<commit_before>=pod 

=head1 NAME

Bio::EnsEMBL::EGPipeline::PostCompara::RunnableDB::GeneCoverage

=cut

=head1 DESCRIPTION

 This Runnable uses the cigar lines generated from a Compara run to generate 
 consistency metrics for Compara clusters. Specifically, it compares the 
 extent of each protein sequence in the alignment to the extent of the cluster consensus.

=head1 MAINTAINER

$Author: ckong $

=cut
package Bio::EnsEMBL::EGPipeline::PostCompara::RunnableDB::GeneCoverage;

use warnings;
use Data::Dumper;
use Bio::EnsEMBL::Registry;
use Bio::EnsEMBL::Utils::SqlHelper;
use base ('Bio::EnsEMBL::EGPipeline::PostCompara::RunnableDB::Base');

sub param_defaults {
    return {
          
	   };
}

my ($root_id, $division, $sql_geneTree);

sub fetch_input {
    my ($self) = @_;
<commit_msg>code cleanup<commit_after>=pod 

=head1 NAME

Bio::EnsEMBL::EGPipeline::PostCompara::RunnableDB::GeneCoverage

=cut

=head1 DESCRIPTION

 This Runnable uses the cigar lines generated from a Compara run to generate 
 consistency metrics for Compara clusters. Specifically, it compares the 
 extent of each protein sequence in the alignment to the extent of the cluster consensus.

=head1 AUTHOR 

ckong

=cut
package Bio::EnsEMBL::EGPipeline::PostCompara::RunnableDB::GeneCoverage;

use warnings;
use Data::Dumper;
use Bio::EnsEMBL::Registry;
use Bio::EnsEMBL::Utils::SqlHelper;
use base ('Bio::EnsEMBL::EGPipeline::PostCompara::RunnableDB::Base');

sub param_defaults {
    return {
          
	   };
}

my ($root_id, $division, $sql_geneTree);

sub fetch_input {
    my ($self) = @_;

{'fraction_non_alphanumeric': 0.10788643533123028, 'fraction_numerical': 0.0037854889589905363, 'mean_word_length': 5.3694779116465865, 'pattern_counts': {'":': 0, '<': 3, '<?xml version=': 0, '>': 3, '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': '2770389', 'n_tokens_mistral': 566, 'n_tokens_neox': 507, 'n_words': 146}