irc2 manual #44
Comments
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Sorry, I am still working on the manual step. irc2 uses compressed waveforms which requires different GUI (and it will be fast for large recordings). some components are working like trace viewer but most are not.
I added exporters to phy, klusters and jrclust for now. I am actively working on the GUI now this week. Thanks for your patience.
…-James
On Feb 11, 2020, at 3:19 AM, WeissShahaf ***@***.***> wrote:
Hey James,
is there a manual curation step for irc2? i'm wondering if i'm not using it right.
when running irc2 manual,i get the following error on on PC:
irc2 manual
irc2 (5.6.11) opening E:\runfolder\irc2\raw_geom.prm
Loading irc2\raw_geom.prm... took 14.9s
Loading feature 1... took 63713.3s <<<<<-17 Hours!
create_S_ui_: todo
Undefined function or variable 'set_'.
Error in irc2_ui>figure_wait_ (line 1287)
set_(vhFig, 'Pointer', 'watch');
Error in irc2_ui>plot_FigWavCor_ (line 959)
figure_wait_(1, hFig);
Error in irc2_ui (line 35)
plot_FigWavCor_(S0); % need S_clu.mrWavCor
Error in irc2 (line 131)
case {'manual', 'ui'}, irc2_ui(P); return;
And another error on a different PC:
Index in position 3 exceeds array bounds (must not exceed 1).
GPU device reset
Error using cellfun
All of the input arguments
must be of the same size and
shape.
Previous inputs had size 303
in dimension 1. Input #4 has
size 1
Error in irc2_ui>cellfun_
(line 871)
varargout{1} =
cellfun(varargin{:},
'UniformOutput', 0);
Error in
irc2_ui>S0_trWav_clu_ (line
1045)
cviSpk_clu =
cellfun_(@(x,y,z)x(y==z),
S0.S_auto.cviSpk_clu,
cviSite_spk_clu,
cviSite_clu);
Error in
irc2_ui>plot_tnWav_clu_ (line
1061)
trWav_clu =
S0_trWav_clu_(S0);
Error in irc2_ui>plot_FigWav_
(line 73)
S_fig =
plot_tnWav_clu_(S_fig, P,
S0); %do this after
plotSpk_
Error in irc2_ui (line 34)
plot_FigWav_(S0); % hFigWav
%do this after for ordering
Error in irc2 (line 149)
case {'manual',
'ui'},
irc2_ui(P);
return;
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i reran irc2 spikesort with today's commit, irc2 runs :) , but in irc2 manual (i'm guessing that is working now as it's in the readme.md) everything loads, but i cannot do anything. again this happens on multiple OSs. split error: merge error:
trying to change projection view:
trying to annotate:
trying to set local drift view > In E:\ironclustGit\matlab\irc.m>disperr_ (line 18070) trying to set avg waveform view
trying to view traces
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We are having the same issue. Furthermore, when trying to export to another format for manual sorting, neither exporting to jrclust, nor phy format works. exporting to phy: exporting to Jrclust: Is there an estimate of when either of those will be available? |
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Thanks for your helpful feedback,
I wish to complete the GUI and export tool as soon as possible but I am
also in the middle of preparing for the Cosyne conference. I am most likely
to finish them after I return in two weeks.
…-James
On Fri, Feb 21, 2020 at 10:09 AM RSteinfeld ***@***.***> wrote:
We are having the same issue.
irc2 runs very nicely - but then manual merging or annotating does not
work.
Furthermore, when trying to export to another format for manual sorting,
neither exporting to jrclust
<#46>, nor phy
format works.
exporting to phy:
Error using irc2>load_irc2_
Too many input arguments.
Error in irc2 (line 173)
case {'export-phy', 'phy'}, open_phy_(load_irc2_(vcFile_prm, vcArg2));
return;
exporting to Jrclust:
Error using dlmread (line 147)
Mismatch between file and format character vector.
Trouble reading 'Numeric' field from file (row number 1, field number 1)
==> nSites = 10;\n
Error in csvread (line 48)
m=dlmread(filename, ',', r, c);
Error in irc2>geom2mat_ (line 261)
geometry = csvread(vcFile_geom);
Error in irc2 (line 181)
geom2mat_(vcFile_prm);
Is there an estimate of when either of those will be available?
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Hey James,
is there a manual curation step for irc2? i'm wondering if i'm not using it right.
when running irc2 manual,i get the following error on on PC:
And another error on a different PC:
Index in position 3 exceeds array bounds (must not exceed 1).
GPU device reset
Error using cellfun
All of the input arguments
must be of the same size and
shape.
Previous inputs had size 303
in dimension 1. Input #4 has
size 1
Error in irc2_ui>cellfun_
(line 871)
varargout{1} =
cellfun(varargin{:},
'UniformOutput', 0);
Error in
irc2_ui>S0_trWav_clu_ (line
1045)
cviSpk_clu =
cellfun_(@(x,y,z)x(y==z),
S0.S_auto.cviSpk_clu,
cviSite_spk_clu,
cviSite_clu);
Error in
irc2_ui>plot_tnWav_clu_ (line
1061)
trWav_clu =
S0_trWav_clu_(S0);
Error in irc2_ui>plot_FigWav_
(line 73)
S_fig =
plot_tnWav_clu_(S_fig, P,
S0); %do this after
plotSpk_
Error in irc2_ui (line 34)
plot_FigWav_(S0); % hFigWav
%do this after for ordering
Error in irc2 (line 149)
case {'manual',
'ui'},
irc2_ui(P);
return;
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