[ensembl-dev] Docker container for EnsEMBL development...

[Steve Moss]

Dear Steffen,

Thanks for the advice. I may well use the packages instead... in fact, I
think MySQL installs them as dependencies anyway? I was actually
considering using the MariaDB client instead, because Oracle are evil ;)
This caused some issues with the DBI::mysql build, however that I need to
investigate some more.

With regards BioPerl - I think I need to check out versions 1.6.1 actually,
as EnsEMBL doesn't gaurantee compatibility with newer versions... will
amend that later.

Cheers,

Steve

On 18 December 2014 at 17:52, "Steffen Möller" <steffen_moeller at gmx.de>
wrote:
>
> Hello, nice,
>
> There is a libdbd-mysql-perl package that you might want to to use instead
> of getting it from CPAN. BioPerl with Debian/Ubuntu is at 1.6.924-1, while
> you clone 1.6.901 with git. Such older versions you get (for all packages,
> btw) from http://snapshot.debian.org/package/bioperl/1.6.901-4/ , just
> add it to your /etc/apt/sources.list and perform a versioned install as in
> apt-get install bioperl=1.6.901 .
>
> If there is a particular package you prefer to see shipping with the
> distribution directly instead of compiling it while preparing your
> container then please tell me or raise your voice on the Debian Med mailing
> list.
>
> Many thanks for your efforts
>
> Steffen
>
> *Gesendet:* Donnerstag, 18. Dezember 2014 um 15:41 Uhr
> *Von:* "Steve Moss" <gawbul at gmail.com>
> *An:* "dev at ensembl.org" <dev at ensembl.org>
> *Betreff:* [ensembl-dev] Docker container for EnsEMBL development...
>  Dear EnsEMBL Dev,
>
> I recently built a Docker image with the EnsEMBL Perl APIs pre-installed
> to assist with developing scripts and undertaking analyses using EnsEMBL's
> data.
>
> You can find the code here: https://github.com/gawbul/docker-ensembl
>
> I would welcome any suggestions on additional steps/fixes that I could add
> to the Dockerfile to enhance the image.
>
> Cheers,
>
> Steve
>
> --
>     <http://about.me/gawbul>
> Steve Moss <http://about.me/gawbul>
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-- 

Steve Moss
about.me/gawbul
[image: Steve Moss on about.me]
  <http://about.me/gawbul>
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