NEWS

rsynthbio 4.2.3

Format hosted GEM-2 baseline, reference-based expression, metadata prediction and reconstruction results through the standard prediction client.
Preserve nested metadata, classifier labels/probabilities and full numeric precision when reading prediction results.
Keep requested input/output column order and missing values aligned.

Updated the maintainer to Alex David [email protected], retaining Synthesize Bio as an author.

Hosted prediction HTTP 400/422 errors now expose status_code, response_body and response_json on a catchable synthesize_validation_error condition. Structured field corrections display one path and message per line; legacy response text and nonvalidation HTTP errors retain their existing behavior.

Added self-hosted model support: predict_query() and get_example_query() gain a self_hosted argument (also resolved from the SYNTHESIZE_SELF_HOSTED environment variable). When enabled, the client sends a single synchronous request to a partner-hosted model container and decodes the Apache Arrow IPC stream response into the same data frames as the production path (no polling, no download URL). Requires the optional arrow package; no API key is required (one is only sent when SYNTHESIZE_API_KEY is set).
Added per-model base-URL resolution: set SYNTHESIZE_API_BASE_URL__<MODEL> (e.g. SYNTHESIZE_API_BASE_URL__GEM_1_BULK) to point each model at its own self-hosted container once and omit api_base_url on every call. Resolution precedence is: explicit api_base_url -> per-model variable -> global SYNTHESIZE_API_BASE_URL -> production default.
Self-hosted predictions use a longer 600s request timeout to accommodate large sample counts on partner GPU hosts.

predict_query() now raises an error when called with a model_id that has no registered output transformer. Pass raw_response = TRUE to get the unformatted JSON response.
Metadata prediction models (gem-1-bulk_predict-metadata, gem-1-sc_predict-metadata) now return a named list with metadata, latents, classifier_probs, and expression data.frames instead of the raw outputs list.

Added output transformer for gem-1-bulk_predict-metadata and gem-1-sc_predict-metadata that converts results to data.frames.
Added output transformer for gem-1-bulk_condition-on-sample-ids.