<commit_before>#include <fstream>
#include <iostream>
#include <sstream>

#define SEQAN_PROFILE
#ifndef RELEASE	
//#define SEQAN_DEBUG			
//#define SEQAN_TEST	
#endif

#include <string>
#include <seqan/basic.h>
#include <seqan/sequence.h>
#include <seqan/file.h>
#include <seqan/map.h>
#include <seqan/graph_align.h>
#include <seqan/store.h>
//#include <seqan/misc/misc_cmdparser.h>

#include "base.h"
#include "read_gff.h"
#include "read_gtf.h"
#include "create_gff.h"
#include "fusion.h"
#include "overlap_module.h"

#include <seqan/arg_parse.h>

using namespace seqan;
using namespace std;<commit_msg>[INTERNAL] Updated includes.<commit_after>#include <fstream>
#include <iostream>
#include <sstream>

#define SEQAN_PROFILE
#ifndef RELEASE	
//#define SEQAN_DEBUG			
//#define SEQAN_TEST	
#endif

#include <string>
#include <seqan/basic.h>
#include <seqan/sequence.h>
#include <seqan/file.h>
#include <seqan/map.h>
#include <seqan/graph_align.h>
#include <seqan/store.h>
//#include <seqan/misc/misc_cmdparser.h>

#include "base.h"
#include "create_gff.h"
#include "fusion.h"
#include "overlap_module.h"

#include <seqan/arg_parse.h>

using namespace seqan;
using namespace std;
{'fraction_non_alphanumeric': 0.15351993214588636, 'fraction_numerical': 0.0, 'mean_word_length': 5.704545454545454, 'pattern_counts': {'":': 0, '<': 27, '<?xml version=': 0, '>': 27, 'https://': 0, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '5499032', 'n_tokens_mistral': 486, 'n_tokens_neox': 475, 'n_words': 99}