sha256 stringlengths 64 64 | language stringclasses 27
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
a830f5515798adb4c5011a5e38da936d0f9f789fa24d6cb180868a0dccddb794 | C++ | 7,547 | 226 | /*
* io.cpp
* peer
*
* Created by Leopold Parts on 13/03/2011.
* Copyright 2011 __MyCompanyName__. All rights reserved.
*
*/
#include <fstream>
#include "peerutil.h"
#include "sparsefa.h"
#include "tclap/CmdLine.h"
#include "csv_parser/include/csv_parser/csv_parser.hpp"
using namespace TCLAP;
using namespa... |
1405ac641a356c2f79be2a5e5b965630219e6e490b1d90be7ac01ce3ae8cfc9a | C++ | 7,571 | 210 | #include "resolve_attempt_udp.h"
#include "api_config.h"
#include "netinterfaces.h"
#include "resolver_impl.h"
#include "socket_utils.h"
#include "util/strfuns.hpp"
#include <asio/io_context.hpp>
#include <asio/ip/address.hpp>
#include <asio/ip/multicast.hpp>
#include <exception>
#include <loguru.hpp>
#include <sstream... |
d09ffd3f8bb7df0caf1e7d016fb76da4566d532ac5a1573786e542994a5262e1 | C++ | 7,579 | 239 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2010-2011 Hauke Heibel <heibel@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 Software F... |
ee860d4535b8d04ef3e76e624a7d222823ac93aefede7f45e137377751ff4998 | C++ | 7,600 | 351 | #ifndef DEF_serviceFuns
#define DEF_serviceFuns
#include "IncludeDefine.h"
template <class T>
T sum1D(T* a, uint N) {
T s=0;
for (uint ii=0;ii<N;ii++) s+=a[ii];
return s;
};
template <class numT> int funCompareNumbers (const void *a, const void *b) {
numT va= *((numT*) a);
num... |
fe393ee76abc4cee18f2cd73d870bc204c3c6e94cd60fe19911899b5be002812 | C++ | 7,630 | 131 | // (C) Copyright 2006 Eric Niebler, Olivier Gygi.
// 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)
// Test case for tail_variate_means.hpp
#include <boost/random.hpp>
#include... |
c1380cfaab82f57d18ab0dad9d11058ce3bd5891a356565f5bea7d02281ffe31 | C++ | 7,648 | 226 | // boost run_timer_test.cpp -----------------------------------------------------//
// Copyright Beman Dawes 2006, 2008
// Copyright 2009 Vicente J. Botet Escriba
// Distributed under the Boost Software License, Version 1.0.
// See http://www.boost.org/LICENSE_1_0.txt
// See http://www.boost.org/libs/chrono f... |
ae386335ee5bb78b78ba6f1477ff6ccdfc3a1755edbb1a970e4ec956e0b3a066 | C++ | 7,662 | 227 | #include <jni.h>
#include <string>
#include <iostream>
#include <cstring>
#include "xdfwriter.h"
// a non-zero value to let the constructor of class XDFWriter skip the file header
static const int SKIP_FILE_HEADER = 1;
/**
* Most simple way to get a unique stream ID from the zero-based index,
* considering the stre... |
37b6855a1b20ba98cfa010886fdf9184d4f86a0528639f768610a67a70098f34 | C++ | 7,692 | 241 | #include <boost/config.hpp>
#include <boost/config/pragma_message.hpp>
//
// bind_function_ap_test.cpp - regression test
//
// Copyright (c) 2015 Peter Dimov
//
// 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... |
9d136ec249bb3b3542658fb1f2be2027d77ae5f550ee88f3be3c682ca76b993d | C++ | 7,692 | 262 | //
// 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
//
//------------------... |
e5692b0e0c49dc81022ea31bec42b5ab100e8376d5a57f5ef15b71ebc4ec32cb | C++ | 7,713 | 265 | /**
* 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 "densematrix.h"
#include <random>
#include <stdexcept>
#include <thread>
#include <utility>
#include "... |
b5e4d6190e5337d6f4d785b51512a21685af5e94552e27072059cd207f7fc206 | C++ | 7,714 | 261 | //
// 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 ... |
cbfc5e9d4b2497cbc4b586a95501283055012d7c6b667286ec848a56293f8489 | C++ | 7,717 | 298 | //
// 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 ... |
966013ff6f7bf61fd99cedc519ace452f50f4fa99948f979f261c916e9583902 | C++ | 7,727 | 173 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008 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 Softwar... |
a2e0280bd5559496f2e61d5c4195a75396c94dad227d1b2314c99bd870aae310 | C++ | 7,736 | 286 | #include <boost/asio/any_io_executor.hpp>
#include <boost/asio/defer.hpp>
#include <boost/asio/post.hpp>
#include <boost/asio/strand.hpp>
#include <boost/asio/system_executor.hpp>
#include <condition_variable>
#include <deque>
#include <memory>
#include <mutex>
#include <typeinfo>
#include <vector>
using boost::asio::... |
987c9efbd84364152bcb4c02d906f22e0479a4c2653205de0c3541018c113876 | C++ | 7,759 | 219 | #include "time_receiver.h"
#include "api_config.h"
#include "inlet_connection.h"
#include "socket_utils.h"
#include <asio/io_context.hpp>
#include <chrono>
#include <exception>
#include <limits>
#include <loguru.hpp>
#include <memory>
#include <sstream>
#include <string>
/// internally used constant to represent an un... |
87572279a0dd3beadcf30687682ee21ad4eab4a64e4a9e296cfa9dabffbb7f10 | C++ | 7,767 | 222 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008-2009 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... |
cee44618234bb995a95ddc23de3fc074b0a8d507eb96ac89ac72c49adf324c4e | C++ | 7,773 | 285 | #include <boost/asio/any_io_executor.hpp>
#include <boost/asio/defer.hpp>
#include <boost/asio/post.hpp>
#include <boost/asio/strand.hpp>
#include <boost/asio/system_executor.hpp>
#include <condition_variable>
#include <deque>
#include <memory>
#include <mutex>
#include <typeinfo>
#include <vector>
using boost::asio::... |
c4ea8ae481ae710ee8a970747b773bf4b3a029fc36635fc1cca294726a1c9374 | C++ | 7,814 | 179 | #include <boost/config.hpp>
//
// bind_nested_rv_test.cpp
//
// Copyright (c) 2016 Peter Dimov
//
// 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/bind/bind.hpp>
#include <boost/make_shared... |
72164c794ad2edcbeafab7440a390d7a3d8da5da7ae70e70f71c6b28e946514d | C++ | 7,819 | 259 | /**
* @file shortest_path.cc
*
* Implement the BGL shortest path algorithm wrappers.
*/
/*
* David Gleich
* 19 April 2006
*/
/*
* 18 April 2007
* Added src/dst vertex pairs to all the calls to allow partial searches.
* Corrected small documentation bugs.
*
* 9 July 2007
* Switched to simple_csr_matrix gr... |
6535c9a8207b2154c50aeb77dc437cf45e02420628e9189851e37f08e715340e | C++ | 7,844 | 226 | /**
* @license
* Copyright 2016 Google Inc.
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or... |
66e364ef7f16f5155caa654dcd4964595074151e4d78e98edb0a0162c2b4a02b | C++ | 7,859 | 210 | // test_system_clock.cpp ----------------------------------------------------------//
// Copyright 2008 Howard Hinnant
// Copyright 2008 Beman Dawes
// Copyright 2009 Vicente J. Botet Escriba
// Distributed under the Boost Software License, Version 1.0.
// See http://www.boost.org/LICENSE_1_0.txt
/*
This code... |
894b1d5464080801188ba9af13eaa29f5e97b1bcf9bb8c13b6f00f7d6228a565 | C++ | 7,874 | 215 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra. Eigen itself is part of the KDE project.
//
// Copyright (C) 2008 Daniel Gomez Ferro <dgomezferro@gmail.com>
//
// Eigen is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public... |
b0db933c2a1d77f86a625ea3f2a27b33e2b1dfebedddbdc8126050d69ef180ef | C++ | 7,887 | 215 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra. Eigen itself is part of the KDE project.
//
// Copyright (C) 2008 Daniel Gomez Ferro <dgomezferro@gmail.com>
//
// Eigen is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public... |
a0e4d20ab7a66f217b42357c444d9bbbb5f33184256c7bff661427881e848ad5 | C++ | 7,889 | 211 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2010 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... |
09547c4c0fa0680605084ff2751494fe32ba97050946eea609309e06f405e36c | C++ | 7,891 | 163 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2006-2008 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... |
a82e29b8a06bd15356d29c231c4a816d5e8e37cc58bf006b0ff3531fe296e9db | C++ | 7,896 | 370 | /***************************************************************************************************************
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... |
762229763427a4638792aa68017e73f07fc7009e34271e144f3adc0a332e24fc | C++ | 7,898 | 242 | //---------------------------------------------------------------------------//
// Copyright (c) 2013-2014 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://boosto... |
24bcc6ac3ef9e23097071e425cfab4eddf8729ccce74f458f3750e37c56f51d1 | C++ | 7,907 | 228 | //---------------------------------------------------------------------------//
// 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://... |
ac4d2549cb32c321df610a08baf699929cda7a3bb912549ca270a2dee45bf4a5 | C++ | 7,909 | 186 | #include "SpliceGraph.h"
#include "sjAlignSplit.h"
#include "ReadAlign.h"
void SpliceGraph::findSuperTr(const char *readSeq, const char *readSeqRevCompl, const uint32 readLen, const string &readName, Genome &mapGen)
{//find the candidate superTranscripts: seed-and-rank algorithm implemented
//hardcoded for now
fl... |
988152af94fc693dbc0e734a13a7aa994c8f47260ac8a19ca4740867517e909a | C++ | 7,914 | 219 | // Copyright (C) Eric Niebler 2008.
// Copyright (C) Pieter Bastiaan Ober 2014.
// 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/test/unit_test.hpp>
#include <... |
e1d7db6265e812109a9e1a92eb4dd644d9bbdec6098d7077d070f8486e13a1e2 | C++ | 7,922 | 210 | #include "matcher.h"
#include "overlapanalysis.h"
#include "simd.h"
OverlapAnalysis::OverlapAnalysis(){
}
OverlapAnalysis::~OverlapAnalysis(){
}
OverlapResult OverlapAnalysis::analyze(Read* r1, Read* r2, int overlapDiffLimit, int overlapRequire, double diffPercentLimit, bool allowGap) {
return analyze(r1->mSeq,... |
c03740a4c6a2d08d9e8a09635528b27ba996d9d447182e767a261c873f796fa7 | C++ | 7,941 | 255 | #include "resolver_impl.h"
#include "api_config.h"
#include "resolve_attempt_udp.h"
#include "socket_utils.h"
#include <boost/asio/ip/udp.hpp>
#include <loguru.hpp>
#include <memory>
#include <thread>
// === implementation of the resolver_impl class ===
using namespace lsl;
namespace asio = lslboost::asio;
namespace... |
4e6e4cfa3f15c78860b339d558f13a653e41bdb3ab96400cb3ad8152f5237239 | C++ | 7,955 | 214 | /*
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 <utility>
#include <boost/callable_traits/has_varargs.hpp>
#include "test.hpp"
struct... |
254fc20b4f60ecadc582fad768345cc3e6dbeb1f5dda5c0a007fd13dec890ffa | C++ | 7,968 | 237 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2009 Ilya Baran <ibaran@mit.edu>
//
// 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 Software Foundation... |
a17fc2d9469b04642cd01142670b38f136dd2c1bbd5ec576703b6646ff2fc0c5 | C++ | 7,969 | 264 | #include "processor.h"
#include "peprocessor.h"
#include "seprocessor.h"
#include "overlapanalysis.h"
#include "simd.h"
Filter::Filter(Options* opt){
mOptions = opt;
}
Filter::~Filter(){
}
int Filter::passFilter(Read* r) {
if(r == NULL || r->length()==0) {
return FAIL_LENGTH;
}
int rlen = r... |
ff46cb8edc929a96419b57ad5f777b40188bbef2df568c9bc623edc5416d87c9 | C++ | 7,987 | 229 | //---------------------------------------------------------------------------//
// Copyright (c) 2013-2014 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://boosto... |
c7e2fdcf2d20c660b04b897dabde1feec800c30e2e526385205d4efd8767ce5a | C++ | 7,992 | 212 | // 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 ... |
16db0cfc33175b2cf06e4f63c37873bf0e864d5e1255fa2897d4d1752a4bf8ce | C++ | 8,027 | 131 | // (C) Copyright 2006 Eric Niebler, Olivier Gygi.
// 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)
// Test case for weighted_tail_variate_means.hpp
#define BOOST_NUMERIC_FUNCT... |
4220be2ce320ed9da8f942bb9af65b1fb22f5de05e73984432228f92892ed047 | C++ | 8,031 | 338 | //
// 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
//
//------------------... |
98205a5a8399db621321ebb7ee68974c388e0de4a73c517c3075f792b6c0e8c0 | C++ | 8,043 | 352 | //
// 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 <boost/beas... |
f0f66090fd566e61d73704871d409fab87b89031ff629e73d37f2d7b6622a8e1 | C++ | 8,060 | 188 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2011 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 Softwar... |
b676d116f3ce718d4e5a0c15ca6c55288a802e195d6ded9a9ddc7821e51ca53e | C++ | 8,081 | 325 | //
// io_context_strand.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 fo... |
eacef8be7000d202c75a9468004ce91f197d8e589617beac60c1c689fec1fe3e | C++ | 8,090 | 153 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2006-2008 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... |
ec3d67eeff49ca976946d0984be6cb0fde2e04eac8e30c70d92daa8464119411 | C++ | 8,096 | 282 | //
// 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
//
//------------------... |
b93930bb1134e4974c3682fcba5b6bdae25fb9a5fa13e3fa3cd3deeff5a7d000 | C++ | 8,100 | 269 | //
// 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
//
//------------------... |
5ab7599fc22c60fe7b790060968b6d8b8a363292a464c0168c635152a3dd0ca2 | C++ | 8,108 | 253 | // 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 ... |
eda437c99a94d2db4e3612b7afbe2ef28cb67ec02cc7319ac64de7a76107b0c9 | C++ | 8,112 | 242 | //
// 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)
//
// Disable autolinking fo... |
dfcfda6b9c16de1130940f76884080a9e6717e691bd5d804ce838e510e937389 | C++ | 8,120 | 114 | /*<-
Copyright (c) 2016-2017 Barrett Adair
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 <boost/callable_traits/apply_member_pointer.hpp>
#include "test.hpp"
struct foo;
template<typename Input, typename Outpu... |
6843adc46ffaa0b3a45a50df9167f1bdd2e3ccc109f1e509ebf4db12b50e09a7 | C++ | 8,166 | 248 | //
// generic/stream_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)
//
// Disable au... |
452b451dafe7ac623fc0f13f694062a5e5852667cd639233d29b03730406a455 | C++ | 8,173 | 219 | //
// composed_2.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... |
d19198b57844642ef41db3111f4f0d7826410dc6a62a819938c332e5a37d400c | C++ | 8,181 | 301 | #include "read.h"
#include <sstream>
#include <cstring>
#include "util.h"
Read::Read(string* name, string* seq, string* strand, string* quality, bool phred64){
mName = name;
mSeq = seq;
mStrand = strand;
mQuality = quality;
if(phred64)
convertPhred64To33();
}
Read::Read(const char* name, const char* seq, const... |
668659d86c76e26e8ea4dd1049f50fc3751f495b8926a8e218d2825a39daffa2 | C++ | 8,191 | 217 | #include "genomeSAindex.h"
#include "TimeFunctions.h"
#include "SuffixArrayFuns.h"
#include "ErrorWarning.h"
void genomeSAindex(char * G, PackedArray & SA, Parameters & P, PackedArray & SAi, Genome &mapGen)
{
mapGen.genomeSAindexStart = new uint [mapGen.pGe.gSAindexNbases+1];
mapGen.genomeSAindexStart[0]=0;
... |
9254afb2a2fa8ff3e751d9bfafd2b86f4d389ee8b6e647ad09416dd61962229c | C++ | 8,211 | 171 | #include "GTF.h"
#include "ErrorWarning.h"
#include "streamFuns.h"
#include "TimeFunctions.h"
GTF::GTF(Genome &genome, Parameters &P, const string &dirOut, SjdbClass &sjdbLoci)
: genome(genome), P(P), dirOut(dirOut), sjdbLoci(sjdbLoci), superTrome(P)
{//initialize; load gtf file; returns number of ... |
8351951cc55e0025a080b8db0454ea685f1306cd0782cafc2a91d508bd8ea02e | C++ | 8,245 | 334 | /*
* bayesnet.cpp
* peer
*
* Created by Leopold Parts on 03/11/2010.
* Copyright 2010 __MyCompanyName__. All rights reserved.
*
*/
#include "bayesnet.h"
#include "Eigen/Eigen"
#include "specialfunctions.h"
#include "ossolog.h"
using namespace Eigen;
using alglib::lngamma;
using alglib::psi;
double cNode::... |
46b2df413e8a1d0c083cb8f1b7527ada2aec501bdcaf557538b28fe7a1469f0c | C++ | 8,255 | 295 |
//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... |
f6040da3723299893acdf0c205ec902a74999305f11d6aa23b06b95b054da96b | C++ | 8,273 | 228 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008 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 Softwar... |
97f2721690241aaa1b136a1fe13af47c550a323cc0f39baf60393621c19eec39 | C++ | 8,294 | 297 | //
// experimental/awaitable_operators.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)... |
ff5cfc082f048ac990091983561c8f8d4bee8fb519c3cf249970509f88375d6c | C++ | 8,295 | 232 | #include "../src/cancellable_streambuf.h"
#include <boost/asio/io_context.hpp>
#include <boost/asio/ip/multicast.hpp>
#include <boost/asio/ip/tcp.hpp>
#include <boost/asio/ip/udp.hpp>
#include <boost/asio/ip/v6_only.hpp>
#include <catch2/catch.hpp>
#include <chrono>
#include <condition_variable>
#include <future>
#incl... |
84bbc4874a36b9be0712cea77b9bbe40fd7c12f71eecff0d3ae08efcbb9e9e44 | C++ | 8,322 | 346 | //
// 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 "nodejs_par... |
26c1127a9027c7f83050b1e7a5931a1cce1b97df2206c15c6546daa17ffffb41 | C++ | 8,324 | 227 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra. Eigen itself is part of the KDE project.
//
// Copyright (C) 2008 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
//... |
1005d6418ded77a8c5021371b55325899c676c41ad410d4109e7d3122fe8f79e | C++ | 8,336 | 302 | //---------------------------------------------------------------------------//
// 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... |
3f7550e8930f47770aaeb3c97f6db9c2e67e5786eca48c04395cf3b5fac90a19 | C++ | 8,347 | 270 | // Copyright (c) 2011 Helge Bahmann
// Copyright (c) 2012 Tim Blechmann
//
// 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 memory ordering/ fence operations
// work as exp... |
2f582185418eda6ec7726c50572986bcf3bd39cbec6f63e933d64bf3de6cb23a | C++ | 8,348 | 283 | /***************************************************************************************************************
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... |
cf5c8bcd3f7d7a14a703c78af44db2e2afe424cd76b451c49d194f267813631c | C++ | 8,350 | 95 | /*<-
Copyright (c) 2016 arett Adair
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 <boost/callable_traits/apply_member_pointer.hpp>
#include "test.hpp"
struct a;
struct b;
template<typename Input, typename Outp... |
cf6eff0da5c938f8f8f281828388a59a332ebd8829e27836de082229660b897c | C++ | 8,357 | 250 |
/*
* David Gleich
* Copyright, Stanford University, 2006
*/
/**
* @file max_flow.cc
* Implement the BGL max_flow wrappers.
*/
/*
* 16 April 2006
* Initial version
*
* 8 July 2007
* Added kolmogorov from boost_mod
* Added edmunds_karp from boost
*
* 9 July 2007
* Switched to simple_csr_matrix graph typ... |
95b88eb6b3e1c78e6fa43dd8310d05692a706f713d2e941df721b112e91a3e44 | C++ | 8,390 | 225 | //
// composed_2.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... |
e3f1693494d9b522013fb39e2fb397676b197325f2b173f914ff0e83dd895759 | C++ | 8,414 | 317 | //
// 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
//
//------------------... |
a41286a9723cb5dbee69b0251287402928732ff1b230c66b3c74999e5469b09c | C++ | 8,419 | 262 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2010 Manuel Yguel <manuel.yguel@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 Software ... |
887ddb639d67b1e7e6c4415c43ce858fc85b877dc6cdabb49c92795aa35c2806 | C++ | 8,445 | 275 | #include "resolver_impl.h"
#include "api_config.h"
#include "resolve_attempt_udp.h"
#include "socket_utils.h"
#include "stream_info_impl.h"
#include <asio/io_context.hpp>
#include <asio/ip/basic_resolver.hpp>
#include <asio/ip/udp.hpp>
#include <exception>
#include <loguru.hpp>
#include <memory>
#include <pugixml.hpp>
... |
77be73a1dbdebe0b79913a6735be13ec26cd4e4f9e4f816f6b698ca2e836be34 | C++ | 8,448 | 167 | /*
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.hpp>
#include "test.hpp"
#ifdef BOOST_CLBL_TR... |
8691a177726e31a313c8fd78b6255d0b48d7e1dc13cdbf2e630ef51477762a35 | C++ | 8,453 | 215 | #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... |
c6c274ccfea52a4fa4d1fd8948c88bfad643f15285ce4418458066823c57d580 | C++ | 8,453 | 265 | //---------------------------------------------------------------------------//
// 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://... |
8b0611f21b6cfcf7c6d047158d7348b15f6b87a477e21044051ec9b16b982624 | C++ | 8,457 | 229 | //
// composed_2.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... |
622fb81302e2206abfe7511c9d65b8646bacd5e40eb9d5e14a8d4701804be7ff | C++ | 8,470 | 316 | #include "emitterutils.h"
#include "exp.h"
#include "indentation.h"
#include "exceptions.h"
#include "stringsource.h"
#include <sstream>
#include <iomanip>
namespace YAML
{
namespace Utils
{
namespace {
enum {REPLACEMENT_CHARACTER = 0xFFFD};
bool IsAnchorChar(int ch) { // test for ns-anchor-char
switch ... |
30a985f551d00db28dfcffb03092f62fa6480f5eac46df93d69a28a3cbb624d8 | C++ | 8,527 | 297 |
//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... |
ee3cc1e76af86eac614a513db4c70ac7853015fe858f0026b576f17bb369ae30 | C++ | 8,534 | 230 | //
// c_callback_wrapper.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.hp... |
be8d087b058e807484973411e334be227daf654c715a91fb15896267d7b8ef8b | C++ | 8,571 | 254 | //---------------------------------------------------------------------------//
// Copyright (c) 2013-2014 Mageswaran.D <mageswaran1989@gmail.com>
//
// Book Refered: OpenCL Programming Guide
// Distributed under the Boost Software License, Version 1.0
// See accompanying file LICENSE_1_0.txt or copy at
// http://www.b... |
f0608019ff9447c5f38088642e445baae0f3a7735c19722ec1db756460569861 | C++ | 8,583 | 209 | #include "signalFromBAM.h"
#include <iostream>
#include <regex>
void signalFromBAM(const string bamFileName, const string sigFileName, Parameters P) {
bam1_t *bamA;
bamA=bam_init1();
double nMult=0, nUniq=0;
if (P.outWigFlags.norm==1) {//count reads in the BAM file
BGZF *bamIn=bgzf_open(bamF... |
4351d64d7b975f67ac68e61f38d9fd3aa057f67412fc7b4c65f7c20579ffc6b5 | C++ | 8,606 | 309 | // Boost.Assign library
//
// Copyright Thorsten Ottosen 2003-2004. 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)
//
// For more information, see http://www.boost.org/libs/ass... |
f595c3182ceaa22225a17d2f24970e08d67a2e3e029aeb478a51b9e1e47fd42b | C++ | 8,610 | 232 | /**
* @license
* Copyright 2016 Google Inc.
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or... |
aa7de39aaf74a46ac98fd34ab2b0b6be455f81e2a9a77b44e51554777e7e0c3e | C++ | 8,622 | 276 | // 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 ordering.cpp by Helge Bahmann and Tim Blechmann.
// The test Was modified to use atomic_ref te... |
89708d5eee7b403c6ed838f4973994eba4505341040fbf4d50f5ba3364cfcbe7 | C++ | 8,652 | 228 | //
// 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>... |
dccd988d45418def20a8086fadb7b57a15b9a703e1ccc3586dc3642286c2c297 | C++ | 8,662 | 183 | #include "GTF.h"
#include "serviceFuns.cpp"
#include "streamFuns.h"
//#include <ctime>
#include <map>
#define GTF_extrLoci_size 6
#define GTF_extrTrStart(ii) ((ii)*GTF_extrLoci_size)
#define GTF_extrTrEnd(ii) ((ii)*GTF_extrLoci_size+1)
#define GTF_extrTrID(ii) ((ii)*GTF_extrLoci_size+2)
#define GTF_extrExStart(ii) ((... |
87ea7a17adbe0b4e8a45b36aa2772b854ae00f0780f62101e1342a95fae441a7 | C++ | 8,666 | 230 | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2006-2008 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... |
421b3d6bd227d12830ff929cacc89da1b2b52e41a90e8991ae3a8e14e9328d51 | C++ | 8,668 | 337 | // This file provides the interface between Python and the C++
// implementation of the fast marching method in fast_marching.cpp
#include "Python.h"
#include "numpy/ndarrayobject.h"
#ifndef NPY_IN_ARRAY
#define NPY_IN_ARRAY (NPY_ARRAY_ALIGNED | NPY_ARRAY_ENSUREARRAY | NPY_ARRAY_NOTSWAPPED | NPY_ARRAY_BEHAVED)
#endif... |
daf22e169d2ac63a4dd656c33ebc3d4a3a180bd30954ecbb0ff3a15084b023d1 | C++ | 8,675 | 278 | // Boost.Bimap
//
// Copyright (c) 2006-2007 Matias Capeletto
//
// 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)
// VC++ 8.0 warns on usage of certain Standard Library and API functions that
// can be cause bu... |
d6b343cd9e1da82183399c3b79342cca39a8298cbe2ad9e53754113bc1bc0eed | C++ | 8,679 | 292 | //
// buffers_iterator.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 ... |
82b126e290234c6b689b9b4d81d3dcbc1c0c655db1670284e19f6394d7804d12 | C++ | 8,692 | 232 | //
// c_callback_wrapper.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.hp... |
2c7eaf8bbebf9c0b612e8f8d1966220214d93dd1da8315d1397e994438f5f558 | C++ | 8,710 | 254 | //
// 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... |
f4a30581bce6612edd1de8ac716a2093e73eec35e5488337a9276483371a8c16 | C++ | 8,721 | 238 | //
// network_v6.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:/... |
d8ade6966ccde2a6559a52a05d706511b49142d59a6feb7706bd2a354a9de601 | C++ | 8,723 | 188 | // Generated by using Rcpp::compileAttributes() -> do not edit by hand
// Generator token: 10BE3573-1514-4C36-9D1C-5A225CD40393
#include <RcppArmadillo.h>
#include <Rcpp.h>
using namespace Rcpp;
#ifdef RCPP_USE_GLOBAL_ROSTREAM
Rcpp::Rostream<true>& Rcpp::Rcout = Rcpp::Rcpp_cout_get();
Rcpp::Rostream<false>& Rcpp::R... |
a71901ada753e214e1cd177b32a75e502bd4e30eaa6e2aaa8b93171b1bda8f6a | C++ | 8,770 | 308 | // Copyright 2010, 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 ... |
564b9bee0ca3f86c375e86901d327ca8f47043b7f6a947f09cd646d52c97e053 | C++ | 8,779 | 307 | /*
------------------------------------------------------------------
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 ... |
3b2ffcf75ca99927d767a16546a8a6cb8aa51ea7b09b0e1979ce15d4d76e9f2e | C++ | 8,788 | 263 | //
// generic/raw_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)
//
// Disable autolink... |
aba91e0e76f39ddc1dd8277372264e75ddf5f7f79a0aee6089a42caf434268f6 | C++ | 8,788 | 221 | #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... |
8a916d82ab5a91448c78fac02a658a3d80f0d298469d5b9937819721d980acdf | C++ | 8,798 | 394 | // Guy Shechter
// June 2004
// Variables used for time debugging.
TV tv1,tv2;
TZ tz;
//
// Call this function to build the k-d Tree.
//
Tree *build_kdtree(double *reference, int N, int D, int *index,
int L,int offset) {
Tree *treeptr;
if ( (treeptr = (Tree *) malloc(sizeof(Tree))) == NULL )
mexPrintf... |
6d25d897ba581fc99ae4905aa6aeebabc9b84dbcce82f8f3b87a86e0e7ceb99a | C++ | 8,800 | 255 | //
// 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... |
f78ed99d408e4dbfe94a426f5e769f196f369d3b900c8f981c98c4ca9c30b4db | C++ | 8,822 | 232 | #include <stdlib.h>
#include <stdio.h>
#include <assert.h>
#include <omp.h>
#include <iostream>
#include <sstream>
#include <vector>
#include <fstream>
#include <future>
#include <map>
#include <limits>
#include <string>
#include <boost/program_options.hpp>
#include <boost/noncopyable.hpp>
#include <boost/date_time/... |
a2f0f566f8c7917920af2a7133b8fe3dac7ccff1887d682e9a8aaf82ec00531a | C++ | 8,833 | 232 | //
// 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>... |
d9672c1b51c578a3c2f781917c06a5820a27ffb5df498509562a4544e8c37c46 | C++ | 8,835 | 167 | #include "Parameters.h"
#include "ErrorWarning.h"
#include "streamFuns.h"
#include <fstream>
#include <sys/stat.h>
#include "serviceFuns.cpp"
void Parameters::readFilesInit()
{//initialize read files - but do not open yet
if (readFilesType.at(0) == "Fastx") {
readFilesTypeN=1;
} else if (readFilesTyp... |
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