- Created by Nicolas Stifani, last updated on Apr 14, 2025 3 minute read
HP Z840 Deconvolution Workstation
Roger Gaudry Building, Room R-619
Instrument awarded to Dr Paradis-Bleau by the Canadian Foundation for Innovation (CFI)
Workstation usage price
Applications
2D and 3D Deconvolution
Image processing
Image analysis
Quantification
Processor
2 x Intel Xeon E5-2623 v4 2.60 GHz
RAM
128 GB (8x16GB) ECC DDR4 2400 MHz
Drives
- OS 512GB NVMe at 2500 MB/s
- Data Storage 4TB at 170 MB/s (2x2TB spanned volumes)
Video Card
nVidia GTX 1080 with 8GB DDR5 dedicated memory
Monitor
HP Z24n 24" IPS display native resolution 1920 x 1200
- OS
- Windows 10
- Softwares
ImageJ
FIJI
Microsoft Office 2016
NIS-Elements AR v5.02 64-bits
NIS-Elements Offline Deconvolution v4.11 64-bits
- Turn on the computer
- Turn on the monitor
- Log in Windows using your UdM credentials
- Start-up NIS-Elements Offline Deconvolution
- Save your data
- Close NIS-Elements
- Transfer your data to the D: drive (Data Storage) or to your external drive and delete it from the local C: drive
- 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.
- Nothing
- Added network cable between Nikon Ti2 microscope workstation
- Added shared public document shortcuts in Desktop\Documentation
- Change GPO
- Computer Configuration → Administrative Templates → All Settings
- Do not display the lock screen Enabled
- Set an active Power plan Enabled High Performance
- Select the Power button action (plugged in) Enabled Take no action
- Specify a custom active power plan Enabled
- Specify the unattended sleep time out (plugged in) Enabled 0
- Turn off the display (plugged in) Enabled 0
- Turn off the hard disk (plugged in) Enabled 0
- User Configuration → Administrative Templates → All Settings
- Enable screen saver Disabled
- Desktop Wallpaper Enabled C:\Admin Files\Source Files\DesktopBG.jpg Fit
- Screen saver timeout Enabled 0
- Password protect the screen saver Disabled
- Windows 10 UdeM Image installation
- Change the 2nd network adapter configuration with fix IP to enable for computer to computer communication
- Change sharing policies of public document folder
- Change GPO to disable screen saver
Workstation
- HP Z840 Workstation
- 2 x Intel Xeon E5-2623 v4 2.60 GHz
- 128 GB (8x16GB) ECC DDR4 2400 MHz
Drives
- OS 512GB NVMe at 2500 MB/s
- Data Storage 4TB at 170 MB/s (2x2TB spanned volumes)
- Video Card nVidia GTX 1080 with 8GB DDR5 dedicated memory
- Monitor HP Z24n 24" IPS display native resolution 1920 x 1200
- OS Windows 10
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 and No. You can't start the software remotely but you can start the software locally and then connect remotely to make sure all is running smoothly. To do so you need to request permission to the platform manager.
There is no single answer
- If you have a single plan you should choose 2D-deconvolution
- If you have a Z-stack you should pick 3D-deconvolution.
- If you want to have a quick view of the result you should use Fast Deconvolution.
Quality wise, the best results are achieved using blind and Landweber. However these methods required a long processing time (several hours for big files)
For more information about deconvolution method refer to paragraph 1.2.2 Choosing the deconvolution Method of the NIS Offline Deconvolution Manual (pdf)