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Merge pull request #192 from arontommi/dev

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Documentation for Bianca
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Maxime Garcia 2020-12-09 11:09:23 +01:00 committed by GitHub
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@ -73,3 +73,15 @@ All jobs are limited to 1 hour to be eligible for this queue and only one job al
It is not suitable for use with real data. It is not suitable for use with real data.
To use it, submit with `-profile uppmax,devel`. To use it, submit with `-profile uppmax,devel`.
## Running on Bianca
For security reasons, there is no internet access on Bianca so you can't download from or upload files to the cluster directly. Before running a nf-core pipeline on Bianca you will first have to download the pipeline and singularity images needed elsewhere and transfer them via the wharf area to your Bianca project.
You can follow the guide for downloading pipelines [for offline use](https://nf-co.re/tools#downloading-pipelines-for-offline-use). Note that you will have to download the singularity images as well.
Next transfer the pipeline and the singularity images to your project. Before running the pipeline you will have to indicate to nextflow where the singularity images are located by setting `NXF_SINGULARITY_CACHEDIR` :
`export NXF_SINGULARITY_CACHEDIR=Your_Location_For_The_Singularity_directory/.`
You should now be able to run your nf-core pipeline on bianca.