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> 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>> 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>>> wrote:

          which version are you using? The 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> file,
                     /home/ppolosecki/space/data/ppolosecki/cooked/2011/110211Quincy

              The 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>>>

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          --     Douglas N. Greve, Ph.D.
          MGH-NMR Center
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   MGH-NMR Center
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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
FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html