On Mon, Feb 3, 2014 at 3:54 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:

and can you send us the output?

On Mon, 3 Feb 2014, Jonathan Holt wrote:

All,
[1]+  Exit 1 nohup make_average_subject --subjects
s_090803sk.long.SKtemplate/ s_091202sk.long.SKtemplate/ >&test.log



On Mon, Feb 3, 2014 at 3:28 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu>
wrote:
      Hi Jon

      can you include your entire command line so we can see it?

      thanks
      Bruce


      On Mon, 3 Feb 2014, Jonathan Holt wrote:

            Bruce,
            I tried again on a set of different subjects, it
            error'd out once again. I
            have write permission, this is the same directory
            I've been using for quite
            some time, and I am positive there is space on the
            drive.

            These are the last 50 or so lines of the output
            before it stops:

mghWrite(/net/data4/ALSSCI/FreeSurfer201211/FreeSurfer/LONG_STUDY_2/average

            /tmp/make_average_vol-tmp-28460/orig-s_090803sk.long.SKtemplate/.mgh,
            -1):
            could not open file
            ---------------------------------
            Applying LTAtransformInterp (resample_type 1)
            writingto/net/data4/ALSSCI/FreeSurfer201211/FreeSurfer/LONG_STUDY_2/average/tmp/ma
            ke
            _average_vol-tmp-28460/orig-s_090803sk.long.SKtemplate/.mgh...
            ERROR: failurewriting/net/data4/ALSSCI/FreeSurfer201211/FreeSurfer/LONG_STUDY_2/average/t
            mp/make
            _average_vol-tmp-28460/orig-s_090803sk.long.SKtemplate/.mgh
            /net/data4/ALSSCI/FreeSurfer201211/FreeSurfer/LONG_STUDY_2


            I'm confused as to why it's looking for a nameless
            .mgh file, or perhaps
            that is normal. This is my first usage for
            make_average_subject.

            Jon


            On Sat, Feb 1, 2014 at 5:54 PM, Bruce Fischl
            <fischl@nmr.mgh.harvard.edu>
            wrote:
                  Hi Jon

                  usually that means that either the partition
            is full or you
                  don't have permission. If that's not the case
            you will need to
                  give us more details
                  Bruce
                  On Sat, 1 Feb 2014, Jonathan Holt wrote:

                  Hello FS experts,

                  I’m trying to make an average subject and I
            had an
                  unfortunate error during the mri_convert
            stage,
                  specifically an mghWrite error. I failed to
            save the
                  output so I cannot recall the exact details,
            are there any
                  specific things I should be looking out for to
            prevent
                  this?

                  best,

                  Jon
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