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Update average.py #159

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8 changes: 4 additions & 4 deletions maxatac/analyses/average.py
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Original file line number Diff line number Diff line change
Expand Up @@ -24,7 +24,7 @@ def run_averaging(args):
4) Loop through each entry in the chromosome sizes dictionary and calculate the average across all inputs
5) Write the bigwig file

:param args: bigwig_files, output_dir, name, chromosomes, chromosome_sizes
:param args: bigwig_files, output_dir, name, chromosomes, chromosome_sizes, max_zooms

:return: A bigwig file
"""
Expand Down Expand Up @@ -60,7 +60,7 @@ def run_averaging(args):
header = [(x, chromosome_sizes_dictionary[x]) for x in sorted(args.chromosomes)]

# Write the header to the file
output_bw.addHeader(header)
output_bw.addHeader(header, maxZooms = args.max_zooms)

# TODO Use parallel processing to speed up. Must write chromosomes in same order as header
# Loop through the chromosomes and average the values across files
Expand All @@ -86,7 +86,7 @@ def run_averaging(args):
ends=chrom_length,
span=1,
step=1,
values=chrom_vals.tolist()
values=chrom_vals.astype(np.float16).tolist()
)

# Measure time of averaging
Expand All @@ -99,4 +99,4 @@ def run_averaging(args):

logging.info("Total averaging time: %d:%d:%d.\n" % (hours, mins, secs))

logging.info("Results saved to: " + output_bigwig_filename)
logging.info("Results saved to: " + output_bigwig_filename)