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iconbuild
titleFrançais
typeprimary
urlhttps://wiki.umontreal.ca/display/Microscopie/HP+Z840+Deconvolution+Workstation




Tabs Container
idInstrument Tabs
titleDeconvolution and Image Analysis WorkstationHP Z840 Poste de déconvolution
directionhorizontal

Tabs Page
idDescription
titleDescription

HP Z840

Deconvolution and Image Analysis Workstation

Poste de déconvolution

Roger Gaudry R-619

  • Applications

    • 2D and Déconvolution 2D et 3D Deconvolution

    • Image processing

    • Traitement d'images

    • Analyse d'imagesImage Analysis

    • Quantification

  • ProcessorProcesseurs

    • 2 x Intel Xeon E5-2623 v4 2.60 GHz 

  • RAM

    • 128 GB (8x16GB) ECC DDR4 2400 MHz

  • DrivesDisques

    • 512 GB NVMe at à 2500 MB/s OS
    • 4 TB (2x2TB) at à 170 MB/s spanned volume for storagevolumes étendus
  • Carte vidéoVideo Card

    • NVidia GTX 1080 with 8GB DDR5 dedicated memoryavec 8GB  de mémoire DDR5 dédiée

  • ÉcranMonitor

    • HP Z24n 24" IPS display avec une résolution native resolution de 1920 x 1200

  • Système d'exploitationsOS
    • Windows 10 21H1
  • LogicielsSoftwares
    • ImageJ

    • FIJI

    • Microsoft Office 2016

    • NIS-Elements AR v5.02 64-bits

    • NIS-Elements Offline Deconvolution v4.11 64-bits


Tabs Page
idUser Guide
titleUser Guide d'utilisation


UI Expand
expandedtrue
titleStartupDémarrage
  1. Allumez l'ordinateur
  2. Utilisez vos identifiants UdM pour vous connecter à Windows

  3. Démarrez le logiciel 
  4. Turn on the computer
  5. Log in Windows using your UdM credentials
  6. Start-up NIS-Elements Offline Deconvolution


UI Expand
titleShutdownFermeture
  1. Enregistrez vos données
  2. Save your data
  3. Close Fermez le logiciel NIS-Elements Offline Deconvolution
  4. Transférez vos données sur le disque Transfer your data to the D: drive (Data Storage) or to your external drive and delete it from the ou sur votre disque dur externe et les supprimer du disque local C: drive


UI Expand
titleStorage ManagementGestion du stockage
  • Les fichiers peuvent être sauvés temporairement (pendant l'utilisation) sur le disque Files can be saved temporarily (during acquisition) on the local C: drive (desktopbureau)
  • At the end of each session, copy your data to your external drive and delete it from the local C: drive
  • À la fin de chaque session, copiez vos données sur votre disque externe et supprimez-les du disque local C:
  • Vous pouvez stocker vos fichiers sur le disque D: 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_LastnameSi vous utilisez ce disque, veuillez créer un dossier par laboratoire en utilisant le nom de famille du chercheur principal. A l’intérieur créez un dossier par utilisateur (Prénom_Nom).
Remarque

In any case, your files should be removed from the C: drive.Dans tous les cas, ne stockez pas vos fichiers sur le disque C:




Tabs Page
idManuals
titleManuelsManuals

Manuels

Manuels disponibles version anglaise.

Manuals


Tabs Page
idLog
titleLog


UI Expand
expandedtrue
titleTo do
  • Bring a network cable to connect directly to Ti2 microscope workstation



UI Expand
title2021-07-20
  • 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



Tabs Page
idTechnical Datasheet
titleTechnical Datasheet

Stand

  • Nikon Eclipse E600 upright Serial 725540

Light sources

  • Transmitted light Halogen 12V 100W Serial 01875599
  • Reflected light
    • Power supply Nikon Mercury lamp Type C SHG1 Serial D12139
    • Bulb housing model LH M100C-1 Serial 039326

Condenser

  • Condenser Universal C-CU Serial 081901
  • Lens Dry NA 0.9
  • Filters: Empty, Ph1, Ph2, Ph3, DICM, DICH, Empty

Objectives

  • 10x/0.3 Plan Fluor Ph1 DLL WD 16 Air
  • 40x/0.75 Plan Fluor Ph2 DLL WD 0.72 Air with PF40 Wollaston prism
  • 100x/1.3 Plan Fluor Ph3 DLL WD 0.2 Oil with PF/PA 100 Oil Wollaston prism
  • Empty
  • Empty
  • Empty
Développer
titleObjectives complete specifications


PositionNameBrandIDMagnificationNumerical ApertureImmersionTypeWorking distance (mm)Transmittance
(% [nm])
TechniqueCover glass thickness (mm)
110x/0.3 AirNikon10x/0.3 Air Plan Fluor Ph1 DLL10x0.3AirPlan Fluor16>75% [400-800]BF, Pol, PhC, Fluo0.17
2

40x/0.75 Air

Nikon40x/0.75 Air Plan Fluor Ph2 DLL40x

0.75

Air

Plan Fluor0.72>80% [400-750]BF, Pol, PhC, Fluo0.17
3

100x/1.3 Oil

Nikon100x/1.3 Oil Plan Fluor Ph3 DLL

100x

1.3


Remarque
Oil


Plan Fluor0.2>75% [400-800]BF, Pol, PhC, Fluo0.17
4Empty









5Empty









6Empty










Filters

  • DAPI/Hoechst/AMCA

  • FITC/EGFP

  • TRITC/Rhodamine

  • TexasRed

Développer
titleFilters complete specifications


PositionCube nameBrandIDExcitation FilterDichroic mirrorEmission Filter
1DAPI/Hoechst/AMCAChromaCube set 31000v2350/50x [325-375]400LP460/50m [435-485]
2FITC/EGFPChromaCube set 41001

480/40x [420-500]

505LP

535/50m [510-560]
3TRITC/RhodamineChroma

Cube set 41002c

545/30x [530-560]570LP620/60m [590-650]
4Texas RedChroma

Cube set 41004

560/55x [532-588]

595LP645/75m [607-682]
5Empty




6Empty





Detector

  • Color Camera Nikon DS-Ri2 Serial 701234

Workstation

  • HP Z440 Workstation
  • Intel Xeon E5-1630 v3 @ 3.7GHz
  • RAM 32 GB DDR4 2133 MHz  (4 x 8 GB)
  • OS 256GB SSD 550 MBs
  • 2TB HD Data Storage 150 MBs
  • Video Card NVIDIA Quadro K620 2 GB DDR3 dedicated memory
  • Monitor HP Z24i display 24' 1920x1200

Consumables


Tabs Page
idFAQ
titleTroubleshooting & FAQ


UI Expand
expandedtrue
titleTroubleshooting

Deconvolution processing not giving expected results...

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 propriatery 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)


UI Expand
titleFAQ

Can I use this workstation remotely?

  • Yes and No. You can't use the software remotely but you can start the software locally and connect remotely to make sure all is running smoothly. To do so you need to request permission to the platform manager.

Which deconvolution method should I use?

  • There is not a 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.
  • For best results Landweber deconvolution
  • For more Yes and No. You can't use the software remotely but you can start the software locally and connect remotely to make sure all is running smoothly. To do so you need to request permission to the platform manager.





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idDemo Image
directionhorizontal


Tabs Page
idDemo Images
titleDemo Images