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For a while I've been playing around with [this prototype repo](https://github.com/jacobtomlinson/dask-runners) which implements Dask Runners for HPC systems. I'm motivated to reduce the fragmentation…
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### Expected behavior
I want to run the srun command of slurm on the host machine in the apptainer container. Regardless of the path of the srun command on the host (because the environment of slur…
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Hi!
I work on a remote server where neither `Docker` nor an internet connection is available. I want to use `methylr` with `singularity`.
I created a singularity image on my local linux machine …
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* Git and GitHub
* Introduction to R
* Reproducible scientific computing (Wilson et al. [2014](http://dx.doi.org/10.1371/journal.pbio.1001745) and [2016](http://arxiv.org/pdf/1609.00037v1.pdf))
* D…
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Submit mpi job on HPC Clusters.
bsub -W 6000 -n 8 -o ./out/out.%J -e ./err/err.%J mpiexec -n 8 /share2/zyu9/miniconda/bin/python2.7 HPC_Zhe_norm.py
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**Describe the bug**
Cannot compile QMCPACK v3.17.1 using Intel's compiler suite
**To Reproduce**
1. Fetch vanilla version [3.17.1](https://github.com/QMCPACK/qmcpack/archive/refs/tags/v3.17.1.ta…
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Hello,
I have been working with your paper and I am impressed by the methodology and results presented. However, I noticed that the paper does not provide specific details about the computational r…
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- Standardized template so configuration files fit with scripts.
- Current command from integration server: sbatch [script/path] [number_of_jobs] [number_of_parallel_jobs]
- Need to handle which file…
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Hi,
Our hpc runs 2 slurm clusters, this requires us to provide the -M or --cluster option to most slurm related commands like sbatch, squeue and scancel. This option is unsupported in snakemake 8+ …
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Hello! Thank you so much for developing & maintaining a great tool :)
Could you please help me figure out why I had to replace NaN values for "Seurat_cell_type" to "Unknown" ?
Following the pyci…