Hi Anwar,
I see, you want to convert the mgh file back to some text table. Not
sure how that worked, but I think mri_convert could do it (but maybe
only for a single subject with several structures, not sure about
multiple subjects - this is a stacked file). Another way is to open the
mgh in matl
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Hi Martin/Doug:
Still looking for an answer. Could not find a way to list the percentage change
values for each subject in a tabular form.
Thanks,
Anwar
On 2018-08-30, 12:15 PM, "Shatil, Anwar Shahadat"
wrote:
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Hello Martin:
I am using freesurfer 6.0.0 and the long_mris_slopes version 1.42 (that came
with it by default).
If I omit --out-pc1 but keep --do-pc1 still do not get any output as a .dat or
.stats file. I only get .mgh file in surf folder.
I need
Hi Anwar,
what FS version are you using?
Also what happens if you omit the --out-pc1 but keep the --do-pc1 ?
Also no output with that ending? It should write it to the default
location.
Best, Martin
On Wed, 2018-08-29 at 16:45 +, Shatil, Anwar Shahadat wrote:
> External Email
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?Dear Doug:
I am trying to get a table containing pc1 values for each subject in a
longitudinal study and failed to extract this. I use the code below:
long_mris_slopes --qdec ./qdec/long.qdec.table.2.dat --meas thickness --hemi lh
--do-avg --do-r
Hi Carolina,
probably you are not interested in the average thickness, so you can
drop --do-avg . Also usually people decide between pc1 and spc. The
stack is also not really necessary unless you want to look at it.
Try to remove the trailing / at fsaverage and --sd $SUBJECTS_DIR
that should
Hi FreeSurfer experts,
I am trying to run Longitudinal Two Steps analysis.
In the long_mris_slopes I run the following command:
long_mris_slopes --qdec $SUBJECTS_DIR/qdec/longRRMSP01.qdec.table.dat --meas thickness --hemi lh --do-avg --do-rate --do-pc1 --do-spc --do-stack --do-label --time y
: [Freesurfer] long_mris_slopes error
Not sure.
Maybe try the updated scripts
From
http://martinos.org/~mreuter/long
<http://martinos.org/%7Emreuter/long>/
Best Martin
Alex Hanganu wrote:
Dear Freesurfer Experts,
While performing the long_mris_slop
e : Martin Reuter
>À : Alexandru Hanganu ; FS Mailing List
>
>Envoyé le : mercredi 3 octobre 2012 17h30
>Objet : Re: [Freesurfer] long_mris_slopes error
>
>
>Not sure.
>Maybe try the updated scripts
>From
>http://martinos.org/~mreuter/long/
,
Best regards,
Alex.
De : Martin Reuter
À : Alexandru Hanganu ; FS Mailing List
Envoyé le : mercredi 3 octobre 2012 17h30
Objet : Re: [Freesurfer] long_mris_slopes error
Not sure.
Maybe try the updated scripts
From
http://martinos.org/~mreuter/long
Not sure.
Maybe try the updated scripts
From
http://martinos.org/~mreuter/long/
Best Martin
Alexandru Hanganu wrote:
>Dear Freesurfer Experts,
>
>While performing the long_mris_slopes cmd, we receive an error:
>
>---
>SUBJECT pls_pd_base00 Running Withi
Dear Freesurfer Experts,
While performing the long_mris_slopes cmd, we receive an error:
---
SUBJECT pls_pd_base00 Running Within-Subject GLM
Writing ./tmp-pls_pd_base00_lh_thickness_Rx7HLs/X-long.mat ...
mri_glmfit --y
/Applications/freesurfer/subjects
Hi Hyojeong,
on the wiki release notes is a fixed mris_calc binary.
Best, Martin
On Aug 11, 2011, at 8:00 AM, Administrator wrote:
> Dear Martin,
>
> I've received the same error as below which discussed previously.
> Would you tell me if you managed build a fixed file, please?
>
> Hyojeong L
Hi Derin,
there is a know and fixed bug in mris_calc in the 5.1 release. It has
difficulties with very long file names and returns a non zero exit code,
which stops my script in some situations.
I'll ask Nick if he can put up a fixed version of mris_calc for
download.
Best, Martin
On Thu, 2011-
I received the follow error while running a set of subjects under
'long_mris_slopes,' and wasn't able to decipher the problem. It appears that
mris_calc is not able to do the division for these files (dividing by 0
perhaps?). Any help appreciated, here's the command and tail end of
output/err
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