Waveform View won't update

[macayladonegan]

Hi,

I recently switched from sorting with Kilosort to Kilosort2, and now when I visualize my data in phy2 my waveform view won't update/let me toggle between the different waveform views. It seems to be stuck on the average waveform for the first cluster I select. Any advice?

Best, Macayla

[rossant]

What is your operating system? Could you send me your dataset so that I check whether it works on my computer?

[macayladonegan]

Windows 10, here's a drive link

On Fri, Sep 18, 2020 at 6:11 AM Cyrille Rossant [email protected] wrote:

What is your operating system? Could you send me your dataset so that I check whether it works on my computer?

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/cortex-lab/phy/issues/1032#issuecomment-694781423, or unsubscribe https://github.com/notifications/unsubscribe-auth/ADATRX5WSA25LDF3SDKVFGTSGMW3RANCNFSM4RMBPRWA .

-- Macayla Donegan, PhD Laboratories of Dr. Robert Froemke and Dr. Richard Tsien New York University www.wethescientists.net

[macayladonegan]

oops, here it is: https://drive.google.com/drive/folders/1joQ64chhRVuWpPgcrFmgE_SCQqlAsaZQ?usp=sharing

On Mon, Sep 21, 2020 at 11:48 AM macayla donegan [email protected] wrote:

Windows 10, here's a drive link

On Fri, Sep 18, 2020 at 6:11 AM Cyrille Rossant [email protected] wrote:

What is your operating system? Could you send me your dataset so that I check whether it works on my computer?

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/cortex-lab/phy/issues/1032#issuecomment-694781423, or unsubscribe https://github.com/notifications/unsubscribe-auth/ADATRX5WSA25LDF3SDKVFGTSGMW3RANCNFSM4RMBPRWA .

-- Macayla Donegan, PhD Laboratories of Dr. Robert Froemke and Dr. Richard Tsien New York University www.wethescientists.net

-- Macayla Donegan, PhD Laboratories of Dr. Robert Froemke and Dr. Richard Tsien New York University www.wethescientists.net

[MHRosenberg]

Was this ever resolved? I'm having a similar issue in ubuntu 16.04. I have plenty of RAM but after assigning a few clusters the waveform view ceases to update. I can provide my dataset upon request.

[blaje42]

I am also having a similar issue on Windows 10 with 64 GB of RAM. Waveforms cease to update and none of the toggle hotkeys for waveform view are working for me.

[rossant]

This only affects the waveform view? The other views are still updated when cluster selection changes? Hotkeys of other views continue to work?

[blaje42]

No, I am also having this issue with the correlogram view more so than the other views. I have not tried all the views, but I have had no trouble with hotkeys for TraceView or when rating clusters.

Edit: Reading through some other suggestions in other open issues I did make sure Phy was being run on the NVIDIA card.

[grahamfindlay]

I also had this issue using output from Kilosort 2.5, Windows 10, latest version of phy2. It appears to be caused by closing the ProbeView.

More observations:

• Once ProbeView is closed, the following plots continue to auto-update: ClusterScatterView, SimilarityView, TraceView (when forced w/ e.g. Alt+PgDown). No other plots auto-update, though scaling, changing ISI bin sizes, etc. still works.
• Inspecting state.json in the Template-GUI directory of your user folder shows that auto-update is still set to true for plots that do not auto-update.
• Closing and re-opening the WaveformView will cause the new WaveformView to auto-update, but keyboard shortcuts for that view no longer work. For example, trying "W" to switch waveform type gives the error: QAction::eventFilter: Ambiguous shortcut overload: W. Furthermore, other frozen views like ISIView will not auto-update until they are also closed and re-opened.

So for now, my solution is just to minimize the ProbeView as much as possible, or undock and hide it, but never close it.

[ClaudiaJou]

Hi, Having the same issue here also using the output from Kilosort 2.5 in the latest version of phy2, on a Windows 10 PC. Other views also freeze, not only WaveformView. Keeping ProbeView open only worked for a few minutes.

UPDATE: I believe changing the graphics processor settings is the key. Now it rarely ever freezes unless I really try (having TraceImage + Raster +the other 7 most common views open all at the same time). Try : Windows settings > System > Display > Graphics Settings and then try to find Phy on your computer (it took me a while) and in options select the High performance ( NVIDIA GPU). Successful so far!

[blaje42]

Keeping ProbeView open also did not help for me, unfortunately.

Edit: As an update, I reset the GUI ( phy template-gui params.py --clear-state ) and then kept ProbeView open and now the waveform toggles are working (which they were not before) and so far it has not frozen. I will update if anything changes.