Fantastic. Thanks so much Vlad.
Deryk
Deryk Beal, M.HSc., S-LP(C), Reg. CASLPO
Speech-Language Pathologist
Doctoral Candidate
416-471-3411
[log in to unmask]
*************************************************************************
This email may contain confidential and/or privileged information for the
sole use of the intended recipient. Any review or distribution by others is
strictly prohibited. If you have received this email in error, please
contact the sender and delete all copies. Opinions, conclusions or other
information expressed or contained in this email are not given or endorsed
by the sender unless otherwise affirmed independently by the sender.
On Thu, Mar 19, 2009 at 6:34 PM, Vladimir Litvak
<[log in to unmask]>wrote:
> Dear Deryk,
>
> 1) It looks like at least part of it is the same problem elsewhere.
> Search your ds folder and subfolders for *.hc files and fix all of
> them.
>
> 2) If that doesn't help try using the batch version of conversion
> (press the 'Batch' button and in the window that opens got to
> SPM->M/EEG->M/EEG Conversion. The last parameter will be 'Input data
> format'. Change autodetect to ctf_old . That will probably work. The
> only problem is that if your data was recorded with '3rd gradient'
> setting the leadfield computation will be slightly incorrect. But at
> least you can get started.
>
> 3) Robert Oostenveld who is maintaining the CTF reading code will
> hopefully see this thread tomorrow and come up with better
> suggestions.
>
> Best,
>
> Vladimir
>
> On Thu, Mar 19, 2009 at 10:07 PM, Deryk Beal <[log in to unmask]> wrote:
> > Hi Vladimir
> >
> > My apologies for not catching that on my own. The data appear to have
> been
> > converted and they display just fine but I received the following errors:
> >
> > SPM8b: spm_eeg_convert_ui (v2850) 18:03:19 - 19/03/2009
> > ========================================================================
> >
> > readCTFds: You are reading CTF data for use with a software-application
> tool
> > that is not manufactured by VSM MedTech Ltd. and has not received
> > marketing
> > clearance for clinical applications. If CTF MEG data are processed
> by
> > this tool,
> > they should not be later employed for clinical and/or diagnostic
> > purposes.
> >
> > readCPersist: Stop strings (EndOfParameters) do not balance start strings
> > (WS1_).
> > (No. of start strings)-(No. of stop strings)=1.
> > Error using ==> ctf2grad at 197
> > cannot determine balancing of CTF gradiometers
> > Warning: could not construct gradiometer definition from the header
> >> In fileio/private/read_header at 724
> > In fileio_read_header at 11
> > In spm_eeg_convert at 70
> > In spm_eeg_convert_ui at 89
> > java.lang.UnsatisfiedLinkError: no rxtxSerial in java.library.path thrown
> > while loading gnu.io.RXTXCommDriver
> > readCPersist: Stop strings (EndOfParameters) do not balance start strings
> > (WS1_).
> > (No. of start strings)-(No. of stop strings)=1.
> > Error using ==> ctf2grad at 197
> > cannot determine balancing of CTF gradiometers
> > Warning: could not construct gradiometer definition from the header
> >> In fileio/private/read_header at 724
> > In fileio/private/read_event at 708
> > In fileio_read_event at 11
> > In spm_eeg_convert at 92
> > In spm_eeg_convert_ui at 89
> > Warning: Could not obtain electrode locations automatically.
> >> In spm_eeg_convert at 401
> > In spm_eeg_convert_ui at 89
> > converting units from 'cm' to 'mm'
> > checkmeeg: no channel type, assigning default
> > checkmeeg: no units, assigning default
> > checkmeeg: transform type missing, assigning default
> > checkmeeg: data scale missing, assigning default
> > checkmeeg: data type is missing or incorrect, assigning default
> >>>
> >
> > Any other suggestions?
> >
> > Deryk
> >
> > Deryk Beal, M.HSc., S-LP(C), Reg. CASLPO
> > Speech-Language Pathologist
> > Doctoral Candidate
> > 416-471-3411
> > [log in to unmask]
> > *************************************************************************
> > This email may contain confidential and/or privileged information for the
> > sole use of the intended recipient. Any review or distribution by others
> is
> > strictly prohibited. If you have received this email in error, please
> > contact the sender and delete all copies. Opinions, conclusions or other
> > information expressed or contained in this email are not given or
> endorsed
> > by the sender unless otherwise affirmed independently by the sender.
> >
> >
> > On Thu, Mar 19, 2009 at 5:57 PM, Vladimir Litvak <
> [log in to unmask]>
> > wrote:
> >>
> >> In the second paragraph try changing 'stadard' to 'standard'. I hope
> >> this is it. I thought it was a bracket but maybe I was wrong.
> >>
> >> Vladimir
> >>
> >> On Thu, Mar 19, 2009 at 9:52 PM, Deryk Beal <[log in to unmask]>
> wrote:
> >> > Hi Vladimir
> >> >
> >> > Thank you very much for the quick response. I have attached two .hc
> >> > files
> >> > for your information. One is from a continuous dataset and one from an
> >> > epoched one. The files appear to be fine and I can not find a missing
> >> > bracket or other obvious type of punctuation error. Any other
> >> > suggestions
> >> > for an easy fix?
> >> >
> >> > Cheers,
> >> > Deryk
> >> >
> >> > Deryk Beal, M.HSc., S-LP(C), Reg. CASLPO
> >> > Speech-Language Pathologist
> >> > Doctoral Candidate
> >> > 416-471-3411
> >> > [log in to unmask]
> >> >
> >> >
> *************************************************************************
> >> > This email may contain confidential and/or privileged information for
> >> > the
> >> > sole use of the intended recipient. Any review or distribution by
> others
> >> > is
> >> > strictly prohibited. If you have received this email in error, please
> >> > contact the sender and delete all copies. Opinions, conclusions or
> other
> >> > information expressed or contained in this email are not given or
> >> > endorsed
> >> > by the sender unless otherwise affirmed independently by the sender.
> >> >
> >> >
> >> > On Thu, Mar 19, 2009 at 5:09 PM, Vladimir Litvak
> >> > <[log in to unmask]>
> >> > wrote:
> >> >>
> >> >> Dear Deryk,
> >> >>
> >> >> This problem sounds familiar. If I'm right this is a case of buggy
> >> >> data rather than buggy SPM code. The problem comes down to some
> >> >> missing closing bracket in the .hc files (these are ASCII files in
> >> >> your .ds directory). I don't remember the details but perhaps if you
> >> >> examine the files you'll figure it out yourself. This problem is
> >> >> present in some CTF systems with some particular version of CTF
> >> >> software. Since we used CTF toolbox that we prefer not modify and
> this
> >> >> toolbox generates the error the solution is to fix your .hc file with
> >> >> a text editor and then try again.
> >> >>
> >> >> If this is not enough for you to solve the problem, write again and
> >> >> I'll try to find out more details about what you should fix.
> >> >>
> >> >> Best,
> >> >>
> >> >> Vladimir
> >> >>
> >> >>
> >> >> On Thu, Mar 19, 2009 at 8:47 PM, Deryk Beal <[log in to unmask]>
> >> >> wrote:
> >> >> >
> >> >> > Hello
> >> >> >
> >> >> > I receive similar errors regardless of options entered when trying
> to
> >> >> > convert MEG data from a CTF-151 unit using SPM8b. I have read the
> >> >> > manual
> >> >> > and
> >> >> > I have tried various options within the convert gui but the error
> >> >> > messages
> >> >> > are usually similar to the example below (taken from the Just Read
> >> >> > option).
> >> >> > I am pointing the convert gui to the .meg4 file. The errors output
> >> >> > are
> >> >> > as
> >> >> > follows:
> >> >> >
> >> >> > SPM8b: spm_eeg_convert_ui (v2850) 16:41:02 -
> >> >> > 19/03/2009
> >> >> >
> >> >> >
> ========================================================================
> >> >> > readCPersist: Stop strings (EndOfParameters) do not balance start
> >> >> > strings
> >> >> > (WS1_).
> >> >> > (No. of start strings)-(No. of stop strings)=1.
> >> >> > ??? Index exceeds matrix dimensions.
> >> >> >
> >> >> > Error in ==> C:\Program
> >> >> > Files\MATLAB71\spm8b\external\ctf\readCTFds.p>readHc
> >> >> > at 599
> >> >> >
> >> >> >
> >> >> > Error in ==> C:\Program
> >> >> > Files\MATLAB71\spm8b\external\ctf\readCTFds.p>readCTFds at 203
> >> >> >
> >> >> >
> >> >> > Error in ==> fileio\private\read_header at 673
> >> >> > orig = readCTFds(filename);
> >> >> >
> >> >> > Error in ==> fileio_read_header at 11
> >> >> > [varargout{1:nargout}] = funhandle(varargin{:});
> >> >> >
> >> >> > Error in ==> spm_eeg_convert at 70
> >> >> > hdr = fileio_read_header(S.dataset, 'fallback', 'biosig',
> >> >> > 'headerformat',
> >> >> > S.inputformat);
> >> >> >
> >> >> > Error in ==> spm_eeg_convert_ui at 89
> >> >> > D = spm_eeg_convert(S);
> >> >> >
> >> >> > ??? Error while evaluating uicontrol Callback.
> >> >> >
> >> >> > Is there a solution? What am I doing wrong?
> >> >> >
> >> >> > Thanks & cheers,
> >> >> >
> >> >> > Deryk
> >> >> >
> >> >> >
> >> >> > Deryk Beal, M.HSc., S-LP(C), Reg. CASLPO
> >> >> > Speech-Language Pathologist
> >> >> > Doctoral Candidate
> >> >> > [log in to unmask]
> >> >> >
> >> >> >
> >> >> >
> *************************************************************************
> >> >> > This email may contain confidential and/or privileged information
> for
> >> >> > the
> >> >> > sole use of the intended recipient. Any review or distribution by
> >> >> > others
> >> >> > is
> >> >> > strictly prohibited. If you have received this email in error,
> please
> >> >> > contact the sender and delete all copies. Opinions, conclusions or
> >> >> > other
> >> >> > information expressed or contained in this email are not given or
> >> >> > endorsed
> >> >> > by the sender unless otherwise affirmed independently by the
> sender.
> >> >> >
> >> >
> >> >
> >
> >
>
