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**Describe the bug**
When I start my casa-dev env, the following error message occurs :
`/.singularity.d/runscript: 91: /home/souedet/.bashrc: Bad substitution`
The error is because dash is the def…
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Provide an overview of containers with focus on singularity
We want to cover items relevant here which are
- What are containers
- What is singularity
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We only build the CPU version of the container. We should use a different base image to also build the gpu version
- [ ] test on an example container how to use the GPU with Singularity
- [ ] figu…
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### High-level description
I am trying to develop an Open OnDemand (OOD) app for ParaViewWeb (Visualizer, Divvy, Lite). I was able to create a Singularity image with ParaView 5.12.1 (headless) pack…
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It could be beneficial to spawn instances of the containers in the background and invoke binaries in the foreground when needed, as converting to temporary sandboxes (as required in some environments,…
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Docker is popular, but other containers are used. For instance, some at NIH use Singularity
- [x] Create Docker container
- [ ] Create Kubernetes cluster driven by said Docker container
- [ ] Crea…
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Titles:
- Managing bioinformatic software and pipelines
- How to do bioinformatics like a professional bioinformatician
- Reproducible and scalable bioinformatics for researchers
Prerequisite…
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Hi,
I installed genome-seek through conda:
```
mamba create -c conda-forge -c bioconda -p /mycondaEnv/snakemake_singularity snakemake singularity
git clone https://github.com/OpenOmics/genome-…
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I want to use my newly assembled bacterial genomes with some reference genomes to generate a phylogeny tree. I found your tool very interesting.
I am using a singularity container to run GToTree i…
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I'm trying to make use of fuse-overlayfs inside a Singularity container (based on CentOS 7) by using its new `--fusemount `option. Ideally I want to use this to make a writable overlay on top of a rea…