I focus on hardening and maintaining open-source medical imaging and research software. My upstream contributions strengthen DICOM/NIfTI parsing, de-identification integrity, archive and filesystem safeguards, authentication and API boundaries, safe executable handling, and CI supply-chain controls. I also develop native Apple Silicon (ARM64) privacy and binary-analysis tools, drawing on clinical experience in MR imaging and radiomics.
239 authored PRs merged across 115 external repositories, spanning medical imaging, scientific data integrity, privacy, and platform engineering.
| Merged contributions |
|---|
| Imaging parser hardening NiBabel #1568 and NIFTI-Reader-JS #58: reject undersized NIfTI extensions before reading payloads. highdicom #471: reject undefined DICOM encapsulated pixel-fragment lengths before reading their payloads. |
| Bruker MRI input validation ITK #6990: validate geometry-array cardinalities before indexed access; addresses one part of a broader upstream security issue. |
| NRRD input validation pynrrd #173: reject nonpositive dimensions and axis sizes before reading NRRD data or accessing detached files. |
| Private model-download staging nnU-Net #3078: use a unique private temporary directory for model download archives and clean up after use. |
| DICOM receive-path safety DICOM-rs #845: reject unsafe SOP Instance UIDs before storing received DICOM files. |
| Archive extraction containment Nilearn #6654: validate extraction destinations by path components to prevent sibling-prefix confusion in containment checks. |
| OpenNeuro download containment nitrain #125: keep downloaded dataset paths within the intended data root. |
| De-identification policy integrity deid #305: parse inline comments without breaking func:/var: lookups or quoted hashes.deid #306: preserve earlier named filter rules so later recipes cannot silently replace them. deid #307: refresh DICOM field lookups and apply KEEP rules to current fields, including newly added ones. |
| Validation-state isolation dicom-validator #303: restore pydicom's process-wide reading-validation mode after success or failure so permissive settings do not persist. |
| Medical imaging permissions deid #304: default new pixel-cleaner output directories to owner-only permissions. |
| HTML output encoding dicom-validator #301: escape filenames in HTML report headings to render markup as text. |
| Temporary executable isolation RSNA Anonymizer #41: isolate each process's compiled macOS documentation helper in a private temporary directory. |
| Shell argument integrity BIDScoin #302: quote image, output, and mask paths in local SynthStrip commands. surfa #86: preserve FreeView subtitle text as a literal shell argument. |
| Supply chain reproducibility dcm2niix #1046: pin optional Cloudflare zlib to a source commit. |
| Archive checksum enforcement PyMedPhys #2394: enforce TRF archive checksums under Python -O; retain incoming logfiles when verification fails. |
| Merged contributions |
|---|
| Untrusted executable execution prevention tessera #369: prevent read-only status checks from executing alternate binaries discovered through PATH; exclude unsafe path entries and separate CLI discovery from MCP/UI status handling. |
| Authentication abuse controls and OAuth route assurance ContribIQ #61: enforce configurable per-client-IP login throttling with 429 responses and regression tests. ContribIQ #62: stabilize GitHub OAuth route verification using public FastAPI reverse routing. |
| CI shell-injection prevention provlift #102: move workflow expressions out of executable Bash source into step environment variables; add metacharacter-injection regression tests. |
| Broker diagnostic redaction and loopback threat modeling stockwise #428: mask broker client, app, and login identifiers in diagnostic output. stockwise #429: explain shared-machine exposure of unauthenticated loopback HTTP/MCP endpoints and recommend bearer tokens. |
| Immutable release workflows and dependency updates Islet #186: pin four release-critical GitHub Actions to immutable commits and enable scheduled action updates. Islet #185: activate weekly Dependabot npm dependency checks. |
| Authentication-secret and API response hardening tachyoncms #61: add Cache-Control: no-store to successful login and API-key issue/rotation responses carrying secrets.tachyoncms #60: apply anti-sniffing, anti-framing, and no-referrer HTTP headers to normal, 404, and recovered 500 responses. |
| SQL-injection trust-boundary tachyoncms #191: clarify that collection-index identifiers originate from validated schema fields and IDs, while request-supplied values remain bound parameters. |
| Prompt-injection detection regression coverage moodle-mcp #31: test English and Brazilian Portuguese injection-like and benign inputs; explicitly retain two known heuristic bypasses as expected failures. The detection remains advisory, not a security boundary. |
| Trusted infrastructure executable selection provlift #90: prioritize the operator-provided Terraform/OpenTofu binary over repository configuration, with precedence regression tests. |
| Broker credential and service-exposure security stockwise #411: clarify broker credential protection, live-order safeguards, risks of remotely exposing HTTP/MCP services, CSP, plugin isolation, and private vulnerability reporting. |
| Unintended file overwrite prevention fonttools #4342: protect unrelated ZIP archives during file generation. svglib #518: parse compressed SVGs without overwriting sibling files. |
| Build frontend error integrity pyproject-api #329: preserve backend paths ending in spaces. pyproject-api #337: preserve failed-backend diagnostics across process boundaries. |
| S3 request integrity s3fs #1067: forward delete safeguards, including expected bucket owner and MFA parameters. s3fs #1068: honor exclusive-create conditions, ACLs, and metadata for zero-byte writes. |
| Array index bounds enforcement PyTables #1389 and #1393: reject invalid indices before data access, preventing unintended reads and writes. |
| SFTP directory permissions fsspec #2358: honor requested permissions when creating parent directories. |
| Permission-scoped CI XCP-D #1640: validate fork lockfiles with read-only permissions while restricting write access to same-repository updates. |
| CI supply-chain integrity provlift #89: pin 36 third-party GitHub Actions references in workflows and examples to immutable commits, with documented version annotations and regression checks. dot #64: pin five build-workflow actions to immutable commits. |
| Cross-tenant memory privacy ContextFirewall #64: avoid revealing foreign-namespace memory existence or ownership through unauthorized forget requests. |
| MCP loopback request validation tessera #246: reject DNS-rebinding attempts through Host validation on loopback HTTP endpoints, including health checks. |
| Error-message credential protection stockwise #230: redact Yahoo session crumb URLs from failed-request diagnostics. |
| Example service isolation a2a-hub #60: avoid publishing example agent ports to host interfaces in Docker Compose. |
| Code-signature evidence integrity REA #5765: preserve partial Mach-O signature observations and explicitly flag incomplete per-architecture coverage. REA #5778: reject mixed native dyld diagnostics instead of misclassifying them as known refusals. |
I develop macOS applications, data-integrity tools, and reusable libraries. Each repository documents its own licensing and distribution terms.
| Project | Function |
|---|---|
 DICOM Anonymizer |
Locally pseudonymize MR, CT and RTSTRUCT metadata, including reference-consistent UID remapping, output audits and interruption recovery. Source files are preserved; pixels and contours are not scrubbed. Releases. |
 AIRS |
Review ARM64 Mach-O unwind and structural evidence without executing inspected binaries, with explicit coverage and saved reports. Releases. |
 EntitlementDiff |
Compare declared entitlements between macOS app builds and architectures, preserving exact typed values and saved comparisons. Releases. |
 SidecarCompare |
Compare MRI JSON acquisition metadata with exact numbers, original tokens and documented units in a native app and shared CLI core. |
 Lumen |
Build macOS interfaces with semantic design tokens, editable themes, reusable SwiftUI/AppKit components and an interactive Catalog. The related LumenUI repository tracks the broader component system. |
 MacScope |
Explore the architecture and source of the native macOS binary-analysis workspace, including coordinated disassembly, graph, pseudocode and hex views and isolated workers. |
| Prism Native MCP | Use a local MCP server to build native GraphPad Prism tables, descriptive analyses, editable graphs and layouts from supplied observations. |
| Merged contributions |
|---|
| Array type and view integrity PyTables #1387: preserve coordinate views and read-only indices. PyTables #1388: reject non-integer Atom dimensions before coercion. |
| Scientific array correctness batchgenerators #144: retain requested subunit scale bounds in spatial augmentation. xarray #11793: handle variable-width string arrays in str.extract. |
| Scientific fitting-cache integrity silx #4751: compare cached fitting data safely when input lengths change, avoiding broadcasting errors and false cache hits. |
| Atomic download publication BrainStat #385: publish downloads atomically after successful copying, preserving existing files on failure. |
| Imaging data and geometry integrity highdicom #486: prevent integer overflow during volume normalization. highdicom #487: preserve DICOM structured-report temporal-coordinate sequence types. highdicom #488: preserve root/non-SR context in content-item queries and insertion. highdicom #489: correctly decode maximum-length LUTs and prevent unintended mutation of caller Datasets. PyVista #9454: compare structured-data extents to distinguish cell layouts and shifted offsets. |
| Metadata path integrity ANTsPy #931: replace only the terminal .npy suffix to keep JSON sidecars beside NumPy images; document legacy-path migration. |
| Session capability reporting REA #5763: align session-discovery capabilities with supported target operations. |
| SBOM parser resilience CycloneDX Core Java #957: recognize JSON/XML SBOMs with leading whitespace. |
| Security notification fidelity Dependency-Track #7704: expose latest-version status in notification subjects. |
| Developer tooling Meerkat #238: resolve bare-filename server entrypoints from the current directory for local source retrieval. avenx-js #1680: align defer-loading documentation with compiled and fallback runtime behavior. |
| MCP hardening ShipLean docs #18, #19, and #20: document configuration flags, MCP result envelopes, and attachment-transfer safeguards and fallbacks. |
| Merged contributions |
|---|
| Failure handling Pillow #10271: handle zero-width images in ImageOps.cover() without division by zero.ANTsPy #924: reject failed HTTP responses before caching test data. pyplastimatch #15: propagate conversion and resampling failures to callers. OME-Zarr #707: enforce download-path and existing-destination checks under optimized Python. |
| Imaging numerical safeguards and build diagnostics ITK #6986: handle empty VectorContainer-to-NumPy conversions. ITK #6991: reject transform parameter counts beyond the metric limit. ITK #6987: restore warnings for handwritten wrapper code while retaining suppression for generated sources. |
| macOS architecture compatibility ITK #6947: derive FFTW SIMD defaults from the requested macOS architecture. dcm2niix #1043: support linking from source paths containing spaces. |
| Shell path safety ITK-SNAP #280: preserve spaced application paths in the macOS launcher. FastSurfer #950: quote FreeSurfer stub destinations during helper generation. |
| Buffering policy enforcement fsspec #2359: honor zero buffering for immediate and deferred SFTP opens. |
| Data URL decoding integrity fsspec #2386: recognize case and permitted whitespace in base64 markers. |
| Linux ARM64 integration testing libjxl #5039: publish native Linux AArch64 static release tools. libjxl #5040: document a GCC/Highway ARM64 build workaround. Cover JPEG/JPEG 2000 plugins and pydicom integration in pylibjpeg-libjpeg #91 and pylibjpeg-openjpeg #129. Test the latest-Dask configuration in OME-Zarr #704. Extend coverage to zarrs #490, zarrs-python #199, connected-components-3d #153, fastremap #60, and FabIO #675. |
| Offline example verification recusal #149: add subprocess smoke tests for documented offline examples. recusal #150: index cookbook and framework examples with documentation-coverage regression tests. |
| Test suite reliability ITK #7004: install xarray in macOS/Windows CI and mark its test skipped when the dependency is absent. Nilearn #6664: stabilize plotting-test parameter order for parallel collection. xarray #11780: skip the DataArray-to-Dask-DataFrame test when PyArrow is absent. silx #4745: support Qt 6.12 drag-event constructors and older Qt versions. |
I welcome collaboration on medical imaging security, radiomics infrastructure, defensive binary analysis, and native Apple Silicon applications.