Reimplement cBioPortal client for new API #1435
Merged
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
The cBioPortal has recently revamped its API and the original API for which a client was implemented in
indra.databases.cbio_client
was taken down. The new APi is completely different in terms of its endpoints, much of the nomenclature, and the data structures it returns, requiring effectively a new implementation of most functions. However, the PR aims to preserve the behavior of each client function for compatibility with various integrations.