[[ https://imaris.oxinst.com/ | Imaris ]] is a closed source 3D visualization and segmentation software built by Bitplane, now part of Oxford Instruments.
The BIOP boast two licenses for Imaris 9.5.1 with the following packages
Vantage, Coloc, MeasurementPro, Track, XT.
(WARNING) Packages not included in the BIOP licenses: Cell, Filament Tracer, Batch, ClearView, Stitcher
= Converting to IMS formats =
As of version 9.0 Imaris no longer natively opens formats other than .ims, but includes a file converter. Imaris can convert most microscopy formats (Zeiss, Leica, Olympus
= Imaris Free Viewer =
https://imaris.oxinst.com/imaris-viewer
= Imaris First Time Setup =
When launching Imaris for the first time, you need to make some initial adjustments
== Define the License Server if there is none ==
1. Click on the {nav icon=key, name=Key} icon (written Administrate)
2. Select **Define Floating License Server**
|Servername | ptbioplicense.epfl.ch |
| Port | 2700 |
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2. Provide the amount of **Texture Cache Limit** which depends on the GPU of the machine
| PC | GPU |RAM|Suggested|
|----------------|-----------------|-----|----------|
|Peacock Spider | RTX 2080 Ti | 11GB | 9600 |
|Pink Panther | RTX 2080 Ti | 11GB | 9600 |
|Mantis Shrimp| Quadro K5200 | 8GB | 7552|
|Squared Cell | Quadro 620 | 2GB | 1750 |
|Red Panda | GTX 580 | 2GB | 1750 |
3. Set The SWAP Folder Somewhere other than C:/
1. Press {key CTRL P} to access the **Properties Menu**
2. Navigate to {nav Calculation} and change the **Cache File Path** to something like `D:\Swap`
4. Make sure that the XTensions folder points to the Matlab files
1. From the ** Properties Menu**, navigate to {nav Custom Tools}
2. Change **rtmatlab** to **matlab**
= Teamviewer =
Due to the current CoVid situation, many users will need to work remotely.
Please follow these instructions to connect via TeamViewer
Use the following Connection Information
==Peacock Spider==
1 577 766 762
Password: 5mentarios
== Pink Panther==
536 668 160
Password: pink-biop
WARNING: This is experimental and not very safe. Please ensure you are the one who has booked the machine before trying to connect. And do not turn off team viewer at the end of the session. Just log off normally.
== Mantis Shrimp and Red Panda ==
Mantis shrimp has a GPU that is compatible with Imaris remotely so no TeamViewer is allowed
Red Panda can be setup if needed. Please get in touch with Oli
= Imaris Remote License Manager (RLM) =
At the BIOP, we opted for a floating license approach to Imaris, as we have two full licenses and two basic licenses (Up to Imaris 7.6.1) and over 10 computers that could benefit from using Imaris.
== ptbioplicense.epfl.ch ==
We requested a static IP address as well as an alias 'ptbioplicense.epfl.ch' to make connection to the license server as simple as possible.
=== Update 2019 ===
Our Intel NUC passed away and we requested a virtual machine through SV-IT and Oli installed everything. The machine is still accessible via 'ptbioplicense.epfl.ch'
Issues with the machine should be adressed to [[mailto:paul.schalbetter@epfl.ch| Paul Schalbetter]]
== In Case Of License Problems ==
Connect to **ptbioplicense.epfl.ch** using Remote Desktop Connection (You can use your BIOP credentials)
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Then open **Windows Services** by clicking on the Desktop shortcut and locate **Imaris Remote License Manager**
{nav Right Click > **Restart**}
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Eventually, you may have to start the `Task Manager` and `end task` of `bitplane`.
== Changing the `bitplane.lic` and `bitplane.opt` Files ==
If we get new `bitplane.lic` and `bitplane.opt` these are the steps to change them
1. Remotely login to `ptbioplicense.epfl.ch`
2. Go to **Services** and stop the **BitplaneRLM** Service
3. Go to C:\rlm and copy the old `bitplane.lic` and `bitplane.opt` files somewhere safe, rename them.
4. Copy the new `bitplane.lic` and `bitplane.opt` files into the rlm folder.
5. Restart the **BitplaneRLM** Service