Thank you for your soft mOTUpan, looks interesting.
I got this issue while I tried to reproduce your analysis on Prochlorococcus clade A.
Do you have any idea about the reason for this error?
mOTUpan.py --faas annot/*/*.faa -o output.tsv
387 genomes in your clade
Creating mOTU for mOTUpan
concatenating all faas
running mmseqs easy-cluster with params --min-seq-id 0.8 --cov-mode 0 -c 0.8 in /tmp/CJGIVWYA_mmseqsCluster_3twi_jpa
For 425577 CDSes we got 25264 gene-clusters
iteration 1 : 0 sum_abs_LLHR: 11857620.542042103
iteration 2 : 0 sum_abs_LLHR: 1378284.0516655238
Your CJGIVWYA_-run for 387 genomes (with mean initial completeness 95.00) resulted
in a core of 0 traits with a total sum of loglikelihood-ratios 1378284.05 and a corrected
mean completness of 0.01, resulting to a estimated mean traits per genome count of 10968087.86
Traceback (most recent call last):
File "[HIDDEN_PATH]/mOTUpan.py", line 163, in <module>
motupan(args)
File "mOTUpan.py", line 123, in motupan
print(motu.pretty_pan_table(), file = out_handle)
File "[HIDDEN_PATH]//lib/python3.7/site-packages/mOTUlizer/classes/mOTU.py", line 313, in pretty_pan_table
out_dict[k]['type'] = 'core' if k in stats['core'] else 'accessory'
TypeError: argument of type 'NoneType' is not iterable
Hi @moritzbuck,
Thank you for your soft mOTUpan, looks interesting.
I got this issue while I tried to reproduce your analysis on Prochlorococcus clade A.
Do you have any idea about the reason for this error?
My .faa files are provided by prokka.
Thx. Guillaume.