Hi:
I has the MPRAGE of a patient with one big ventricle, and the other has normal shape and size... Any tip and tricks to process it ?... Because freesurfer fails from the beggining of the process (VERY BAD talairach registration)... I test -bigventricle option of recon-all, but I got the same problems...
Sincerely,
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
what version are you running? The newer ones are *much* better at this Bruce On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi:
I has the MPRAGE of a patient with one big ventricle, and the other has normal shape and size... Any tip and tricks to process it ?... Because freesurfer fails from the beggining of the process (VERY BAD talairach registration)... I test -bigventricle option of recon-all, but I got the same problems...
Sincerely,
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Bruce:
I tested 4.5 and 5.1 versions... with the first I processed complete, and with 5.1 only autorecon1 section...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 1:31 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
what version are you running? The newer ones are *much* better at this Bruce
On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi:
I has the MPRAGE of a patient with one big ventricle, and the other has normal shape and size... Any tip and tricks to process it ?... Because freesurfer fails from the beggining of the process (VERY BAD talairach registration)... I test -bigventricle option of recon-all, but I got the same problems...
Sincerely,
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
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.
Hello FreeSurfer,
I have tried adding control points and running recon for the control points multiple times but no changes to the volume are made. Does anyone know what I could be doing wrong?
Thank you,
Anna
On Thu, May 2, 2013 at 2:16 PM, Gonzalo Rojas Costa < gonzalo.rojas.costa@gmail.com> wrote:
Hi Bruce:
I tested 4.5 and 5.1 versions... with the first I processed complete, and with 5.1 only autorecon1 section...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 1:31 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
what version are you running? The newer ones are *much* better at this Bruce
On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi:
I has the MPRAGE of a patient with one big ventricle, and the other has normal shape and size... Any tip and tricks to process it ?... Because freesurfer fails from the beggining of the process (VERY BAD talairach registration)... I test -bigventricle option of recon-all, but I got the same problems...
Sincerely,
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
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.
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Anna
what command line did you run? Bruce On Thu, 2 May 2013, Anna Deferia wrote:
Hello FreeSurfer, I have tried adding control points and running recon for the control points multiple times but no changes to the volume are made. Does anyone know what I could be doing wrong?
Thank you,
Anna
On Thu, May 2, 2013 at 2:16 PM, Gonzalo Rojas Costa gonzalo.rojas.costa@gmail.com wrote: Hi Bruce:
I tested 4.5 and 5.1 versions... with the first I processed complete, and with 5.1 only autorecon1 section... Sincerely, Gonzalo Rojas Costa On Thu, May 2, 2013 at 1:31 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote: > what version are you running? The newer ones are *much* better at this > Bruce > > On Thu, 2 May 2013, Gonzalo Rojas Costa wrote: > >> Hi: >> >> I has the MPRAGE of a patient with one big ventricle, and the other >> has normal shape and size... Any tip and tricks to process it ?... >> Because freesurfer fails from the beggining of the process (VERY BAD >> talairach registration)... I test -bigventricle option of recon-all, >> but I got the same problems... >> >> Sincerely, >> >> -- >> Gonzalo Rojas Costa >> Laboratory for Advanced Medical Image Processing >> Department of Radiology >> Clínica las Condes >> Lo Fontecilla 441, Las Condes, Santiago, Chile. >> Tel: 56-2-2105170 >> Cel: 56-9-97771785 >> www.clc.cl >> >> _______________________________________________ >> 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.
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Gonzalo Try it with 5.3, or upload and I can r. It for you Bruce
On May 2, 2013, at 2:16 PM, Gonzalo Rojas Costa gonzalo.rojas.costa@gmail.com wrote:
Hi Bruce:
I tested 4.5 and 5.1 versions... with the first I processed complete, and with 5.1 only autorecon1 section...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 1:31 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
what version are you running? The newer ones are *much* better at this Bruce
On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi:
I has the MPRAGE of a patient with one big ventricle, and the other has normal shape and size... Any tip and tricks to process it ?... Because freesurfer fails from the beggining of the process (VERY BAD talairach registration)... I test -bigventricle option of recon-all, but I got the same problems...
Sincerely,
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
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.
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
Hi Bruce:
And, where is version 5.3 ?... in the "nightly dev builds" ?...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 9:29 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Gonzalo Try it with 5.3, or upload and I can r. It for you Bruce
On May 2, 2013, at 2:16 PM, Gonzalo Rojas Costa gonzalo.rojas.costa@gmail.com wrote:
Hi Bruce:
I tested 4.5 and 5.1 versions... with the first I processed complete, and with 5.1 only autorecon1 section...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 1:31 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
what version are you running? The newer ones are *much* better at this Bruce
On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi:
I has the MPRAGE of a patient with one big ventricle, and the other has normal shape and size... Any tip and tricks to process it ?... Because freesurfer fails from the beggining of the process (VERY BAD talairach registration)... I test -bigventricle option of recon-all, but I got the same problems...
Sincerely,
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
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.
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
Hi Gonzalo
version 5.3 is midway through the QA process. We can give you a beta of it in the next couple of days if you want Bruce On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi Bruce:
And, where is version 5.3 ?... in the "nightly dev builds" ?...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 9:29 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Gonzalo Try it with 5.3, or upload and I can r. It for you Bruce
On May 2, 2013, at 2:16 PM, Gonzalo Rojas Costa gonzalo.rojas.costa@gmail.com wrote:
Hi Bruce:
I tested 4.5 and 5.1 versions... with the first I processed complete, and with 5.1 only autorecon1 section...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 1:31 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
what version are you running? The newer ones are *much* better at this Bruce
On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi:
I has the MPRAGE of a patient with one big ventricle, and the other has normal shape and size... Any tip and tricks to process it ?... Because freesurfer fails from the beggining of the process (VERY BAD talairach registration)... I test -bigventricle option of recon-all, but I got the same problems...
Sincerely,
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
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.
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
Hi Bruce:
Ok... I am interested in the 5.3 beta version...
Sincerely,
Gonzalo Rojas Costa
On Fri, May 3, 2013 at 8:41 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Gonzalo
version 5.3 is midway through the QA process. We can give you a beta of it in the next couple of days if you want
Bruce On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi Bruce:
And, where is version 5.3 ?... in the "nightly dev builds" ?...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 9:29 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Gonzalo Try it with 5.3, or upload and I can r. It for you Bruce
On May 2, 2013, at 2:16 PM, Gonzalo Rojas Costa gonzalo.rojas.costa@gmail.com wrote:
Hi Bruce:
I tested 4.5 and 5.1 versions... with the first I processed complete, and with 5.1 only autorecon1 section...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 1:31 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
what version are you running? The newer ones are *much* better at this Bruce
On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi:
I has the MPRAGE of a patient with one big ventricle, and the other has normal shape and size... Any tip and tricks to process it ?... Because freesurfer fails from the beggining of the process (VERY BAD talairach registration)... I test -bigventricle option of recon-all, but I got the same problems...
Sincerely,
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
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.
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
ok, I think Nick posted a link of where the beta will be (or if not, he will)
Bruce On Fri, 3 May 2013, Gonzalo Rojas Costa wrote:
Hi Bruce:
Ok... I am interested in the 5.3 beta version...
Sincerely,
Gonzalo Rojas Costa
On Fri, May 3, 2013 at 8:41 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Gonzalo
version 5.3 is midway through the QA process. We can give you a beta of it in the next couple of days if you want
Bruce On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi Bruce:
And, where is version 5.3 ?... in the "nightly dev builds" ?...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 9:29 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Gonzalo Try it with 5.3, or upload and I can r. It for you Bruce
On May 2, 2013, at 2:16 PM, Gonzalo Rojas Costa gonzalo.rojas.costa@gmail.com wrote:
Hi Bruce:
I tested 4.5 and 5.1 versions... with the first I processed complete, and with 5.1 only autorecon1 section...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 1:31 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
what version are you running? The newer ones are *much* better at this Bruce
On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
> Hi: > > I has the MPRAGE of a patient with one big ventricle, and the other > has normal shape and size... Any tip and tricks to process it ?... > Because freesurfer fails from the beggining of the process (VERY BAD > talairach registration)... I test -bigventricle option of recon-all, > but I got the same problems... > > Sincerely, > > -- > Gonzalo Rojas Costa > Laboratory for Advanced Medical Image Processing > Department of Radiology > Clínica las Condes > Lo Fontecilla 441, Las Condes, Santiago, Chile. > Tel: 56-2-2105170 > Cel: 56-9-97771785 > www.clc.cl > > _______________________________________________ > 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.
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
this link is here:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0-BETA/
the centos6_x86_64 build is there now. the others will appear as they finish their builds, which can take quite a bit of time... so check back every day or so....
n.
ok, I think Nick posted a link of where the beta will be (or if not, he will)
Bruce On Fri, 3 May 2013, Gonzalo Rojas Costa wrote:
Hi Bruce:
Ok... I am interested in the 5.3 beta version...
Sincerely,
Gonzalo Rojas Costa
On Fri, May 3, 2013 at 8:41 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Gonzalo
version 5.3 is midway through the QA process. We can give you a beta of it in the next couple of days if you want
Bruce On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi Bruce:
And, where is version 5.3 ?... in the "nightly dev builds" ?...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 9:29 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Gonzalo Try it with 5.3, or upload and I can r. It for you Bruce
On May 2, 2013, at 2:16 PM, Gonzalo Rojas Costa gonzalo.rojas.costa@gmail.com wrote:
Hi Bruce:
I tested 4.5 and 5.1 versions... with the first I processed complete, and with 5.1 only autorecon1 section...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 1:31 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: > > what version are you running? The newer ones are *much* better at > this > Bruce > > On Thu, 2 May 2013, Gonzalo Rojas Costa wrote: > >> Hi: >> >> I has the MPRAGE of a patient with one big ventricle, and the >> other >> has normal shape and size... Any tip and tricks to process it ?... >> Because freesurfer fails from the beggining of the process (VERY >> BAD >> talairach registration)... I test -bigventricle option of >> recon-all, >> but I got the same problems... >> >> Sincerely, >> >> -- >> Gonzalo Rojas Costa >> Laboratory for Advanced Medical Image Processing >> Department of Radiology >> Clínica las Condes >> Lo Fontecilla 441, Las Condes, Santiago, Chile. >> Tel: 56-2-2105170 >> Cel: 56-9-97771785 >> www.clc.cl >> >> _______________________________________________ >> 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.
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi, Nick. Recently, you sent me a test version of tkmedit to test under Fedora 18 to address the glibc problem. That tkmedit worked great and you said we would have a new version of the whole package in brief. Is this 5.3 BETA the versio addressing this glibc problem? Em Sex, 2013-05-03 às 17:46 -0400, Nick Schmansky escreveu:
this link is here:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0-BETA/
the centos6_x86_64 build is there now. the others will appear as they finish their builds, which can take quite a bit of time... so check back every day or so....
n.
ok, I think Nick posted a link of where the beta will be (or if not, he will)
Bruce On Fri, 3 May 2013, Gonzalo Rojas Costa wrote:
Hi Bruce:
Ok... I am interested in the 5.3 beta version...
Sincerely,
Gonzalo Rojas Costa
On Fri, May 3, 2013 at 8:41 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Gonzalo
version 5.3 is midway through the QA process. We can give you a beta of it in the next couple of days if you want
Bruce On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi Bruce:
And, where is version 5.3 ?... in the "nightly dev builds" ?...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 9:29 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Gonzalo Try it with 5.3, or upload and I can r. It for you Bruce
On May 2, 2013, at 2:16 PM, Gonzalo Rojas Costa gonzalo.rojas.costa@gmail.com wrote:
> Hi Bruce: > > I tested 4.5 and 5.1 versions... with the first I processed > complete, and with 5.1 only autorecon1 section... > > Sincerely, > > > Gonzalo Rojas Costa > > > On Thu, May 2, 2013 at 1:31 PM, Bruce Fischl > fischl@nmr.mgh.harvard.edu wrote: >> >> what version are you running? The newer ones are *much* better at >> this >> Bruce >> >> On Thu, 2 May 2013, Gonzalo Rojas Costa wrote: >> >>> Hi: >>> >>> I has the MPRAGE of a patient with one big ventricle, and the >>> other >>> has normal shape and size... Any tip and tricks to process it ?... >>> Because freesurfer fails from the beggining of the process (VERY >>> BAD >>> talairach registration)... I test -bigventricle option of >>> recon-all, >>> but I got the same problems... >>> >>> Sincerely, >>> >>> -- >>> Gonzalo Rojas Costa >>> Laboratory for Advanced Medical Image Processing >>> Department of Radiology >>> Clínica las Condes >>> Lo Fontecilla 441, Las Condes, Santiago, Chile. >>> Tel: 56-2-2105170 >>> Cel: 56-9-97771785 >>> www.clc.cl >>> >>> _______________________________________________ >>> 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. > > > > > -- > Gonzalo Rojas Costa > Laboratory for Advanced Medical Image Processing > Department of Radiology > Clínica las Condes > Lo Fontecilla 441, Las Condes, Santiago, Chile. > Tel: 56-2-2105170 > Cel: 56-9-97771785 > www.clc.cl > >
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
Marco,
Hi, yes, this release should fix the glibc problem on fedora 18 and hopefully unbuntu 13 as well. If you have a chance to exercise all of it (run recon-all on a subject, and run the guis like tkmedit, tksurfer, freeview and qdec) that would be a big help prior to our official release after testing.
Nick
Hi, Nick. Recently, you sent me a test version of tkmedit to test under Fedora 18 to address the glibc problem. That tkmedit worked great and you said we would have a new version of the whole package in brief. Is this 5.3 BETA the versio addressing this glibc problem? Em Sex, 2013-05-03 Ã s 17:46 -0400, Nick Schmansky escreveu:
this link is here:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0-BETA/
the centos6_x86_64 build is there now. the others will appear as they finish their builds, which can take quite a bit of time... so check back every day or so....
n.
ok, I think Nick posted a link of where the beta will be (or if not,
he
will)
Bruce On Fri, 3 May 2013, Gonzalo Rojas Costa wrote:
Hi Bruce:
Ok... I am interested in the 5.3 beta version...
Sincerely,
Gonzalo Rojas Costa
On Fri, May 3, 2013 at 8:41 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Gonzalo
version 5.3 is midway through the QA process. We can give you a beta
of
it in the next couple of days if you want
Bruce On Thu, 2 May 2013, Gonzalo Rojas Costa wrote:
Hi Bruce:
And, where is version 5.3 ?... in the "nightly dev builds" ?...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 2, 2013 at 9:29 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: > > Hi Gonzalo > Try it with 5.3, or upload and I can r. It for you > Bruce > > > > On May 2, 2013, at 2:16 PM, Gonzalo Rojas Costa > gonzalo.rojas.costa@gmail.com wrote: > >> Hi Bruce: >> >> I tested 4.5 and 5.1 versions... with the first I processed >> complete, and with 5.1 only autorecon1 section... >> >> Sincerely, >> >> >> Gonzalo Rojas Costa >> >> >> On Thu, May 2, 2013 at 1:31 PM, Bruce Fischl >> fischl@nmr.mgh.harvard.edu wrote: >>> >>> what version are you running? The newer ones are *much* better
at
>>> this >>> Bruce >>> >>> On Thu, 2 May 2013, Gonzalo Rojas Costa wrote: >>> >>>> Hi: >>>> >>>> I has the MPRAGE of a patient with one big ventricle, and the >>>> other >>>> has normal shape and size... Any tip and tricks to process it
?...
>>>> Because freesurfer fails from the beggining of the process
(VERY
>>>> BAD >>>> talairach registration)... I test -bigventricle option of >>>> recon-all, >>>> but I got the same problems... >>>> >>>> Sincerely, >>>> >>>> -- >>>> Gonzalo Rojas Costa >>>> Laboratory for Advanced Medical Image Processing >>>> Department of Radiology >>>> ClÃnica las Condes >>>> Lo Fontecilla 441, Las Condes, Santiago, Chile. >>>> Tel: 56-2-2105170 >>>> Cel: 56-9-97771785 >>>> www.clc.cl >>>> >>>> _______________________________________________ >>>> 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. >> >> >> >> >> -- >> Gonzalo Rojas Costa >> Laboratory for Advanced Medical Image Processing >> Department of Radiology >> ClÃnica las Condes >> Lo Fontecilla 441, Las Condes, Santiago, Chile. >> Tel: 56-2-2105170 >> Cel: 56-9-97771785 >> www.clc.cl >> >>
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
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Nick:
Ok... Tomorrow Sunday I will download and begin to test it...
And which other new features has version 5.3.0 over 5.2.0 ?...
Sincerely,
Gonzalo Rojas Costa
On Fri, May 3, 2013 at 5:46 PM, Nick Schmansky nicks@nmr.mgh.harvard.edu wrote:
this link is here:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0-BETA/
the centos6_x86_64 build is there now. the others will appear as they finish their builds, which can take quite a bit of time... so check back every day or so....
n.
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
Gonzalo,
Freeview will have a few small usability features to make it behave more like tkmedit and tksurfer, but that update doesnt affect recon-all.
Nick
Hi Nick:
Ok... Tomorrow Sunday I will download and begin to test it...
And which other new features has version 5.3.0 over 5.2.0 ?...
Sincerely,
Gonzalo Rojas Costa
On Fri, May 3, 2013 at 5:46 PM, Nick Schmansky nicks@nmr.mgh.harvard.edu wrote:
this link is here:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0-BETA/
the centos6_x86_64 build is there now. the others will appear as they finish their builds, which can take quite a bit of time... so check back every day or so....
n.
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
freesurfer@nmr.mgh.harvard.edu
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Anna Deferia -
Bruce Fischl -
Gonzalo Rojas Costa -
Marcos Martins da Silva -
Nick Schmansky