can you run
mris_preproc --debug --qdec-long /scr/etsch2/kids/ct/qdec/long.qdec.table.dat
--target 7kids_template_sc1 --hemi lh --meas thickness --out
/scr/etsch2/kids/ct/qdec/lh.thickness.mgh |& tee fordoug.log
and send me fordoug.log ?
On 8/3/15 10:38 AM, Clara Kühn wrote:
the command line is this:
mris_preproc --qdec-long /scr/etsch2/kids/ct/qdec/long.qdec.table.dat --target
7kids_template_sc1 --hemi lh --meas thickness --out
/scr/etsch2/kids/ct/qdec/lh.thickness.mgh
the terminal output is this:
nsubjects = 22
ERROR: cannot find /scr/etsch2/kids/ct/.long.
and the actual qdec file is attached.
Cheers, Clara
----- Ursprüngliche Mail -----
Von: "Douglas Greve" <gr...@nmr.mgh.harvard.edu>
An: freesurfer@nmr.mgh.harvard.edu
Gesendet: Montag, 3. August 2015 16:35:24
Betreff: Re: [Freesurfer] cannot find qdec file
Can you send your command line, full terminal output, and your
long.qdec.table.dat file?
On 8/3/15 10:31 AM, Clara Kühn wrote:
ok, it can only access the file if I type
ls /scr/etsch2/kids/ct/qdec/long.qdec.table.dat (so with the forward slash)
but if I then use that path for the mris_preproc command I get
nsubjects = 22
ERROR: cannot find /scr/etsch2/kids/ct/.long.
----- Ursprüngliche Mail -----
Von: "Douglas Greve" <gr...@nmr.mgh.harvard.edu>
An: freesurfer@nmr.mgh.harvard.edu
Gesendet: Montag, 3. August 2015 16:23:48
Betreff: Re: [Freesurfer] cannot find qdec file
that is probably not the full path. Try typing
ls scr/etsch2/kids/ct/qdec/long.qdec.table.dat
If it says it cannot find the file, then it is not the full path. Maybe
you need a forward slash (ie, "/") in the beginning?
On 8/3/15 10:18 AM, Clara Kühn wrote:
then I get the error ERROR: cannot find
scr/etsch2/kids/ct/qdec/long.qdec.table.dat
I had tried that. Sorry, no luck with that.
----- Ursprüngliche Mail -----
Von: "Douglas Greve" <gr...@nmr.mgh.harvard.edu>
An: freesurfer@nmr.mgh.harvard.edu
Gesendet: Montag, 3. August 2015 16:16:58
Betreff: Re: [Freesurfer] cannot find qdec file
you have to give it the entire path to the file
On 8/3/15 10:14 AM, Clara Kühn wrote:
Dear FS-experts,
I want to analyze my longitudinal data with your suggested LME models and am
therefore following the walkthrough by J. Bernal. I get an error though very
early on when using the command
mris_preproc --qdec-long qdec/long.qdec.table.dat --target 7kids_template_sc1
--hemi lh --meas thickness --out qdec/lh.thickness.mgh
It always says
ERROR: cannot find qdec/long.qdec.table.dat
Yes, the walkthrough asks for an input file named just qdec.table.dat, but I
haven't got that. So far in the longitudinal stream there are
long.qdec.table.dat and cross.qdec.table.dat files but no simple qdec.table.dat
files. So I figured I'd use the long.qdec file because FS needs to get the
information about the long timepoints.
But it cannot find the file, even though I see it. I've also tried copying the
long.qdec file and naming it qdec.table.dat but it still doesn't find it.
The entire path to the file is scr/etsch2/kids/ct/qdec/long.qdec.table.dat and
my SUBJECTS_DIR is scr/etsch2/kids/ct
Can you help me see what I'm missing?
Thanks a lot in advance,
Clara
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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
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