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WinMan

DOI

WinMan (Window Manager & Workflow Accelerator) is a lightweight utility designed to solve the “Desktop Explosion” problem in high-throughput microscopy workflows.

Developed by Dr. Kui Wang at the Center for Excellence in Brain Science and Intelligence Technology (CEBSIT), Chinese Academy of Sciences, WinMan acts as a digital housekeeper. It provides granular control over open windows, batch processing tools, and system resource monitoring with a modern, compact interface.

Author: Kui Wang, CEBSIT, CAS. For questions please use the GitHub Issues or tag @Epivitae on image.sc.

Key Features

  • Smart Filtering Engine:
    • Close Match: Instantly close all windows containing a specific keyword (e.g., remove all C1- channels).
    • Keep Match (Inverse Logic): The killer feature. Type Final and click Keep Match to close everything except your final results.
    • Safety First: “Close ALL” includes a confirmation dialog to prevent accidental data loss.
  • Batch Image Tools:
    • Auto Contrast All: Applies intelligent histogram stretching (Enhance Contrast, saturated=0.35) to ALL open images instantly. Eliminates repetitive manual adjustments.
    • Reset Zoom All: Resets all image windows to 100% zoom level for standardized viewing.
  • System Health Monitor:
    • Features an integrated Memory Bar showing live RAM usage.
    • One-Click GC: Clicking the memory bar triggers immediate Garbage Collection to free up system resources.

Installation & Update

WinMan is distributed via the Biosensor Tools Fiji Update Site.

  1. Open Fiji / ImageJ.
  2. Navigate to Help › Update…
  3. Click Manage update sites.
  4. Check Biosensor Tools from the list.
  5. Click Apply and Close, then restart Fiji.

If the site is missing from the list, you can add it manually:
Name: Biosensor Tools
URL: https://sites.imagej.net/Biosensor-Tools/

Usage Guide

1. Filter Logic Examples

Function Input Example Action Use Case
Close Match .csv Closes any window with “.csv” in title. Cleaning up intermediate data tables.
Keep Match Final Closes everything EXCEPT “Final” windows. Isolating processed results for export.
Close Match C2- Closes all Channel 2 images. Removing reference channels after alignment.

2. Interface Controls

  • Window Layout:
    • Tile: Arranges images in a grid without overlap (Optimized algorithm).
    • Cascade: Stacks images diagonally with titles visible.
  • Status Footer: Displays operation feedback (e.g., “Closed 12 windows”) and real-time Memory usage.

Citation & DOI

If you use this software in your research, please cite the permanent Zenodo record:

Wang, K. (2026). WinMan: A Modern Window Manager and Workflow Accelerator for ImageJ/Fiji (v1.0.0). Zenodo. https://doi.org/10.5281/zenodo.18224551

Developed by Kui Wang © 2026. Part of the Biosensor Tools suite.