<commit_before>#!/usr/bin/perl -w

#TODO: Take multiple hmm names at the command line
#
use strict;
use lib qw(/iob_home/jmblab/statonse/apps/perlmod/bioperl-live-latest/);
use Bio::SearchIO;                                                  
use Getopt::Long;                                                   
use File::Basename;

my $infile; 
my $outfile;
my $seqfile;
my $hmmname;
my $hmmseq;
my $seq;

GetOptions(
	   "i|infile=s"      => \$infile,
	   "o|outfile=s"     => \$outfile,
	   "s|seq=s"         => \$seqfile,
	   "h|hmmname=s"     => \$hmmname,
	   );
<commit_msg>remove custom perl and lib paths<commit_after>#!/usr/bin/env perl

#TODO: Take multiple hmm names at the command line
#
use strict;
use warnings;
use Bio::SearchIO;                                                  
use Getopt::Long;                                                   
use File::Basename;

my $infile; 
my $outfile;
my $seqfile;
my $hmmname;
my $hmmseq;
my $seq;

GetOptions(
	   "i|infile=s"      => \$infile,
	   "o|outfile=s"     => \$outfile,
	   "s|seq=s"         => \$seqfile,
	   "h|hmmname=s"     => \$hmmname,
	   );

{'fraction_non_alphanumeric': 0.1409455842997324, 'fraction_numerical': 0.0, 'mean_word_length': 1.6778042959427208, 'pattern_counts': {'":': 0, '<': 3, '<?xml version=': 0, '>': 11, 'https://': 0, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 8, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '3688179', 'n_tokens_mistral': 415, 'n_tokens_neox': 380, 'n_words': 90}