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Zeiss Processing and Analysis Workstation

Desmarais building, Room 5308-2
Workstation usage price

Instrument kindly provided to the CI2B by – in 2025

  • Image processing, Direct Processing, Advanced Processing, Extended Focus, 2D and 3D Deconvolution
  • Image Analysis and Quantification, Measurement, Colocalization
  • Intellesis, Intellesis Denoising, Intellesis Object Classification
  • Arivis Cloud Basic and Advanced

 

Applications

  • Arivis Cloud Basic and Advanced
  • Intellesis Denoising and Object Classification
  • Direct and Advanced Processing, Extended Focus
  • 2D and 3D Deconvolution
  • Image Analysis, Measurement and Colocalization

Processor

  • 1 x Intel Core i7-13700 2.10 GHz 

RAM

  • 64 GB (2 x 32 GB) DDR5 2400 MHz

Drives

  • OS 512 GB NVMe at 3800 MB/s
  • Data Storage 6 TB at 170 MB/s

Video Card

  • nVidia RTX A2000 with 12 GB GDDR6 dedicated memory

Monitor

  • Viewsonic VP3268a-4K native resolution 3840 x 2160

Softwares

  • ImageJ

  • FIJI

  • Zen Desk 3.11
    • Arivis Cloud Basic and Advanced
    • Intellesis Denoising and Object Classification
    • Direct and Advanced Processing, Extended Focus
    • 2D and 3D Deconvolution
    • Image Analysis, Measurement and Colocalization
  1. If not already done, turn on the computer (#1) and log in to Windows using your UdeM credentials
  2. Start-up Zen
  • Files can be saved temporarily (during acquisition) on the local C: drive (desktop)
  • At the end of each session, copy your data to your external drive and delete it from the local C: drive
  • You can store your files on the D: drive (Data Storage). If you do, please create a folder per laboratory using the principal investigator last name. Within, create one folder per user (Firstname_Lastname).

In any case, your files should be removed from the C: drive.

  1. Save your data
  2. Close Zen
  3. Transfer your data to the D: drive (Data Storage) or to your external drive and delete it from the local C: drive
  4. Turn off the computer
  • All good !
  • Added to the Wiki
  • Received and Initial Installation

Workstation

  • Workstation CompuData CSL-20912
  • I155442-CIB
  • Motherboard Asus Prime B760M-A Ax Chipset Intel B760
  • BIOS 2024-10-30 v1805
  • Intel Core i7-13700 2.10 GHz
  • 64 GB (2 x 32 GB) DDR5 2400 MHz

  • Drives

    • OS 512 GB NVMe at 3800 MB/s PCie x4  Brand Model
    • Data Storage 6 TB at 170 MB/s Brand Model
  • Video Card nVidia RTX A2000 with 12 GB GDDR6 dedicated memory
  • Monitor Viewsonic VP3268a-4K native resolution 3840 x 2160
  • OS Windows 11 24H2

  • Zen Desk 3.11 HASP 1123196011-290130 and 1123471824-145029

  • Available modules
    • Arivis Cloud Basic and Advanced
    • Intellesis, Intellesis Denoising, Intellesis Object Classification
    • Direct Processing, Advanced Processing, Extended Focus, Deconvolution
    • Image Analysis,  Measurement, Colocalization

Troubleshooting

This usually happens when the image files do not contain the correct metadata.

  • Make sure to save the files with all available metadata on the microscope used for the acquisition. This usually requires to save the files in the software proprietary format (.nd for NIS-Elements and Metamorph, .czi for Zen,...)
  • You can always add the correct calibration values after acquisition (pixel size in XY and Z, wavelength, Z-step)

FAQ

Yes but... to do so you need to request permission to the platform manager.

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Content published under CC BY-SA 4.0. Sharing allowed under the same license with attribution: "Original content by l'Institut Courtois d'innovation biomédicale, used under CC BY-SA 4.0"

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