From 0732d29b06f67ec8fb54958ff453699b4f0bdb4d Mon Sep 17 00:00:00 2001 From: Calvin Date: Wed, 27 Feb 2013 13:23:41 -0500 Subject: Update multifasta_to_otu.py for new quikr function * Removed an old comment from the quikr function * Load the trained matrix from multifasta main. * This will reduce load times as we only need to call it once --- multifasta_to_otu.py | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) (limited to 'multifasta_to_otu.py') diff --git a/multifasta_to_otu.py b/multifasta_to_otu.py index 4a46be6..3e14fcf 100755 --- a/multifasta_to_otu.py +++ b/multifasta_to_otu.py @@ -12,7 +12,6 @@ import platform # our defaults kmer = 6 lamb = 10000 -trained_matrix = "" output_directory = "" input_directory = "" @@ -65,6 +64,9 @@ def main(): if args.kmer is not None: kmer = args.kmer + # Load trained matrix + trained_matrix = np.load(args.trained_matrix); + fasta_list = os.listdir(args.input_directory) pool = Pool(processes=jobs) -- cgit v1.2.3