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If you run `fetch_containers.sh` it nicely skips downloading a container image if it's already there. However, it then also skips reinstalling the transparent singularity scripts. But these two things…
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URL not found:
https://jointcenterforsatellitedataassimilation-jedi-docs.readthedocs-hosted.com/en/latest/developer/jedi_environment/singularity.html
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Hello!
Since our HPC does not work very well with conda, I tried to convert the hadge process-specific conda environments into Docker/Singularity containers and then run the workflow via Singularit…
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Roddy should be able to submit cluster jobs wrapped into Singularity/Apptainer containers.
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Getting this for all MRIQC runs for any dataset:
```Traceback (most recent call last):
File "/opt/conda/lib/python3.11/pathlib.py", line 1116, in mkdir
os.mkdir(self, mode)
FileNotFoundErr…
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*Migrating from https://bitbucket.org/snakemake/snakemake/issues/857/add-singularity-arguments-for-specific*
The original issue from Josh Wheaton:
> After playing around with singularity and snakema…
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## Description
[Singularity](http://singularity.lbl.gov/) is a container-based infrastructure tool specifically geared towards HPC clusters. From my understanding, it roughly combines the portability…
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Since the Nvidia driver has been updated, it appears that singularity is no longer installed as I keep getting `singularity: command not found` errors? Could we get confirmation on when this will be r…
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### Why it needs to get done
For the DSS we want to execute containers. As an alternative to Docker Singularity containers come into play.
### What needs to get done
- Find out how to run GPU workl…
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ATM we have an "ultimate" singularity container but of a single version. @bpoldrack pointed to the docs outlining how to establish multiple versions:
In the light of https://github.com/singularityh…