NexusLIMS 2.6.2

Welcome to version 2.6.2 of NexusLIMS!

Highlights

This is a patch release fixing two bugs in the Tofwerk pFIB-ToF-SIMS preview generator that caused preview generation to fail for certain HDF5 acquisition files. Large pre-processed files (e.g. 500×256×256×259 float32 arrays ~32 GiB) would previously crash with an out-of-memory error; raw files whose NbrWrites attribute disagreed with the actual data shape by one would fail with a matplotlib ValueError. Both are now resolved.

As always, if you are looking for assistance with configuration or deployment of NexusLIMS, please contact Datasophos to discuss your needs!

Bug Fixes

• Tofwerk pFIB-ToF-SIMS preview generator: OOM and depth-profile shape mismatch (#105)
  • Replaced the full PeakData/PeakData[:] load with a write-by-write chunked reader, reducing peak memory from ~32 GiB to ~135 MB for a 500×256×256×259 acquisition.
  • Fixed a ValueError: x and y must have same first dimension in raw-file depth plots by deriving the x-axis from the actual EventList shape rather than the NbrWrites root attribute, which can disagree by one.

Installation

# if upgrading an existing uv tool install, run:
uv tool upgrade nexuslims

# for a new installation:
uv tool install nexuslims==2.6.2

# or
pip install nexuslims==2.6.2

# or, if installed from source:
git fetch
git checkout v2.6.2
uv sync

Full changelog

v2.6.1...v2.6.2