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Ongoing work by @Marc-Jindra , details later
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For now all of the Brieflow testing has been done locally. Long term, we need to consider how Brieflow can most easily be run on Slurm/other clusters.
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1. HPC and RECALL jobs are currently not importing.
2. URLs of Swissmedic seem to be the same.
3. DB Backup is here: http://sl_errors.oddb.org/db/22:00-postgresql_database-ch_oddb-backup.bz2
4. Ap…
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### Site-wide .Renviron file
```sh
RENV_PATHS_ROOT=/renv/local
RENV_PATHS_LIBRARY_ROOT=/workspaces/.local/lib/R/library
RENV_PATHS_CACHE=/renv/cache
R_LIBS=/workspaces/.local/lib/R
```
When…
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I have a MacBook M3 pro, arm64 architecture so all my containers are based on the host kernel, however, the HPC is amd64 so I am getting this error.
FATAL: could not open image /home/w255axo/abcd…
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- [ ] Identify Lesson
- [ ] Reserve a room
- [x] _Book catering - N/A since financial restrictions Oct 2024_
- [x] Add course to HPC roadmap https://github.com/orgs/Newcastle-University-HPC/project…
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CC @melonora @berombau
Working with Zarr files on a HPC may create problems due to Zarr v2. One of the challenges for the hackathon will be to setup a set of benchmarks, which will help evaluate the…
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Hey there,
Is there a way to obtain the assembly graph in non-hpc space?
I am aware one could take the hpc graph and substitute the sequences and node names according to the fasta file and scfm…
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Hi Jared,
Similar to the previous issue, I have not been able to compile smrest. Do you still plan to release pre-compiled binaries? If not, do you have any suggestions?
Relevant commands:
$ gi…
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I wonder if I might be doing something wrong, but it appears that all of my model evaluations are occurring in serial when I believe they should be occurring in parallel.
If I define my `allocation…