Installation issue with Docker

[erwanlc]

Hello,

I tried to install CogStack-SemEHR using docker but I am stuck in the first step:

docker build -t cogstack/semehr - < Dockerfile

The build start well but it fails for the following command (line 40 in the Dockerfile):

RUN cd /opt/gcp/gcp-2.5-18658 && ant

I got a server access error and the build stop as it can't get the needed dependencies. You can find the full error logs attached. cogstack_docker_issue.txt

Do you have any idea on how I could correct this ?

Thanks for your help.

[afolarin]

have you your UMLS resources prepared? These can't be distributed (licence restrictions) so you have to provision these yourself.

If you have got a bio-yodie usable UMLS resource populated, you can use it like the following.

docker run --name=semehr-test \
--mount type=bind,src=FULL PATH OF YOUR DATA FOLDER,dst=/data/ \
--mount type=bind,src=FULL PATH OF YOUR UMLS RESOURCE FOR BIO-YODIE,dst=/opt/gcp/bio-yodie-1-2-1/bio-yodie-resources \
cogstack/semehr

[Siddhijain16]

Hii @afolarin I am also facing the same issue while running command docker build -t cogstack/semehr - < Dockerfile Any solution for this ?

[afolarin]

@Siddhijain16 this stuff is quite old (and I'm not sure who is using it still) might be good to follow up with @Honghan

[Siddhijain16]

@Siddhijain16 this stuff is quite old (and I'm not sure who is using it still) might be good to follow up with @Honghan Thank you for your reply @afolarin .

Hii @Honghan I tried but not able to solve this error. Can you please help me out from this.