yes and this is the error: mri_fdr dyld: Library not loaded: @executable_path/../lib/gcc/lib/libstdc++.6. dylib Referenced from: /Applications/freesurfer/bin/mri_fdr Reason: image not found Trace/BPT trap
----Messaggio originale---- Da: greve@nmr.mgh.harvard.edu Data: 21-dic-2015 20.04 A: freesurfer@nmr.mgh.harvard.edu Ogg: Re: [Freesurfer] R: Re: R: R: Re: R: Re: FDR in FS-FAST
have you tried changing the permission to be exectuable? chmod a+x mri_fdr
On 12/21/2015 02:02 PM, stdp82@virgilio.it wrote:
Thanks but permission denied persist.
----Messaggio originale---- Da: greve@nmr.mgh.harvard.edu Data: 21-dic-2015 17.33 A: freesurfer@nmr.mgh.harvard.edu Ogg: Re: [Freesurfer] R: R: Re: R: Re: FDR in FS-FAST
Try this version for mac ftp://surfer.nmr.mgh.harvard.
edu/transfer/outgoing/flat/greve/mri_fdr.
osx
Use mri_surfcluster (or mri_volcluster) to do the clustering
On 12/18/2015 05:11 PM, stdp82@virgilio.it wrote:
I have run mri_fdr --help but I obtained this warning: /Applications/freesurfer/bin/mri_fdr: Permission denied.
I would also ask you if is possible to threshold the FDR map
(p<0.
05), eliminating clusters < 5 voxels.
Thanks
Stefano
----Messaggio originale---- Da: greve@nmr.mgh.harvard.edu Data: 11-dic-2015 20.23 A: freesurfer@nmr.mgh.harvard.edu Ogg: Re: [Freesurfer] R: Re: FDR in FS-FAST
$FREESURFER_HOME/bin
On 12/11/15 2:08 PM, stdp82@virgilio.it wrote: > Thanks, in which folder I should put this file? > > Stefano > > >> ----Messaggio originale---- >> Da: greve@nmr.mgh.harvard.edu >> Data: 7-dic-2015 19.23 >> A: freesurfer@nmr.mgh.harvard.edu >> Ogg: Re: [Freesurfer] FDR in FS-FAST >> >> >> >> On 12/07/2015 08:35 AM, stdp82@virgilio.it wrote: >>> Hi list, >>> I have two concerns, please: >>> 1) It is possible to apply FDR correction on rs-fMRI seed
based
>>> analysis by FS-FAST? If yes, I can I do it? >> try this binary >> ftp://surfer.nmr.mgh.harvard.
edu/transfer/outgoing/flat/greve/mri_fdr
>>> 2) I have apply the FS guidelines and I have used Montecarlo >>> correction with threshold at 1.3 but in the within group
analysis
> the >>> clusters are very large. In the guide I read examples with a > threshold >>> at 3. Is there a specific reason? >> There is not a hard-and-fast criteria for the voxel-wise
threshold. 3
> is >> fine as is 1.3 >>> Thanks >>> >>> Stefano >>> >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> -- >> Douglas N. Greve, Ph.D. >> MGH-NMR Center >> greve@nmr.mgh.harvard.edu >> Phone Number: 617-724-2358 >> Fax: 617-726-7422 >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> Outgoing: ftp://surfer.nmr.mgh.harvard. > edu/transfer/outgoing/flat/greve/ >> _______________________________________________ >> 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 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
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.
edu/transfer/outgoing/flat/greve/
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
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.
edu/transfer/outgoing/flat/greve/
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Not sure. Zeke?
On 12/21/2015 02:13 PM, stdp82@virgilio.it wrote:
yes and this is the error: mri_fdr dyld: Library not loaded: @executable_path/../lib/gcc/lib/libstdc++.6. dylib Referenced from: /Applications/freesurfer/bin/mri_fdr Reason: image not found Trace/BPT trap
----Messaggio originale---- Da: greve@nmr.mgh.harvard.edu Data: 21-dic-2015 20.04 A: freesurfer@nmr.mgh.harvard.edu Ogg: Re: [Freesurfer] R: Re: R: R: Re: R: Re: FDR in FS-FAST
have you tried changing the permission to be exectuable? chmod a+x mri_fdr
On 12/21/2015 02:02 PM, stdp82@virgilio.it wrote:
Thanks but permission denied persist.
----Messaggio originale---- Da: greve@nmr.mgh.harvard.edu Data: 21-dic-2015 17.33 A: freesurfer@nmr.mgh.harvard.edu Ogg: Re: [Freesurfer] R: R: Re: R: Re: FDR in FS-FAST
Try this version for mac ftp://surfer.nmr.mgh.harvard.
edu/transfer/outgoing/flat/greve/mri_fdr.
osx
Use mri_surfcluster (or mri_volcluster) to do the clustering
On 12/18/2015 05:11 PM, stdp82@virgilio.it wrote:
I have run mri_fdr --help but I obtained this warning: /Applications/freesurfer/bin/mri_fdr: Permission denied.
I would also ask you if is possible to threshold the FDR map
(p<0.
05), eliminating clusters < 5 voxels.
Thanks
Stefano
> ----Messaggio originale---- > Da: greve@nmr.mgh.harvard.edu > Data: 11-dic-2015 20.23 > A: freesurfer@nmr.mgh.harvard.edu > Ogg: Re: [Freesurfer] R: Re: FDR in FS-FAST > > $FREESURFER_HOME/bin > > On 12/11/15 2:08 PM, stdp82@virgilio.it wrote: >> Thanks, in which folder I should put this file? >> >> Stefano >> >> >>> ----Messaggio originale---- >>> Da: greve@nmr.mgh.harvard.edu >>> Data: 7-dic-2015 19.23 >>> A: freesurfer@nmr.mgh.harvard.edu >>> Ogg: Re: [Freesurfer] FDR in FS-FAST >>> >>> >>> >>> On 12/07/2015 08:35 AM, stdp82@virgilio.it wrote: >>>> Hi list, >>>> I have two concerns, please: >>>> 1) It is possible to apply FDR correction on rs-fMRI seed
based
>>>> analysis by FS-FAST? If yes, I can I do it? >>> try this binary >>> ftp://surfer.nmr.mgh.harvard. edu/transfer/outgoing/flat/greve/mri_fdr >>>> 2) I have apply the FS guidelines and I have used Montecarlo >>>> correction with threshold at 1.3 but in the within group
analysis
>> the >>>> clusters are very large. In the guide I read examples with a >> threshold >>>> at 3. Is there a specific reason? >>> There is not a hard-and-fast criteria for the voxel-wise threshold. 3 >> is >>> fine as is 1.3 >>>> Thanks >>>> >>>> Stefano >>>> >>>> >>>> _______________________________________________ >>>> Freesurfer mailing list >>>> Freesurfer@nmr.mgh.harvard.edu >>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> -- >>> Douglas N. Greve, Ph.D. >>> MGH-NMR Center >>> greve@nmr.mgh.harvard.edu >>> Phone Number: 617-724-2358 >>> Fax: 617-726-7422 >>> >>> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >>> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >>> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >>> Outgoing: ftp://surfer.nmr.mgh.harvard. >> edu/transfer/outgoing/flat/greve/ >>> _______________________________________________ >>> 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 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
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.
edu/transfer/outgoing/flat/greve/
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
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.
edu/transfer/outgoing/flat/greve/
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@nmr.mgh.harvard.edu
-
Douglas N Greve -
stdp82＠virgilio.it