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4 Commits
Author SHA1 Message Date
Omar SobhandClaude Sonnet 4.6 5701e8045d feat: add Pcodec lossless numerical compression filter (arXiv:2502.06112) 
Implements Pcodec (filter ID 32023) via the `pco` 1.0.x crate as a new
optional compression codec. Pcodec achieves 30–94% better compression
ratio than Zstd for f32/f64 columnar data at 1–5 GiB/s decompression
speed, making it ideal for write-once/read-many embedding archives.

Write throughput at 512×512: 591 MiB/s (parity with Zstd-3 at 610 MiB/s).
For smaller chunks Zstd-3 remains faster due to Pcodec's fixed per-chunk
distributional analysis overhead.

- Add FILTER_PCODEC = 32023 constant to filter_pipeline.rs
- Add pcodec_compress/pcodec_decompress using pco::standalone API
- Wire into compress_chunk/decompress_chunk dispatch
- Add ChunkOptions.pcodec field and DatasetBuilder.with_pcodec() method
- Enable pcodec as highest-priority codec in build_pipeline()
- Add pco dep (optional, feature = "pcodec") to clawhdf5-format/clawhdf5
- Add write_2d_chunked_pcodec benchmark comparing pcodec vs zstd-3
- Document results in BENCHMARKS.md

Co-Authored-By: Claude Sonnet 4.6 <[email protected]>
 2026-07-01 01:16:08 +00:00
Omar SobhandClaude Sonnet 4.6 d6c4d4f111 feat: implement filter codecs, format write extensions, and MPI-IO VOL 
All three SDD plans fully wired and committed to main:

Filter Codecs (FC):
- FC-1: Implement float E-scale in scaleoffset_decompress (value = minval +
  code * 2^E, negative exponents via cast to i32); add two round-trip tests.
- FC-2: filters_szip.rs — feature-gated SZIP decode via libaec FFI; SZIP
  dispatch arm added to decompress_chunk.
- FC-3: libaec-sys workspace crate with pkg-config probe and aec_buffer_decode
  FFI binding; added to workspace members.

Format Write Extensions (FWE):
- FWE-1: GroupBuilder::add_external_link() API; wired through FinishedGroup
  → GrpFlat → file_writer pass 1/2/3 (OH size, layout cursor, final write);
  external_link_write_roundtrip test.
- FWE-2: data_layout_write.rs — serialize_vds_mappings with length_size param
  and version 0/1 (external vs same-file) selection; declared as pub mod.
- FWE-3: with_virtual_sources empty-mapping guard (Important #9) — empty vec
  is silently ignored; vds_empty_mapping_list test updated to assert non-VDS
  layout results.

MPI-IO VOL Backend (MPI):
- MPI-1/2/3: mpi_vol.rs — MpiVol implementing VirtualObjectLayer; root-read
  + broadcast collective read; gather + root-write collective write; feature-
  gated mpi-io feature; wired into clawhdf5-io lib.rs.
- MPI-4: mpi_io_bench binary (h5bench-equivalent MPI-IO throughput bench).

mpi_vol.rs reviewer fixes:
- Doc-comment updated to accurately describe root-read+broadcast pattern
  (not MPI_File_read_at); MpiVol::expected_capabilities() associated fn
  added so tests can verify capabilities without a live MPI universe;
  rank_and_size_stub_values renamed to no_feature_error_contains_feature_name.

Workspace check: zero warnings, 20 test suites pass.

Co-Authored-By: Claude Sonnet 4.6 <[email protected]>
 2026-06-30 11:41:41 +00:00
osobhandClaude Opus 4.8 a16e9ab8cb chore: bump workspace to 2.1.0 
Bumps [workspace.package] and all 17 crate package versions (and internal
path-dependency requirements) from 2.0.0 to 2.1.0 for a coordinated release.

Co-Authored-By: Claude Opus 4.8 (1M context) <[email protected]>
 2026-06-03 10:36:17 +00:00
redclawsystems 3f222f6956 Merge pull request 'docs(clawhdf5): document DType variants, fix unresolved doc links' (#17) from sdlc-docs/clawhdf5-types-20260514-165210 into main 2026-05-14 23:54:48 +00:00