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cnr-ibf-pa / hbp-bsp-issues

Ticketing system for developers/testers and power users of the Brain Simulation Platform of the Human Brain Project
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Pair recording application #134

Closed jdcourcol closed 6 years ago

jdcourcol commented 6 years ago

This application will allow the user to experiment with 2 connected cells of a circuit.

alex4200 commented 6 years ago

@pgetta : Let me know once you have a version of the App/GUI/Use case I can take a look at...

alex4200 commented 6 years ago

From @pgetta:

I have something to show, but it’s not deployed yet. I’ll ask for a repository for this app and then there will be pretty tricky part to actually deploy it, because for such app OpenShift is the best choice, but app requires direct access to gpfs and this is not supported by OpenShift yet - will discuss with Core Services team ways to solve this. Hope to get somehow deployed app this week.

alex4200 commented 6 years ago

Update from @pgetta

Now we decided to try to copy the whole circuit with all necessary data into OpenShift created volume (waiting for CoreServices team to increase the quota - we need more then 200GiB per circuit). Now I’m testing script to make such a copy - picking what actually is crucial for application, trying to save as much space as we can - this also takes some time I’m about to finish testing of this script on my machine, as if we will be lucky and get increased quota from core-services team - maybe today in the evening - tomorrow morning app will be deployed.

pgetta commented 6 years ago

Update:

The app has been deployed to OpenShift with three separate instances:

http://bp-hippocampus-o1.ocp.bbp.epfl.ch/
http://bp-mouse-o1.ocp.bbp.epfl.ch/
http://bp-rat-ca1.ocp.bbp.epfl.ch/

Deployment for rat CA1 due to bigger size has few issues with memory, most of them are currently fixed, but still WIP. For the time being simulation doesn't work on that instance.

Last Friday we've received comments from NSE team members. With respect to those, feature to provide synaptic inputs along with some other fixes are being implemented now.

Next status update - Monday 30th of April, in a week.

mmigliore commented 6 years ago

Nice! However, when I click on a cell I expected to see only cells which are
connected to that cell in input or output. Instead I do not see any change in the visualization.

Cheers Michele

Pavel Getta notifications@github.com ha scritto:

Update:

The app has been deployed to OpenShift with three separate instances:

http://bp-hippocampus-o1.ocp.bbp.epfl.ch/
http://bp-mouse-o1.ocp.bbp.epfl.ch/
http://bp-rat-ca1.ocp.bbp.epfl.ch/

Deployment for rat CA1 due to bigger size has few issues with
memory, most of them are currently fixed, but still WIP. For the
time being simulation doesn't work on that instance.

Last Friday we've received comments from NSE team members. With
respect to those, feature to provide synaptic inputs along with some
other fixes are being implemented now.

Next status update - Monday 30th of April, in a week.

-- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/cnr-ibf-pa/hbp-bsp-issues/issues/134#issuecomment-383595909

pgetta commented 6 years ago

There is Connectivity filter on a side-panel that can be used to filter cells based on their connections (afferent, efferent, both).

I’ve noticed an issue with a backend for http://bp-rat-ca1.ocp.bbp.epfl.ch/ http://bp-rat-ca1.ocp.bbp.epfl.ch/%60, it has been restarted, so that feature now works.

UI still needs some improvements to be done. Concerning connection filers: maybe we should add some of them automatically when one select a cell. Does this sound like a good idea? If it does, which types of connected cells do we need to show by default: with afferent / efferent / afferent and efferent / afferent or efferent connections?

Regards, Pavlo

On 23 Apr 2018, at 16:49, mmigliore notifications@github.com wrote:

Nice! However, when I click on a cell I expected to see only cells which are connected to that cell in input or output. Instead I do not see any change in the visualization.

Cheers Michele

Pavel Getta notifications@github.com ha scritto:

Update:

The app has been deployed to OpenShift with three separate instances:

http://bp-hippocampus-o1.ocp.bbp.epfl.ch/
http://bp-mouse-o1.ocp.bbp.epfl.ch/
http://bp-rat-ca1.ocp.bbp.epfl.ch/

Deployment for rat CA1 due to bigger size has few issues with memory, most of them are currently fixed, but still WIP. For the time being simulation doesn't work on that instance.

Last Friday we've received comments from NSE team members. With respect to those, feature to provide synaptic inputs along with some other fixes are being implemented now.

Next status update - Monday 30th of April, in a week.

-- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/cnr-ibf-pa/hbp-bsp-issues/issues/134#issuecomment-383595909

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/cnr-ibf-pa/hbp-bsp-issues/issues/134#issuecomment-383602549, or mute the thread https://github.com/notifications/unsubscribe-auth/AHp6tq5Ufl7kv5NGALcbHayji078luPNks5trenxgaJpZM4ReOiX.

mmigliore commented 6 years ago

I see, all clear now.

UI still needs some improvements to be done. Concerning connection
filers: maybe we should add some of them automatically when one
select a cell. Does this sound like a good idea? If it does, which
types of connected cells do we need to show by default: with
afferent / efferent / afferent and efferent / afferent or efferent
connections?

afferent AND efferent is a good choice.

Also, I see that the visualization of
http://bp-hippocampus-o1.ocp.bbp.epfl.ch/ shows something that does not have anything to do with what one
expects for hippocampus. This should not be included in the list available for the reviewers.

Best michele

Regards, Pavlo

On 23 Apr 2018, at 16:49, mmigliore notifications@github.com wrote:

Nice! However, when I click on a cell I expected to see only cells which are connected to that cell in input or output. Instead I do not see any change in the visualization.

Cheers Michele

Pavel Getta notifications@github.com ha scritto:

Update:

The app has been deployed to OpenShift with three separate instances:

http://bp-hippocampus-o1.ocp.bbp.epfl.ch/
http://bp-mouse-o1.ocp.bbp.epfl.ch/
http://bp-rat-ca1.ocp.bbp.epfl.ch/

Deployment for rat CA1 due to bigger size has few issues with memory, most of them are currently fixed, but still WIP. For the time being simulation doesn't work on that instance.

Last Friday we've received comments from NSE team members. With respect to those, feature to provide synaptic inputs along with some other fixes are being implemented now.

Next status update - Monday 30th of April, in a week.

-- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub:

https://github.com/cnr-ibf-pa/hbp-bsp-issues/issues/134#issuecomment-383595909

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub
https://github.com/cnr-ibf-pa/hbp-bsp-issues/issues/134#issuecomment-383602549, or mute the thread
https://github.com/notifications/unsubscribe-auth/AHp6tq5Ufl7kv5NGALcbHayji078luPNks5trenxgaJpZM4ReOiX.

-- You are receiving this because you commented. Reply to this email directly or view it on GitHub: https://github.com/cnr-ibf-pa/hbp-bsp-issues/issues/134#issuecomment-383619900

alex4200 commented 6 years ago

Application is online ...