SciCompiler: Compiling Open Scientific Artifacts into Verified Agent Capabilities

Scientific advances are often released as papers, repositories, and checkpoints rather than as capabilities that scientific agents can directly use and retain, while existing agents still rely largely on fixed tool repertoires. We introduce SciCompiler, which discovers artifacts for a given task and compiles them from locked source into callable operations, independent execution validation, and capability registration. Each retained capability binds a scientific operation to its interface, provenance, source, weights, runtime, and execution evidence, allowing subsequent tasks to invoke the same validated computation without repeating acquisition. Across protein design and genomics, SciCompiler acquires reusable scientific operations that remain callable on new inputs and across downstream workflows. In genomics, a retained Evo 2 likelihood capability reaches 96.25% regulatory accuracy on reserved chromosomes, compared with 78.59% for the coding baseline, and the same operation is reused across regulatory, motif, and variant tasks. Controlled studies further show that structured MCP invocation preserves scientific outputs while reducing agent requests by 23.4% and worker time by 22.3% in protein tasks. Augmenting capability records with artifact identity and validated execution facts increases reuse recommendations by 20 percentage points. Together, these results show how scientific agents can grow beyond fixed tool inventories by turning research artifacts into validated, reusable capabilities with explicit provenance and execution evidence.