Nutil - Neuroimaging utilities News

New Nutil release - v0.8.0

Sharon Christine Yates — Tue, 12 Jul 2022 12:45:09 GMT

This is a major release with several new features, including:
• Point clouds that reflect the nonlinear refinement applied with the VisuAlign software.
• Updated object reports.
• Support for automatic generation of plots using Python scripts.
• Support for defining the Custom Regions based on hierarchy.txt files from the QCAlign software.
• Stop button in Nutil has been fixed.
• Improvements to error and warning messages.
• Updates to the help text in the Nutil GUI.

For more information: https://nutil.readthedocs.io/en/latest/

Nutil release: v0.7.0

Sharon Christine Yates — Tue, 19 Oct 2021 1:07:27 GMT

- This release introduces a new reference atlas: the Waxholm Space Atlas of the Sprague Dawley rat v4 (WHSv4). The citation policy has been updated in the Nutil GUI and Nutil readthedoc for use of the Waxholm Space Atlas.

- The default customised regions for the WHSv3 have been updated. See the customised region.xlsx in the Nutil package for more information.

- Bug 1 that was discovered in Nutil v0.5.0 and partially fixed in v0.6.0 has been fully fixed in this version: the regional load outputs in the slice reports are now correct irrespective of the pixel scale.

- The user documentation has been considerably improved. All user manuals have been removed from the Nutil package, and replaced with a “user documentation” button in the Nutil GUI with a direct link to the Nutil readthedocs. These are updated on a regular basis, and also include user documentation for use of ilastik for the QUINT workflow.

- Improvements to error and warning messaging, and updates to the help text in the Nutil GUI.

Nutil release v0.6.0 with major bug fixes

Sharon Christine Yates — Tue, 09 Mar 2021 6:40:11 GMT

The Nutil team is pleased to announce the release of Nutil v0.6.0. This release does not introduce new features, but fixes recently discovered bugs affecting the Quantifier reports in some older versions of Nutil:

Bug 1: Regional load output in the slice reports are incorrect for Nutil v0.4.0 – v0.5.0. The other results in the reports are correct.

Bug 2: When using the mask feature: region pixels, region areas and loads in the reports are incorrect for Nutil v0.4.3 – v0.5.0. This bug does not affect analyses run without masks.

As the bugs affected core Quantifier functionality, we have introduced more stringent quality assurance routines, with continuous integration (CI) and automatic validation based on an expanded collection of ground truth datasets. We will provide more information about this in a future release. Until then, please delete all affected analyses, and rerun with the new version.

For more information contact us at support@ebrains.eu.
Issues can also be reported at: https://github.com/Neural-Systems-at-UIO/nutil/issues

New Nutil release: v0.5.0

Sharon Christine Yates — Wed, 03 Mar 2021 2:39:20 GMT

Nutil version 0.407 included an upgrade to Qt 6. This introduced several major bugs due to Qt library updates. We have decided to delete this version entirely, and present Nutil v0.5.0 with upgrades and bug fixes to solve the issues found in Nutil v0.407.

Nutil v404 released.

Sharon Christine Yates — Tue, 06 Oct 2020 2:58:48 GMT

Nutil v404 has several new features implemented. Quantifier assigns unique IDs to each object in the output images and reports allowing identification of individual object features. There is also the option to upload your own reference atlas. TiffCreator now has support for regular Tiff files enabling convertion to the tiled TIFF format that is compatible with the Transform feature. Several bug fixes and improvements to the inbuilt help text. User manuals updates.