<commit_before>#!/usr/bin/env perl

use strict;
use warnings;

#Do not run if toil command is not available
my $toil_bin = "/usr/local/bin/toil";
die "\n\ncould not find toil: $toil_bin\n\n" unless (-e $toil_bin);

#Given a list of Toil alignment jobs do the following.
my $toil_cmd_file = "/gscmnt/gc2736/griffithlab_gms/Breast_cfDNA_Ademuyiwa/cwl_toil_runs/results/align_toil_cmds.sh";
my %jobs;

#1. Get the Toil log file path
#2. Get the Toil expected results dir path
#3. Get the Toil working dir path
#4. Get the Toil job store dir path

my $j = 0;<commit_msg>minor<commit_after>#!/usr/bin/env perl

use strict;
use warnings;

#Do not run if toil command is not available
my $toil_bin = "/usr/local/bin/toil";
die "\n\ncould not find toil: $toil_bin (run this in a docker!)\n\n" unless (-e $toil_bin);

#Given a list of Toil alignment jobs do the following.
my $toil_cmd_file = "/gscmnt/gc2736/griffithlab_gms/Breast_cfDNA_Ademuyiwa/cwl_toil_runs/results/align_toil_cmds.sh";
my %jobs;

#1. Get the Toil log file path
#2. Get the Toil expected results dir path
#3. Get the Toil working dir path
#4. Get the Toil job store dir path

my $j = 0;
{'fraction_non_alphanumeric': 0.10888501742160278, 'fraction_numerical': 0.0156794425087108, 'mean_word_length': 4.222727272727273, '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': '6914987', 'n_tokens_mistral': 474, 'n_tokens_neox': 454, 'n_words': 154}