[ome-devel] Omero and docker

[Hadrien Mary]

Awesome. I was thinking using fig as well. I will have a look.

--
Hadrien Mary

Ph.D student in Biology
Tournier-Gachet Team
CNRS - LBCMCP - UMR 5088

Université de Toulouse - Bât. 4R3B1
118, route de Narbonne - 31062 Toulouse


On Thu, Jan 15, 2015 at 4:13 PM, Harri Jäälinoja
<harri.jaalinoja at helsinki.fi> wrote:
> Hi all,
>
> I'm also working on the same thing, been eyeing it for a while but started
> seriously last week. Here's my current progress:
>
> https://github.com/hajaalin/fig-omero
>
> I managed to split everything in separate containers and start the whole
> show with Fig. And I like the way to pass secrets, using ejson made by
> Shopify. The database part now starts from a pg_dump made in OMERO 4.4. Just
> today I got LDAP working.
>
> My goal is to take this into production use, I think it'd make updates
> easier later on.
>
> Please have a look and let me know what you think, it'd be great to have the
> setup verified by more people :)
>
> Best,
> Harri
>
>
> On 15/01/15 16:01, Simon Li wrote:
>
> Hi Hadrien
>
> Thanks for your continued interest in this. We're still very much at the
> investigative stage regarding how we're going to use Docker, and due to
> other priorities not much has changed since your last email. More answers in
> line...
>
> On 15 January 2015 at 11:08, Hadrien Mary <hadrien.mary at gmail.com> wrote:
>>
>> Hi guys,
>>
>> I created a Dockerfile some weeks ago :
>> https://github.com/hadim/docker-omero. The main purpose was to both
>> learn how to install OME and get some training with docker.
>>
>> I am planning to install an OME server for our lab and I am not
>> satisfied with my Dockerfile since it's pretty limited and use only
>> one instance for everything (no separated database instance).
>>
>> I noticed it exists two repositories which seem to be official and
>> used there : https://github.com/ome/docker and
>> https://github.com/omedocker/omedocker. I'd like to test these
>> dockerfiles to see if it can fit for production in my case.
>>
>> My questions are:
>>
>> - for what purpose are you using docker (testing, production, ci...) ?
>
>
> Initially CI/testing, especially with different versions of dependencies and
> configurations, if this goes well then potentially production too.
>
>>
>> - what is the difference between both repos ?
>
>
> omedocker was the original repo designed to work with Docker Hub (automated
> builds), from what I remember we couldn't use an organisation repo because
> Docker Hub wanted privileged access to our GitHub account instead of just a
> single repository (this may have changed in the intervening time).
>
> It was forked into ome/docker so that it would fit in to our normal workflow
> with multiple OME team members having commit access, and being able to open
> pull-requests.
>
>>
>> - which one should I use ?
>
>
> Probably ome/docker which is effectively our development repo, once our
> infrastructure is fully setup the tentative plan is to push releases to
> omedocker to be automatically built by Docker Hub.
>
>>
>> - does a more complete documentation exist about how to use these
>> dockerfiles (currently I am reading Makefile as a documentation) ?
>
>
> As I mentioned earlier everything is still very much at an exploratory
> stage. Once everything is stable it'll be fully documented. If you want to
> build everything in ome/docker you can run something like:
>
> for docker in $(python graph.py --order)
> do
>     docker=$(echo $docker | cut -d: -f1)
>     cd $docker
>     failed=0
>     docker build -t openmicroscopy/$docker
>     cd ..
> done
>
> graph.py outputs out the dependencies between images. Alternatively if you
> just want to build one image it should be easy to figure out the
> dependencies for yourself by checking the Dockerfile FROM lines.
>
> There's a lot of stuff in the repo at the moment, some directly related to
> OMERO, others related to our infrastructure. E.g. omero-in-a-box is an
> all-in-one image, omero-grid was an early attempt at setting up different
> OMERO components on separate images.
>
> If there's anything else you need to know just ask!
>
> Best wishes
>
> Simon
>
>
>>
>> Thanks !
>>
>> --
>> Hadrien Mary
>>
>> Ph.D student in Biology
>> Tournier-Gachet Team
>> CNRS - LBCMCP - UMR 5088
>>
>> Université de Toulouse - Bât. 4R3B1
>> 118, route de Narbonne - 31062 Toulouse
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>> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-devel
>>
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>
>
>
> The University of Dundee is a registered Scottish Charity, No: SC015096
>
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