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Releases: TheDeanLab/navigate

Zenodo Release

14 Jul 14:58
@AdvancedImagingUTSW AdvancedImagingUTSW
v0.0.9b
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Zenodo Release

As we approach publication of the Multiscale Cleared Tissue Axially Swept Light-Sheet Microscopy paper in Cell Reports Methods, we are creating a permanent citable record on Zenodo.

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v0.0.9a

07 Jul 10:07
@AdvancedImagingUTSW AdvancedImagingUTSW
v0.0.9a
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v0.0.9a

Major Changes

  • Now support an unlimited number of axes and stages, and axes can be redundant. For example, can include multiple z axes, such as a galvo and a piezo for laser scanning acquisitions.
  • Device refactor provides much cleaner way to initialize and control devices.

What's Changed

New Contributors

Full Changelog: v0.0.8...v0.0.9

Contributors

zacsimile, annie-xd-wang, and 5 other contributors
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v0.0.8

14 Sep 03:36
@AdvancedImagingUTSW AdvancedImagingUTSW
v0.0.8
abfc6fa
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v0.0.8

What's Changed

Full Changelog: v0.0.7...v0.0.8

Contributors

annie-xd-wang and AdvancedImagingUTSW
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v0.0.7

11 Aug 20:13
@AdvancedImagingUTSW AdvancedImagingUTSW
v0.0.7
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v0.0.7

What's Changed

New Contributors

Full Changelog: v0.0.6...v0.0.7

Contributors

zacsimile, annie-xd-wang, and 5 other contributors
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v0.0.6 - MMCore, OME-NGFF, and more.

24 May 15:37
@AdvancedImagingUTSW AdvancedImagingUTSW
v0.0.6
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v0.0.6 - MMCore, OME-NGFF, and more.

v0.0.6 - Enhanced Device Support, File Types, and Documentation

We're thrilled to announce the release of v0.0.6, which includes significant enhancements and new features to improve the functionality and usability of navigate.

What's Changed?

Additional Hardware Support

We have expanded our hardware support to include ASI MCF2000, ASI MS2000, Thorlabs KCube Stepper motors, Photometrics Iris 15B, and Hamamatsu ORCA Fire. These additions significantly broaden the range of devices compatible with navigate, enhancing its versatility for various imaging setups.

New Plugin for MMCore-Based Devices

A new plugin has been developed to enable access to MMCore-based devices from Micro-Manager. This initial release supports MMCore-based stages and shutters, with future updates planned to include additional device classes such as cameras and lasers. This integration simplifies the process of incorporating a wide range of hardware into your imaging workflows.

OME-Zarr Data Source Support

We have included support for writing to the OME-Zarr data source, which enhances data management capabilities by providing a scalable, cloud-friendly format for large imaging datasets.

Documentation Overhaul

Significant updates have been made to our documentation, including:

  • More examples of microscope implementations using navigate.
  • Benchmarks for data writing speeds across different formats.
  • Detailed guides on adding new devices.
  • Instructions on using the ilastik plugin for image-based feedback.
  • A comprehensive walkthrough of the software architecture and GUI.
  • And more...

Improved Usability

To streamline adoption, we have created a GUI-based setup wizard and simplified the configuration.yaml file, making it easier for users with little to no programming experience to set up and use navigate.

Contributors

Full Changelog: v0.0.5...v0.0.6

We look forward to your feedback on these improvements!

  • The Dean Lab

Contributors

zacsimile, annie-xd-wang, and 7 other contributors
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v0.0.5 - Timing Operations Overhaul

10 Apr 12:15
@AdvancedImagingUTSW AdvancedImagingUTSW
v0.0.5
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v0.0.5 - Timing Operations Overhaul

v0.0.5 - Timing Operations Overhaul

We're excited to announce the release of v0.0.5, which includes a significant overhaul of our data acquisition card timing operations.

What's Changed?

In previous versions, the data acquisition card executed tasks based on the cycle time, which included the exposure time plus any additional delays. These delays were inherently determined by the camera exposure time as a percent. For example, the flyback time was previously set as ~10% of the exposure time. Nonetheless, the flyback time, which typically involves a galvo or a piezo, should not depend upon the exposure time but rather the amplitude of the movement, and should be a fixed value.

New Improvements

With v0.0.5, we've revamped this approach to allow for more precise and faster imaging, with significantly reduced dwell times. This enhancement means that our timing operations are now more efficient and better suited to the needs of high-speed imaging.

We look forward to your feedback on these improvements!

Contributors

Full Changelog: v0.0.1-alpha...v0.0.5

Contributors

HoneybeeATc, BingyingChen, and 5 other contributors
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Pre-Model Refactor

12 Sep 20:17
@codeCollision4 codeCollision4
v0.0.1-alpha
f1a11da
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Pre-Model Refactor

This release aims to create a stable build prior to the major refactoring of the Model. Below are the pull requests and change-log.

What's Changed

New Contributors

Full Changelog: https://github.com/TheDeanLab/ASLM/commits/v0.0.1-alpha

Contributors

zacsimile, annie-xd-wang, and 4 other contributors
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