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| author | Calvin <calvin@EESI> | 2013-03-13 17:26:46 -0400 |
|---|---|---|
| committer | Calvin <calvin@EESI> | 2013-03-13 17:26:46 -0400 |
| commit | 2818dc1df11ea3e91a759a177071d3014d87c705 (patch) | |
| tree | 1f7ddb8c06385f031be2e5944bc265ecf7c654d0 /src/python/quikr.py | |
| parent | 1e59439b88e1649ecf2d1b58cff0836f01c1068c (diff) | |
fix bad old commit
Diffstat (limited to 'src/python/quikr.py')
| -rwxr-xr-x | src/python/quikr.py | 4 |
1 files changed, 2 insertions, 2 deletions
diff --git a/src/python/quikr.py b/src/python/quikr.py index 368ab31..e1ed69d 100755 --- a/src/python/quikr.py +++ b/src/python/quikr.py @@ -56,12 +56,12 @@ def train_matrix(input_file_location, kmer): kmer_file_name = str(kmer) + "mers.txt" - kmer_output = Popen(["generate_kmers", str(kmer)], stdout=PIPE) - input_file = Popen(["probabilities-by-read", str(kmer), input_file_location] , stdout=PIPE) + input_file = Popen(["probabilities-by-read", str(kmer), input_file_location, kmer_file_name] , stdout=PIPE) # load and normalize the matrix by dividing each element by the sum of it's column. # also do some fancy rotations so that it works properly with quikr matrix = np.loadtxt(input_file.stdout) + matrix = np.rot90(matrix) matrix = matrix / matrix.sum(0) |