subject:"\[Freesurfer\] error during longitudinal \-long stream"

Re: [Freesurfer] error during longitudinal -long stream

2016-07-30 Thread Jinsong Tang

Hi Martin，

I tried 2 times again (run 4 analysis at the same time).  This time, it
works well, The link to fsaverage  is automatically created. I did not
replicate the error message.

Thank you so much!

Best,

Jinsong

On Fri, Jul 29, 2016 at 11:44 AM, Martin Reuter  wrote:

> Hi Jinsong,
>
> can you give an example of what exactly does not work.
>
> Thanks, Martin
>
>
> On 07/29/2016 12:26 PM, Jinsong Tang wrote:
>
> Hi Martin,
>
> I checked all data are completed except the link to  fsaverage,
> lh.EC_average and rh.EC_average.   I run one analysis from the terminal.
> it works. if I run multiple analysis at the same time, it failed.
> When I manually linked the 3 files, then run multiple analysis at the same
> time, it works good.
>
> Best,
>
> Jinsong
>
> On Wed, Jul 27, 2016 at 8:11 AM, Martin Reuter <
> mreu...@nmr.mgh.harvard.edu> wrote:
>
>>
>> Hi Jinsong,
>>
>> maybe not everything was copied? The link to fsaverage should be
>> automatically created if it is missing. I often process cross in a
>> different directory from base and long (and create symlinks to the cross
>> subject dirs). It automatically creates fsaverage then.
>> Try to replicate your problem with a single subject that failed. First
>> try to do everything on the same computer, then try to do what you did
>> before (copying parts of it).
>>
>> Best, Martin
>>
>>
>>
>> On 07/20/2016 12:56 PM, Jinsong Tang wrote:
>>
>> Hi Martin,
>>
>> We run all cross, base and long with 5.3. I guess the problem maybe we
>> run cross on  a computer and then copy the results to another computer to
>> run the cross and long. the "*fsaverage" is not copied. Does this
>> matter？*
>>
>> Best，
>>
>> Jinsong
>>
>> On Wed, Jul 20, 2016 at 12:21 AM, Martin Reuter <
>> mreu...@nmr.mgh.harvard.edu> wrote:
>>
>>> Hi Jinsong,
>>>
>>> I have never seen this. Stable 5.3 is very stable and I doubt it is a
>>> bug. How did you process base and cross sectionals? Also with 5.3 ?
>>>
>>> I would recommend to process cross and base with 5.3, then re-run the
>>> long and see if you can replicate this problem. Let me know what happens.
>>>
>>> Best, Martin
>>>
>>>
>>> > On Jul 20, 2016, at 12:48 AM, Jinsong Tang < 
>>> tangjinson...@gmail.com> wrote:
>>> >
>>> > Hi all,
>>> >
>>> > I found an error during the longitudinal -long stream:
>>> >
>>> > recon-all -long P1001-2 P1001 -all
>>> > ..
>>> >
>>> > FREESURFER_HOME /space/raid/fmri/freesurfer
>>> > Actual FREESURFER_HOME /space/raid/fmri/freesurfer
>>> > build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
>>> > Linux funcserv1 3.16.7-35-desktop #1 SMP PREEMPT Sun Feb 7 17:32:21
>>> UTC 2016 (832c776) x86_64 x86_64 x86_64 GNU/Linux
>>> > ..
>>> >
>>> > mris_spherical_average -erode 1 -orig white -t 0.4 -o
>>> P1001-2.long.P1001 label lh.entorhinal lh sphere.reg lh.EC_average
>>> lh.entorhinal_exvivo.label
>>> >
>>> > painting output onto subject P1001-2.long.P1001.
>>> > processing subject lh.EC_average...
>>> >
>>> MRISread(/space/raid7/data/london/data/mri/other/jinsong/oneil/ChildOCD/output/lh.EC_average/surf/lh.sphere.reg):
>>> could not open file
>>> > eroding label 1 times before writing
>>> > thresholding label stat at 0.400 before writing
>>> > Not a directory
>>> > mris_spherical_average: could not read surface file
>>> /space/raid7/data/london/data/mri/other/jinsong/oneil/ChildOCD/output/lh.EC_average/surf/lh.sphere.reg
>>> > Not a directory
>>> > Linux funcserv1 3.16.7-35-desktop #1 SMP PREEMPT Sun Feb 7 17:32:21
>>> UTC 2016 (832c776) x86_64 x86_64 x86_64 GNU/Linux
>>> >
>>> > recon-all -s P1001-2.long.P1001 exited with ERRORS at Fri Jul  8
>>> 21:33:02 PDT 2016
>>> >
>>> >
>>> > Please help me fix this error!
>>> >
>>> > Thanks and best regards,
>>> >
>>> > Jinsong
>>> >
>>> >
>>> > ___
>>> > Freesurfer mailing list
>>> > Freesurfer@nmr.mgh.harvard.edu
>>> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>>>
>>>
>>> ___
>>> Freesurfer mailing list
>>> Freesurfer@nmr.mgh.harvard.edu
>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>>>
>>>
>>> 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.
>>>
>>>
>>
>>
>>
>> ___
>> Freesurfer mailing 
>> listfreesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>>
>>
>> --
>> Martin Reuter, PhD
>> Assistant Professor of Radiology, Harvard Medical School
>> Assistant

Re: [Freesurfer] error during longitudinal -long stream

2016-07-29 Thread Martin Reuter

Hi Jinsong,

can you give an example of what exactly does not work.

Thanks, Martin

On 07/29/2016 12:26 PM, Jinsong Tang wrote:

Hi Martin,

I checked all data are completed except the link to fsaverage, 
lh.EC_average and rh.EC_average.   I run one analysis from the 
terminal. it works. if I run multiple analysis at the same time, it 
failed.
When I manually linked the 3 files, then run multiple analysis at the 
same time, it works good.

Best,

Jinsong

On Wed, Jul 27, 2016 at 8:11 AM, Martin Reuter 
> wrote:

Hi Jinsong,

maybe not everything was copied? The link to fsaverage should be
automatically created if it is missing. I often process cross in a
different directory from base and long (and create symlinks to the
cross subject dirs). It automatically creates fsaverage then.
Try to replicate your problem with a single subject that failed.
First try to do everything on the same computer, then try to do
what you did before (copying parts of it).

Best, Martin

On 07/20/2016 12:56 PM, Jinsong Tang wrote:

Hi Martin,

We run all cross, base and long with 5.3. I guess the problem
maybe we run cross on  a computer and then copy the results to
another computer to run the cross and long. the "/fsaverage" is
not copied. Does this matter？/

Best，

Jinsong

On Wed, Jul 20, 2016 at 12:21 AM, Martin Reuter
> wrote:

Hi Jinsong,

I have never seen this. Stable 5.3 is very stable and I doubt
it is a bug. How did you process base and cross sectionals?
Also with 5.3 ?

I would recommend to process cross and base with 5.3, then
re-run the long and see if you can replicate this problem.
Let me know what happens.

Best, Martin

> On Jul 20, 2016, at 12:48 AM, Jinsong Tang
> wrote:
>
> Hi all,
>
> I found an error during the longitudinal -long stream:
>
> recon-all -long P1001-2 P1001 -all
> ..
>
> FREESURFER_HOME /space/raid/fmri/freesurfer
> Actual FREESURFER_HOME /space/raid/fmri/freesurfer
> build-stamp.txt:
freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
> Linux funcserv1 3.16.7-35-desktop #1 SMP PREEMPT Sun Feb 7
17:32:21 UTC 2016 (832c776) x86_64 x86_64 x86_64 GNU/Linux
> ..
>
> mris_spherical_average -erode 1 -orig white -t 0.4 -o
P1001-2.long.P1001 label lh.entorhinal lh sphere.reg
lh.EC_average lh.entorhinal_exvivo.label
>
> painting output onto subject P1001-2.long.P1001.
> processing subject lh.EC_average...
>

MRISread(/space/raid7/data/london/data/mri/other/jinsong/oneil/ChildOCD/output/lh.EC_average/surf/lh.sphere.reg):
could not open file
> eroding label 1 times before writing
> thresholding label stat at 0.400 before writing
> Not a directory
> mris_spherical_average: could not read surface file

/space/raid7/data/london/data/mri/other/jinsong/oneil/ChildOCD/output/lh.EC_average/surf/lh.sphere.reg
> Not a directory
> Linux funcserv1 3.16.7-35-desktop #1 SMP PREEMPT Sun Feb 7
17:32:21 UTC 2016 (832c776) x86_64 x86_64 x86_64 GNU/Linux
>
> recon-all -s P1001-2.long.P1001 exited with ERRORS at Fri
Jul  8 21:33:02 PDT 2016
>
>
> Please help me fix this error!
>
> Thanks and best regards,
>
> Jinsong
>
>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu

> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

___
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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
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dispose of the e-mail.

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Re: [Freesurfer] error during longitudinal -long stream

2016-07-29 Thread Jinsong Tang

Hi Martin,

I checked all data are completed except the link to  fsaverage,
lh.EC_average and rh.EC_average.   I run one analysis from the terminal. it
works. if I run multiple analysis at the same time, it failed.
When I manually linked the 3 files, then run multiple analysis at the same
time, it works good.

Best,

Jinsong

On Wed, Jul 27, 2016 at 8:11 AM, Martin Reuter 
wrote:

>
> Hi Jinsong,
>
> maybe not everything was copied? The link to fsaverage should be
> automatically created if it is missing. I often process cross in a
> different directory from base and long (and create symlinks to the cross
> subject dirs). It automatically creates fsaverage then.
> Try to replicate your problem with a single subject that failed. First try
> to do everything on the same computer, then try to do what you did before
> (copying parts of it).
>
> Best, Martin
>
>
>
> On 07/20/2016 12:56 PM, Jinsong Tang wrote:
>
> Hi Martin,
>
> We run all cross, base and long with 5.3. I guess the problem maybe we run
> cross on  a computer and then copy the results to another computer to run
> the cross and long. the "*fsaverage" is not copied. Does this matter？*
>
> Best，
>
> Jinsong
>
> On Wed, Jul 20, 2016 at 12:21 AM, Martin Reuter <
> mreu...@nmr.mgh.harvard.edu> wrote:
>
>> Hi Jinsong,
>>
>> I have never seen this. Stable 5.3 is very stable and I doubt it is a
>> bug. How did you process base and cross sectionals? Also with 5.3 ?
>>
>> I would recommend to process cross and base with 5.3, then re-run the
>> long and see if you can replicate this problem. Let me know what happens.
>>
>> Best, Martin
>>
>>
>> > On Jul 20, 2016, at 12:48 AM, Jinsong Tang < 
>> tangjinson...@gmail.com> wrote:
>> >
>> > Hi all,
>> >
>> > I found an error during the longitudinal -long stream:
>> >
>> > recon-all -long P1001-2 P1001 -all
>> > ..
>> >
>> > FREESURFER_HOME /space/raid/fmri/freesurfer
>> > Actual FREESURFER_HOME /space/raid/fmri/freesurfer
>> > build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
>> > Linux funcserv1 3.16.7-35-desktop #1 SMP PREEMPT Sun Feb 7 17:32:21 UTC
>> 2016 (832c776) x86_64 x86_64 x86_64 GNU/Linux
>> > ..
>> >
>> > mris_spherical_average -erode 1 -orig white -t 0.4 -o
>> P1001-2.long.P1001 label lh.entorhinal lh sphere.reg lh.EC_average
>> lh.entorhinal_exvivo.label
>> >
>> > painting output onto subject P1001-2.long.P1001.
>> > processing subject lh.EC_average...
>> >
>> MRISread(/space/raid7/data/london/data/mri/other/jinsong/oneil/ChildOCD/output/lh.EC_average/surf/lh.sphere.reg):
>> could not open file
>> > eroding label 1 times before writing
>> > thresholding label stat at 0.400 before writing
>> > Not a directory
>> > mris_spherical_average: could not read surface file
>> /space/raid7/data/london/data/mri/other/jinsong/oneil/ChildOCD/output/lh.EC_average/surf/lh.sphere.reg
>> > Not a directory
>> > Linux funcserv1 3.16.7-35-desktop #1 SMP PREEMPT Sun Feb 7 17:32:21 UTC
>> 2016 (832c776) x86_64 x86_64 x86_64 GNU/Linux
>> >
>> > recon-all -s P1001-2.long.P1001 exited with ERRORS at Fri Jul  8
>> 21:33:02 PDT 2016
>> >
>> >
>> > Please help me fix this error!
>> >
>> > Thanks and best regards,
>> >
>> > Jinsong
>> >
>> >
>> > ___
>> > Freesurfer mailing list
>> > Freesurfer@nmr.mgh.harvard.edu
>> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>>
>>
>> ___
>> Freesurfer mailing list
>> Freesurfer@nmr.mgh.harvard.edu
>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>>
>>
>> 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.
>>
>>
>
>
>
> ___
> Freesurfer mailing 
> listfreesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
> --
> Martin Reuter, PhD
> Assistant Professor of Radiology, Harvard Medical School
> Assistant Professor of Neurology, Harvard Medical School
> A.A.Martinos Center for Biomedical Imaging
> Massachusetts General Hospital
> Research Affiliate, CSAIL, MIT
> Phone: +1-617-724-5652
> Web  : http://reuter.mit.edu
>
>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
> 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
>

Re: [Freesurfer] error during longitudinal -long stream

2016-07-27 Thread Martin Reuter

Hi Jinsong,

maybe not everything was copied? The link to fsaverage should be 
automatically created if it is missing. I often process cross in a 
different directory from base and long (and create symlinks to the cross 
subject dirs). It automatically creates fsaverage then.
Try to replicate your problem with a single subject that failed. First 
try to do everything on the same computer, then try to do what you did 
before (copying parts of it).

Best, Martin

On 07/20/2016 12:56 PM, Jinsong Tang wrote:

Hi Martin,

We run all cross, base and long with 5.3. I guess the problem maybe we 
run cross on  a computer and then copy the results to another computer 
to run the cross and long. the "/fsaverage" is not copied. Does this 
matter？/

Best，

Jinsong

On Wed, Jul 20, 2016 at 12:21 AM, Martin Reuter 
> wrote:

Hi Jinsong,

I have never seen this. Stable 5.3 is very stable and I doubt it
is a bug. How did you process base and cross sectionals? Also with
5.3 ?

I would recommend to process cross and base with 5.3, then re-run
the long and see if you can replicate this problem. Let me know
what happens.

Best, Martin

> On Jul 20, 2016, at 12:48 AM, Jinsong Tang
> wrote:
>
> Hi all,
>
> I found an error during the longitudinal -long stream:
>
> recon-all -long P1001-2 P1001 -all
> ..
>
> FREESURFER_HOME /space/raid/fmri/freesurfer
> Actual FREESURFER_HOME /space/raid/fmri/freesurfer
> build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
> Linux funcserv1 3.16.7-35-desktop #1 SMP PREEMPT Sun Feb 7
17:32:21 UTC 2016 (832c776) x86_64 x86_64 x86_64 GNU/Linux
> ..
>
> mris_spherical_average -erode 1 -orig white -t 0.4 -o
P1001-2.long.P1001 label lh.entorhinal lh sphere.reg lh.EC_average
lh.entorhinal_exvivo.label
>
> painting output onto subject P1001-2.long.P1001.
> processing subject lh.EC_average...
>

MRISread(/space/raid7/data/london/data/mri/other/jinsong/oneil/ChildOCD/output/lh.EC_average/surf/lh.sphere.reg):
could not open file
> eroding label 1 times before writing
> thresholding label stat at 0.400 before writing
> Not a directory
> mris_spherical_average: could not read surface file

/space/raid7/data/london/data/mri/other/jinsong/oneil/ChildOCD/output/lh.EC_average/surf/lh.sphere.reg
> Not a directory
> Linux funcserv1 3.16.7-35-desktop #1 SMP PREEMPT Sun Feb 7
17:32:21 UTC 2016 (832c776) x86_64 x86_64 x86_64 GNU/Linux
>
> recon-all -s P1001-2.long.P1001 exited with ERRORS at Fri Jul  8
21:33:02 PDT 2016
>
>
> Please help me fix this error!
>
> Thanks and best regards,
>
> Jinsong
>
>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu

> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

___
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https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

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.

___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

--
Martin Reuter, PhD
Assistant Professor of Radiology, Harvard Medical School
Assistant Professor of Neurology, Harvard Medical School
A.A.Martinos Center for Biomedical Imaging
Massachusetts General Hospital
Research Affiliate, CSAIL, MIT
Phone: +1-617-724-5652
Web  : http://reuter.mit.edu

___
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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.

Re: [Freesurfer] error during longitudinal -long stream

2016-07-20 Thread Jinsong Tang

Hi Martin,

We run all cross, base and long with 5.3. I guess the problem maybe we run
cross on  a computer and then copy the results to another computer to run
the cross and long. the "*fsaverage" is not copied. Does this matter？*

Best，

Jinsong

On Wed, Jul 20, 2016 at 12:21 AM, Martin Reuter  wrote:

> Hi Jinsong,
>
> I have never seen this. Stable 5.3 is very stable and I doubt it is a bug.
> How did you process base and cross sectionals? Also with 5.3 ?
>
> I would recommend to process cross and base with 5.3, then re-run the long
> and see if you can replicate this problem. Let me know what happens.
>
> Best, Martin
>
>
> > On Jul 20, 2016, at 12:48 AM, Jinsong Tang 
> wrote:
> >
> > Hi all,
> >
> > I found an error during the longitudinal -long stream:
> >
> > recon-all -long P1001-2 P1001 -all
> > ..
> >
> > FREESURFER_HOME /space/raid/fmri/freesurfer
> > Actual FREESURFER_HOME /space/raid/fmri/freesurfer
> > build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
> > Linux funcserv1 3.16.7-35-desktop #1 SMP PREEMPT Sun Feb 7 17:32:21 UTC
> 2016 (832c776) x86_64 x86_64 x86_64 GNU/Linux
> > ..
> >
> > mris_spherical_average -erode 1 -orig white -t 0.4 -o P1001-2.long.P1001
> label lh.entorhinal lh sphere.reg lh.EC_average lh.entorhinal_exvivo.label
> >
> > painting output onto subject P1001-2.long.P1001.
> > processing subject lh.EC_average...
> >
> MRISread(/space/raid7/data/london/data/mri/other/jinsong/oneil/ChildOCD/output/lh.EC_average/surf/lh.sphere.reg):
> could not open file
> > eroding label 1 times before writing
> > thresholding label stat at 0.400 before writing
> > Not a directory
> > mris_spherical_average: could not read surface file
> /space/raid7/data/london/data/mri/other/jinsong/oneil/ChildOCD/output/lh.EC_average/surf/lh.sphere.reg
> > Not a directory
> > Linux funcserv1 3.16.7-35-desktop #1 SMP PREEMPT Sun Feb 7 17:32:21 UTC
> 2016 (832c776) x86_64 x86_64 x86_64 GNU/Linux
> >
> > recon-all -s P1001-2.long.P1001 exited with ERRORS at Fri Jul  8
> 21:33:02 PDT 2016
> >
> >
> > Please help me fix this error!
> >
> > Thanks and best regards,
> >
> > Jinsong
> >
> >
> > ___
> > Freesurfer mailing list
> > Freesurfer@nmr.mgh.harvard.edu
> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
> 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.
>
>
___
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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.

Re: [Freesurfer] error during longitudinal -long stream

2016-07-20 Thread Martin Reuter

Hi Jinsong, 

I have never seen this. Stable 5.3 is very stable and I doubt it is a bug. How 
did you process base and cross sectionals? Also with 5.3 ?

I would recommend to process cross and base with 5.3, then re-run the long and 
see if you can replicate this problem. Let me know what happens.

Best, Martin


> On Jul 20, 2016, at 12:48 AM, Jinsong Tang  wrote:
> 
> Hi all,
> 
> I found an error during the longitudinal -long stream:
> 
> recon-all -long P1001-2 P1001 -all
> ..
> 
> FREESURFER_HOME /space/raid/fmri/freesurfer
> Actual FREESURFER_HOME /space/raid/fmri/freesurfer
> build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
> Linux funcserv1 3.16.7-35-desktop #1 SMP PREEMPT Sun Feb 7 17:32:21 UTC 2016 
> (832c776) x86_64 x86_64 x86_64 GNU/Linux
> ..
> 
> mris_spherical_average -erode 1 -orig white -t 0.4 -o P1001-2.long.P1001 
> label lh.entorhinal lh sphere.reg lh.EC_average lh.entorhinal_exvivo.label 
> 
> painting output onto subject P1001-2.long.P1001.
> processing subject lh.EC_average...
> MRISread(/space/raid7/data/london/data/mri/other/jinsong/oneil/ChildOCD/output/lh.EC_average/surf/lh.sphere.reg):
>  could not open file
> eroding label 1 times before writing
> thresholding label stat at 0.400 before writing
> Not a directory
> mris_spherical_average: could not read surface file 
> /space/raid7/data/london/data/mri/other/jinsong/oneil/ChildOCD/output/lh.EC_average/surf/lh.sphere.reg
> Not a directory
> Linux funcserv1 3.16.7-35-desktop #1 SMP PREEMPT Sun Feb 7 17:32:21 UTC 2016 
> (832c776) x86_64 x86_64 x86_64 GNU/Linux
> 
> recon-all -s P1001-2.long.P1001 exited with ERRORS at Fri Jul  8 21:33:02 PDT 
> 2016
> 
> 
> Please help me fix this error!
> 
> Thanks and best regards,
> 
> Jinsong
> 
> 
> ___
> Freesurfer mailing list
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> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


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Re: [Freesurfer] error during longitudinal -long stream

Re: [Freesurfer] error during longitudinal -long stream

Re: [Freesurfer] error during longitudinal -long stream

Re: [Freesurfer] error during longitudinal -long stream

Re: [Freesurfer] error during longitudinal -long stream

Re: [Freesurfer] error during longitudinal -long stream

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