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1 : mkubal 1.1 #provide SEED genome id as first argument and a amino acid fasta file as second argument
2 :     $genome = shift(@ARGV);
3 :     $input_file = shift(@ARGV);
4 :     $output_file = "/vol/seed-attributes/computation_results/Pfam_TimeLogic_HMM_Search/".$genome;
5 :     $command = "/decypher/cli/bin/dc_template_rt -template hmm_aa_vs_hmm -query $input_file -targ HMMs_of_global_pfam > $output_file";
6 :     system $command;

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