Add a `Dockerfile` #WIP

[smondet]

Not yet ready, I'm adding some more things.

[smondet]

Automated build: https://hub.docker.com/r/hammerlab/prohlatype/builds/

[smondet]

[rleonid]

Cool, so I'll extend this with the relevant build and test commands.

[smondet]

Also, building like this:

 docker build -t prohlatype:test .

Works at least for --version:

 $ docker run prohlatype:test _build/src/app/par_type.native --version
0.0.0
 $ docker run prohlatype:test _build/src/app/align2fasta.native --version
0.0.0
 $ docker run prohlatype:test _build/src/app/mhc2gpdf.native --version
0.0.0
 $ docker run prohlatype:test _build/src/app/mpjson2tsv.native --version
0.0.0
 $ docker run prohlatype:test _build/src/app/multi_par.native --version
0.0.0

@rleonid do you prefer to merge this (just the dockerfile) and then, when docker-hub has built the master/latest version, I'll do a PR on the README.md for instructions? or do you prefer "speculative" instructions now?

[smondet]

Oh wait forgot to integrate previous PRs that got merged.

Now make setup fails because it depends on opam ≥ 2 ?

opam install --deps-only ./prohlatype.opam
opam: PACKAGES... arguments: Invalid character . in package name
      "./prohlatype.opam"
Usage: opam install [OPTION]... PACKAGES...
Try `opam install --help' or `opam --help' for more information.
Makefile:9: recipe for target 'setup' failed
make: *** [setup] Error 1
The command '/bin/sh -c make setup' returned a non-zero code: 2

[rleonid]

Yea, I made the switch to opam v2 on my mac and now (regrettably) I have to support 2 opam versions?

[smondet]

@rleonid as you prefer, I changed the Dockerfile to not use make setup and it builds fine.

[smondet]

Is this expected with the opam-pin-installed binaries?

 $ docker run prohlatype:test par_type --version
%%VERSION%%

[rleonid]

No, I'm trying to figure out why it seems like the (not in stable documentation) jbuilder substcommand is not running?

[rleonid]

I'll merge the dockerfile when i figure out these last set of issues.

[rleonid]

@smondet I've merged in manually https://github.com/hammerlab/prohlatype/commit/86a00366503313d57b22cd58209360beefde8a54