numba.core.errors.UnsupportedError: Failed in nopython mode pipeline (step: analyzing bytecode)

[ZongzhiWu]

Error Traceback (most recent call last): File "/home/wuzongzhi2022phd/miniconda/envs/propagate/bin/Propagate", line 273, in total = modules.extract_coverage(bamfile, read_id, lengths, mask, outfile, prophage_dict, effect, ratio_cutoff, prophage_dict_frags, prophage_lengths, min_breadth, min_cov, args.clean, spaces) File "/home/wuzongzhi2022phd/miniconda/envs/propagate/bin/modules.py", line 340, in extract_coverage written, total = write_coverages(outfile, prophage_covs, prev, avg, med, sd, eff_host, effect, ratio_cutoff, written, total, min_breadth, min_cov, spaces) File "/home/wuzongzhi2022phd/miniconda/envs/propagate/bin/modules.py", line 447, in write_coverages d = cohenD(phage_mean, phage_sd, avg, sd) File "/home/wuzongzhi2022phd/miniconda/envs/propagate/lib/python3.6/site-packages/numba/core/dispatcher.py", line 418, in _compile_for_args error_rewrite(e, 'unsupported_error') File "/home/wuzongzhi2022phd/miniconda/envs/propagate/lib/python3.6/site-packages/numba/core/dispatcher.py", line 358, in error_rewrite reraise(type(e), e, None) File "/home/wuzongzhi2022phd/miniconda/envs/propagate/lib/python3.6/site-packages/numba/core/utils.py", line 80, in reraise raise value.with_traceback(tb) numba.core.errors.UnsupportedError: Failed in nopython mode pipeline (step: analyzing bytecode) 'try' block not supported until python3.7 or later

File "../../../miniconda/envs/propagate/bin/modules.py", line 412: def cohenD(phage_mean, phage_sd, host_mean, host_sd):

"""
try:
^

Log Command: /home/wuzongzhi2022phd/miniconda/envs/propagate/bin/Propagate -f /home/wuzongzhi2022phd/03HSH/19PropagAtE/scanfold.fasta -r /home/wuzongzhi2022phd/03HSH/01cleandata/BC_SD_1.fastq /home/wuzongzhi2022phd/03HSH/01cleandata/BC_SD_2.fastq -v /home/wuzongzhi2022phd/03HSH/19PropagAtE/manual_prophage_coordinates.tsv -o /home/wuzongzhi2022phd/03HSH/19PropagAtE/PropagAtE_output/BC_SD --clean -t 48

Date: 2023-05-11 Time: 20:30:05 Program: PropagAtE v1.1.0

Time (min) Log 0.0 Reads input identified, using 48 threads to run Bowtie2. 16.1 Checking if BAM file needs to be sorted 16.1 Generating a list of all prophage regions 16.1 Number of prophage regions identified: 1037 16.1 Number of unique host regions identified: 1034 16.1 Extracting coverage and performing statistical analyses

[ZongzhiWu]

Fixed

[alvinn011]

how did you fix it??