AssertionError

[mzwaig]

Hello,

I had the same issue as in #17 but I managed to run NAIBR on most of my samples by giving it lost of processors (16 or more) but only 1 threads.

For one sample, I'm getting an additional error (assert len(lengths)>100) and I'm not sure why.

Here's the log file

Traceback (most recent call last):
File "/lb/project/Melissa-abacus/tools/NAIBR/NAIBR.py", line 90, in
main()
File "/lb/project/Melissa-abacus/tools/NAIBR/NAIBR.py", line 61, in main
data = parallel_execute(run_NAIBR,chroms)
File "/lb/project/Melissa-abacus/tools/NAIBR/src/utils.py", line 395, in parallel_execute
data = map(function,input_list)
File "/lb/project/Melissa-abacus/tools/NAIBR/NAIBR.py", line 35, in run_NAIBR
cands,p_len,p_rate = get_candidates(discs,reads_by_LR)
File "/lb/project//Melissa-abacus/tools/NAIBR/src/get_reads.py", line 154, in get_candidates
p_len,p_rate,barcode_overlap = get_distributions(reads_by_LR)
File "/lb/project/Melissa-abacus/tools/NAIBR/src/distributions.py", line 120, in get_distributions
p_len = get_length_distr(LRs)
File "/lb/project/Melissa-abacus/tools/NAIBR/src/distributions.py", line 126, in get_length_distr
assert len(lengths)>100
AssertionError

Thanks for you help,
Melissa

[zuzanahalenkova]

Hello, I have encountered the same error, did you manage to overcome it somehow?
Thank you for your help,
Zuzana

[pontushojer]

@zuzanahalenkova I implemented a fix to what possibly could be the issue here in the PR #23. Try it out and see if that works.