Hi Ken, [ CCing the list since this is pretty much public]
On Tue, 12 Jan, 2021, 1:37 pm Ken Yamaguchi, <[email protected]> wrote: > Hi Andreas and Nilesh, > > If I run lumpyexpress on bullseye (with just lumpy-sv and dependencies > installed), I get > > Sourcing executables from /etc/lumpy-sv/lumpyexpress.config ... > > Checking for required python modules (/usr/bin/python3)... > Traceback (most recent call last): > File "<string>", line 1, in <module> > AttributeError: module 'importlib' has no attribute 'util' > > Same behavior on unstable. Some searching makes me think it's related to > Python 3.9, and the LUMPY README says LUMPY Express requires Python 2.7. > Thanks a lot for investigating this. However, not being a bioinformatics I do not have an idea as to what data is exactly fit for lumpy-sv to do an analysis on. Would you mind sharing * The (processed) data files that you're trying to run lumpyexpress on? * The exact command that you invoked? This will help me debug this further. Thanks again for testing, which might have gone un-noticed otherwise. Nilesh >
