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Dear @NelleV
After installing the latest iced using pip, I found it gives me following warnings when running ice.
/anaconda3/bin/ice:63: SyntaxWarning: "is" with a literal. Did you mean "=="?
if "--filtering_perc" is None and "--filter_low_counts_perc" not in sys.argv:
/anaconda3/lib/python3.8/site-packages/iced/normalization/_ca_utils.py:8: UserWarning: The API of this module is likely to change. Use only for testing purposes
warnings.warn(
usage: ICE normalization [-h] [--results_filename RESULTS_FILENAME] [--filtering_perc FILTERING_PERC] [--filter_low_counts_perc FILTER_LOW_COUNTS_PERC]
[--filter_high_counts_perc FILTER_HIGH_COUNTS_PERC] [--remove-all-zeros-loci] [--max_iter MAX_ITER] [--eps EPS] [--dense]
[--output-bias OUTPUT_BIAS] [--verbose VERBOSE]
File to load
ICE normalization: error: the following arguments are required: File to load
Best wishes,
Zheng zhuqing
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