Current Release Notes
This page lists the current and potentially beta-version release notes for Microscopy Image Browser (MIB), detailing new features, improvements, and fixes across versions.
For the latest updates, visit MIB website or check the Current release notes.
For the downloads visit MIB website for the development history click here.
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BETA release 2.91 beta 47 / 25.04.2025 (SAM2 segmentation)
- [b47] Fixed adding a model in the rotated view when the blockMode is on
- [b46] Added the auto-preview checkbox into the Multi rename tool
- [b45] Improved GPU memory handling when using SAM-1/SAM-2; updated documentation
- [b44] Added modification of the Info box into freeline of Measure Tool
- [b43] Added possibility to specify prefixes in the Multi rename tool
- [b42] Fix SAM3 Interactive 3D for 16bit images
- [b41] Added Interactive 3D mode for SAM2
- [b40] Added export and save of the selected material of the model
- [b39] [DeepMIB] Rearrangement of 2.5D Z2C DLv3 networks, bug fixes
- [b38] Added Multi-rename tool for batch renaming of files: Plugins->File processing->Multi rename tool
- [b38] Added swap of colors in the model from the segmentation panel
- [b37] Added operations with materials: add, insert, rename, reorder, swap, remove
- [b35] Fixed correct handling of random numbers in the augmentation patches preview
- [b35] Fixed accidental appearance of Deep.AugOpt2D.ImageNoise field in augmentation preferences
- [b35] Added loading of part of dataset using BioFormats reader
- [b34] Added SIFT feature detector for automatic alignment
- [b33] Added a new version of automatic alignment (Automatic feature-based v2)
- [b31] Added option of returning back to a slice: use Alt+scroll wheel to change slice; release Alt to return back to the slice when Alt+scroll wheel was triggered
- [b30] Added shortcuts (Shift+D, Ctrl+D) for two favorite segmentation tools
- [b29] Added presets for segmentation tool (Shift+1/2/3 stored the current state and 1/2/3 restores it)
- [b29] Added warning dialog when loading files, while a model exists
- [b26] [DeepMIB] Fixed Explore activations when images for prediction are not under Images directory
- Added Segment-anything-2 and 2.1 models for manual/semi-automatic segmentation
- Added 3D mode for Segment-anything-2 models
- Added new rendering modes for volumes (CinematicRendering, LightScattering) and overlays (LabelOverlay, VolumeOverlay, GradientOverlay) in MIB rendering
- Added use of annotations to perform single landmark point alignment
- Added automatic interpolation of annotations when they added using shift+mouse click
- Added rotation around selected object, ambient and diffuse lights in MIB 3D volume rendering
- Added pattern rename of annotations
- Fixed 3D rendering of the selected material
- Fixed SAM2 for Linux
- Replaced Alt+Shift+RMB with Alt+Shift+Ctrl+RMB to pan the view using Wacom pen eraser
- [DeepMIB] Rearranged selection of the encoder network
- [DeepMIB] Added U-net +Encoder architecture into 2D and 2.5D semantic segmentation workflows
- [DeepMIB] Added image downsampling parameter for automatic resizing of images for prediction
- [DeepMIB] Added automatic saving of the custom training plot as PNG and MATLAB-FIG
- [DeepMIB] Added weights preview in the Activation explorer
- [DeepMIB] Added saving of MIB version into the mibCfg and mibDeep files
- [DeepMIB] Fixed training of 2.5D networks without augmentations
RELEASE 2.9012 / 24.07.2024 (SAM segmentation, Multi-GPU training, 2.5D CNNs)
- To comply with dependencies the MIB license was updated from GPLv2 to GPLv3
- Added Segment anything (Standard and Microscopy) models for manual/semi-automatic segmentation
- Added Rename materials to batch processing operations
- Added possibility to skip loading of metadata
- Added the Cancel button to the progress bar upon loading of images
- Added recoloring of materials for models with 65535+ materials
- Added crop of 3D volumes from 2D objects detected using the Get Statistics window
- Added options to change thickness of model and mask contour lines (Menu->File->Preferences->Colors and styles->Contours)
- Added drag and drop *.mask files to the Image view panel to load them
- Added drag and drop *.ann files to the Image view panel or the Segmentation table to load annotations
- Added paste of annotation values from clipboard
- Added auto fill switch to the Selection panel to fill the shapes after use of brush
- Added jitter coordinates option into crop out patches for annotations and objects
- Added [F] template for exporting statistics via batch processing
- Added saving of projects, copy to clipboard and open in file explorer for directories in Rename and Shuffle->Restore
- Added possibility to load measurements (*.measure) from multiple files and added filename to export of measurement in the Excel format
- Added possibility update colors of annotations into the Annotation list window
- Added key shortcuts to zoom in to 100% and fit to view
- Added key shortcut to rename materials (default F2)
- Added key shortcuts to change the brush size (default '[' and ']')
- Added possibility to hide the Path and the bottom panels via a dropdown menu
- Added filename identifier when exporting object quantification
- Added filename identifier when exporting annotations to Excel or CSV
- Added "Center-top" and "Center-bottom" locations to Add frame
- Added "Set value" to the batch modify selected annotations
- Added interpolation operation to the List of Annotations
- Added options to add annotation names and coordinates to filenames when generating patches
- Added automatic selection of materials from selected rows in the segmentation table
- Added option to add multiple empty slices
- Added selection of colors for materials into the segmentation table
- Added fusing of a larger model into a smaller dataset crop
- Added possibility to define black and white points lower and higher than the image class
- Added possibility show masks as filled shapes
- Added an option to add annotation name when exporting to PSI format
- Added measurements to Rename and Shuffle
- Added save of models and masks to PNG format
- Added the Threshold button to the BW thresholding tool
- Added user tiers
- Improved calculation of DistanceMaps in 3D for isotropic voxels
- Changed usage of the Object picker tool
- Changed how the object id values are displayed in the Statistics window
- Fixed Add frame when dX or dY is 0
- Fixed Resize of models that have more than 255 materials
- Updated Bio-Formats to 7.2.0
- [DeepMIB] Added 2.5D network architectures for semantic segmentation
- [DeepMIB] Added training using Multi-GPU configuration
- [DeepMIB] Added prediction using Multi-GPU configuration
- [DeepMIB] Added new dialog to specify augmentation settings
- [DeepMIB] Added drag-and-drop of "mibCfg" project files
- [DeepMIB] Added duplication operation to make a copy of a trained network
- [DeepMIB] Added padding parameter to symmetrically pad the image
- [DeepMIB] Added symmetric padding for prediction
- [DeepMIB] Added export of the trained network to TensorFlow format
- [DeepMIB] Added 'MATLAB non-compressed format (range 0-1)'
- [DeepMIB] Added possibility to predict images that are not under Images subfolder
- [DeepMIB] Added an option to calculate loss excluding Exterior
- [DeepMIB] Added sending of email notifications about training progress
- [DeepMIB] Added preview of a network stored in mibDeep file
- [DeepMIB] Added possibility to mask-away areas without preprocessing
- [DeepMIB] Improved handling of directories
- [DeepMIB] Extended the Evaluate segmentation plot
- [2.9002] Updated GUI windows
- [2.9003] Added 'mib_prefs_override.mat' file to override default settings
- [2.9004] Fix accidental incompatibility augmentation settings bug
- [2.9005] Added update on zoom for snapshot and movie maker tools
- [2.9006] Added usage of a reference slice for contrast normalization
- [2.9007] Fixed import of older DeepMIB configs
- [2.9008] Fixed selection of 2D objects in Get Statistics
- [2.9009] Added SAM for YZ and XZ orientations
- [2.9010] Fix of file check during transfer learning
- [2.9011] Added "add, +next material" to SAM
- [2.9012] Added currently selected material to move layers; fixed indices for annotations; added import of landmarkAscii and landmarkBin
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