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@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Christian Hundt ([email protected]) | ||
* | ||
* based on an alignment algorithms implementation by Christian Hundt | ||
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|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* | ||
* 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 | ||
|
@@ -26,7 +26,6 @@ | |
#include <algorithm> | ||
#include <iostream> | ||
#include <memory> | ||
//#include <mutex> | ||
#include <vector> | ||
|
||
|
||
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* | ||
* 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 | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* | ||
* 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 | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* | ||
* 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 | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* | ||
* 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 | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 Robin Kobus ([email protected]) | ||
* Copyright (C) 2016-2022 Robin Kobus ([email protected]) | ||
* | ||
* 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 | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 Robin Kobus ([email protected]) | ||
* Copyright (C) 2016-2022 Robin Kobus ([email protected]) | ||
* | ||
* 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 | ||
|
@@ -38,7 +38,6 @@ namespace mc { | |
|
||
|
||
/*************************************************************************//** | ||
* TODO | ||
* @brief (integer) key -> value hashed multimap | ||
* optimized for many values per key (pay attention to max_bucket_size()! | ||
* Each bucket contains only one key and all values mapped to that key. | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 Robin Kobus ([email protected]) | ||
* Copyright (C) 2016-2022 Robin Kobus ([email protected]) | ||
* | ||
* 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 | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 Robin Kobus ([email protected]) | ||
* Copyright (C) 2016-2022 Robin Kobus ([email protected]) | ||
* | ||
* 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 | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 Robin Kobus ([email protected]) | ||
* Copyright (C) 2016-2022 Robin Kobus ([email protected]) | ||
* | ||
* 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 | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* | ||
* 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 | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* | ||
* 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 | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* | ||
* 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 | ||
|
@@ -21,19 +21,15 @@ | |
|
||
|
||
#include "options.h" | ||
#include "filesys_utility.h" | ||
|
||
#include <string> | ||
#include <fstream> | ||
#include <iostream> | ||
#include <vector> | ||
|
||
|
||
namespace mc { | ||
|
||
|
||
//------------------------------------------------------------------- | ||
void main_mode_help(const cmdline_args& args) | ||
void main_mode_help (const cmdline_args& args) | ||
{ | ||
if (args.size() < 3 || args[1] != "help" || args[2] == "help") { | ||
|
||
|
@@ -42,7 +38,7 @@ void main_mode_help(const cmdline_args& args) | |
} | ||
else { | ||
std::cout << | ||
"MetaCache Copyright (C) 2016-2021 André Müller & Robin Kobus\n" | ||
"MetaCache Copyright (C) 2016-2024 André Müller & Robin Kobus\n" | ||
"This program comes with ABSOLUTELY NO WARRANTY.\n" | ||
"This is free software, and you are welcome to redistribute it\n" | ||
"under certain conditions. See the file 'LICENSE' for details.\n\n"; | ||
|
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---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* | ||
* 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 | ||
|
@@ -29,9 +29,7 @@ | |
#include <array> | ||
#include <iostream> | ||
#include <map> | ||
#include <stdexcept> | ||
#include <string> | ||
#include <typeinfo> | ||
#include <utility> | ||
#include <vector> | ||
|
||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,7 +2,7 @@ | |
* | ||
* MetaCache - Meta-Genomic Classification Tool | ||
* | ||
* Copyright (C) 2016-2021 André Müller ([email protected]) | ||
* Copyright (C) 2016-2024 André Müller ([email protected]) | ||
* & Robin Kobus ([email protected]) | ||
* | ||
* This program is free software: you can redistribute it and/or modify | ||
|
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