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see dib-lab/eelpond/issues/17
`dammit databases --install --database-dir /home/titus/eelpond/databases --busco-group metazoa --n_threads 4`
```
Installing...
#### Run Tasks
- [ ] download:Pf…
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[2020-09-25T151835.613199.snakemake.log](https://github.com/snakemake/snakemake/files/5285271/2020-09-25T151835.613199.snakemake.log)
**Snakemake version**
Both 5.23.0 and 5.25.0 were affected.
…
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Snakemake version: 7.19.1
I am running a workflow submitting jobs to a PBSpro cluster. For some (currently unknown) reason, I get cluster submission errors like this:
`Error submitting jobscript (…
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**Is your feature request related to a problem? Please describe.**
Snakemake [service rules](https://snakemake.readthedocs.io/en/latest/snakefiles/rules.html#service-rules-jobs) could be used for a…
zmbc updated
2 months ago
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[//]: # (Before raising the feature request, please check to see if an existing feature request already exists.)
**Description**
Running in a spot context is very convenient, unfortunately when a…
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Hi Rhys,
I'm running aviary recover via slurm. I'm submitting the pipeline as a single job which then sends off each rule as a new job. The rule refine_metabat2 is running out of memory and being k…
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### Description of feature
https://www.biorxiv.org/content/10.1101/2022.01.31.478527v1
FYI the preprint that @Midnighter linked used PacBio's snakemake workflow for HiFi/nanopore reads with MEGA…
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**Snakemake version**
5.15
**Describe the bug**
I'm able to trigger a bug with an undefined variable.
**Logs**
```
Traceback (most recent call last):
File "/fast/projects/medgen_resea…
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**Snakemake version**
version -> 5.19.2
**Describe the bug**
When I am running my pipeline in snakemake with a slurm cluster the jobs
are killed due to memory limits but snakemake seems to be …
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The following command line fails on franklin:
```
cd /mnt/stripe/shpynov/chipseq-smk-pipeline
source activate snakemake
snakemake all --use-conda --cores 28 --config work_dir=/mnt/stripe/bio/raw-…
olegs updated
4 years ago