lot of work going on now in our UI
@denis-yuen can I attend to the Monday meeting, is that remotly I guess
?
https://github.com/ga4gh/wiki/wiki#weekly-work-stream-meeting has the schedule
so 7am pacific is 3pm gmt?
@mr-c @byb121 FYI, I can verify that yes, the workflow runs for me too which is cool (yay!) but also puzzling. I can also confirm that
dockstore workflow download --entry github.com/cancerit/workflow-seq-import/chksum_seqval_wf_interleaved_fq:0.4.0 works to download the correct directory structure which is probably related to why it works that way (and might be a workaround depending on what you're working on). Right now I'm thinking that its not the indexing, but an issue with how we translate the paths for display/TRS, so it may be the case that after we fix it, it might just work. Will update in the ticket when we have more
If you could let me know when can be fixed as early as possible, that'll help me a lot. Thanks.
@byb121 so currently, most staff is working on the next major release which should be roughly end of March, I think I can guarantee that we can work on this as a high priority fix during that process. Do you have a workaround in the meantime? Otherwise, we do have some capacity to work on a hotfix, but I can't guarantee that at this time
@ypriverol so one quick thing I did, we have some docs on a TRS validator that might be helpful at https://ga4gh.github.io/tool-registry-service-schemas/Validator/ . For example, the validation report for the api you're working on is http://142.1.177.188:8080/trs/validator/debug?url=http://api.biocontainers.pro/api/v2/
One easy fix as an example is probably the header "application/problem+json"
One easy fix as an example is probably the header "application/problem+json"
I will check and work in the report
The source code is at https://github.com/ga4gh/tool-registry-validator/tree/develop . It could probably do with some improvements since we haven't been able to work on it as much as we'd like but hopefully its useful (and feel free to contribute if its validating incorrectly). @garyluu will have more insight than me for that report
@ypriverol The validator is expecting this basePath https://github.com/ga4gh/tool-registry-service-schemas/blob/develop/src/main/resources/swagger/ga4gh-tool-discovery.yaml#L21
thanks a lot
it makes more sense for exampel to force another name such as “trs” or not forcing the path?
i will try locally
I modified my validator temporarily, 3 are passing:
pass: GET (200) /api/v2/metadata duration: 348ms
pass: GET (200) /api/v2/toolClasses duration: 308ms
pass: GET (200) /api/v2/tools?limit=30 duration: 1736msthe rest are skipped because my validator doesn't proceed further until it can retrieve a tool id, version id, and descriptor type. I'll make an issue for it. It should probably go as far as it can even without the descriptor type
I’m attending to the metting on Monday, probably we can discuss some details !!! Thanks a lot
nvm, found it. It looks like that particular task is handled by EBI
looks like the contact is jorizci@ebi.ac.uk in https://docs.google.com/document/d/1Aw413LFR6ILqjXJoNpbZ-51f52oN8mEvp0MPvxWVXRE/edit#
Folks, I'm looking at the API call list (https://dockstore.org/api/static/swagger-ui/index.html#/) and I can't figure out how to retrieve the
workflowId. I thought this was the id field retrieved when doing a https://dockstore.org/api/api/ga4gh/v1/tools/ query, but this doesn't seem to work. Thanks!