Problem with calculate-cnv

[jmtobin257]

I am trying to get calculate-cnv to work but am getting this error message:

calculate-cnv -H MCUI2066C_10000.cool -g hg38
-e Arima --output MCUI2066C_10000.CNV-profile.bedgraph
root INFO @ 03/11/25 04:06:42:

ARGUMENT LIST:

Cool URI = MCUI2066C_10000.cool

Reference Genome = hg38

Enzyme = Arima

Output Path = MCUI2066C_10000.CNV-profile.bedgraph

Cache Folder = .cache

Log file name = cnv-calculation.log

Traceback (most recent call last):
File "/opt/conda/envs/neoloop/bin/calculate-cnv", line 189, in
run()
File "/opt/conda/envs/neoloop/bin/calculate-cnv", line 87, in run
from neoloop.cnv import runcnv
File "/opt/conda/envs/neoloop/lib/python3.10/site-packages/neoloop/cnv/runcnv.py", line 6, in
from cooler import balance
ImportError: cannot import name 'balance' from 'cooler' (/opt/conda/envs/neoloop/lib/python3.10/site-packages/cooler/init.py)

I am wondering if you have encountered this before with this version of cooler (0.13.0)?

[7insong]

I think this is a version issue with Cooler. Simply updating to the latest version or reverting to an older version should resolve the problem.