Pontus Freyhult

The bus error would just be java crashing. @jacorvar do I understand correctly that this is the local executor in a single node slurm job where you reverse 240 Gbyte...

Ok, IIRC the nextflow local executor does not try to keep track of/enforce resource usage/availability. I'd recommend running with the slurm executor. Alternatively, you might get these runs to go...

Does singularity work "normally"? Can you shell into the image? I assume this is a non-suid install? Do you know how NSS (name services switch)/userinfo is set up (local accounts/LDAP/something...

What version of nextflow is this running with? I don't recall enough keywords to find the issue and thus which version should be safe, but it does sound a lot...

My analysis here would be that when running docker with the `-u $(id -u):$(id -g)`, there is no user information available inside the container, so `$HOME` will likely be set...

I also think pointing `HOME` somewhere would be best (new temporary directory or possibly the current work directory for simplicity). Configuring tools seems reliant on additional testing and seems an...

For consistency (with respect to not reading random configuration files), it's probably desirable to have docker and singularity behave similarly (ignore bound directories/set up home). That likely means a static...

Hrrm, now that I'm rereading this, I might not have completely understood the original query from discussing with Phil - I read it at the time as reaching a server...

I don't see why - supporting this would reasonably be possible by providing an alternate URL/address to connect to.

It would need an active connection for feedback to work, yes. I don't see any reason it couldn't keep an active connection, though. (I'm not sure if ssh in tower...