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

1 files changed, 3 insertions, 1 deletions

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)