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pre-built image now available from Ifremer gitlab registry
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pgdurand authored Oct 4, 2023
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Expand Up @@ -5,7 +5,19 @@ It is worth noting that this BeeDeeM image actually contains both BeeDeeM and [B
Get a pre-built image
---------------------

Simply go to [https://data-dataref.ifremer.fr/bioinfo/ifremer/sebimer/tools/ORSON/](https://data-dataref.ifremer.fr/bioinfo/ifremer/sebimer/tools/ORSON/) to get the lattest combined image of BeeDeeM and [BeeDeeM-Tools](https://gitlab.ifremer.fr/bioinfo/BeeDeeM-Tools); look at 'beedeem-<ver>.sif' file.
Official pre-built images of BeeDeeM are available from [Ifremer-SeBiMER Gitlab container repository](https://gitlab.ifremer.fr/bioinfo/softwares/public-images).

For instance, to get the 5.0.0 release, run this command (isit [BeeDeeM container registry](https://gitlab.ifremer.fr/bioinfo/softwares/public-images/beedeem/container_registry) to review latest available version of BeeDeeM):

```
singularity pull docker://gitlab-registry.ifremer.fr/bioinfo/softwares/public-images/beedeem/beedeem:5.0.0
```

to get and rename under beedeem:5.0.0 the combined image of BeeDeeM and [BeeDeeM-Tools](https://gitlab.ifremer.fr/bioinfo/BeeDeeM-Tools).

Then, to run the image:

```singularity run beedeem_5.0.0.sif bdm -h```

How to build?
-------------
Expand All @@ -16,7 +28,7 @@ How to run?
-----------

See test_container.sh script for a working example.
_

How to configure?
-----------------

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