-
Some research workloads are composed of multiple, individual steps submitted as a single HPC batch job. In the simplest cases, the entry point to the job is a parent script that starts up the individu…
-
The readme talks about converting conda environments to Docker containers but at the moment the tool seems focused on Singularity. Have I missed something?
@DRSEI
-
Update Singularity and Docker scripts to be consistent with `riboviz/docs/user/install.md` and `riboviz/docs/developer/install.md` instructions as they are when RiboViz 2.1 is released.
Update `doc…
-
[Singularity is now Apptainer](https://apptainer.org/news/community-announcement-20211130/) but this change isn't reflected in this course at all. For example, the top-level README points to
> htt…
-
From the step of `rnaseqc_call`, 8 bam files returned with an error message indicating `BAM file shares no contigs with GTF`
and this error message is preventing moving forward to the next step for…
-
I'm reading over the overview draft (really exciting!) and I'd like to brainstorm how containers fit into this model. Right now we have them as a part of composition:
> Bindmount libraries into con…
vsoch updated
3 years ago
-
While running "sos run GWAS_QC.ipynb king --cwd output/ --genoFile ZOD14598_AD_GRM_WGS_2021-04-29_chr20.recalibrated_variants.leftnorm.filtered.bed --name test --keep-samples sampleSheetAfterQC.filter…
-
Hi there,
I'm trying to build the singularity containers but keep getting an error message when it comes to building alphafold.sif. I have successfully built the base.sif container, however when I …
-
### Description of the bug
Hi! I was trying to download a non nf-core nextflow pipeline using `nf-core download`, which I understand could (or should?) work. However when I tried this for `epi2me-lab…
-
### Version of Apptainer
What version of Apptainer (or Singularity) are you using? Run
`apptainer --version` (or `singularity --version`).
```
$ apptainer --version
apptainer version 1.1.3
…