sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
51cf10d0f469ae0f80cf6fa78f57283c30c28426501746a2ccc2f65a81bc7211 | C++ | 1,123 | 34 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
4eb884ec93a54d38697d163346e337587a480c963d44c0ebd00f8243d9cc2b45 | C++ | 1,132 | 38 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
ab8721ccedc7ef53998bb575c86fb615156aff3edb16dbfd9a051dd47245500a | C++ | 1,132 | 43 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
54095d4b83cabd579a12e864265b6ffcfb8686ebb06a3548df7ac6b5e5afe586 | C++ | 1,164 | 63 | // [[Rcpp::depends(RcppArmadillo)]]
#include <RcppArmadillo.h>
#include <Rcpp.h>
using namespace Rcpp;
// [[Rcpp::export]]
List Indiv_Score_Test(arma::sp_mat G, arma::mat X, arma::vec working, double sigma, int fam, arma::vec residuals)
{
int i;
// number of markers
int p = G.n_cols;
int c = X.n_cols;
// Uscor... |
30f2b7a8cbdf5329fae1cede0d77685f4c2686456f37327faa8517fe70fb0caa | C++ | 1,171 | 64 | // [[Rcpp::depends(RcppArmadillo)]]
// [[Rcpp::interfaces(r, cpp)]]
#include <RcppArmadillo.h>
#include <Rcpp.h>
using namespace Rcpp;
// declare K
double K(double x, arma::vec egvalues);
// declare K2 (second derivative)
double K2(double x, arma::vec egvalues);
// declare bisection
double Bisection(arma::vec egvalue... |
1e16864aeda67e4cb8b5001fbe55c52a44d37b9f41d943a668dd6b7517e370ce | C++ | 1,173 | 48 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
3c2eddae83040cc567a8289c440e985521b7e7eb12b32b75925bca21878c137e | C++ | 1,173 | 48 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
f0ecd982c2869a8906ab897cb91b38477302f89ddcf7b9ef7245cbfeffa4240c | C++ | 1,173 | 35 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2026 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for deta... |
2e1dede27eb1e142cbc2b64bf7602dabf95a958f5946b02536fe6a2a59f6a771 | C++ | 1,184 | 49 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
8c5511b5a2124308d7fa01830a02f354ed8072783cf573003cbe32400b8f176b | C++ | 1,184 | 49 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
86f669be1ccca4ef34c4a822c281d1ee7859f8ef2e3c54628af13d6fcba022a5 | C++ | 1,189 | 35 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2023 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for ... |
cd966e1689cf2f51100ecb4dbca37522e6d4b43cd39fe591f48eaafb6841b94e | C++ | 1,197 | 48 | /**
* Copyright (c) Facebook, Inc. and its affiliates.
*
* This source code is licensed under the MIT license found in the
* LICENSE file in the root directory of this source tree.
*/
#include "starspace.h"
#include <iostream>
#include <boost/algorithm/string/predicate.hpp>
using namespace std;
using namespace s... |
ff7310c3026b8cee8dc78f5569d30837edc28f7a946fc796f4abb7659c24df6a | C++ | 1,209 | 41 | /*
Copyright (C) 2014 Sergey Demyanov.
contact: sergey@demyanov.net
http://www.demyanov.net
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any l... |
e28773100c288558b5e02c5bab9171395a54cefc53a43dc138c9bbfac0cce769 | C++ | 1,212 | 37 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2026 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for deta... |
0ff9b33ed0b5ac3beaa9e629d0af336c41301b3dd8f3e5a64f358ecf27374868 | C++ | 1,222 | 40 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
2fddb7183584a12d19cda4da0761ed30ed9a82ad8911cc35eeaf853d1757c072 | C++ | 1,222 | 47 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
3f8d45373fd67b5ecea886cecfbf0a00d8d070c55ceb3719556dbbc066f7aaa4 | C++ | 1,226 | 44 | #include <clocale>
#include <cstdio>
#define SDL_MAIN_USE_CALLBACKS
#include <SDL3/SDL.h>
#include <SDL3/SDL_main.h>
#include <imgui.h>
#include <imgui_impl_sdl3.h>
#include <imgui_impl_vulkan.h>
#include "Application.h"
#include "Debug/Debug.h"
extern "C" {
SDL_AppResult SDL_AppInit(void** appstate, int argc, char*... |
346b87fc6c0e3507cc379c4f439a423dda8491b9a8b774fb9b24c94c0c729a26 | C++ | 1,228 | 37 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2023 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for ... |
56168131fc0b4ff878711feff55a1ca16f69a47d7930cff5c79725816c5ba25c | C++ | 1,231 | 45 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
c029d39f3c85c29a28faabddc33ba36664545953cab53d44434663235979ebc8 | C++ | 1,233 | 49 | /**
* Copyright (c) Facebook, Inc. and its affiliates.
*
* This source code is licensed under the MIT license found in the
* LICENSE file in the root directory of this source tree.
*/
#include "../proj.h"
#include <gtest/gtest.h>
using namespace std;
using namespace starspace;
TEST(Proj, forward) {
SparseLine... |
3bc1e0a04bef66b3b1f50c2eab781aaaaf1b54affc7b9224e79c08a87afe3d3c | C++ | 1,236 | 38 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
b4c307d940735a95ea71edb93d62f57d6009845918583adf5de814d03aaa6e85 | C++ | 1,237 | 42 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
f0a2c3d7d7f6165e28c27f13005d5dbf49d79300d79a340113c345f9d9973f6c | C++ | 1,237 | 42 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
6d6fad6be3431ed4e31ec2232d09cd893059df86dad236d18c306bf40c38a0e0 | C++ | 1,242 | 38 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
376855dac18f6efd673c653738338e23d8c85e3872912834a1b307116162448c | C++ | 1,244 | 56 | #include "Rand.h"
#include <glm.hpp>
#include "Constants.h"
namespace rayx {
constexpr RandCounter RNG_KEY = (RandCounter(0xc8e4fd15) << 32) | RandCounter(0x4ce32f6d);
RAYX_FN_ACC
RandCounter RAYX_API squares64(RandCounter& ctr) {
RandCounter x, y, z, t;
y = x = ctr * RNG_KEY;
z = y + RNG_KEY;
... |
b334cb3c4457d8d1f0a8e824b3c5b370fcd3c2843f6b2deb31efa549140dcb84 | C++ | 1,255 | 43 | /*
Copyright (C) 2014 Sergey Demyanov.
contact: sergey@demyanov.net
http://www.demyanov.net
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any l... |
974439b6e29e946f3d411c2501a07b82dbe69b853bf545dbb549f312c352145d | C++ | 1,267 | 37 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
8f375dad8f9a9959cfe9dd81e610e347e6f5beb1158643bbed5b1c5dc11b5706 | C++ | 1,282 | 45 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
c401c2266f92f9955592806925437cbab47b859e5f5ec62bcd773da889102aad | C++ | 1,286 | 48 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
9d28ff1c28d42e75c31147f49ea99d1b750bdbf76198cd0492d15cc7f89551fb | C++ | 1,288 | 40 | #include "diffdef.hpp"
#include "compdef.hpp"
#include "model/diff.hpp"
#include "model/spec.hpp"
#include "statedef.hpp"
namespace steps::dist {
Diffdef::Diffdef(const Compdef& compdef,
container::kproc_id kproc,
container::diffusion_id t_diffusion,
const steps::m... |
c16c306406b38a1edd76a5198ba99a1ebec4e20d3915599dca213cae8e93ff71 | C++ | 1,292 | 48 |
#include "NffTable.h"
#include <algorithm>
#include <fstream>
#include "Debug/Debug.h"
#include "Rml/Locate.h"
namespace rayx {
bool NffTable::load(const char* element, NffTable* out) {
std::string elementString = element;
std::transform(elementString.begin(), elementString.end(), elementString.begin(), [... |
d59fc0bc026d14213e67e341a519b8ac85d266bbb2dc5844cc3173fbd099d13b | C++ | 1,304 | 45 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
79a10ffeaaa93a3542b1976976f443ef6c81d7d788422ff131635158c49bc8ee | C++ | 1,306 | 33 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2026 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for deta... |
d53e283409156467ec4219e1b46c466a7bd7c4ea73b07b5a48649d33ad7d1734 | C++ | 1,307 | 38 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
9ffac05a67d06263d7b3310a820e0233b9de313881b338f8655f5797f39f7022 | C++ | 1,310 | 37 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
ecf0e7ba1045b161790d4f0e084c0eff58f62436bbde120b521a8818b64280b0 | C++ | 1,310 | 43 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
2a00c8fcaadea8771eb64a2786ce0b6d17aa310cc335ba08779468ea19584d67 | C++ | 1,311 | 40 | // ***************************************************************************
// BamDeviceFactory_p.cpp (c) 2011 Derek Barnett
// Marth Lab, Department of Biology, Boston College
// ---------------------------------------------------------------------------
// Last modified: 25 September 2011 (DB)
// -----------------... |
20f4ee70ce1e682b119e3950026b9a99b4da723343c6c9abe86251e47d6bd20f | C++ | 1,312 | 49 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
9693aed3018f31d20d87bfb2401f0ce644c95ac0864794cb2d5f1380b8ecc5e8 | C++ | 1,312 | 49 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
87cb9a7f3f8c47de5ee6e923935e444aa23fd62664eadb60f08c1c28858da56b | C++ | 1,313 | 55 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
e1e6eae42bf9a497985d6bd5b64e7871614fdd621dda56e68eb7783fc9e7bcba | C++ | 1,332 | 44 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
43498883e55f9fd8f2590ab54ad4e188bdb3455f81b93e1061aa0fae3600d7b3 | C++ | 1,334 | 41 | /*
* Copyright (C) 2012 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
ba3558e83a21176bbdcd0d58e6318c561b1a368bdfa295758f4d1c56dda1a441 | C++ | 1,348 | 45 | #include "RayAttrMask.h"
#include <bitset>
namespace rayx {
int countSetBits(const RayAttrMask mask) {
return std::bitset<static_cast<std::underlying_type_t<RayAttrMask>>(RayAttrMask::RayAttrMaskCount)>(
static_cast<std::underlying_type_t<RayAttrMask>>(mask))
.count();
}
bool isFlag(const... |
73b9e885400d885c2ab002476ea71518214768fb6234b4d4ac639858b5ede1cf | C++ | 1,363 | 51 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
3f36a67002494e7dc9489b6f9b580e1dfc8ffe8d159ee1b126a1a2ad85736d18 | C++ | 1,365 | 42 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2026 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for deta... |
a53d1d1324231b30e6110a94300cf590e3febdba5ba4c2372119373a05d11c6a | C++ | 1,365 | 54 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
824a0d081e3ac9fd3f2325aa623ab18ab5a04b925e497181c656a83fb753a15b | C++ | 1,366 | 58 | #include <cstdio>
#include <vector>
#include <algorithm>
#include <math.h>
using namespace std;
struct PointInfo{
int x,y,z;
float r,g,b;
};
extern "C"{
void render_ball(int h,int w,unsigned char * show,int n,int * xyzs,float * c0,float * c1,float * c2,int r){
r=max(r,1);
vector<int> depth(h*w,-2100000000);
vec... |
b4c4912fbea97ed4492294b21698e341a10baf4a05398efacd7b8b70d7e7e36d | C++ | 1,370 | 44 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
f211e123f004b7cb5a6726b26bb5cc05c24cf89c52a80c7e9342b0ab0b38f712 | C++ | 1,377 | 48 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
5304df5b02c52ad0987ae44bee2848844af12587c8bc3f0d6c8d079d1d526e32 | C++ | 1,378 | 35 | #include "setupTests.h"
// Prepare test data
std::vector<uint8_t> testData = {'1', '2', '3', '4', '5'}; // ASCII values
std::string readFilename = canonicalizeRepositoryPath("Intern/rayx-core/tests/input/read_test.txt").string();
std::string writeFilename = canonicalizeRepositoryPath("Intern/rayx-core/tests/... |
159f18a93695387280a7b2d246aac2509710b46bb86538ee1d6c7df23b24cc6e | C++ | 1,381 | 42 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2023 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for ... |
622bcd483c18a82e96a3e77a259acd754679e9f37a40987ea8790656437902ff | C++ | 1,383 | 62 | /*
* Minimal utility to get process memory usage.
*
*/
#include "peak_rss.hpp"
#include <stdexcept>
#include <string>
#if defined(__linux__) // Linux
#include <sys/resource.h>
#include <sys/time.h>
#elif defined(__APPLE__) // OSX
#include <mach/mach.h>
#include <sys/resource.h>
#include <unistd.h>
#endif
n... |
a9f49f973eea1aff957cc229e943a87f0ca3461f50216d95a680873009f026b4 | C++ | 1,393 | 54 |
#include "MolecTable.h"
#include <algorithm>
#include <fstream>
#include "Debug/Debug.h"
#include "Rml/Locate.h"
namespace rayx {
bool MolecTable::load(const char* element, MolecTable* out) {
std::string elementString = element;
std::transform(elementString.begin(), elementString.end(), elementString.begi... |
fa7797eab8828559a1f6fd0f495d171b9bccf232c84fc39cb1d37e43b4039a8e | C++ | 1,394 | 47 | /*
Copyright (C) 2014 Sergey Demyanov.
contact: sergey@demyanov.net
http://www.demyanov.net
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any l... |
160ad4740b964b454875130d67c1d12777c1e9c5397f2d97a0eae22813f294dc | C++ | 1,395 | 59 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
d64d7d9aab2f267c4f94254d7d71c4918e74237bb0d60089e5a2c2cda36c1a34 | C++ | 1,397 | 49 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
5046d3b1364831593e62a06d5d495434196f89098b9900082a59ab9290384cbf | C++ | 1,400 | 47 | #include "PalikTable.h"
#include <algorithm>
#include <fstream>
#include "Debug/Debug.h"
#include "Rml/Locate.h"
namespace rayx {
bool PalikTable::load(const char* element, PalikTable* out) {
std::string elementString = element;
std::transform(elementString.begin(), elementString.end(), elementString.begin(... |
210bd75248cde8f93d228d763d86f767790bcb4e23050e0177a31312d246357a | C++ | 1,411 | 53 | #include <algorithm>
#include <list>
#include <vector>
#include "util/collections.hpp"
#include <catch2/catch_test_macros.hpp>
using namespace steps::util; // NOLINT
// global arrays for test data
float X[] = {5, 3, 1, 2, 4, 6, 5, 7, 2, 3};
float E[] = {10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0};
#define ARRSZ(a) (sizeof... |
281615d8a0057a327b400313dd545b9df16e8272147ccd0de01624259ab33d92 | C++ | 1,412 | 45 | #ifdef __wasi__
#include <stdlib.h>
#include <string.h>
#include <wasi/api.h>
extern "C" void __cxa_throw(void* ptr, void* type, void* destructor)
{
abort();
}
extern "C" void* __cxa_allocate_exception(size_t thrown_size)
{
abort();
}
extern "C" int32_t __wasi_path_open32(int32_t arg0, int32_t arg1, int32_t arg2,... |
d6043add2d53bc27f7bf6e46a2f92ede51f90c1a90f1afa9ed10b7626b1d04df | C++ | 1,413 | 61 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
134eec0e2057435e14a61c98eb8226402f87430b65ebcab5d4e3da403751ad00 | C++ | 1,429 | 50 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
89b55c6013c83c5af610267e4b6bfed269b6db507b48230b0b177a7526e8977b | C++ | 1,430 | 53 | #include "CromerTable.h"
#include <algorithm>
#include <fstream>
#include "Debug/Debug.h"
#include "Rml/Locate.h"
namespace rayx {
bool CromerTable::load(const char* element, CromerTable* out) {
std::string elementString = element;
std::transform(elementString.begin(), elementString.end(), elementString.beg... |
0922001175cb8ac37d4bff74a5d00746657161f3a0d1c0b4ad69482b6b8e0395 | C++ | 1,436 | 49 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
d79dfeabc0204f19f8dff49f604da9df4a9cdfeaf4c178741027ca18e80b52ed | C++ | 1,437 | 58 | /**
* Copyright (c) Facebook, Inc. and its affiliates.
*
* This source code is licensed under the MIT license found in the
* LICENSE file in the root directory of this source tree.
*/
#include "normalize.h"
#include <algorithm>
#include <ctype.h>
#include <assert.h>
#include <string>
namespace starspace {
void... |
0c03de9b91f829b120e45d50dcf13fab9b8e50fad56617057bf359701f62c8b7 | C++ | 1,447 | 53 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
72ac9bfac660b695db8ffdc32456d6d4f078e9bd8c5f48ef4bc4f2b6a0950ec2 | C++ | 1,451 | 57 | #include "storage.h"
#include <vector>
void add_to_arr(int x, int j, int beta,std::vector<unsigned> &arr){
unsigned temp = j*beta;
unsigned idx = (temp) >> 5;
unsigned rem=temp&(0x0000001F);
unsigned add = rem+beta;
if(add > 32){
arr[idx] = arr[idx] & ( ((1 << rem) - 1) << (32-rem) );
... |
046cf17752ce8d7d4bd6d640a2772fb0a54409fd76169c8d15709fc899526f66 | C++ | 1,454 | 52 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
127884704be58549588a0039411f570f6542f60a2f167395e31ce91704c52127 | C++ | 1,456 | 53 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
9493c350910d3d8b93694795e4b40f49b990bdd2983bc6c2461524d15cf73b5e | C++ | 1,472 | 53 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
9dccf1009a66ce63aa44fd2fcbba7a00448f92ec09ddf35129e6842d611513ab | C++ | 1,475 | 53 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
509746a4b9ae8eaab7879589365fac6ac4f4456142417f4bab9caa795b111b84 | C++ | 1,477 | 59 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
0f0c3babbc4cbd4e2a58bfbfa5e011a398a1ba4b44eacf44cd3404cd4d0ab69a | C++ | 1,481 | 62 | // [[Rcpp::depends(RcppArmadillo)]]
#define ARMA_64BIT_WORD 1
#include <RcppArmadillo.h>
#include <Rcpp.h>
using namespace Rcpp;
// [[Rcpp::export]]
List Indiv_Score_Test_SMMAT_sparse_cond(arma::sp_mat G, arma::sp_mat Sigma_i, arma::mat Sigma_iX, arma::mat cov, arma::mat X_adj, arma::vec residuals)
{
int i;
// nu... |
9bb0b0a5adba5c6246796edc873f2fa3dd8bea70f9ccf92adf94c17423695bc9 | C++ | 1,481 | 66 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
f5b114a676591cb5c410d39d17a89758811fc34370899a633cb31304ea0a4708 | C++ | 1,485 | 62 | /****************************************************************************
**
** Copyright (c) 2009-2015 C.B. Barber. All rights reserved.
** $Id: //main/2015/qhull/src/libqhullcpp/QhullPointSet.cpp#2 $$Change: 2066 $
** $DateTime: 2016/01/18 19:29:17 $$Author: bbarber $
**
******************************************... |
6c939cdbafe0cc5b633271833188401d2813b74af51713b00255a258bf01fca3 | C++ | 1,497 | 47 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2026 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for deta... |
2628a4c2f63c04af282b2f6b68b566121045a377f1af920bfae94cce18f20891 | C++ | 1,502 | 53 | #include <string>
#include "util/checkid.hpp"
#include "util/error.hpp"
#include <catch2/catch_test_macros.hpp>
using steps::util::checkID;
using steps::util::isValidID;
std::string valid_ids[] = {"A", "z", "M", "m", "_", "a012", "B_7890", "___a", "____B", "_0Z"};
// TODO revert this temporary change for split mes... |
2617ef23b676a97b0311b699828c5dde65d3aea30b7470ea478a14dcdcd349dc | C++ | 1,506 | 62 | /****************************************************************************
**
** Copyright (c) 2008-2015 C.B. Barber. All rights reserved.
** $Id: //main/2015/qhull/src/libqhullcpp/QhullSet.cpp#3 $$Change: 2066 $
** $DateTime: 2016/01/18 19:29:17 $$Author: bbarber $
**
***********************************************... |
d14b0e2b8816173346848deb0f392223643301eaf2c58f2a207235f3941ff016 | C++ | 1,507 | 47 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
45d90741cfef3bef1c8aa8dbd76e687b6fa7698a777bfe52541d9c55824a1815 | C++ | 1,513 | 51 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
80a3dd5f6d97522e832b988b3c4c450ad6a6a97f9cde1c6fe87c0af779373182 | C++ | 1,513 | 47 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2023 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for ... |
f8bce90150605c333ee0633a1a9121e7895be0d97356b4a7ffebe499ac9c1ebb | C++ | 1,517 | 58 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
213db85edb6f7be3ed45bd3d68d84a954b80ecf482b644035fd64142e795b752 | C++ | 1,525 | 53 | #include "Random.h"
#include <algorithm>
#include <random>
#include "Shader/Constants.h"
static std::mt19937 RNG;
namespace rayx {
void fixSeed(uint32_t seed) { RNG.seed(seed); }
void randomSeed() { fixSeed((uint32_t)time(nullptr)); }
uint32_t randomUint() { return RNG(); }
double randomDouble() { return ((doub... |
372aab38e9d53342a63151630595ef8f63b05f97359d34484c9749f0fc6aee20 | C++ | 1,548 | 58 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2023 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for ... |
864874e5c5c8035b9ea10ab411d8243246eec7c3ce8eb2d710c503adc2f45a22 | C++ | 1,548 | 58 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
3bda3a609315916682445594c86a75f43cbea0c32460fccede2fc0d7c2742219 | C++ | 1,550 | 46 | #include "../src/meshoptimizer.h"
#include <float.h>
#include <stdint.h>
#include <stdlib.h>
extern "C" int LLVMFuzzerTestOneInput(const uint8_t* buffer, size_t size)
{
if (size == 0)
return 0;
srand(buffer[0]);
float vb[100][4];
for (int i = 0; i < 100; ++i)
{
vb[i][0] = rand() % 10;
vb[i][1] = rand() ... |
a094331af4d79d5fe0d58a55b2e33b1813eb9825d36abe156eb0457c8ba57623 | C++ | 1,558 | 57 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
af0351dd80d7967845a71f71d6455a47e0366ac6a378e0dc558a5e51f5125bd5 | C++ | 1,573 | 62 | /**
* Copyright (c) Facebook, Inc. and its affiliates.
*
* This source code is licensed under the MIT license found in the
* LICENSE file in the root directory of this source tree.
*/
#include "../starspace.h"
#include <iostream>
#include <boost/algorithm/string/predicate.hpp>
using namespace std;
using namespac... |
3d01468cf1c48160f2ab8b383a64c9725a0230f04f9adb8916d21dd225347a7b | C++ | 1,584 | 70 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
2f6d9f9ab8886915bd84dcc63739e837952651dd85b6e1c98fb4604ea57048ba | C++ | 1,591 | 62 | /*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later v... |
79508ec847712fe184b558dc6cf13331812585ab00b6dba168ce08fea5cd1e46 | C++ | 1,592 | 42 | #include "util_cuda.h"
// Check if CUDA requirements are met
bool initCuda(){
int device_count = 0;
// Check if CUDA runtime calls work at all
cudaError t = cudaGetDeviceCount(&device_count);
if (t != cudaSuccess) {
fprintf(stderr, "[CUDA] First call to CUDA Runtime API failed. Are the drivers installe... |
d747fdd9ef223fcf3105855ea703671a857adba3c6a09fea04b7d035bac8e5ce | C++ | 1,593 | 61 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2026 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for deta... |
f0ccc93e92773fd4d4014ef8f748b660b5443ca04680f7a2518034c06e8eb36e | C++ | 1,614 | 60 | /**
* Copyright (c) Facebook, Inc. and its affiliates.
*
* This source code is licensed under the MIT license found in the
* LICENSE file in the root directory of this source tree.
*/
#include "../starspace.h"
#include <iostream>
#include <boost/algorithm/string/predicate.hpp>
using namespace std;
using namespac... |
07ada3566234dc660536b59a345be63b1b8e54ed43a7562d55a3a65b121728cf | C++ | 1,622 | 60 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
5b873239ad9c66195e955c81e1465ba58b256b4c82d65cc5b61bad0e9270a605 | C++ | 1,623 | 49 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2026 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for deta... |
c366fe15f098d1f959b740c7a8e75e4b6a570b3bb38720a9da20be2ac63c9195 | C++ | 1,634 | 65 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
1d457fa062855a015926d8d272678b8bf1484287cc3deddcabf206b945e0fa13 | C++ | 1,635 | 58 | #include "ring_buffer.h"
#include <iostream>
RingBuffer::RingBuffer(size_t capacity, size_t inRate, size_t outRate, size_t inBlockSize, size_t outBlockSize, size_t outputOverlap)
: capacity(capacity), inRate(inRate), outRate(outRate), inBlockSize(inBlockSize),
outBlockSize(outBlockSize), outputOverlap(out... |
bd09459a1a6381cde524fae9654ebcb706bfb982035b910de5abcc8fa627bb6e | C++ | 1,639 | 49 | /*
#################################################################################
#
# STEPS - STochastic Engine for Pathway Simulation
# Copyright (C) 2007-2023 Okinawa Institute of Science and Technology, Japan.
# Copyright (C) 2003-2006 University of Antwerp, Belgium.
#
# See the file AUTHORS for ... |
9d40f76abbf9c5758fddf7d9a946e6040ef9aa98f00def7a4ea14ea124f22f3a | C++ | 1,640 | 48 |
/*
* Copyright (C) 2011 Regents of the University of Michigan,
* Hyun Min Kang, Matthew Flickenger, Matthew Snyder,
* and Goncalo Abecasis
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public Licens... |
8df952ce424ef6acdd4093ab14f924ec778d71de1be68234b7949055b4b17fc7 | C++ | 1,641 | 47 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
6cd4ff656d18d5742106bd81b4d578e1c001ea7e0d6f0719fe6600a25d6e5c30 | C++ | 1,650 | 48 | /* Copyright (c) 2008-2026 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "a... |
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