#38 Extend openephys files to "binary" default format

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3 年 前alejoe91 によって開かれました · 10 コメント
Alessio Buccino3 年 前 にコメントしました

Hi guys,

I have a smallish Open Ephys binary file of a Neuropixels recording (I think @sprenger has the same).

Can I make a PR to add it or is it too large?

Cheers Alessio

Hi guys, I have a smallish Open Ephys binary file of a Neuropixels recording (I think @sprenger has the same). Can I make a PR to add it or is it too large? Cheers Alessio
sprenger3 年 前 にコメントしました
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Hi @Alejoe91,

if we are talking about the same dataset, then one of the two continuous data files still has a size of 23MB. Do you think it would be possible to replace this e.g. by a duplication of the other (smaller) file or shorten this file a bit?

@apdavison & @samuelgarcia: Do you agree to #37 or how should we proceed from now on with PRs for this repository?

Hi @Alejoe91, if we are talking about the same dataset, then one of the two continuous data files still has a size of 23MB. Do you think it would be possible to replace this e.g. by a duplication of the other (smaller) file or shorten this file a bit? @apdavison & @samuelgarcia: Do you agree to #37 or how should we proceed from now on with PRs for this repository?
Alessio Buccino3 年 前 にコメントしました
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Hi Julia,

I would have to ask Josh Siegle for another shorter dataset..this is already 1s.

Can we make an exception to the 10Mb rule given the git-annex update?

Let me know. I can then amke a PR as suggested in https://gin.g-node.org/NeuralEnsemble/ephy_testing_data/pulls/37

Hi Julia, I would have to ask Josh Siegle for another shorter dataset..this is already 1s. Can we make an exception to the 10Mb rule given the `git-annex` update? Let me know. I can then amke a PR as suggested in https://gin.g-node.org/NeuralEnsemble/ephy_testing_data/pulls/37
Samuel Garcia3 年 前 にコメントしました
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Hi Alessio. If you create this, could you name the folder "openpehysbinary" to mtach the new class "OpenEphysBinaryIO" ?

Sam

Hi Alessio. If you create this, could you name the folder "openpehysbinary" to mtach the new class "OpenEphysBinaryIO" ? Sam
sprenger3 年 前 にコメントしました
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@samuelgarcia: This should be closed via https://gin.g-node.org/NeuralEnsemble/ephy_testing_data/pulls/39 ,right?
sprenger3 年 前 にコメントしました
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Hi @Alejoe91, I would be also interested in test examples dataset with spikes and waveforms. It seems the video tracking dataset has spike files, but there are no spike times or waveforms contained. Do you have access to a dataset that has these features and can provide it?

Hi @Alejoe91, I would be also interested in test examples dataset with spikes and waveforms. It seems the video tracking dataset has spike files, but there are no spike times or waveforms contained. Do you have access to a dataset that has these features and can provide it?
Alessio Buccino3 年 前 にコメントしました
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Hi @sprenger

I can ask for a test example with spike sorted data. I'm not sure waveforms are saved in the binary OE format. We can check that!

Hi @sprenger I can ask for a test example with spike sorted data. I'm not sure waveforms are saved in the binary OE format. We can check that!
sprenger3 年 前 にコメントしました
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@Alejoe91 Thanks! In the format specifications a spike_waveforms.npy is listed (https://open-ephys.github.io/gui-docs/User-Manual/Recording-data/Binary-format.html) This would be interesting to include.

@Alejoe91 Thanks! In the format specifications a spike_waveforms.npy is listed (https://open-ephys.github.io/gui-docs/User-Manual/Recording-data/Binary-format.html) This would be interesting to include.
Alessio Buccino3 年 前 にコメントしました
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@sprenger I do have a test file. Should I send it to you via email?

@sprenger I do have a test file. Should I send it to you via email?
sprenger3 年 前 にコメントしました
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@Alejoe91 If it's not directly suited for adding in this repository, then yes please. Alternatively, I can also add it later after testing it first. Thanks!

@Alejoe91 If it's not directly suited for adding in this repository, then yes please. Alternatively, I can also add it later after testing it first. Thanks!
Alessio Buccino3 年 前 にコメントしました
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Yes I think it can be added. Not sure it has more than one unit, but it has a spike group with spike_waverofms.npy

Yes I think it can be added. Not sure it has more than one unit, but it has a spike group with spike_waverofms.npy
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