feat: Dockerize: Add Dockerfile, docker-compose. change 127.0.0.1 to …

[dermatologist]

Changes:
Dockerize: Add Dockerfile, docker-compose.
change 127.0.0.1 to db (container name). [BREAKING CHANGE]
Change ctakes to v 4.0.0 and
upgrade version of mysql connector.

[MatthewVita]

Hi @dermatologist,

Thanks for putting this together! A few notes/questions:

• What is beapen/ctakes ?

• Is it possible to copy ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/lookup/fast/customDictionary.xml into the container and do a string replace to db so we don't have to alter the original xml file?

• Not sure if you saw Limited Results with Various Inputs #65 but, if you did, do you see better results with things running in Docker?

• I'll add the docs for building/running docker-compose once this is in. I wonder if it be the standard for this repo in general to remove build issues that pop up here and there.

Thanks!
Matthew

[dermatologist]

Hi @MatthewVita

beapen/ctakes is the name of the image that will be created locally. You can replace it with any name you wish.

Please ignore this PR. I have a solution for 2 and 3 above in your comments. I will submit another PR soon after some more cleanup.

Cheers!

[MatthewVita]

@dermatologist,

That sounds great. Let me know what I can do!

[MatthewVita]

Hi @dermatologist - was wondering what your status was on the docker solution or if this is something you can hand off? No pressure or anything, of course!

Once we have docker(compose) in place, it will likely be the main way to run this solution. There have been so many install road bumps for a lot of ppl across different system types.

EDIT: I would be rude not to mention that I hope you and your loved ones are doing well during the pandemic.

[dermatologist]

Hi @MatthewVita

Sorry, I missed this. I followed a slightly different route using quarkus, which surprisingly worked very well, and it is fast. It is here: https://github.com/dermatologist/quick-ctakes

Thanks for the wishes, and stay safe and healthy!