[Mne_analysis] Mne_analysis Digest, Vol 100, Issue 7

Alexandre Gramfort alexandre.gramfort at telecom-paristech.fr
Tue May 10 02:58:00 EDT 2016
Search archives: 
thanks for sharing.

to help us, can you write a script as small as possible that
replicates the problem on the sample data?

Alex


On Tue, May 10, 2016 at 3:05 AM, San-Yuan Lin <lin.sanyuan at gmail.com> wrote:
> Hi Alex,
>
> Please find in attachment the script I wrote.
> Thanks a lot.
>
> Best,
> Sanyuan
>
>
>
>
>> mne_analysis-request at nmr.mgh.harvard.edu 於 2016年5月10日 上午12:00 寫道：
>>
>> Send Mne_analysis mailing list submissions to
>>       mne_analysis at nmr.mgh.harvard.edu
>>
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>>       https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
>> or, via email, send a message with subject or body 'help' to
>>       mne_analysis-request at nmr.mgh.harvard.edu
>>
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>>       mne_analysis-owner at nmr.mgh.harvard.edu
>>
>> When replying, please edit your Subject line so it is more specific
>> than "Re: Contents of Mne_analysis digest..."
>>
>>
>> Today's Topics:
>>
>>   1. Re: Mne_analysis Digest, Vol 100, Issue 3 (Alexandre Gramfort)
>>
>>
>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Mon, 9 May 2016 06:52:42 +0200
>> From: Alexandre Gramfort <alexandre.gramfort at telecom-paristech.fr>
>> Subject: Re: [Mne_analysis] Mne_analysis Digest, Vol 100, Issue 3
>> To: Discussion and support forum for the users of MNE Software
>>       <mne_analysis at nmr.mgh.harvard.edu>
>> Message-ID:
>>       <CADeotZpjg2ekJjwAbQnt_YTvoVF8mNL_gn+LnpCfSFmv799nYw at mail.gmail.com>
>> Content-Type: text/plain; charset=UTF-8
>>
>> hi Sanyuan,
>>
>> can you share a full script with all the commands?
>>
>> For the sample data we scripts we used are:
>>
>> https://github.com/mne-tools/mne-scripts/blob/master/sample-data/run_meg_volume_tutorial.sh
>>
>> or in python:
>>
>> https://github.com/mne-tools/mne-scripts/blob/master/sample-data/run_meg_volume_tutorial.py
>>
>>
>> HTH
>> Alex
>>
>>
>> On Mon, May 9, 2016 at 3:30 AM, San-Yuan Lin <lin.sanyuan at gmail.com> wrote:
>>> Hi Alex,
>>>
>>> Thank you. After I add ?grid 3 (instead of 5) to mne_volume_source_space,
>>> the file did convert successfully.
>>> A new problem is, with the following code to covert w file to mgz and then
>>> to nii.gz file format, I have error messages from mrInit and mrVista which
>>> request some informaion.
>>>
>>> Here is the code:
>>>
>>> mne_volume_data2mri --src
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-vol-src.fif  --stc
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-stc-lh.stc --out
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-lh.stc.mgz
>>>
>>> mri_convert --out_orientation RAS  -rt nearest --reslice_like
>>> $SUBJECTS_Anatomy_DIR/$SUBJECT/HYJ_tag_FS4_T1.nii.gz --in_type mgz
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-$PickTimeFileName-lh.w.mgz
>>> --out_type nifti1
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-$PickTimeFileName.w.nii.gz
>>>
>>>
>>>
>>> And after these, I got the follow error messages:
>>>
>>> [mrLoad]: mr.voxelSize has length<4: concatenating a "1" to it
>>> [mrLoad]: mr.dims has length<4: concatenating a "1" to it
>>> Warning: No freqdim field set in the nifti. Assuming freqdim = 1. Nifti
>>> stored at:
>>> /home/sanyuan/Documents/LSY_dev/MNE_practice/MEG/chi_hc/150715/run1_raw_sss-00150.0.w.nii.gz.hdr
>>>> In niftiApplyXform (line 99)
>>>  In niftiApplyAndCreateXform (line 28)
>>>  In mrInit (line 188)
>>> Warning: No phasedim field set in the nifti. Assuming phasedim = 2. Nifti
>>> stored at:
>>> /home/sanyuan/Documents/LSY_dev/MNE_practice/MEG/chi_hc/150715/run1_raw_sss-00150.0.w.nii.gz.hdr
>>>> In niftiApplyXform (line 106)
>>>  In niftiApplyAndCreateXform (line 28)
>>>  In mrInit (line 188)
>>> Index exceeds matrix dimensions.
>>>
>>> Error in mrInit>mrInitInplaneTseries (line 345)
>>> f.totalFrames = mr.dims(4);
>>>
>>> Error in mrInit (line 221)
>>>        mrInitInplaneTseries(func,scan);
>>>
>>>>> mrVista
>>> Warning: Matlab version 8.6.0.267246 (R2015b) is not yet supported in
>>> vistasoft.
>>>> In mrVista (line 62)
>>> Initializing Inplane view
>>> Attaching menus
>>> Warning: No freqdim field set in the nifti. Assuming freqdim = 1. Nifti
>>> stored at:
>>> /home/sanyuan/Documents/LSY_dev/MNE_practice/subjects/chi_hc/HYJ_tag_FS4_orig.nii.gz
>>>> In niftiApplyXform (line 99)
>>>  In niftiApplyAndCreateXform (line 28)
>>>  In viewSetAnatomy (line 45)
>>>  In viewSet (line 191)
>>>  In loadAnat (line 34)
>>>  In openMontageWindow (line 165)
>>>  In mrVista
>>> Warning: No phasedim field set in the nifti. Assuming phasedim = 2. Nifti
>>> stored at:
>>> /home/sanyuan/Documents/LSY_dev/MNE_practice/subjects/chi_hc/HYJ_tag_FS4_orig.nii.gz
>>>> In niftiApplyXform (line 106)
>>>  In niftiApplyAndCreateXform (line 28)
>>>  In viewSetAnatomy (line 45)
>>>  In viewSet (line 191)
>>>  In loadAnat (line 34)
>>>  In openMontageWindow (line 165)
>>>  In mrVista
>>> Reference to non-existent field 'scanParams'.
>>>
>>> Error in dtGet (line 123)
>>>            val = dt.scanParams(varargin{1}).cropSize;
>>>
>>> Error in viewGetTimeSeries (line 58)
>>>                val = dtGet(dataTYPES(1),'Func Size', scan);
>>>
>>> Error in viewGet (line 317)
>>>        val = viewGetTimeSeries(vw,param,varargin{:});
>>>
>>> Error in labelInplaneLR (line 65)
>>> if Rdim == viewGet(vw,'slicedim')
>>>
>>> Error in openMontageWindow (line 186)
>>> INPLANE{s} = labelInplaneLR(INPLANE{s}); %This assumes that the LR data is
>>> saved in mrSESSION
>>>
>>> Error in mrVista
>>>
>>>>> mrInit
>>> ***** [mrInit] Initializing Session LSY_dev ***** (06-May-2016 16:10:17)
>>> freq_dim not set correctly in NIFTI header.
>>> phase_dim not set correctly in NIFTI header.
>>> [mrLoad]: mr.voxelSize has length<4: concatenating a "1" to it
>>> [mrLoad]: mr.dims has length<4: concatenating a "1" to it
>>> Warning: No freqdim field set in the nifti. Assuming freqdim = 1. Nifti
>>> stored at:
>>> /home/sanyuan/Documents/LSY_dev/MNE_practice/subjects/chi_hc/mri/ribbon.nii
>>>> In niftiApplyXform (line 99)
>>>  In niftiApplyAndCreateXform (line 28)
>>>  In mrInit (line 188)
>>> Warning: No phasedim field set in the nifti. Assuming phasedim = 2. Nifti
>>> stored at:
>>> /home/sanyuan/Documents/LSY_dev/MNE_practice/subjects/chi_hc/mri/ribbon.nii
>>>> In niftiApplyXform (line 106)
>>>  In niftiApplyAndCreateXform (line 28)
>>>  In mrInit (line 188)
>>> Index exceeds matrix dimensions.
>>>
>>> Error in mrInit>mrInitInplaneTseries (line 345)
>>> f.totalFrames = mr.dims(4);
>>>
>>> Error in mrInit (line 221)
>>>        mrInitInplaneTseries(func,scan);
>>>
>>>
>>> I found no way to fill in missing information when converting the files.
>>> Could you help me to find out might be the cause or step I missed?
>>>
>>> Best,
>>> Sanyuan
>>>
>>>
>>>
>>> mne_analysis-request at nmr.mgh.harvard.edu ? 2016?5?4? ??9:54 ???
>>>
>>> Send Mne_analysis mailing list submissions to
>>> mne_analysis at nmr.mgh.harvard.edu
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>>> or, via email, send a message with subject or body 'help' to
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>>> When replying, please edit your Subject line so it is more specific
>>> than "Re: Contents of Mne_analysis digest..."
>>>
>>>
>>> Today's Topics:
>>>
>>>  1. Creating bem meshes with mne_watershed_bem -
>>>     mne_convert_surface not found (milton_avila at usp.br)
>>>  2. Re: Creating bem meshes with mne_watershed_bem -
>>>     mne_convert_surface not found (Alexandre Gramfort)
>>>  3. Error message from mne_volume_data2mri: w file vertex number
>>>     out of range (San-Yuan Lin)
>>>  4. Re: Error message from mne_volume_data2mri: w file vertex
>>>     number out of range (Alexandre Gramfort)
>>>  5. Re: Creating bem meshes with mne_watershed_bem -
>>>     mne_convert_surface not found (milton_avila at usp.br)
>>>
>>>
>>> ----------------------------------------------------------------------
>>>
>>> Message: 1
>>> Date: Tue, 3 May 2016 18:11:38 -0300 (BRT)
>>> From: milton_avila at usp.br
>>> Subject: [Mne_analysis] Creating bem meshes with mne_watershed_bem -
>>> mne_convert_surface not found
>>> To: mne_analysis at nmr.mgh.harvard.edu
>>> Message-ID: <1368681712.9206796.1462309898045.JavaMail.root at usp.br>
>>> Content-Type: text/plain; charset="utf-8"
>>>
>>> Dear MNE users,
>>>
>>> I am trying to create BEM meshes using
>>> mne_watershed_bem.
>>>
>>> I raises the following error:
>>>
>>> Running subprocess: mne_convert_surface --surf S07_brain_surface --mghmri
>>> /media/milton/Dados/MRI/S07/mri/T1.mgz --surfout S07_brain_surface
>>> --replacegeom
>>> Command not found: mne_convert_surface
>>> Traceback (most recent call last):
>>> File "pre_process.py", line 257, in <module>
>>> mne.bem.make_watershed_bem(subj, subjects_dir=mri_path, overwrite=True)
>>> File "<string>", line 2, in make_watershed_bem
>>> File "/home/milton/anaconda2/lib/python2.7/site-packages/mne/utils.py", line
>>> 551, in verbose
>>> return function(*args, **kwargs)
>>> File "/home/milton/anaconda2/lib/python2.7/site-packages/mne/bem.py", line
>>> 1015, in make_watershed_bem
>>> run_subprocess(cmd, env=env, stdout=sys.stdout, stderr=sys.stderr)
>>> File "<string>", line 2, in run_subprocess
>>> File "/home/milton/anaconda2/lib/python2.7/site-packages/mne/utils.py", line
>>> 551, in verbose
>>> return function(*args, **kwargs)
>>> File "/home/milton/anaconda2/lib/python2.7/site-packages/mne/utils.py", line
>>> 804, in run_subprocess
>>> p = subprocess.Popen(command, *args, **kwargs)
>>> File "/home/milton/anaconda2/lib/python2.7/subprocess.py", line 710, in
>>> __init__
>>> errread, errwrite)
>>> File "/home/milton/anaconda2/lib/python2.7/subprocess.py", line 1335, in
>>> _execute_child
>>> raise child_exception
>>> OSError: [Errno 2] No such file or directory
>>>
>>>
>>> The files created:
>>> <subj>_brain_surface
>>> <subj>_inner_skull_surface
>>> <subj>_outer_skull_surface
>>> <subj>_inner_skin_surface
>>>
>>> The files NOT created:
>>> inner_skull.surf,
>>> outer_skull.surf
>>> outer_skin.surf
>>>
>>> Does anybody know what is going on?
>>> Thanks in advance
>>> Milton
>>> -------------- next part --------------
>>> An HTML attachment was scrubbed...
>>> URL:
>>> http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20160503/7ff383df/attachment-0001.html
>>>
>>> ------------------------------
>>>
>>> Message: 2
>>> Date: Wed, 4 May 2016 13:52:07 +0200
>>> From: Alexandre Gramfort <alexandre.gramfort at telecom-paristech.fr>
>>> Subject: Re: [Mne_analysis] Creating bem meshes with mne_watershed_bem
>>> - mne_convert_surface not found
>>> To: Discussion and support forum for the users of MNE Software
>>> <mne_analysis at nmr.mgh.harvard.edu>
>>> Message-ID:
>>> <CADeotZq5poNMMvrCJj88G-=nON-WoT1WpW4Re0Hsu9eJ10Ze=w at mail.gmail.com>
>>> Content-Type: text/plain; charset=UTF-8
>>>
>>> hi Milton,
>>>
>>> do you have the problem with all your subjects?
>>>
>>> if so can you try with the latest version of mne-python code?
>>>
>>> I recently had to fix this code that was not creating properly the sym
>>> links.
>>>
>>> Alex
>>>
>>>
>>> On Tue, May 3, 2016 at 11:11 PM,  <milton_avila at usp.br> wrote:
>>>
>>> Dear MNE users,
>>>
>>> I am trying to create BEM meshes using
>>> mne_watershed_bem.
>>>
>>> I raises the following error:
>>>
>>> Running subprocess: mne_convert_surface --surf S07_brain_surface --mghmri
>>> /media/milton/Dados/MRI/S07/mri/T1.mgz --surfout S07_brain_surface
>>> --replacegeom
>>> Command not found: mne_convert_surface
>>> Traceback (most recent call last):
>>> File "pre_process.py", line 257, in <module>
>>>   mne.bem.make_watershed_bem(subj, subjects_dir=mri_path, overwrite=True)
>>> File "<string>", line 2, in make_watershed_bem
>>> File "/home/milton/anaconda2/lib/python2.7/site-packages/mne/utils.py",
>>> line 551, in verbose
>>>   return function(*args, **kwargs)
>>> File "/home/milton/anaconda2/lib/python2.7/site-packages/mne/bem.py", line
>>> 1015, in make_watershed_bem
>>>   run_subprocess(cmd, env=env, stdout=sys.stdout, stderr=sys.stderr)
>>> File "<string>", line 2, in run_subprocess
>>> File "/home/milton/anaconda2/lib/python2.7/site-packages/mne/utils.py",
>>> line 551, in verbose
>>>   return function(*args, **kwargs)
>>> File "/home/milton/anaconda2/lib/python2.7/site-packages/mne/utils.py",
>>> line 804, in run_subprocess
>>>   p = subprocess.Popen(command, *args, **kwargs)
>>> File "/home/milton/anaconda2/lib/python2.7/subprocess.py", line 710, in
>>> __init__
>>>   errread, errwrite)
>>> File "/home/milton/anaconda2/lib/python2.7/subprocess.py", line 1335, in
>>> _execute_child
>>>   raise child_exception
>>> OSError: [Errno 2] No such file or directory
>>>
>>>
>>> The files created:
>>> <subj>_brain_surface
>>> <subj>_inner_skull_surface
>>> <subj>_outer_skull_surface
>>> <subj>_inner_skin_surface
>>>
>>> The files NOT created:
>>> inner_skull.surf,
>>> outer_skull.surf
>>> outer_skin.surf
>>>
>>> Does anybody know what is going on?
>>> Thanks in advance
>>> Milton
>>>
>>> _______________________________________________
>>> Mne_analysis mailing list
>>> Mne_analysis at nmr.mgh.harvard.edu
>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
>>>
>>>
>>> The information in this e-mail is intended only for the person to whom it is
>>> addressed. If you believe this e-mail was sent to you in error and the
>>> e-mail
>>> contains patient information, please contact the Partners Compliance
>>> HelpLine at
>>> http://www.partners.org/complianceline . If the e-mail was sent to you in
>>> error
>>> but does not contain patient information, please contact the sender and
>>> properly
>>> dispose of the e-mail.
>>>
>>>
>>>
>>> ------------------------------
>>>
>>> Message: 3
>>> Date: Wed, 4 May 2016 20:15:25 +0800
>>> From: San-Yuan Lin <lin.sanyuan at gmail.com>
>>> Subject: [Mne_analysis] Error message from mne_volume_data2mri: w file
>>> vertex number out of range
>>> To: mne_analysis at nmr.mgh.harvard.edu
>>> Message-ID: <00E0A193-8C19-4660-85BC-CE5012E323B4 at gmail.com>
>>> Content-Type: text/plain; charset=big5
>>>
>>> Hi All,
>>>
>>> I?ve tried to convert w file into niifi format for mrVista by using the
>>> following code, and got "w file vertex number out of range.? message from
>>> mne_volume_data2mri. Does anyone know the meaning of this message?
>>>
>>> (I used ico 5 for both source space and forward model.)
>>>
>>> Here is the code I used:
>>>
>>> mne_volume_source_space --mindist 3 --surf
>>> $SUBJECTS_Anatomy_DIR/$SUBJECT/surf/lh.sphere --bem
>>> $SUBJECTS_Anatomy_DIR/$SUBJECT/bem/$SsFileHead-bem.fif --mri
>>> $SUBJECTS_Anatomy_DIR/$SUBJECT/mri/T1.mgz --src
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-vol-lh-src.fif
>>>
>>> mne_volume_data2mri --scale 0.1 --src
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-vol-lh-src.fif  --w
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-w-$PickTimeFileName-lh.w --out
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-$PickTimeFileName-lh.w.mgz
>>>
>>>
>>> Thanks,
>>> Sanyuan
>>>
>>>
>>> ------------------------------
>>>
>>> Message: 4
>>> Date: Wed, 4 May 2016 14:17:33 +0200
>>> From: Alexandre Gramfort <alexandre.gramfort at telecom-paristech.fr>
>>> Subject: Re: [Mne_analysis] Error message from mne_volume_data2mri: w
>>> file vertex number out of range
>>> To: Discussion and support forum for the users of MNE Software
>>> <mne_analysis at nmr.mgh.harvard.edu>
>>> Message-ID:
>>> <CADeotZoFg39zcDXbzOQ43T=44SoH+Fkogd0N2tF-TT0S2k6Aow at mail.gmail.com>
>>> Content-Type: text/plain; charset=UTF-8
>>>
>>> hi Sanyuan,
>>>
>>> ico5 refers to a surface/cortical source space. Could it be the issue
>>> as you want to manipulate volume grids?
>>>
>>> Alex
>>>
>>> On Wed, May 4, 2016 at 2:15 PM, San-Yuan Lin <lin.sanyuan at gmail.com> wrote:
>>>
>>> Hi All,
>>>
>>> I?ve tried to convert w file into niifi format for mrVista by using the
>>> following code, and got "w file vertex number out of range.? message from
>>> mne_volume_data2mri. Does anyone know the meaning of this message?
>>>
>>> (I used ico 5 for both source space and forward model.)
>>>
>>> Here is the code I used:
>>>
>>> mne_volume_source_space --mindist 3 --surf
>>> $SUBJECTS_Anatomy_DIR/$SUBJECT/surf/lh.sphere --bem
>>> $SUBJECTS_Anatomy_DIR/$SUBJECT/bem/$SsFileHead-bem.fif --mri
>>> $SUBJECTS_Anatomy_DIR/$SUBJECT/mri/T1.mgz --src
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-vol-lh-src.fif
>>>
>>> mne_volume_data2mri --scale 0.1 --src
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-vol-lh-src.fif  --w
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-w-$PickTimeFileName-lh.w --out
>>> $Data_DIR/$SUBJECT/$SsFileDir/$SsFileHead-$PickTimeFileName-lh.w.mgz
>>>
>>>
>>> Thanks,
>>> Sanyuan
>>> _______________________________________________
>>> Mne_analysis mailing list
>>> Mne_analysis at nmr.mgh.harvard.edu
>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
>>>
>>>
>>> The information in this e-mail is intended only for the person to whom it is
>>> addressed. If you believe this e-mail was sent to you in error and the
>>> e-mail
>>> contains patient information, please contact the Partners Compliance
>>> HelpLine at
>>> http://www.partners.org/complianceline . If the e-mail was sent to you in
>>> error
>>> but does not contain patient information, please contact the sender and
>>> properly
>>> dispose of the e-mail.
>>>
>>>
>>>
>>>
>>> ------------------------------
>>>
>>> Message: 5
>>> Date: Wed, 4 May 2016 10:54:47 -0300 (BRT)
>>> From: milton_avila at usp.br
>>> Subject: Re: [Mne_analysis] Creating bem meshes with mne_watershed_bem
>>> - mne_convert_surface not found
>>> To: Discussion and support forum for the users of MNE Software
>>> <mne_analysis at nmr.mgh.harvard.edu>
>>> Message-ID: <364624205.9382566.1462370087867.JavaMail.root at usp.br>
>>> Content-Type: text/plain; charset="utf-8"
>>>
>>> H i Alex!
>>> Thanks for the reply.
>>>
>>> No success. I got the same error.
>>> It is happening with the only subject I have.
>>> Milton
>>> ----- Mensagem original -----
>>>
>>> De: "Alexandre Gramfort" <alexandre.gramfort at telecom-paristech.fr>
>>> Para: "Discussion and support forum for the users of MNE Software"
>>> <mne_analysis at nmr.mgh.harvard.edu>
>>> Enviadas: Quarta-feira, 4 de Maio de 2016 8:52:07
>>> Assunto: Re: [Mne_analysis] Creating bem meshes with
>>> mne_watershed_bem - mne_convert_surface not found
>>>
>>>
>>> hi Milton,
>>>
>>>
>>> do you have the problem with all your subjects?
>>>
>>>
>>> if so can you try with the latest version of mne-python code?
>>>
>>>
>>> I recently had to fix this code that was not creating properly the
>>> sym links.
>>>
>>>
>>> Alex
>>>
>>>
>>> On Tue, May 3, 2016 at 11:11 PM, <milton_avila at usp.br> wrote:
>>>
>>> Dear MNE users,
>>>
>>> I am trying to create BEM meshes using
>>> mne_watershed_bem.
>>>
>>> I raises the following error:
>>>
>>> Running subprocess: mne_convert_surface --surf S07_brain_surface
>>> --mghmri
>>> /media/milton/Dados/MRI/S07/mri/T1.mgz --surfout S07_brain_surface
>>> --replacegeom
>>> Command not found: mne_convert_surface
>>> Traceback (most recent call last):
>>> File "pre_process.py", line 257, in <module>
>>> mne.bem.make_watershed_bem(subj, subjects_dir=mri_path,
>>> overwrite=True)
>>> File "<string>", line 2, in make_watershed_bem
>>> File
>>> "/home/milton/anaconda2/lib/python2.7/site-packages/mne/utils.py",
>>> line 551, in verbose
>>> return function(*args, **kwargs)
>>> File
>>> "/home/milton/anaconda2/lib/python2.7/site-packages/mne/bem.py",
>>> line
>>> 1015, in make_watershed_bem
>>> run_subprocess(cmd, env=env, stdout=sys.stdout, stderr=sys.stderr)
>>> File "<string>", line 2, in run_subprocess
>>> File
>>> "/home/milton/anaconda2/lib/python2.7/site-packages/mne/utils.py",
>>> line 551, in verbose
>>> return function(*args, **kwargs)
>>> File
>>> "/home/milton/anaconda2/lib/python2.7/site-packages/mne/utils.py",
>>> line 804, in run_subprocess
>>> p = subprocess.Popen(command, *args, **kwargs)
>>> File "/home/milton/anaconda2/lib/python2.7/subprocess.py", line
>>> 710, in
>>> __init__
>>> errread, errwrite)
>>> File "/home/milton/anaconda2/lib/python2.7/subprocess.py", line
>>> 1335, in
>>> _execute_child
>>> raise child_exception
>>> OSError: [Errno 2] No such file or directory
>>>
>>>
>>> The files created:
>>> <subj>_brain_surface
>>> <subj>_inner_skull_surface
>>> <subj>_outer_skull_surface
>>> <subj>_inner_skin_surface
>>>
>>> The files NOT created:
>>> inner_skull.surf,
>>> outer_skull.surf
>>> outer_skin.surf
>>>
>>> Does anybody know what is going on?
>>> Thanks in advance
>>> Milton
>>>
>>> _______________________________________________
>>> Mne_analysis mailing list
>>> Mne_analysis at nmr.mgh.harvard.edu
>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
>>>
>>>
>>> The information in this e-mail is intended only for the person to
>>> whom it is
>>> addressed. If you believe this e-mail was sent to you in error and
>>> the
>>> e-mail
>>> contains patient information, please contact the Partners
>>> Compliance
>>> HelpLine at
>>> http://www.partners.org/complianceline . If the e-mail was sent to
>>> you in
>>> error
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