fix(format): apply the base address of files with a user block

A file may start with a user block (h5py userblock_size, h5jam), putting
the superblock at 512, 1024, ...; every address in the file is then
relative to the superblock. The signature search found it, but every
reader passed the whole file to the parsers, so addresses landed
userblock bytes early and the root group failed with
InvalidObjectHeaderVersion (twithub.h5, twithub513.h5,
h5clear_fsm_persist_user_*.h5).

Readers now view the file from the superblock on, taking the signature's
position as the base address as libhdf5 does: File (mmap, buffered,
from_bytes), MmapFile, LazyFile, AsyncHDF5File, the VOL and MPI VOL
readers, the HNSW loader and external VDS source files. File, MmapFile
and LazyFile gain user_block_size(). The new signature::split_user_block
returns the two parts, and Superblock::parse refuses a non-zero offset
(UserBlockNotStripped) so a format-level caller cannot silently apply
superblock-relative addresses to the whole file.

Co-Authored-By: Claude Opus 5.5 (1M context) <[email protected]>
This commit is contained in:
osobh
2026-09-25 22:07:50 -05:00
co-authored by Claude Opus 5.5
parent 0555794850
commit a6e90f3ee3
16 changed files with 540 additions and 79 deletions
+10
View File
@@ -120,6 +120,11 @@ pub enum FormatError {
/// A shared-message reference points at an object header that holds no
/// (unshared) message of the referenced type (raw message type id).
SharedMessageTargetMissing(u16),
/// A superblock was parsed at a non-zero offset of the buffer (the file
/// has a user block of this many bytes). HDF5 addresses are relative to
/// the superblock, so the buffer must start there: see
/// `signature::split_user_block`.
UserBlockNotStripped(u64),
/// A selection does not fit the dataset it was applied to (wrong rank, or
/// it reaches past a dimension's extent).
SelectionOutOfBounds(String),
@@ -342,6 +347,11 @@ impl fmt::Display for FormatError {
FormatError::SelectionOutOfBounds(msg) => {
write!(f, "selection out of bounds: {msg}")
}
FormatError::UserBlockNotStripped(n) => write!(
f,
"file has a {n}-byte user block: parse the bytes from the superblock on \
(signature::split_user_block)"
),
FormatError::SharedMessageTargetMissing(t) => write!(
f,
"shared message reference points at an object header with no message of type \