feat: support OncoKB api agent and auto agent selector

[fengsh27]

No description provided.

[slobentanzer]

@fengsh27 thanks! I updated biochatter-server to 0.4.0 and deployed the docker compose. Have two questions:

1. OncoKB (manual selection) and Auto mode do not seem to trigger; I get a regular response from the model without any RAG.
2. This being a PR to the main biochatter-next repo, we should not constrain to the specific use case (cancer genetics for instance). It is fine for testing, but the additions to the main repo should always conserve the generic nature of the app. The customisations are to be implemented elsewhere. (Ideally, we would run the cancer genetics use case in the cancer-genetics BioCypher repository, with all configuration there.)

[slobentanzer]

@fengsh27 it would also be great if the app gave some simple feedback on what it is doing, such as Auto mode: selecting tool, Auto mode: selected knowledge graph, Generating query, Reflecting on query, etc.

[fengsh27]

@fengsh27 thanks! I updated biochatter-server to 0.4.0 and deployed the docker compose. Have two questions:

1. OncoKB (manual selection) and Auto mode do not seem to trigger; I get a regular response from the model without any RAG.
2. This being a PR to the main biochatter-next repo, we should not constrain to the specific use case (cancer genetics for instance). It is fine for testing, but the additions to the main repo should always conserve the generic nature of the app. The customisations are to be implemented elsewhere. (Ideally, we would run the cancer genetics use case in the cancer-genetics BioCypher repository, with all configuration there.)

@slobentanzer
Regarding 1. it's because biochatter-server changes are not submitted yet, I will raise PR for biochatter-server's change later
Regarding 2. do you mean it is not appropriate to submit biochatter-next.yaml changes here?

[fengsh27]

@fengsh27 it would also be great if the app gave some simple feedback on what it is doing, such as Auto mode: selecting tool, Auto mode: selected knowledge graph, Generating query, Reflecting on query, etc.

Good suggestion. I think we can resolve it in next PR.
Can we show these information in Rag Contextual Prompts dialog

[slobentanzer]

do you mean it is not appropriate to submit biochatter-next.yaml changes here?

We can update the YAML, but only for demonstration purposes (e.g., we can show a second knowledge graph in the config to show users that it's possible); the changes should not change default behaviour of the demo. So, for instance, they should not remove all personas except the configured one. The demo app built from this repo should remain generic.

[slobentanzer]

@fengsh27 since this PR depends on changes to biochatter-server, do you want to wait for these?

[fengsh27]

@fengsh27 since this PR depends on changes to biochatter-server, do you want to wait for these?

No problem, I'm OK with that

[fengsh27]

@slobentanzer I added support of example usage in Welcome page. Please have a look and modify Example content which I will apply to our BioChatter-Next server

[fengsh27]

Are we ready to merge this PR?

[slobentanzer]

Does it work on your end, including my recent changes? If so, then yes.

[fengsh27]

Yes, it works well on my end