Docker rock for survival package

[tombisho]

Is this the repo I should use to create a Rock image for survival analysis?

[ymarcon]

See https://github.com/obiba/docker-rock-demo/tree/survival

[tombisho]

Thanks, I will certainly make use of that 😀

Maybe my question should have been, is this the correct home for a survival analysis image, rather than one that is in a "demo" repo?

[ymarcon]

dsSurvival package is not in the official Datashield's Github. You should build and publish your own image, using this example. If you do so, I'll use it in opal-demo.obiba.org in place of this demo one.

[StuartWheater]

I was wondering what is the plan if an docker image is needed which contains both dsMediation, dsExposome and dsSurvival?
Do we need a Community Docker Hub account?

[ymarcon]

We can't do all combinations, then it is up to the consortium to make their own images. And they would probably use a private docker repo, just like Inesctec does with Coral for Recap.

[tombisho]

Yes although it might be nice for consortia to share to reduce work?

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On Thu, 16 Jun 2022, 17:15 Yannick Marcon, ***@***.***> wrote: We can't do all combinations, then it is up to the consortium to make their own images. And they would probably use a private docker repo, just like Inesctec does with Coral for Recap. — Reply to this email directly, view it on GitHub <#2 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ACBAPNRFC4QNCVXJPLRJW3LVPNG57ANCNFSM5Y7EUNAQ> . You are receiving this because you authored the thread.Message ID: ***@***.***>

[tombisho]

And yes I can see that I should create my image in the Github where the package has been created...

[ymarcon]

You could have the Dockerfile within your R package source repo, for user reference. Just declare it in a .Rbuildignore file so that it does not get packaged.

[tombisho]

Yes that sounds like a good idea. And then if I build an image, can it live in the DataSHIELD docker hub account (like for omics and exposome)? Or is this where we need some kind of audit?

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On Thu, 16 Jun 2022, 19:55 Yannick Marcon, ***@***.***> wrote: You could have the Dockerfile within your R package source repo, for user reference. Just declare it in a .Rbuildignore file so that it does not get packaged. — Reply to this email directly, view it on GitHub <#2 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ACBAPNXEMKQDPLHUWVN7NV3VPN2B5ANCNFSM5Y7EUNAQ> . You are receiving this because you authored the thread.Message ID: ***@***.***>

[ymarcon]

omics and exposome should be in https://hub.docker.com/u/brgelab space. You should have your own as well.

[tombisho]

Ok great - I'll do that

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On Fri, 17 Jun 2022, 10:54 Yannick Marcon, ***@***.***> wrote: omics and exposome should be in https://hub.docker.com/u/brgelab space. You should have your own as well. — Reply to this email directly, view it on GitHub <#2 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ACBAPNWBNPJY2NK4IHKYHA3VPRDKZANCNFSM5Y7EUNAQ> . You are receiving this because you authored the thread.Message ID: ***@***.***>

[StuartWheater]

dsSurvival is in new profile "dolomite-beach"