On Fri, Feb 18, 2011 at 5:32 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu> wrote:

When I run this in version 4, it runs fine. Can you send me the full terminal output?

Pablo Polosecki wrote:

Hi Doug,

Sure, here is the command line with all the variables replaced by their actual values.

mkanalysis-sess \
-fsd bold \
-funcstem fmcus2 \
-analysis a1u \
-paradigm face_localizer_monkey.para \
-dt blocked \
-sf sf \
-df df \
-force \
-inorm \
-timewindow 40 \
-polyfit 2 \
-TR 2.0000 \
-gammafit 0 1.25 \
-gammaexp 2 \
-nconditions 7 \
-runlistfile rlf1 \
-mask brain_fmcu \
-taumax 20 \
-acfbins 1 \
-fix-acf \
-noautostimdur \
-motioncor -mcextreg

Thanks again,

Pablo

On Fri, Feb 18, 2011 at 12:33 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote:

Can you send the actual command without any variables? thanks
doug

Pablo Polosecki wrote:

Hi,

The command line it's within the attached script, so it might
not look as informative whn looked at on its own. However it is:

mkanalysis-sess \
-fsd bold \
-funcstem $funcstem \
-analysis $analysis \
-paradigm $paradigm \
-dt blocked \
-sf sf \
-df df \
-force $tpef_string \
-inorm \
-timewindow ${timewindow} \
-polyfit 2 \
-TR $TR ${TER_string}\
-gammafit $gammafit \
-gammaexp $gammaexp \
-nconditions $nconditions \
-runlistfile $runlistfile \
-mask ${mask_stem} \
-taumax $taumax \
-acfbins 1 \
-fix-acf \
-noautostimdur \
-motioncor -mcextreg

On Fri, Feb 18, 2011 at 11:57 AM, Douglas N Greve
<greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>

<mailto:greve@nmr.mgh.harvard.edu
<mailto:greve@nmr.mgh.harvard.edu>>> wrote:

What is your command-line?

Pablo Polosecki wrote:

Hi,

I forgot to put the version, my bad. The version is 4.5.
Thanks,
Pablo

On Fri, Feb 18, 2011 at 11:21 AM, Douglas N Greve
<greve@nmr.mgh.harvard.edu
<mailto:greve@nmr.mgh.harvard.edu>
<mailto:greve@nmr.mgh.harvard.edu
<mailto:greve@nmr.mgh.harvard.edu>>
<mailto:greve@nmr.mgh.harvard.edu
<mailto:greve@nmr.mgh.harvard.edu>
<mailto:greve@nmr.mgh.harvard.edu
<mailto:greve@nmr.mgh.harvard.edu>>>> wrote:

which version are you using? The seq.info
<http://seq.info> <http://seq.info>
<http://seq.info> file

has not been used in a long time.
doug

Pablo Polosecki wrote:

Hi all,

I am trying to define an analysis for a block-based
functional
scan using mkanalysis-sess.
When I run it, I get the following output with
an error
message:

Setting TER to .10000000000000000000
/home/ppolosecki/space/data/ppolosecki/cooked/2011/110211Quincy
ERROR: bad format for seq.info <http://seq.info>
<http://seq.info>
<http://seq.info>
<http://seq.info> file,
/home/ppolosecki/space/data/ppolosecki/cooked/2011/110211Quincy

The seq.info <http://seq.info> <http://seq.info>
<http://seq.info>
<http://seq.info> file

(attached) was produced by the unpacksdcmdir
command and it
looks no different from other ones I have seen. The
information there seems correct to me.

Could someone perhaps point out possible reasons
why this
could happen? The script I use to call
mkanalysis-sess
containing all the parameters used is attached.

Thank you in advance.

Pablo

-- Pablo Polosecki
Graduate Fellow
Laboratory of Neural Systems
The Rockefeller University
1230 York Avenue, Box 9
New York, NY 10065
Tel: 212-327-7699 (Lab)
917-842-2510 (Cell)
email: ppolosecki@mail.rockefeller.edu
<mailto:ppolosecki@mail.rockefeller.edu>
<mailto:ppolosecki@mail.rockefeller.edu
<mailto:ppolosecki@mail.rockefeller.edu>>
<mailto:ppolosecki@mail.rockefeller.edu
<mailto:ppolosecki@mail.rockefeller.edu>
<mailto:ppolosecki@mail.rockefeller.edu
<mailto:ppolosecki@mail.rockefeller.edu>>>
<mailto:ppolosecki@mail.rockefeller.edu
<mailto:ppolosecki@mail.rockefeller.edu>
<mailto:ppolosecki@mail.rockefeller.edu
<mailto:ppolosecki@mail.rockefeller.edu>>
<mailto:ppolosecki@mail.rockefeller.edu
<mailto:ppolosecki@mail.rockefeller.edu>
<mailto:ppolosecki@mail.rockefeller.edu
<mailto:ppolosecki@mail.rockefeller.edu>>>>

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-- Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>
Phone Number: 617-724-2358 Fax: 617-726-7422

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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
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