OSError: [Errno 30] Read-only file system

[JuhaHuiskonen]

Hello,

I have just installed PYP (no webinterface).

pyp -h

runs correctly. However, command

pyp -data_mode tomo

gives the following error:

Launching pyp ...
Reading configuration file at: /projappl/project_2009485/usrappl/huiskone/PYP/config.toml
2024-01-27 13:01:02 [INFO] /opt/pyp/bin/run/pyp:3260 | Job 20220253 (v0.6.0) launching on r01c09.bullx using 1 task(s) 
Traceback (most recent call last):
  File "/opt/pyp/bin/run/pyp", line 3341, in <module>
    with open(".pyp_history", "a") as f:
OSError: [Errno 30] Read-only file system: '.pyp_history'
2024-01-27 13:01:02 [INFO] /opt/pyp/bin/run/pyp:3187 | Filesystem      Size  Used Avail Use% Mounted on
2024-01-27 13:01:02 [INFO] /opt/pyp/bin/run/pyp:3187 | tmpfs           250M  4.2M  246M   2% /tmp/pyp
2024-01-27 13:01:02 [INFO] /opt/pyp/bin/run/pyp:4668 | Deleted temporary files from /tmp/pyp/huiskone/20220253

Suggestions how to fix this? Thanks

[abartesaghi]

This probably means that the location you are trying to run pyp from is not writable from inside the container. I believe this issue came up with older versions of singularity, which version are you running: singularity --version? One thing you could try is adding the path /projappl (assuming you are launching pyp from a location under that path) to the [binds] section of the configuration file /projappl/project_2009485/usrappl/huiskone/PYP/config.toml. I don't see why that wouldn't be the case, but is the file .pyp_history in the current directory writable?

[JuhaHuiskonen]

Hi Alberto! Adding the current directory (or rather its parent) to [binds] section of the config.toml solved the issue.

My Singularity (Apptainer version is 1.1.8-1:
singularity --version apptainer version 1.1.8-1