v0.2.0a1

Alpha testing for 0.2.0.

What's Changed

• Inheriting BaseFOV on ClearControlFOV by @JoOkuma in #148
• Universal API implementations for Micro-Manager OME-TIFF and NDTiff by @ziw-liu in #185
• Fix bug determining number of rows and cols by @ieivanov in #214
• Fix bug reading dragonfly acquisitions by @ieivanov in #215
• Sort keys in metadata .json files by @ieivanov in #211
• Add CITATION.cff by @ziw-liu in #219
• Modify warning by @ieivanov in #220
• Add Y5 to orange display color group by @ziw-liu in #224
• Fix README examples link by @talonchandler in #225
• UAPI docs update by @ziw-liu in #223
• Unified API for Micro-manager readers by @ieivanov in #222
• Fix docs switcher path by @ziw-liu in #227
• Refactor NGFF module and migrate to Pydantic v2 by @ziw-liu in #233
• Fixing pyramid scaling factor by @JoOkuma in #238
• Use annotation instead of field for tagged union by @ziw-liu in #244
• Export ImageArray from the ngff module by @edyoshikun in #245

Full Changelog: v0.1.0...v0.2.0a1

v0.1.0

The first stable release of iohub. We only include source code download on GitHub since iohub is pure Python. The wheels are hosted on PyPI.

This release supports API and CLI for the following formats:

Read

• OME-Zarr (OME-NGFF v0.4)
• Micro-Manager TIFF sequence, OME-TIFF (MMStack), and NDTiff datasets
• Custom data formats generated by Biohub microscopes
  • Falcon (PTI)
  • Dorado (ClearControl)
  • Dragonfly (OpenCell OME-TIFF)
  • Mantis (NDTiff)
  • DaXi (OME-TIFF)

Write

• OME-Zarr

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Note: With v0.2.0 we plan to include breaking API changes as proposed in #132.

0.1.0rc0

Release candidate for 0.1.0.

What's Changed

• Support MM 2.0.1 for single page TIFFs by @ziw-liu in #179
• Enable XYZ chunking at conversion by @ieivanov in #178
• Better NDTiff reading when the first position is missing by @ieivanov in #190
• Fix for when ChNames key is not available by @JoOkuma in #191
• Added option to not check copied data by @JoOkuma in #192
• Fix product integer overflow by @JoOkuma in #193
• OpenCell reader extension by @ieivanov in #197
• Extend HCS label parsing by @ieivanov in #189
• Scaling chunk size according to pyramid factors by @JoOkuma in #201
• Modified fluorophore color code by @ieivanov in #202
• Update documentation and metadata by @ziw-liu in #203
• Save ndtiff image plane metadata per position by @ieivanov in #204
• Bump supported Python versions by @ziw-liu in #200

Full Changelog: v0.1.0dev5...v0.1.0rc0