Re: [Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-06 Thread Nick Schmansky
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

Re: [Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-04 Thread Gonzalo Rojas Costa
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 ni...@nmr.mgh.harvard.edu wrote: this link is here:

Re: [Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-03 Thread Bruce Fischl
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

Re: [Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-03 Thread Gonzalo Rojas Costa
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 fis...@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

Re: [Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-03 Thread Bruce Fischl
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

Re: [Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-03 Thread Nick Schmansky
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

Re: [Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-03 Thread Marcos Martins da Silva
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

Re: [Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-03 Thread Nick Schmansky
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

[Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-02 Thread Gonzalo Rojas Costa
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

Re: [Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-02 Thread Bruce Fischl
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

Re: [Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-02 Thread Gonzalo Rojas Costa
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 fis...@nmr.mgh.harvard.edu wrote: what version are you running? The newer ones are *much*

Re: [Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-02 Thread Bruce Fischl
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,

Re: [Freesurfer] tip and tricks with patient with one big ventricle...

2013-05-02 Thread Gonzalo Rojas Costa
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 fis...@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,