h"
#include "us_gui_settings.h"
#include "us_gui_util.h"
#include "us_run_details2.h"
#include "us_settings.h"
#include "us_constants.h"
#include "us_editor.h"
#include "... |
74bcf04a7df334429d3db1c0f2746ac8f956be840d25e13d5cacacd6ccdb7be0 | C++ | 51,186 | 1,560 | //! \file us_color.cpp
#include "us_color.h"
#include "us_gui_settings.h"
#include "us_theme.h"
#include "us_plot.h"
US_Color::US_Color( QWidget* w, const Qt::WindowFlags flags )
: US_Widgets( true, w, flags )
{
setWindowTitle( "Color Configuration for UltraScan" );
setAttribute( Qt::WA_DeleteOnClose );
auto... |
6b2931db78b9dad3add748d49fad72b6094238fdc6225d42fe9bfedfc9cf4aad | C++ | 51,235 | 1,401 | #include <qmetaobject.h>
#include <q3frame.h>
#include <qlabel.h>
#include <qpushbutton.h>
#include <qlayout.h>
#include <qtooltip.h>
#include <q3whatsthis.h>
#include <qaction.h>
#include <qmenubar.h>
#include <q3popupmenu.h>
#include <q3toolbar.h>
#include <qimage.h>
#include <qpixmap.h>
#include <q3filedialog.h>
#i... |
b801c7726b67a6b21cb10962afcd2679c7b11861023254cf4287f38cf6609f49 | C++ | 51,615 | 1,500 | //! \file us_minimize.cpp
#include "us_minimize.h"
//#include <iostream>
#include <cerrno> //for floating point errors
//#include <cfloat>
#ifndef FLT_MIN
#define FLT_MIN 1.17549e-38
#endif
#ifndef FLT_MAX
#define FLT_MAX 3.40282e+38
#endif
//using namespace std;
//Constructor
US_Minimize::US_Minimize(bool *temp... |
aa0a52fc23619065148bbc2eeccb91bb713f19d52d10a64fe7dbac77a45d6cee | C++ | 51,667 | 1,548 | //! \file us_integral.cpp
#include "us_integral.h"
#include "qwt_legend.h"
#include "qwt_plot_curve.h"
#include "qwt_symbol.h"
#include "us_constants.h"
#include "us_delete_models.h"
#include "us_gui_settings.h"
#include "us_gui_util.h"
#include "us_math2.h"
#include "us_matrix.h"
#include "us_model.h"
#include "us_pa... |
6d757198e7e7d650d9f21f0c43aaeb819331c773dfda4453a828f8621c558f80 | C++ | 52,481 | 1,352 | //------------------------------------------------------------------------------
//
// Intan Technologies RHX Data Acquisition Software
// Version 3.5.2
//
// Copyright (c) 2020-2026 Intan Technologies
//
// This file is part of the Intan Technologies RHX Data Acquisition Software.
//
// This program is free softw... |
ef1e633a44b6943177572e9d7a232ba7dce30e08adfee10e8412d5ff7d70abee | C++ | 52,572 | 865 | /// \file transcriptome.cpp
///
/// unit tests for transcriptome class
///
#include <stdio.h>
#include <iostream>
#include "gbwt/dynamic_gbwt.h"
#include "bdsg/packed_graph.hpp"
#include "../transcriptome.hpp"
#include "catch.hpp"
namespace vg {
namespace unittest {
vector<vector<uint64_t> > transcr... |
dd74fee82c929ffce22cdd569fc41d7fbc389df3d4a6220e9d6a0001ba3b8f2d | C++ | 52,742 | 1,718 | //! \file us_xpnhost.cpp
#include "us_xpnhost_db.h"
#include "us_xpn_data.h"
#include "us_gui_settings.h"
#include "us_settings.h"
#include "us_passwd.h"
#include "us_help.h"
#include "us_crypto.h"
#include "us_db2.h"
#define def_desc QString("place-holder")
#define def_host QString("192.168.1.1")
#define def_port QSt... |
f0c6252de203e3eea250dff316d437f0b6ba78828c7b09f7aa1bb55a10a10238 | C++ | 53,053 | 1,633 | //! \file us_mpi_analysis_2dsa_master.cpp
#include "us_astfem_math.h"
#include "us_astfem_rsa.h"
#include "us_constants.h"
#include "us_math2.h"
#include "us_mpi_analysis.h"
#include "us_simparms.h"
#include "us_tar.h"
#include "us_util.h"
// Drop duplicate solutes from a sorted merge-job solute vector
static void uni... |
39bf43ba5f2e40d4b36ebc302eea53cc1f765ac975e5ad7b83872368da553da0 | C++ | 53,410 | 1,582 | //! \file us_pseudo3d_combine.cpp
#include <QApplication>
#include "us_pseudo3d_combine.h"
#include "us_spectrodata.h"
#include "us_remove_distros.h"
#include "us_select_runs.h"
#include "us_model.h"
#include "us_license_t.h"
#include "us_license.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_g... |
d2b9f64730758d2844db872a439d683bdc2c7ce568abeb3628b1e5f11013d7e1 | C++ | 54,171 | 1,659 | //! \file us_vhw_combine.cpp
#include <QApplication>
#include "us_vhw_combine.h"
#include "us_select_runid.h"
#include "us_license_t.h"
#include "us_license.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_gui_util.h"
#include "us_matrix.h"
#include "us_constants.h"
#include "us_passwd.h"
#includ... |
0d7e45923271368008fa5e8da7da23e73f56b4a98a234701d2f76e9bda96b5f8 | C++ | 54,328 | 977 | //------------------------------------------------------------------------------
//
// Intan Technologies RHX Data Acquisition Software
// Version 3.5.2
//
// Copyright (c) 2020-2026 Intan Technologies
//
// This file is part of the Intan Technologies RHX Data Acquisition Software.
//
// This program is free softw... |
ea8f868808c67ba2b87f2e41f928ef74f355ed9917765af9161a01d083170a6a | C++ | 54,588 | 2,020 | #include "EnergyGrid.hpp"
#include <sstream>
#include <fstream>
#include <iomanip>
#include <iostream>
#include <limits>
#include <algorithm>
#include <queue>
#include <tuple>
#include <utility>
#include <cstdio>
#include <cmath>
#include "Random.hpp"
const GReal EnergyGrid::PI = 3.141592;
EnergyGrid::EnergyGrid()... |
699f15080bef6de932043fe851f03f528d14e00ef22cf27b4321c389cca03e30 | C++ | 54,703 | 1,110 | /** \file call_main.cpp
*
* Defines the "vg call" subcommand, which calls variation from an augmented graph
*/
#include <omp.h>
#include <unistd.h>
#include <getopt.h>
#include <regex>
#include <list>
#include <fstream>
#include "subcommand.hpp"
#include "../path.hpp"
#include "../graph_caller.hpp"
#include "../fl... |
6b0383b25f43ac519dc88c218dccfa7284d760c34bbfc367ac2df129bab378f1 | C++ | 56,053 | 2,834 | #include <math.h>
#include <stdio.h>
#include <stdlib.h>
#include <string.h>
#include <stdarg.h>
#include <locale.h>
#include "linear.h"
#include "tron.h"
typedef signed char schar;
template <class T> static inline void swap(T& x, T& y) { T t=x; x=y; y=t; }
#ifndef min
template <class T> static inline T min(T x,T y) { ... |
907b5009aaa35c16a0b012df9eb43ac3093df6dbf3586fa33c91db24c90757bf | C++ | 56,629 | 1,619 | //! \file us_analysis_control_pc.cpp
#include "us_pcsa.h"
#include "us_analysis_control_pc.h"
#include "us_adv_analysis_pc.h"
#include "us_simparms.h"
#include "us_rpscan.h"
#include "us_settings.h"
#include "us_passwd.h"
#include "us_db2.h"
#include "us_gui_settings.h"
#include "us_memory.h"
// constructor: pcsa an... |
c377216d77fcaa5e4d016f6268cd2d91b6fe0a78576b24cb1cbb8878a95c12c9 | C++ | 56,772 | 1,501 | /**
* unittest/vg.cpp: test cases for vg::VG methods
*/
#include "catch.hpp"
#include "../vg.hpp"
#include "../augment.hpp"
#include "../utility.hpp"
#include "../algorithms/normalize.hpp"
#include "../algorithms/disjoint_components.hpp"
#include "../io/json2graph.hpp"
#include "handle.hpp"
namespace vg {
namespace... |
b5181c47b0833f960c34aca62e16503f9482189b90cbadaa35e495341d5c3b56 | C++ | 58,066 | 1,444 | #include <fstream>
#include <iostream>
#include <string>
#include <sys/stat.h>
#include <sys/types.h>
#include <thread>
#include <unistd.h>
#include <vector>
#include <paw/parser.hpp>
#include <graphtyper/constants.hpp>
#include <graphtyper/graph/constructor.hpp>
#include <graphtyper/graph/graph_serialization.hpp>
#i... |
b427e47be620837325dd9e27ae47ebfbd22bd84ece34b77bc37ca581935065b8 | C++ | 58,069 | 1,075 | /// \file incremental_subgraph.cpp
///
/// Unit tests for the IncrementalSubgraph
///
#include <iostream>
#include "../incremental_subgraph.hpp"
#include "catch.hpp"
#include <bdsg/hash_graph.hpp>
namespace vg {
namespace unittest {
using namespace std;
using bdsg::HashGraph;
bool verify_incremental_max_distanc... |
c3600adee796bf5733c7cf6cefd1a2782788c87201d4738d4443c49cde501f9b | C++ | 58,434 | 1,845 | //! \file us_rotor_calibration.cpp
#include <qwt_scale_div.h>
#include "us_rotor.h"
#include "us_rotor_calibration.h"
#include "us_rotor_gui.h"
#include "us_abstractrotor_gui.h"
#include "us_settings.h"
#include "us_license_t.h"
#include "us_math2.h"
#include "us_util.h"
#include "us_db2.h"
#include "us_license.h"
#inc... |
de44560bf0d39badfe012494959b18e654f4423044a005b916520009339b5498 | C++ | 58,572 | 1,304 | // chunk_main.cpp: define the "vg chunk" subcommand, which chunks up vg graphs
// some similar logic to vg find, but focussed on generating multiple chunks
// at once.
#include <omp.h>
#include <unistd.h>
#include <getopt.h>
#include <string>
#include <vector>
#include <regex>
#include "subcommand.hpp"
#include ".... |
fe058dbb8aff1f36a40a5a35ef6030f45e644cd0f34aa947960084e83d150528 | C++ | 59,268 | 1,599 | //! \file us_analysis_control_2d.cpp
#include <QApplication>
#include <QDateTime>
#include "us_2dsa.h"
#include "us_analysis_control_2d.h"
#include "us_adv_analysis_2d.h"
#include "us_worker_calcnorm.h"
#include "us_settings.h"
#include "us_passwd.h"
#include "us_db2.h"
#include "us_gui_settings.h"
#include "us_memory... |
71d02ce9d0a5126727c8e9687b428f9599ec8f3d186bb38de91e8116a675db1f | C++ | 59,407 | 1,335 | #include "vg.hpp"
#include <vg/io/stream.hpp>
#include <vg/io/alignment_emitter.hpp>
#include "augment.hpp"
#include "alignment.hpp"
#include "packer.hpp"
#include "annotation.hpp"
//#define debug
using namespace vg::io;
namespace vg {
using namespace std;
// The correct way to edit the graph
void augment(MutableP... |
22f3d22a22929528bee9b7ef9eb683f0cc7710db6609839e5c8803b4cdbd88bb | C++ | 60,190 | 1,336 | #include "subcommand.hpp"
#include "../vg.hpp"
#include "../xg.hpp"
#include "../utility.hpp"
#include "../mapper.hpp"
#include "../hts_alignment_emitter.hpp"
#include <vg/io/stream.hpp>
#include <vg/io/vpkg.hpp>
#include <bdsg/overlays/overlay_helper.hpp>
#include <unistd.h>
#include <getopt.h>
#include <chrono>
usi... |
d2b21ac8c17c8117adf1abbc484d98bfd1e39a136135c4c2c97591ad5ffa0ee4 | C++ | 60,263 | 1,651 | //! \file us_constraints_edit.cpp
#include "us_constraints_edit.h"
#include "us_gui_settings.h"
#include "us_settings.h"
#include "us_constants.h"
#include "us_properties.h"
#include "us_images.h"
#include "us_investigator.h"
#include "us_util.h"
#include "us_passwd.h"
#include "us_associations_gui.h"
#ifndef DbgLv
#... |
4622bd64e70dabd170f5c2e983da149767e5f8c101fb4467adf8e00e4475717e | C++ | 60,708 | 1,803 | //! \file us_analysis_base2.cpp
#include <QtSvg>
#include "us_analysis_base2.h"
#include "us_analyte_gui.h"
#include "us_astfem_math.h"
#include "us_buffer_gui.h"
#include "us_data_loader.h"
#include "us_db2.h"
#include "us_gui_settings.h"
#include "us_gui_util.h"
#include "us_loadable_noise.h"
#include "us_noise_loa... |
470b57d20d3c3f5f3bc092378952e1d08a9d860140a2a2d9474e7aaa9273a7b8 | C++ | 61,310 | 1,816 | #include <cassert> // assert
#include <sstream> // std::ostringstream
#include <string> // std::string
#include <utility>
#include <vector> // std::vector
#include <seqan/basic.h>
#include <seqan/seq_io.h>
#include <seqan/sequence.h>
#include <seqan/vcf_io.h>
#include <graphtyper/constants.hpp>
#include <graphtyper/... |
2ef4b7c26e3b54ef5259c25ac85047ad2a9beb2844d0eb466de483eab37f3069 | C++ | 62,539 | 1,869 | //! \file us_data_loader.cpp
#include "us_data_loader.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_matrix.h"
#include "us_investigator.h"
#include "us_passwd.h"
#include "us_db2.h"
#include "us_dataIO.h"
#include "us_util.h"
#include "us_editor.h"
#include "us_constants.h"
US_DataLoader::US_... |
2886556dab1a4daac0862fe42beb958db376cc2c219e8ef3496a8cac83536e69 | C++ | 62,636 | 1,827 | //! \file us_2dsa_process.cpp
#include "us_2dsa.h"
#include "us_2dsa_process.h"
#include "us_util.h"
#include "us_settings.h"
#include "us_astfem_math.h"
#include "us_astfem_rsa.h"
#include "us_sleep.h"
#include "us_math2.h"
#include "us_constants.h"
#include "us_memory.h"
// Class to process 2DSA simulations
US_2dsa... |
2a88581ae7779076c7f36e532597fe67cccbdb221750799d0327e768f509bd6e | C++ | 62,834 | 1,342 | /// \file mcmc_genotyper.cpp
///
/// unit tests for mcmc genotyper construction and utility functions
///
#include <list>
#include <xg.hpp>
#include <stdio.h>
#include <iostream>
#include "../multipath_mapper.hpp"
#include <gbwt/dynamic_gbwt.h>
#include "../build_index.hpp"
#include "../haplotypes.hpp"
#include "vg/i... |
71efd41b3f46a870e69e930e83e4173b50b54632df2ddf5380ccb711c20c4a5c | C++ | 63,099 | 1,813 | #include <cassert>
#include <fstream>
#include <iostream>
#include <sstream>
#include <unordered_map>
#include <cereal/archives/binary.hpp>
#include <cereal/types/string.hpp>
#include <cereal/types/vector.hpp>
#include <paw/align.hpp>
#include <seqan/stream.h>
#include <graphtyper/constants.hpp>
#include <graphtype... |
6863b8749be230f5ed92efa6597e0b0ea1c40978e96a8e08566b53b418c3459f | C++ | 63,477 | 1,987 | //! \file us_solution_gui.cpp
#include "us_solution_gui.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_theme.h"
#include "us_passwd.h"
#include "us_db2.h"
#include "us_investigator.h"
#include "us_buffer_gui.h"
#include "us_analyte_gui.h"
#include "us_solution.h"
US_SolutionMgrSelect::US_Soluti... |
13e1de57f1b3fad7c092ca4b28664a5db75ca393b9f9502b4de08dcb79d0b77b | C++ | 63,552 | 1,852 | /**
* unittest/genotypekit.cpp: test cases for genotypekit modular genotyper pieces and traversal finders
*/
#include "catch.hpp"
#include "../genotypekit.hpp"
#include "../snarls.hpp"
#include "../cactus_snarl_finder.hpp"
#include "../integrated_snarl_finder.hpp"
#include "../traversal_finder.hpp"
#include "xg.hpp"... |
93def49ca903255c8fb8a69783a173fca0a177e2f615d39a13f087b7c324880f | C++ | 64,482 | 1,467 | #include "gfa_to_handle.hpp"
#include "../path.hpp"
#include "../utility.hpp"
#include <gbwtgraph/utils.h>
namespace vg {
namespace algorithms {
static std::string_view as_view(const GFAParser::chars_t& range) {
// chars_t is a pair of string::const_iterator into a contiguous buffer.
size_t len = range.secon... |
75b71353c3e99637d38d43b99c74f71c18299c40fb9499b0dd905277617edc64 | C++ | 64,575 | 3,158 | #include <math.h>
#include <stdio.h>
#include <stdlib.h>
#include <ctype.h>
#include <float.h>
#include <string.h>
#include <stdarg.h>
#include <limits.h>
#include <locale.h>
#include "svm.h"
int libsvm_version = LIBSVM_VERSION;
typedef float Qfloat;
typedef signed char schar;
#ifndef min
template <class T> static inli... |
0cbda66468a2647f5c8f7c41f847aa3bb4860fcb706a80a3fecd5ad10b6bb4df | C++ | 64,986 | 1,408 | //------------------------------------------------------------------------------
//
// Intan Technologies RHX Data Acquisition Software
// Version 3.5.2
//
// Copyright (c) 2020-2026 Intan Technologies
//
// This file is part of the Intan Technologies RHX Data Acquisition Software.
//
// This program is free softw... |
323f23c2f852738a5792653fef9890a12c67c15b2a3b5ab8eb0ff238208239b7 | C++ | 65,015 | 1,762 | /// \file splicing.cpp
///
/// Unit tests for the splicing functions
///
#include <iostream>
#include <random>
#include "../splicing.hpp"
#include "../multipath_mapper.hpp"
#include "../integrated_snarl_finder.hpp"
#include "../build_index.hpp"
#include "xg.hpp"
#include "catch.hpp"
#include "support/test_aligner.h... |
c154c2d42d50f4d3e8cbe918621dc2750cb73282e6d9d257090199baa478a736 | C++ | 65,306 | 1,857 | #include "us_astfem_rsa.h"
#include "us_constants.h"
#include "us_math2.h"
#include "us_mpi_analysis.h"
#include "us_simparms.h"
#include "us_sleep.h"
#include "us_tar.h"
#include "us_util.h"
#define DbgTime() qDebug() << "TM:" << (startTime.msecsTo(QDateTime::currentDateTime())/1000.0)
void US_MPI_Analysis::pcsa_mast... |
3f0b69865d7624677bf87d512489b116b546ddfa623859532f7ae3a4b884eff5 | C++ | 65,587 | 2,283 | #include <algorithm> // std::swap
#include <cmath> // std::lround
#include <limits>
#include <sstream> // std::stringstream
#include <string> // std::string
#include <string_view>
#include <vector> // std::vector
#include <cereal/archives/binary.hpp>
#include <cereal/types/map.hpp>
#include <cereal/types/string.h... |
4cf8486ba2c8101190028d2cad17cfa43d4973bf931a794093a2fee9192a139b | C++ | 66,541 | 1,340 | //------------------------------------------------------------------------------
//
// Intan Technologies RHX Data Acquisition Software
// Version 3.5.2
//
// Copyright (c) 2020-2026 Intan Technologies
//
// This file is part of the Intan Technologies RHX Data Acquisition Software.
//
// This program is free softw... |
33cdd373266ff3fa7fcf0d4d5d56c871c789629adf0e3a3fc37d4db4cfd97879 | C++ | 67,228 | 1,493 | /** \file stats_main.cpp
*
* Defines the "vg stats" subcommand, which evaluates graphs and alignments.
*/
#include <omp.h>
#include <unistd.h>
#include <getopt.h>
#include <list>
#include <fstream>
#include <vg/io/vpkg.hpp>
#include <vg/io/stream.hpp>
#include "subcommand.hpp"
#include "../algorithms/distance_t... |
5f756dafd713b6c7fbb683f00d18f8aacefb601c3cd4422db04671127d81ef76 | C++ | 67,550 | 1,363 | #include "clip.hpp"
#include "traversal_finder.hpp"
#include <unordered_map>
#include <IntervalTree.h>
#include <structures/rank_pairing_heap.hpp>
#include <BooPHF.h>
#include "bdsg/internal/hash_map.hpp"
#include "bdsg/internal/packed_structs.hpp"
//#define debug
namespace vg {
using namespace std;
// find the sna... |
4caa021bfbfcae6aad4f0cd03ca7cb0ff9b1437cac30b08f3dce2daafb87d8b5 | C++ | 67,662 | 2,191 | #include <algorithm>
#include <cassert>
#include <cmath>
#include <iostream>
#include <unordered_set> // std::unordered_set
#include <cereal/archives/binary.hpp>
#include <cereal/types/string.hpp>
#include <cereal/types/unordered_map.hpp>
#include <cereal/types/vector.hpp>
#include <seqan/basic.h>
#include <seqan/seq... |
e8c0641272b985b83d91eed32dec2a6ef946a28fcc2bba91387eb218c4e45bff | C++ | 67,700 | 1,895 | #include "us_convert_scan.h"
#include "us_load_auc.h"
#include "us_csv_loader.h"
#include <QGuiApplication>
#include <qwt_scale_div.h>
#include <us_passwd.h>
#include <us_time_state.h>
US_ConvertScan::US_ConvertScan() : US_Widgets()
{
setPalette( US_GuiSettings::frameColorDefault() );
font = QFont( US_Widgets:... |
f1f00b3d751b563211c71631e50e02c612cd9f042400eed4042488f3e4e4ea1a | C++ | 67,821 | 1,448 | #include "vcf_output_caller.hpp"
#include "algorithms/expand_context.hpp"
#include "annotation.hpp"
#include "gref.hpp"
#include "traversal_clusters.hpp"
//#define debug
namespace vg {
VCFOutputCaller::VCFOutputCaller(const string& sample_name) : sample_name(sample_name), translation(nullptr), include_nested(fal... |
e3b410f324d30548478aa578d41211f11387fb59cd23556c63c58c6d28754876 | C++ | 68,386 | 1,432 | #include "aligner.hpp"
#include "hash_map.hpp"
#include "alignment.hpp"
#include "path.hpp"
#include "utility.hpp"
#include "statistics.hpp"
#include "banded_global_aligner.hpp"
#include "reverse_graph.hpp"
#include "null_masking_graph.hpp"
#include "dozeu_pinning_overlay.hpp"
#include "crash.hpp"
#include "algorithms... |
6da3993585c014be1ef4262029150b7a2bdfb75174030b2e871eb1f6c896ff57 | C++ | 68,942 | 1,867 | #include "us_mwl_sf_plot3d.h"
void SFData::clear(){
wavelenghts.clear();
includedScans.clear();
xValues.clear();
scansMSE.clear();
allData.clear();
}
void SFData::computeMSE(){
if (allData.size() == 0)
return;
scansMSE.clear();
int nscans = allData.size();
scansMSE.fill(0, ... |
dcd4fcb6484c35d7580df285b4005be3f53c1ba8f72f6cd27cabfb87eab8276b | C++ | 70,124 | 1,187 | /// \file minimizer_mapper.cpp
///
/// unit tests for the minimizer mapper
#include <iostream>
#include "../io/json2graph.hpp"
#include <bdsg/hash_graph.hpp>
#include <vg/vg.pb.h>
#include "../minimizer_mapper.hpp"
#include "../build_index.hpp"
#include "../integrated_snarl_finder.hpp"
#include "../gbwt_extender.hpp... |
1c42b9794e3af06e9d0181e853cf493fc2a257bf47b53d272687a24c31aa3420 | C++ | 72,038 | 1,913 | //! \file us_mwl_spectra.cpp
#include <QApplication>
#include <qwt_scale_div.h>
#include "us_mwl_spectra.h"
#include "us_mwls_pltctl.h"
#include "us_license_t.h"
#include "us_license.h"
#include "us_select_runs.h"
#include "us_util.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_plot.h"
#include "... |
b4cf8af5be6978b840a269eaf27627cb3a9def8362d6a5f23e8c31b6af198e71 | C++ | 73,047 | 2,383 | #include "expr_mod.h"
#include "include/expr_mod.h"
namespace dv_expr{
//////////////////////
// ActionChangeM /////
//////////////////////
action_types action2enum(std::string input){
boost::algorithm::to_lower(input);
if(input == "changem") return(eActionChangeM);
if(input == "trigger") return(eActionS... |
909aed8dedfafdbf6606a6cda8edaae5b4cf005d1bf26eda17dfb995253213d3 | C++ | 73,683 | 2,114 | //! \file us_adv_analysis_pc.cpp
#include "us_pcsa.h"
#include "us_adv_analysis_pc.h"
#include "us_mrecs_loader.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_passwd.h"
// constructor: enhanced plot control widget
US_AdvAnalysisPc::US_AdvAnalysisPc( QVector< US_ModelRecord >* p_mrs,
const ... |
98a08854167beae59cf6377992ddf3e1e989723e9cb6318ffad4e3bbdd1f7ab6 | C++ | 73,708 | 1,577 | /** \file haplotypes_main.cpp
*
* Defines the "vg haplotypes" subcommand, which samples haplotypes by kmer counts in the reads.
*
* TODO: Tests for --linear-structure, --extra-fragments, and fragmented haplotypes.
*/
#include "subcommand.hpp"
#include "../hash_map.hpp"
#include "../recombinator.hpp"
#include "..... |
cf3675c9bc538aa4fb02467599e8a881d1c11b640ba6feba8ee7df346b74b25c | C++ | 74,002 | 2,025 | //! \file us_anapro_utils.cpp
// This source file is meant to hold those portions of the
// US_AnalysisProfileGui class and its subclasses that are common
// utility functions used by the class and its subclasses.
// Thereby, the length of any one source file is reduced and the
// us_analysis_profile.cpp file contains... |
c70b1a1e162d34b7b1e1394847dfd0137dcf6610ab33a8197fad729857e5ffae | C++ | 74,334 | 1,720 | //
// phased_genome.cpp
//
// Unit tests for PhasedGenome object
//
#include <stdio.h>
#include <iostream>
#include <list>
#include "vg/io/json2pb.h"
#include <vg/vg.pb.h>
#include "catch.hpp"
#include "../utility.hpp"
#include "../phased_genome.hpp"
#include "../multipath_alignment.hpp"
#include "../nodetraversal.h... |
accc56cb806efd55aa2f6cbf2c95465f5e54ba8d9b839772709057c85aacd99a | C++ | 74,431 | 1,968 | //------------------------------------------------------------------------------
//
// Intan Technologies RHX Data Acquisition Software
// Version 3.5.2
//
// Copyright (c) 2020-2026 Intan Technologies
//
// This file is part of the Intan Technologies RHX Data Acquisition Software.
//
// This program is free softw... |
704b5d68d0527d45393d65f97ef9f355b880ee86a02aa46e549f057c5683c524 | C++ | 76,176 | 1,547 | #include "deconstructor.hpp"
#include "traversal_finder.hpp"
#include <gbwtgraph/gbwtgraph.h>
#include "traversal_clusters.hpp"
//#define debug
using namespace std;
namespace vg {
Deconstructor::Deconstructor() : VCFOutputCaller("") {
}
Deconstructor::~Deconstructor(){
}
/**
* Takes in a vector of snarltraversals... |
62520150683ffc9c38fc0cf49422d127a0cb7091fc9b69d6e3be87f90998b0cd | C++ | 76,384 | 1,703 | //------------------------------------------------------------------------------
//
// Intan Technologies RHX Data Acquisition Software
// Version 3.5.2
//
// Copyright (c) 2020-2026 Intan Technologies
//
// This file is part of the Intan Technologies RHX Data Acquisition Software.
//
// This program is free softw... |
f353b3cc67481aec45ce9af4bfba98429cee5da02baf1abdcfa9a321208849b3 | C++ | 76,589 | 1,850 | #include "sampler.hpp"
#include "path.hpp"
#include "utility.hpp"
#include "position.hpp"
#include "alignment.hpp"
#include "algorithms/path_string.hpp"
#include "algorithms/subgraph.hpp"
#include "algorithms/alignment_path_offsets.hpp"
#include "algorithms/next_pos_chars.hpp"
#include <sstream>
//#define debug_ngs_... |
4007d2591b8705264f7e8ad48be715e9a299264e47fbd96097285e49ec5ed521 | C++ | 77,461 | 1,706 | /**
* \file splicing.cpp
*
* Implements SpliceRegion and some other splicing tools
*
*/
#include "splicing.hpp"
//#define debug_splice_region
//#define debug_trimming
//#define debug_fusing
//#define debug_from_hit
//#define debug_linker_split
#ifdef debug_splice_region
#include <bitset>
#endif
namespace vg {
... |
18ad4c892259779080c9566f31ede800cc0ccd9a03a549124925b0b2db978c2e | C++ | 78,545 | 2,192 | //! \file us_model_loader.cpp
#include "us_model_loader.h"
#include "us_select_edits.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_matrix.h"
#include "us_investigator.h"
#include "us_passwd.h"
#include "us_db2.h"
#include "us_editor.h"
// Main constructor for loading a single model
US_ModelLoa... |
4197df3cde30e1972ec7700f897a288b5c759a6f72d38abf8f00564daf9e234f | C++ | 79,258 | 2,214 | #include <QApplication>
#include <qwt_scale_div.h>
#include "us_mwlr_viewer.h"
#include "us_mwl_run.h"
#include "us_mwl_pltctrl.h"
#include "us_license_t.h"
#include "us_license.h"
#include "us_util.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_plot.h"
#include "us_math2.h"
#include "us_db2.h"
#... |
f1f6be898a21607732b96b7dd9b8a86de6ef352a1b970dd3d0cf71457b8856ce | C++ | 79,904 | 2,440 | //! \file us_ga_init.cpp
#include <QApplication>
#include "us_ga_init.h"
#include "us_select_runs.h"
#include "us_model_loader.h"
#include "us_license_t.h"
#include "us_license.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_gui_util.h"
#include "us_math2.h"
#include "us_matrix.h"
#include "us_c... |
b9badb319cd667152e2d28ac0e7aa2b88b9997aa57f4c42f6bfb424296b1cc0a | C++ | 80,304 | 2,396 | //! \file us_modelbuilder.cpp
#include "us_modelbuilder.h"
#include <QApplication>
#include <QDomDocument>
#include "us_math2.h"
//using namespace std;
#ifndef DbgLv
#define DbgLv(a) if(dbg_level>=a)qDebug()
#endif
//! \brief Main program for US_ModelBuilder. Loads translators and starts
// the class US_Mode... |
5126bf23d938f47487bdb78ac31bd29fcaa41e278426d474b1cc57568c886ffe | C++ | 81,092 | 2,429 | //! \file us_plot3d.cpp
#include <qwt_legend.h>
#include "us_plot3d.h"
#include "us_widgets.h"
#include "us_gui_settings.h"
#include "us_math2.h"
#include "us_settings.h"
#include "us_colorgradIO.h"
#include <qwt_legend.h>
#include <qwt3d_plot.h>
using namespace Qwt3D;
// constructor: 3-d plot mainwindow widget
US_... |
45f9a0850c9f45931b1457c352f9d6b2eca6ae9458367ab74f45cc5f0797fd1c | C++ | 81,327 | 2,435 | /**
* \file
* unittest/constructor.cpp: test cases for the vg graph constructor tool
*/
#include "catch.hpp"
#include "../constructor.hpp"
#include "../utility.hpp"
#include "../path.hpp"
#include "vg/io/json2pb.h"
#include <vector>
#include <sstream>
#include <iostream>
#include <unordered_map>
#include <bdsg/... |
2c996ef3414a2585ed8d08b3ea6f6395d26305faead7367a13ff8fb5338d6447 | C++ | 82,645 | 1,688 | #include "gref.hpp"
#include "path.hpp"
#include <cassert>
#include <sstream>
#include <algorithm>
#include <functional>
#include <queue>
#include <limits>
#include <iomanip>
//#define debug
namespace vg {
using namespace std;
const string GrefCover::gref_prefix = "gref_";
const string GrefCover::gref_suffix = "_al... |
7afd5a95c3a67dee2945b3327346a6ae6b04302a54925998782f64441e38fa35 | C++ | 84,110 | 2,431 | #include <climits>
#include <cstdio>
#include <fstream>
#include <iostream>
#include <stdio.h>
#include <string>
#include <vector>
#include <graphtyper/graph/absolute_position.hpp>
#include <graphtyper/graph/graph.hpp>
#include <graphtyper/graph/label.hpp>
#include <graphtyper/graph/var_record.hpp>
#include <graphtype... |
cf2bd5cfdd11634cb21ce57c3ee2775d340a7f8ff4324f6c383a08be3b6ba076 | C++ | 84,313 | 2,265 | //! \file us_2dsa.cpp
#include <QApplication>
#include <QTimer>
#include <QtSvg>
#include "us_2dsa.h"
#include "us_resids_bitmap.h"
#include "us_plot_control_2d.h"
#include "us_analysis_control_2d.h"
#include "us_license_t.h"
#include "us_license.h"
#include "us_settings.h"
#include "us_gui_settings.h"
#include "us_g... |
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