Open dulunar opened 3 years ago
We only have a chance at fixing these issues when we get a reproducible example. Provide us with a run and examples that I can replicate and I'll take a look.
We only have a chance at fixing these issues when we get a reproducible example. Provide us with a run and examples that I can replicate and I'll take a look.
The bam file is very large that I can't upload it, sorry.
@dulunar .. just curious. 14.04 is quite ancient. Any chance that you can try on a more recent version of Ubuntu or any other linux?
sambamba version: 0.7.1, downloaded binary from release's page and uncompress for using.
Feb 10 01:39, when I used command as follow:
But it was deadlock at Feb 10 01:40. There are just 42 bam files:
And I checked the /var/log/messages, I found this:
I tried to use version 0.8.0, still deadlocked. The log:
Now I am trying to use version 0.6.6 for testing if it's work. But it still deadlocked, and there are 298 bam files:
The log/messages:
I don't know what happened, in previous, this command works normally, but sometimes it was deadlocked.
Originally posted by @dulunar in https://github.com/biod/sambamba/issues/189#issuecomment-776646269