andersonbrito / subsampler Goto Github PK

I keep receiving a ValueError code. I've tried using the default values and the correct formatted values and there is no change in the error message.

snakemake correct_bias
Building DAG of jobs...
Using shell: /bin/bash
Provided cores: 4
Rules claiming more threads will be scaled down.
Job counts:
count jobs
1 correct_bias
1 epiweek_conversion
1 genome_matrix
3

[Sun Sep 12 14:47:08 2021]
Job 2:
Generate matrix of genome counts per day, for each element in column="code"

• Loading genome metadata

• Converting code into codes (acronyms)

• Removing genomes with incomplete dates

• Filtering genomes by start and end dates

• Available genomes

Traceback (most recent call last):
File "scripts/get_genome_matrix.py", line 171, in
print('\tOldest collected sampled = ' + df[date_col].min().strftime('%Y-%m-%d'))
File "pandas/_libs/tslibs/nattype.pyx", line 60, in pandas._libs.tslibs.nattype._make_error_func.f
ValueError: NaTType does not support strftime
[Sun Sep 12 14:47:09 2021]
Error in rule genome_matrix:
jobid: 2
output: outputs/genome_matrix_days.tsv
shell:

	python3 scripts/get_genome_matrix.py 			--metadata data/metadata_nextstrain.tsv 			--index-column code 			--extra-columns country 			--date-column date 			--output outputs/genome_matrix_days.tsv
	
    (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)

Shutting down, this might take some time.
Exiting because a job execution failed. Look above for error message

Is there a recommendation to remedy this?