sha256 stringlengths 64 64 | language stringclasses 27
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
190babc8b10a2e38c5b544634684fd9679225c6cc5491ca6912867ba046fecd3 | C++ | 8,850 | 263 | //
// generic/datagram_protocol.cpp
// ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Disabl... |
e3963af9613d02b1e16cce696a692a2d3ff517516f8a65d6a0de52cd502f6aaa | C++ | 8,911 | 238 | //
// composed_3.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/bind_executor.hpp>... |
caae6e82a9beffeaf30d73bfb5fbf2e95bcfae0ffe320b12cb6d54d68cdfb965 | C++ | 8,920 | 253 | // (C) Copyright Herve Bronnimann 2004.
// Use, modification and distribution are subject to the
// Boost Software License, Version 1.0. (See accompanying file
// LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
#include <utility>
#include <functional>
#include <algorithm>
#include <numeric>
#inclu... |
2a903155d7da47889169f75659faa20c6c77f6970a55ed438dbd7a64695f3a7c | C++ | 8,927 | 260 | /* ========================================================================= *
* *
* OpenMesh *
* Copyright (c) 2001-2015, RWTH-Aachen University *
* ... |
222fab5b7017d9f05b79ed2d3b52c4aacf2d0f18e3fbe17e22f52ba3c1739031 | C++ | 8,945 | 283 | // Copyright (c) 2011 Helge Bahmann
//
// Distributed under the Boost Software License, Version 1.0.
// See accompanying file LICENSE_1_0.txt or copy at
// http://www.boost.org/LICENSE_1_0.txt)
// Attempt to determine whether the operations on atomic variables
// do in fact behave atomically: Let multiple threads ... |
8120977869f2360d1486f3f5f3e52e6032f53ce255e569ac86026047fa12f92f | C++ | 8,945 | 156 | #include "Stats.h"
#include "TimeFunctions.h"
void Stats::resetN() {//zero all counters
readN = 0; readBases = 0;
mappedMismatchesN = 0; mappedInsN = 0; mappedDelN = 0; mappedInsL = 0; mappedDelL = 0; mappedBases = 0; mappedPortion = 0;
mappedReadsU = 0; mappedReadsM = 0;
unmappedOther = 0; unmappedSh... |
833fee399954f908cf0f3b789832e505329787f4cf73607a7b31ca0f62f368d7 | C++ | 8,989 | 224 | // Copyright 2008 Google Inc.
// All Rights Reserved.
//
// Redistribution and use in source and binary forms, with or without
// modification, are permitted provided that the following conditions are
// met:
//
// * Redistributions of source code must retain the above copyright
// notice, this list of conditions a... |
c0964c44d463e73d74412c9da8dedb876495dfc0dc9dd1110acbe7c7b3a39c24 | C++ | 8,989 | 263 | //
// composed_8.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/compose.hpp>
#incl... |
a063d3866d37aa8693fbe4983ea1c03c876b5670ae9785de3d8951884cac1fd2 | C++ | 8,999 | 323 |
//g++ -O3 -g0 -DNDEBUG sparse_product.cpp -I.. -I/home/gael/Coding/LinearAlgebra/mtl4/ -DDENSITY=0.005 -DSIZE=10000 && ./a.out
//g++ -O3 -g0 -DNDEBUG sparse_product.cpp -I.. -I/home/gael/Coding/LinearAlgebra/mtl4/ -DDENSITY=0.05 -DSIZE=2000 && ./a.out
// -DNOGMM -DNOMTL -DCSPARSE
// -I /home/gael/Coding/LinearAlgebr... |
497edb4c88f05d002375b206f407de5a452c64beab12c0fb25e6205fcd1ab253 | C++ | 9,035 | 242 | //
// composed_4.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/bind_executor.hpp>... |
5282fb64f6df248b39f373f323c49a83a8ad36c3bbd3cbb1dd680a4c77c09447 | C++ | 9,124 | 346 | /**
* Copyright (c) 2016-present, Facebook, Inc.
* All rights reserved.
*
* This source code is licensed under the MIT license found in the
* LICENSE file in the root directory of this source tree.
*/
#include "loss.h"
#include "utils.h"
#include <cmath>
namespace fasttext {
constexpr int64_t SIGMOID_TABLE_SI... |
833513f210129c64098279e38cabcafeb3ac8a63b59e99c82f3fe19071a18431 | C++ | 9,139 | 261 | //
// composed_7.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/compose.hpp>
#incl... |
2ce35d5ada75c76b97fe09f3285411222b24902422e143f6093a1e423295f04e | C++ | 9,148 | 203 | #include <limits>
#include <utility>
#include <iostream>
#include <fstream>
#include <boost/lexical_cast.hpp>
#include <boost/thread.hpp>
/// Processing options for the time_postprocessor.
enum processing_options_t {
post_none = 0, // No automatic post-processing; return the ground-truth time stamps for manual pos... |
66aaa0a9958953c5f8c6bed58b678af729ae613603746ef23d81765287900710 | C++ | 9,155 | 348 | /***************************************************************************************************************
Copyright (c) 2011, Marco Reisert, Valerij G. Kiselev, Medical Physics, University Medical Center Freiburg
All rights reserved.
Reference: Reisert M, Mader I, Anastasopoulos C, Weigel M, Schnell... |
76e3da0e2fc3a783444322ac8a72d26f4a0ed885d5ad5b5e9f12efc983de093a | C++ | 9,173 | 165 | /*
Copyright (c) Marshall Clow 2013.
Distributed under the Boost Software License, Version 1.0. (See accompanying
file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
For more information, see http://www.boost.org
*/
#include <boost/config.hpp>
#include <boost/algorithm/cxx14/equal.hpp... |
df942f8d97c96563eeda0efee9dcd84ceb2abc63fb58cdaf6101a90c6a06d912 | C++ | 9,185 | 188 | /*
Copyright (c) Marshall Clow 2013.
Distributed under the Boost Software License, Version 1.0. (See accompanying
file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
For more information, see http://www.boost.org
*/
#include <boost/config.hpp>
#include <boost/algorithm/cxx17/transform_... |
2a8f6d795242359f6f08d9f4290a4a7b45e7f8d48b0f831a7b1ed85390f97d87 | C++ | 9,199 | 308 | #include <mex.h>
#include <matrix.h>
#include <math.h>
#include <map>
#include <string.h>
using namespace std;
#define REAL float
#define PI 3.1415926536
////////////////////////////////////
#include "MersenneTwister.h"
MTRand mtrand;
int dbgflag;
#ifdef _WIN64
#include "wintime.h"
#define INFINITY 999999... |
f5af8d42744ba5c2a581fc3c991664af2fb3c1c972855613de720dfde62341d3 | C++ | 9,211 | 259 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008-2009 Gael Guennebaud <gael.guennebaud@inria.fr>
// Copyright (C) 2009 Mathieu Gautier <mathieu.gautier@cea.fr>
//
// Eigen is free software; you can redistribute it and/or
// modify it under the terms of th... |
6f01c111b5ddb08098b6e2a1c4166083afe611c9efc9279dc261cb5028232771 | C++ | 9,219 | 247 | //
// composed_4.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/bind_executor.hpp>... |
5f48c2dd9a74ad1e583fcd60362c013ffcb1239f28f8a240963f77ec862b5b38 | C++ | 9,229 | 262 | //
// composed_7.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/compose.hpp>
#incl... |
ed3039ba9df9d764de0ce0880a6a984c3c1c6a1d69804a43e7d3a258a3da3b83 | C++ | 9,229 | 361 | //
// Copyright (c) 2016-2019 Vinnie Falco (vinnie dot falco at gmail dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Official repository: https://github.com/boostorg/beast
//
// Test that header ... |
8b665d6169bb55ce2eaaa86b160ed812467ba9cc38b37bacf60cf0927521baad | C++ | 9,237 | 271 |
// g++-4.4 bench_gemm.cpp -I .. -O2 -DNDEBUG -lrt -fopenmp && OMP_NUM_THREADS=2 ./a.out
// icpc bench_gemm.cpp -I .. -O3 -DNDEBUG -lrt -openmp && OMP_NUM_THREADS=2 ./a.out
#include <iostream>
#include <Eigen/Core>
#include <bench/BenchTimer.h>
using namespace std;
using namespace Eigen;
#ifndef SCALAR
// #define... |
2850dc1f73a3f8020d8a4d80688a28d9b736eae6d677222c3f871d8d33b25501 | C++ | 9,250 | 320 | // Copyright 2007, Google Inc.
// All rights reserved.
//
// Redistribution and use in source and binary forms, with or without
// modification, are permitted provided that the following conditions are
// met:
//
// * Redistributions of source code must retain the above copyright
// notice, this list of conditions ... |
c0189d0703508543fec20206b62a466487857030cc11a27e4b6c24909417b0c0 | C++ | 9,251 | 314 | //
// Copyright (c) 2016-2019 Vinnie Falco (vinnie dot falco at gmail dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Official repository: https://github.com/boostorg/beast
//
//------------------... |
5cf50d15318e167672e3e23618383bf27f8f6cb8371644e44ecaee0945220361 | C++ | 9,253 | 291 | // Copyright (c) 2020 Andrey Semashev
//
// Distributed under the Boost Software License, Version 1.0.
// See accompanying file LICENSE_1_0.txt or copy at
// http://www.boost.org/LICENSE_1_0.txt)
// This test is based on atomicity.cpp by Helge Bahmann. The test
// Was modified to use atomic_ref template instead of... |
27e5b628e597971d7b5b030252fa359c73dbee32e42d54750455b65bd5367bf4 | C++ | 9,279 | 252 | //
// composed_4.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/bind_executor.hpp>... |
a3566524affe3da08a96370a619c28ba7d377c68e38cc2d55ddbb93fbadb3337 | C++ | 9,281 | 311 | //
// async_tcp_client.cpp
// ~~~~~~~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/buffer... |
d9c824fa6143ce22d53e281cda9fee1b813af98308060eb9387611242da1393a | C++ | 9,283 | 249 | /*
* Created by Fahimeh Mirhaj on 6/18/19.
*/
#include "SpliceGraph.h"
#define macro_CompareScore(score1,scoreMax,dirInd,dirIndMax) if(score1>scoreMax){dirIndMax=dirInd;scoreMax=score1;}
SpliceGraph::typeAlignScore SpliceGraph::swScoreSpliced
(const char *readSeq, const uint32 readLen, c... |
93ec34f4d75dd8a703824c090902b4da71eaba3782a05d4e0b219a99c8a4b835 | C++ | 9,293 | 251 | // Copyright (c) 2011 Helge Bahmann
// Copyright (c) 2020 Andrey Semashev
//
// Distributed under the Boost Software License, Version 1.0.
// See accompanying file LICENSE_1_0.txt or copy at
// http://www.boost.org/LICENSE_1_0.txt)
// Verify that definition of the "LOCK_FREE" macros and the
// "is_lock_free" me... |
962758cc9c562419861ea3fcf46bfddb67a4d5f7f8ac4cf7c17c942d1724f26d | C++ | 9,302 | 233 | /*
Copyright (c) Marshall Clow 2017.
Distributed under the Boost Software License, Version 1.0. (See accompanying
file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
For more information, see http://www.boost.org
*/
#include <vector>
#include <functional>
#include <numeric>
#include <... |
c8eb8387d6197285a194fcd48fde1b4d07087adf9dc879f0f3edab8e9536b9ad | C++ | 9,314 | 268 | //
// composed_7.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/compose.hpp>
#incl... |
7ab9988487d3212aa3bf77814670e7a7d611a1631769402b61056bb3ed24f304 | C++ | 9,325 | 250 | // This file is triangularView of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008-2009 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// Eigen is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public
// License as published b... |
c957d4d8d180239f80a3bf19791198f852da2701a955ab30098dc1e277046da9 | C++ | 9,344 | 311 | //
// async_tcp_client.cpp
// ~~~~~~~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/buffer... |
530b5a2757ba5e7341f9569df21d30180ddf71fa4f318872107657b1272f7047 | C++ | 9,424 | 333 | //---------------------------------------------------------------------------//
// Copyright (c) 2013 Kyle Lutz <kyle.r.lutz@gmail.com>
//
// Distributed under the Boost Software License, Version 1.0
// See accompanying file LICENSE_1_0.txt or copy at
// http://www.boost.org/LICENSE_1_0.txt
//
// See http://boostorg.gi... |
e4ef7b9906b1eb9d4104a0b378239da579cd21cc5d83cb8fc9dacb501e265833 | C++ | 9,438 | 275 | // Boost string_algo library substr_test.cpp file ------------------//
// Copyright Pavol Droba 2002-2003. Use, modification and
// distribution is subject to the Boost Software License, Version
// 1.0. (See accompanying file LICENSE_1_0.txt or copy at
// http://www.boost.org/LICENSE_1_0.txt)
// See http://www... |
d44c7ccd64d16bf7d9c52f6bc1e78b94980d9b56fe43f65a440fbd01c2629100 | C++ | 9,481 | 316 | //
// Copyright (c) 2016-2019 Vinnie Falco (vinnie dot falco at gmail dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Official repository: https://github.com/boostorg/beast
//
#include "snippets.h... |
ddb16cfefe0f83ad14ec8dce98d82155f5291ff8a988e7d0f55dcb1dcaa54a5a | C++ | 9,490 | 333 | //
// Copyright (c) 2016-2019 Vinnie Falco (vinnie dot falco at gmail dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Official repository: https://github.com/boostorg/beast
//
// Test that header ... |
3277f14ac63a7c7eb554e6a6384f44a45b5cff81af1ad4859861ee49b791c31e | C++ | 9,503 | 246 | // (C) Copyright Ivan Matek, Marshall Clow 2021.
// Use, modification and distribution are subject to the
// Boost Software License, Version 1.0. (See accompanying file
// LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
#include <boost/algorithm/is_clamped.hpp>
#include <boost/algorithm/clamp.hpp>... |
24bd8bf1678d146ac91ab419d0d7718ac3edd9416621fa946fcbb588a6d03746 | C++ | 9,506 | 180 | //
// Copyright (c) 2016-2019 Vinnie Falco (vinnie dot falco at gmail dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Official repository: https://github.com/boostorg/beast
//
// Test that header ... |
9be44751ae957a88e31aa3fc5c1518041f24cad3f683bd629bc826e16809c9b5 | C++ | 9,520 | 238 | // Copyright 2011 Vicente J. Botet Escriba
// Copyright (c) Microsoft Corporation 2014
// Distributed under the Boost Software License, Version 1.0.
// See http://www.boost.org/LICENSE_1_0.txt
#include <boost/chrono/chrono_io.hpp>
#include <sstream>
#include <boost/detail/lightweight_test.hpp>
#include <boost/chro... |
264a0ceb397412a5799d5eaca45979325a7596ba2f78f93137f19447d09e67b0 | C++ | 9,527 | 262 | ///////////////////////////////////////////////////////////////////////////////
// main.hpp
//
// Copyright 2005 Eric Niebler. Distributed under the Boost
// Software License, Version 1.0. (See accompanying file
// LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
#include <iostream>
#include <fstrea... |
8a3781f3dab1ef21da19b980b13aac0e1a113e9e2357ebb115a4b6a5fbe87aa0 | C++ | 9,536 | 328 | /*
------------------------------------------------------------------
This file is part of the Open Ephys GUI
Copyright (C) 2017 Allen Institute for Brain Science and Open Ephys
------------------------------------------------------------------
This program is free software: you can redistribute it and/or modify
it ... |
033425a3ef54f1f3f277af951a70644960b16520e72458c0e6f000ba9318891c | C++ | 9,582 | 261 | #include<stdio.h>
#include<string>
#include<stdlib.h>
#include<math.h>
using namespace std;
# define gr (double)1.0
void sol_0(double t0, double t, double *x0, double *x, double *para, double *para2);
void sol_1(double t0, double t, double *x0, double *x, double *para, double *para2);
double t_min_fun(double pf, do... |
bcd0ba955a87bcf91d63a02478c4e2f6dbaae9f7f6848e5bdba7ef44dbf5874c | C++ | 9,585 | 253 | #include "api_config.h"
#include "common.h"
#include "inireader.h"
#include <algorithm>
#include <cstdlib>
#include <fstream>
#include <loguru.hpp>
#include <mutex>
#include <stdexcept>
using namespace lsl;
/// Substitute the "~" character by the full home directory (according to environment variables).
std::string e... |
901d9541163de780748ba0893057990b4e18086e4cfc7823144a2d7574e65307 | C++ | 9,635 | 220 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008-2009 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// Eigen is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public
// License as published by the Free... |
0b02fc12f87944226915a999bdcc8a3eaafb34a1ea5bb0df128774abf8667f09 | C++ | 9,655 | 257 | // Copyright 2007, Google Inc.
// All rights reserved.
//
// Redistribution and use in source and binary forms, with or without
// modification, are permitted provided that the following conditions are
// met:
//
// * Redistributions of source code must retain the above copyright
// notice, this list of conditions ... |
f531bd69b56c20b3550536dc158a82d23c2f057568df87b14ba25d30afbf2da1 | C++ | 9,720 | 237 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2006-2010 Benoit Jacob <jacob.benoit.1@gmail.com>
//
// Eigen is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public
// License as published by the Free So... |
8d312a54b5e13aed973e38c142366c374d3ee9b04f99b8d7a69f1e02d7552327 | C++ | 9,723 | 293 | //---------------------------------------------------------------------------//
// Copyright (c) 2013 Kyle Lutz <kyle.r.lutz@gmail.com>
//
// Distributed under the Boost Software License, Version 1.0
// See accompanying file LICENSE_1_0.txt or copy at
// http://www.boost.org/LICENSE_1_0.txt
//
// See http://boostorg.gi... |
590466ce3bb658622fb1f6b609064aa72720bc2ae47d7603ca923ced0226fae5 | C++ | 9,739 | 211 | #include <stdint.h>
#include "../../include/lsl_cpp.h"
#include <boost/thread.hpp>
#include <boost/lexical_cast.hpp>
#include <boost/bind.hpp>
#include <boost/functional/hash.hpp>
#include <boost/uuid/uuid.hpp>
#include <boost/uuid/uuid_generators.hpp>
#include <boost/uuid/uuid_io.hpp>
#include <boost/atomic.hpp>
#incl... |
9bc4094372f29d45b24e558c44b6508c74a41096a45c49701ce43ad976ba615c | C++ | 9,747 | 219 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008-2011 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// Eigen is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public
// License as published by the Free... |
d9e7b3bc238086988ccb9797d5bb7910fca257ce642482f5573bef5e8390b334 | C++ | 9,835 | 174 | // Copyright (c) 2010 Nuovation System Designs, LLC
// Grant Erickson <gerickson@nuovations.com>
//
// Reworked by Marshall Clow; August 2010
//
// Distributed under the Boost Software License, Version 1.0. (See
// accompanying file LICENSE_1_0.txt or copy at
// http://www.boost.org/LICENSE_1_0.txt)
//
// See ... |
7e1d2f67127b01066bf4491d94536c0efebd299f02b38488749cd21f3599666e | C++ | 9,890 | 268 | #include "mex.h"
#include "cokus.cpp"
// Syntax
// [ DP , Z ] = GibbsSamplerLDA( WS , DS , T , N , ALPHA , BETA , SEED , OUTPUT , ZIN , WIN )
// updated for 64 bit
void GibbsSamplerLDA( double ALPHA, double BETA, int W, int T, int D, int NN, int OUTPUT, int n, int nin,
int *z, int *z... |
acf78f2c9a730525ea5adc93e9196a42de8fbfe488db1dfd02656bdbd477b2c0 | C++ | 9,907 | 313 | // Copyright 2009 Google Inc. All rights reserved.
//
// Redistribution and use in source and binary forms, with or without
// modification, are permitted provided that the following conditions are
// met:
//
// * Redistributions of source code must retain the above copyright
// notice, this list of conditions and ... |
9b56d4a88bc5f7fee62f5db8f959adacbce1159f1d7aea3fc9c428c4cf8dacad | C++ | 9,965 | 280 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra. Eigen itself is part of the KDE project.
//
// Copyright (C) 2009 Mark Borgerding mark a borgerding net
//
// Eigen is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public
// L... |
ee10043fa3c0053ad4e587fa5ffe2c6baf51e552613ce0a60182c84f1dac0126 | C++ | 9,999 | 234 | #include "Genome.h"
#include "SuffixArrayFuns.h"
#include "PackedArray.h"
#include "ErrorWarning.h"
#include "streamFuns.h"
#include "SharedMemory.h"
#include "genomeScanFastaFiles.h"
#include "systemFunctions.h"
#include <time.h>
#include <cmath>
#include <unistd.h>
#include <sys/stat.h>
Genome::Genome (Parameters &... |
d142f3a1f7083609fa9d977dbc0649f56da402bfe2685c00581e1a262646b526 | C++ | 10,042 | 250 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// Eigen is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public
// License as published by the Free Soft... |
72c58f94fcb78d6618230dc8d7009fb5dfb401c4ae2796eeb06efb9e96b670a9 | C++ | 10,063 | 288 | #include "mex.h"
#include "cokus.cpp"
// Syntax
// [ WP , DP , Z ] = GibbsSamplerLDA( WS , DS , T , N , ALPHA , BETA , SEED , OUTPUT )
// Syntax
// [ WP , DP , Z ] = GibbsSamplerLDA( WS , DS , T , N , ALPHA , BETA , SEED , OUTPUT , ZIN )
// Updated for 64-bit compilers
void GibbsSamplerLDA( double AL... |
358011aac42621a07ef612ddbc11cd3024654a8f72240a480b0a52846a6fb4ec | C++ | 10,159 | 400 | //
// execute.cpp
// ~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Disable autolinking for unit tests.
#if !d... |
b8305633d7c3d6f284f1a364b14f8885c5983f11b4532b216e11107667a089f3 | C++ | 10,186 | 316 | // Comparison of bounded buffers based on different containers.
// Copyright (c) 2003-2008 Jan Gaspar
// Copyright 2013 Paul A. Bristow. Added some Quickbook snippet markers.
// Use, modification, and distribution is subject to the Boost Software
// License, Version 1.0. (See accompanying file LICENSE_1_0.txt or cop... |
e0dae978cf92bf07bbd571a19222f76a2c5b875effc385c737bb482990a90641 | C++ | 10,188 | 371 | /***************************************************************************************************************
Copyright (c) 2011, Marco Reisert, Valerij G. Kiselev, Medical Physics, University Medical Center Freiburg
All rights reserved.
Reference: Reisert M, Mader I, Anastasopoulos C, Weigel M, Schnell... |
841aa172b35e8a44527916ab5eaa319f87a01f0454c15f5ee74535e91e37b9f5 | C++ | 10,245 | 404 | #include <boost/config.hpp>
#if defined(BOOST_MSVC)
#pragma warning(disable: 4786) // identifier truncated in debug info
#pragma warning(disable: 4710) // function not inlined
#pragma warning(disable: 4711) // function selected for automatic inline expansion
#pragma warning(disable: 4514) // unreferenced inline re... |
2e2314d5dbd0325b6e862cf6b2dcd74a2b4b001065540a404cfe1e31b86396dc | C++ | 10,258 | 289 | //---------------------------------------------------------------------------//
// Copyright (c) 2013-2014 Mageswaran.D <mageswaran1989@gmail.com>
//
// Distributed under the Boost Software License, Version 1.0
// See accompanying file LICENSE_1_0.txt or copy at
// http://www.boost.org/LICENSE_1_0.txt
//
// See http://... |
4e1ab5a4bee38371479f37c9a1365e386df1ca82eec0b59da440f6a195138b10 | C++ | 10,276 | 188 | /*
Copyright Barrett Adair 2016-2017
Distributed under the Boost Software License, Version 1.0.
(See accompanying file LICENSE.md or copy at http ://boost.org/LICENSE_1_0.txt)
*/
#include <type_traits>
#include <functional>
#include <tuple>
#include <boost/callable_traits/add_varargs.hpp>
#include "test.hpp"
struct f... |
58f8108517c1dd0b6a332e0083a3fb69b20c02e23ccb29cf1c06d0f93e33aed9 | C++ | 10,284 | 190 | /*
Copyright Barrett Adair 2016-2017
Distributed under the Boost Software License, Version 1.0.
(See accompanying file LICENSE.md or copy at http ://boost.org/LICENSE_1_0.txt)
*/
#include <type_traits>
#include <functional>
#include <tuple>
#include <boost/callable_traits/remove_varargs.hpp>
#include "test.hpp"
str... |
e831c49847a65492e62d8539d35e4864f3f09104a0d6c3bfbfd8769517c449c2 | C++ | 10,311 | 311 | //
// Copyright (c) 2016-2017 Vinnie Falco (vinnie dot falco at gmail dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Official repository: https://github.com/boostorg/beast
//
#include <boost/beas... |
fe8269c7c9ba47132d9d8d3076589d099b9f9d3cbc749dbf31381140bbbc7b46 | C++ | 10,315 | 225 | #include "sjdbPrepare.h"
#include "ErrorWarning.h"
#include "serviceFuns.cpp"
void sjdbPrepare (SjdbClass &sjdbLoci, Parameters &P, uint nGenomeReal, string outDir, Genome &mapGen, char *Gsj) {
char *G=mapGen.G;
uint *sjdbS=new uint [sjdbLoci.chr.size()];
uint *sjdbE=new uint [sjdbLoci.chr.size()];
... |
87db121eff3ab347bd9e2ab9661295729c7d6b60021c66a071d4828fea9cf153 | C++ | 10,323 | 316 | // Comparison of bounded buffers based on different containers.
// Copyright (c) 2003-2008 Jan Gaspar
// Copyright 2013 Paul A. Bristow. Added some Quickbook snippet markers.
// Use, modification, and distribution is subject to the Boost Software
// License, Version 1.0. (See accompanying file LICENSE_1_0.txt or cop... |
80b5c9b9bdfaaea5b52b23252944a887ed81d3154c1c6050f9efe5a66d780172 | C++ | 10,395 | 374 | //---------------------------------------------------------------------------//
// Copyright (c) 2016 Jakub Szuppe <j.szuppe@gmail.com>
//
// Distributed under the Boost Software License, Version 1.0
// See accompanying file LICENSE_1_0.txt or copy at
// http://www.boost.org/LICENSE_1_0.txt
//
// See http://boostorg.gi... |
87b941128bfca451bd6b27a0138a650e919f34db323a2d6765da8d2fc802122f | C++ | 10,423 | 300 | #include <boost/config.hpp>
#if defined(BOOST_MSVC)
#pragma warning(disable: 4786) // identifier truncated in debug info
#pragma warning(disable: 4710) // function not inlined
#pragma warning(disable: 4711) // function selected for automatic inline expansion
#pragma warning(disable: 4514) // unreferenced inline re... |
458c2118847938b4dc0c4e4bb4ace44575270c8f8e0f40cc77a025eceeac41cc | C++ | 10,451 | 278 | #include "Transcriptome.h"
#include "ReadAlign.h"
#include "serviceFuns.cpp"
#include "AlignVsTranscript.h"
#include "ReadAnnotations.h"
#include <bitset>
int32 alignBlocksOverlapExons(Transcript &aG, uint16 exN1, uint32 *exSE1, uint64 trStart1, bool &sjConcord);
void Transcriptome::alignExonOverlap(uint nA, Transcri... |
c6548534ae4e6ff3b4b954cbf491c3b1df9f0e318cab34cb9f3acbaf2d9cf325 | C++ | 10,476 | 315 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// Eigen is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public
// License as published by the Free Soft... |
0176275bb4122d345d8c03ca42071c2a2c4a885f716ab9c6e816d3574db1a929 | C++ | 10,506 | 285 | #include "lsl_c_api_helpers.hpp"
#include "stream_inlet_impl.h"
extern "C" {
#include "api_types.hpp"
// include api_types before public API header
#include "../include/lsl/inlet.h"
using namespace lsl;
LIBLSL_C_API lsl_inlet lsl_create_inlet(
lsl_streaminfo info, int32_t max_buflen, int32_t max_chunklen, int32_t r... |
5584c99b34f93a9c3a66a1627fe333d454790084425bc35749f0ca84aaed1778 | C++ | 10,519 | 338 | //
// buffered_read_stream.cpp
// ~~~~~~~~~~~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Disable autolink... |
2f0fcc6a4892b499d71414c9a33a6ec4db03a02d5b9600f7e0616abd24a28831 | C++ | 10,540 | 195 | /*
Copyright (c) Marshall Clow 2013.
Distributed under the Boost Software License, Version 1.0. (See accompanying
file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
For more information, see http://www.boost.org
*/
#include <boost/config.hpp>
#include <boost/algorithm/cxx14/mismatch.... |
2bb72737400ca6f0735a4264c6671f49c3ed103ead97526683497cdc04dd9eb8 | C++ | 10,544 | 423 | #include "scanner.h"
#include "token.h"
#include "exceptions.h"
#include "exp.h"
#include <cassert>
#include <memory>
namespace YAML
{
Scanner::Scanner(std::istream& in)
: INPUT(in), m_startedStream(false), m_endedStream(false), m_simpleKeyAllowed(false), m_canBeJSONFlow(false)
{
}
Scanner::~Scanner()
{
for(... |
d432daffaee295977c5255ba4362462f375507607dd18d11a5482b2f9fda0b33 | C++ | 10,557 | 403 | // [[Rcpp::depends(RcppArmadillo)]]
#include "RcppArmadillo.h"
#include "math.h"
using namespace Rcpp;
// from Rcpp gallery https://gallery.rcpp.org/articles/stl-random-shuffle/
// wrapper around R's RNG such that we get a uniform distribution over
// [0,n) as required by the STL algorithm
// inline int randWrapper(... |
f1556e188766a9d21c79bcca2ac9bb4db8c4f83aefec2c3ffcd324e4beefcf48 | C++ | 10,578 | 271 | #include <unordered_map>
#include "bamRemoveDuplicates.h"
#include <iostream>
#include "htslib/htslib/sam.h"
#include "IncludeDefine.h"
#include SAMTOOLS_BGZF_H
#include "ErrorWarning.h"
#define compareReturn(a,b) if(a>b) {return 1;} else if (a<b) {return -1;}
uint g_bamRemoveDuplicatesMate2basesN;
int funCompareNam... |
a2efc09dd64a7a79f6f6546b3001abc6ba30b6e441bf2e7130585135a1ffea9f | C++ | 10,725 | 350 | //===----------------------------------------------------------------------===//
//
// The LLVM Compiler Infrastructure
//
// This file is dual licensed under the MIT and the University of Illinois Open
// Source Licenses. See LICENSE.TXT for details.
//
//===----------------------------------------... |
99e8bc8b9a7e78b89062e6305559d6f4cca46228dca1a48e2d8e35d0b1f433dc | C++ | 10,766 | 335 | //---------------------------------------------------------------------------//
// Copyright (c) 2013 Kyle Lutz <kyle.r.lutz@gmail.com>
//
// Distributed under the Boost Software License, Version 1.0
// See accompanying file LICENSE_1_0.txt or copy at
// http://www.boost.org/LICENSE_1_0.txt
//
// See http://boostorg.gi... |
3e86324bf49cbffd4a98bde64a21c0d8a4a3cb4fc34e3dce678f0c4e599b4424 | C++ | 10,769 | 405 | //
// Copyright (c) 2016-2019 Vinnie Falco (vinnie dot falco at gmail dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Official repository: https://github.com/boostorg/beast
//
//------------------... |
4dbbefadc28ff21cee5f6ab3c656d3001bfbf75c0585b140ed297fa73275570c | C++ | 10,786 | 231 | #include "SoloFeature.h"
#include "serviceFuns.cpp"
#include "SimpleGoodTuring/sgt.h"
#include <math.h>
#include <unordered_set>
#include <map>
#include <random>
double logMultinomialPDFsparse(const vector<double> &ambProfileLogP, const vector<uint32> &countCellGeneUMI, const uint32 stride, const uint32 shift, const i... |
53104567eff45f2264908f495bfa5f7bc7e2193ef36f1619d21a81238c36553a | C++ | 10,850 | 381 | //
// Copyright (c) 2016-2019 Vinnie Falco (vinnie dot falco at gmail dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Official repository: https://github.com/boostorg/beast
//
// Test that header ... |
f885df7c2796757da253159f8c24fccef6e86f9d43b1449a22d46e629acf27b7 | C++ | 10,851 | 407 | //
// Copyright (c) 2016-2019 Vinnie Falco (vinnie dot falco at gmail dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Official repository: https://github.com/boostorg/beast
//
#include "example/do... |
4525b11b75ed7d16845207a06ccd0cc40f79f1b7e9760d7531304930badd2928 | C++ | 10,859 | 280 | //
// composed_5.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/deferred.hpp>
#inc... |
c5b731a0a9abdfe54f22ed16c5cc8d28c2e41a993cccd5d624deefaebc9d62b2 | C++ | 10,859 | 335 | //
// Copyright (c) 2016-2019 Vinnie Falco (vinnie dot falco at gmail dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Official repository: https://github.com/boostorg/beast
//
//------------------... |
fb555795a68c7c8b97d04cfbd7f4c3cea90f7bc154ce262d5547bcfdef275a72 | C++ | 10,883 | 337 | // $Id$
// (C) Copyright Aaron W. LaFramboise, Roland Schwarz, Michael Glassford 2004.
// (C) Copyright 2007 Roland Schwarz
// (C) Copyright 2007 Anthony Williams
// (C) Copyright 2007 David Deakins
// Use, modification and distribution are subject to the
// Boost Software License, Version 1.0. (See accompanying file
/... |
2bc28a0ec2a0f36dd07394377d76a099c7e75b8a95e66a60a1f885323dcfc9aa | C++ | 10,907 | 353 | //
// buffered_write_stream.cpp
// ~~~~~~~~~~~~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Disable autoli... |
05727c9ccc5e9c3e48c03c68774f51102fda2c670a3930eb59b64dd4877e8968 | C++ | 10,913 | 670 | //
// use_future.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Disable autolinking for unit tests.
... |
74b82c677383c1388ba1ab35c39e062dfdd3b5298e0c76e44ecd4a0578cc0725 | C++ | 10,951 | 434 | #include "scanner.h"
#include "token.h"
#include "exceptions.h"
#include "exp.h"
#include "scanscalar.h"
#include "scantag.h"
#include "tag.h"
#include <sstream>
namespace YAML
{
///////////////////////////////////////////////////////////////////////
// Specialization for scanning specific tokens
// Directive
// ... |
ab98c44c98c36c2d6c4ce4ac2e46211f2c90f7be06519eb12fae8918a558b06d | C++ | 10,963 | 352 | //---------------------------------------------------------------------------//
// Copyright (c) 2013 Kyle Lutz <kyle.r.lutz@gmail.com>
//
// Distributed under the Boost Software License, Version 1.0
// See accompanying file LICENSE_1_0.txt or copy at
// http://www.boost.org/LICENSE_1_0.txt
//
// See http://boostorg.gi... |
81fbb0d5736bcff0d6c8de7787eac6a7f0b6c225d21f0c60345d9856bca3be06 | C++ | 10,969 | 664 | /***************************************************************************************************************
Copyright (c) 2011, Marco Reisert, Valerij G. Kiselev, Medical Physics, University Medical Center Freiburg
All rights reserved.
Redistribution and use in source and binary forms, with or without... |
3877ce763dc9e12b7f7874761e574cf1f0c35a8a077907c437a7825ffdd646dc | C++ | 10,993 | 305 | #include "lsl_c_api_helpers.hpp"
#include "stream_inlet_impl.h"
#include <cstdlib>
#include <exception>
#include <loguru.hpp>
#include <stdexcept>
#include <string>
#include <vector>
extern "C" {
#include "api_types.hpp"
// include api_types before public API header
#include "../include/lsl/inlet.h"
using namespace l... |
1c4e98eb1b217970c7260191bb99c2d61197139a783db084ae29e43907ab0d0d | C++ | 11,039 | 284 | //
// composed_5.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/deferred.hpp>
#inc... |
e213bb231f076c3ce94b343301eacde5a862f2844abbc5b51ae25b876497316a | C++ | 11,086 | 328 | /**
* Copyright (c) 2016-present, Facebook, Inc.
* All rights reserved.
*
* This source code is licensed under the MIT license found in the
* LICENSE file in the root directory of this source tree.
*/
#include <emscripten.h>
#include <emscripten/bind.h>
#include <fasttext.h>
#include <functional>
#include <sstre... |
373c38cbb0c5ab92b2eafd58d4fe9cd624a73dbb0279368bc0dc11f521d4d5b0 | C++ | 11,091 | 364 | //
// buffered_stream.cpp
// ~~~~~~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Disable autolinking for un... |
2f475770c54a6a42ca23f22d7a15db3c1afe2bb440bf515bdd5749f681e9c832 | C++ | 11,116 | 349 | //Copyright (c) 2006-2009 Emil Dotchevski and Reverge Studios, Inc.
//Distributed under the Boost Software License, Version 1.0. (See accompanying
//file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//This MSVC-specific cpp file implements non-intrusive cloning of exception objects.
//Based on an ... |
4291146797a9265d2fd49686355afc62ace7e52f3ab443977ab3f0c2a71576c0 | C++ | 11,118 | 289 | //
// composed_5.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
#include <boost/asio/deferred.hpp>
#inc... |
14756a024268d664d1d1cd58fe224329d36a031f7e9927e33dc191a68f868a0f | C++ | 11,144 | 314 | //
// network_v4.cpp
// ~~~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
// Copyright (c) 2014 Oliver Kowalke (oliver dot kowalke at gmail dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http:/... |
33f30c472d0114c50cc04506a8eca32cceed24ba0dc578d0f573a09ae3097809 | C++ | 11,189 | 351 | //
// Copyright (c) 2017 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Official repository: https://github.com/boostorg/beast
//
//--------------------... |
0f907f7bf911efcdb5ccce108ce2d110ce2372e64f02dce28fdf733725b54abe | C++ | 11,196 | 506 | //
// schedule.cpp
// ~~~~~~~~~~~~
//
// Copyright (c) 2003-2022 Christopher M. Kohlhoff (chris at kohlhoff dot com)
//
// Distributed under the Boost Software License, Version 1.0. (See accompanying
// file LICENSE_1_0.txt or copy at http://www.boost.org/LICENSE_1_0.txt)
//
// Disable autolinking for unit tests.
#if ... |
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