3.10.0

Required minimum versions

• PHP >= 8.1
• HuCore >= 21.10.1

Changelog

New features

• Add support for Abberior MSR and OBF files.

Bug fixes

• Fixed bug in dbupdate for shared templates.
• Fix issue with container files in subfolders not having the used subimage in the result file name.
• Fix issues with subimage previews.
• Fix for 14-parameter chromatic aberration in user interface.
• Fix for iteration and quality threshold in user interface.
• Fix for inconsistent use of start and end time in statistics, now always using database time.
• Fix destination image name by replacing : characters to _ characters, to prevent successful jobs to be reported as failing.
• Improve handling of long file names.
• Fixed the end time shown in the Log tab of the Details results.
• Allow skipping creation of a Coloc map.
• Fix reflected XSS in login form by removing obsolete hidden field.

3.9.0

Required minimum versions

• PHP >= 8.1 (not compatible with PHP 7.x!)
• HuCore >= 21.10.1

Changelog

New features

• HRM is now compatible to PHP >= 8.1 only.
• Allows defining a stopping criterion for each channel.
• Removes IMS (Imaris Classic) output file format.
• Adds acuity and acuityMode to the parameters table.
• Improves renaming folders related to vsi files.

Bug fixes

• Fixes confidence levels when extracting from a file.

• Fixes missing sub-image names in multi-series output files.

3.8.0

New required minimum versions

• PHP >= 7.2
• HuCore >= 21.10.1

Changelog

• Added Hot Pixel Remover as optional pre-processing step
• Added new Acuity restoration parameter
• Added support for Olympus VSI files
• Added option to disable bleaching correction
• Added Python pip package for installing the HRM-OMERO connector very easily
• Enhanced usability in OMERO Connector
• Updated list of instruments in back-projected pinhole calculator
• Merged server and client configuration files into one
• Extended and updated documentation
• Several fixes and usability enhancements

3.7.1

Changelog

• Force-restart the hrmd daemon if the unattended Linux upgrades shut it down.
• Make sure concurrent jobs have their own independent log.
• Fix issue with dbupdate.php failing to populate the HRM database with recent versions of PostgreSQL.
• Rename Database.php and AutoCrop.php to respect PSR-4.
• Expand installation and setup instructions in README.md.

3.7.0

Changelog

• Allow image channels to be assigned the restoration algorithm individually or skipped altogether.
  This adds the possibility to use HRM as a pure batch file converter, chromatic aberration corrector, time stabilizer, etc.
• Add an "All files" filter in the image selection step. Show by default all the contents of the raw images folder.
• Add extreme GPU support.
• Replace old EPFL logo with current.
• Substantially increase performance of files listing.
• Substantially increase performance of job creation.
• Make queue more robust against job deletion, process killing, process failure, and stalling.
• Switch to persistent connections to the database.
• Cache many database query results to reduce traffic.
• Bug fixes.

3.6.0

Changelog

• New Array Detector deconvolution (a.o. Airyscan and nanoSPAD)
• New Rescan deconvolution
• New UI dark theme
• Performance and stability improvements in the job queue
• Compatibility upgrade to PHP 7.2
• New admin options (default output file format; minimum amount of free RAM for a job to start)
• New template warnings for wavelength sanitation
• New license checks for multi-machine installations
• And several bug fixes.

For more info, please see http://huygens-rm.org.

3.5.0

HRM 3.5's new features:

• New, modern user interface
• GMLE deconvolution algorithm
• Stabilization of deconvolved time series
• New spherical aberration correction mode
• New license overview page for admins
• Performance patch for image selection
• Bug fixes

Please see http://huygens-rm.org for more information about this release, and follow the upgrade instructions on http://huygens-remote-manager.readthedocs.io/en/latest/admin/upgrade.html.

3.4.1

Bug fixes

The HRM 3.4.1 patch release addresses the following issues:

• Fix bug with admin not being allowed to login if the database has not been upgraded yet;
• Fix issue with checkConfig.php script mistakenly reporting that $authenticateAgainst is not an array even if it is;
• Fix regression with querying global statistics;
• Fix logger initialization in OmeroConnection.

Moreover:

• Allow the admin to add server entries with no GPUs.

Upgrade

Please carefully follow the upgrade information here.

3.4.0

New features

The new features at a glance are:

• Enhanced user management and security
• Multi-GPU support
• Chunked, parallel file uploader
• Support for Metamorph ND and Leica LOF files

Have a look at the release note for more details!

Upgrade

Please carefully follow the upgrade information here.

HRM 3.3.0

Changelog

New features

• Create image templates from an image file
• Import image templates from Huygens microscopy templates (.hgsm)
• Import restoration templates from Huygens restoration templates (.hgsd)
• Add support for GPU deconvolution
• Add support for SPIM deconvolution
• Add chromatic aberration correction
• Faster and more powerful OMERO connector:
  • Complete rewrite in Python to use the native OMERO API
  • Support for downloading multiple files at once from OMERO
  • Support for OMERO image previews
  • Status caching and on-demand loading to greatly speed up OMERO tree loading times
  • Support for OMERO users and groups hierarchy
  • Upload of HRM parameters along the deconvolved result images to OMERO
  • More interactive user interface (dialogs and status messages)
• Add group authentication for Active Directory and generic LDAP
• Add BigTIFF file formats "btf", "tf2" and "tf8"
• Support for 6 channels
• New LSB-compliant HRM init and Queue Manager scripts
• Remove deprecated 'change_ownership' variable

Bug fixes

• Clean stuck jobs from the queue on Queue Manager restart
• Fix links to help pages for STED parameters
• Fix issue with template names longer than 30 characters
• Fix issue with processing server names longer than 30 characters
• Remove dependency on php5-mysql when PostgreSQL is used
• Fix broken icon links in Results/Preview section
• Fix issue with the file upload button
• Some more minor bug fixes

Minimum Huygens Core version

For GPU- and SPIM-deconvolution support, HuCore version 15.10 is required. Otherwise, the same minimum requirement applies as for HRM 3.2 (14.6.1p7).