Re: [Freesurfer] mri_watershed: dyld error on OS X 10.3.9

Xander,

I'm glad its working for you. I'm not sure why it did not work as-is, because the GSL library is included with the distribution (in $FREESURFER_HOME/lib/gsl) and the DYLD_LIBRARY_PATH is setup to point to it. I do need to figure-out why the hard-coded path '/usr/pubsw/packages' is shown by otool, but if its working now, then good.

Nick

On Wed, 2006-04-05 at 09:17 -0500, Xander Meadow wrote:

---

Hi Nick,

Just wanted to let you know that Anthony has tried mri_watershed and after installing the gsl binary everything seems to work fine. Thank you for everything.

...

Xander

On Apr 4, 2006, at 4:25 PM, Xander Meadow wrote:

    Hi Nick,

    I tried running mri_watershed on Anthony's computer today and
    got a different error from last time.  I got the following
    error: 

    % freesurfer/bin/mri_watershed
    dyld: freesurfer/bin/mri_watershed can't open
    library: /usr/pubsw/packages/gsl/current/lib/libgsl.0.dylib
    (No such file or directory, errno = 2)
    Trace/BPT trap

    So I installed gsl and gsl-shlibs, and I've gotten
    mri_watershed to work for me.  I will have Anthony and then
    another user try it out to see if installing gsl fixed the
    issue and let you know.  Thank you.

    >Xander

    On Apr 4, 2006, at 4:05 PM, Nick Schmansky wrote:

            Anthony,

            I don't know what to recommend.  I cannot seem to find
            this symbol
            defined anywhere (even Googling it). The panther
            distribution has worked
            for two other people (that i know of) outside of MGH,
            so I'm not sure
            what I can suggest.  The 'otool' output looks correct.

            If I can think of any other debugging techniques to
            try, I will send
            them along.

            Nick


            On Mon, 2006-04-03 at 14:06 -0500, Anthony Steven Dick
            wrote:
                    Hi Nick--

                    I'm responding on behalf of Xander (our
                    computer tech):

                    [serge:NL-GCS/subjects/freesurfer_3.0.1] adick
                    % otool -L `which 
                    mri_watershed`

                    /Applications/freesurfer/bin//mri_watershed:

                    /usr/pubsw/packages/gsl/current/lib/libgsl.0.dylib (compatibility 
                    version 8.0.0, current version 8.0.0)
                    /usr/pubsw/packages/gsl/current/lib/libgslcblas.0.dylib (compatibility 
                    version 1.0.0, current version 1.0.0)
                    /usr/lib/libz.1.dylib (compatibility version
                    1.0.0, current version 1.2.3)
                    /usr/lib/libSystem.B.dylib (compatibility
                    version 1.0.0, current version 
                    88.1.5)
                    /usr/lib/libstdc++.6.dylib (compatibility
                    version 7.0.0, current version 
                    7.3.0)
                    /usr/lib/libgcc_s.1.dylib (compatibility
                    version 1.0.0, current version 
                    1.0.0)
                    /usr/lib/libmx.A.dylib (compatibility version
                    1.0.0, current version 92.0.0)

                    Anthony


                    Nick Schmansky wrote:
                            Can you send me the output of:

                            otool -L `which mri_watershed`



                            On Mon, 2006-04-03 at 13:34 -0500,
                            xmeadow@uchicago.edu wrote:

                                    Hi,

                                    I just downloaded and
                                    installed from:

                                    http://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer-Darwin-panther-
                                    stable-pub-v3.0.1-full.dmg

                                    And installed Freesurfer.
                                    Most of the apps have worked
                                    without a problem, 
                                    however mri_watershed yields
                                    the following error:

                                    dyld: mri_watershed Undefined
                                    symbols:
                                    _acns
                                    Trace/BPT trap

                                    I have redowndloaded the above
                                    package and tried to extract
                                    mri_watershed, in 
                                    case I just got a corrupted
                                    binary, but each time I do so
                                    I get the same errors.  
                                    My machine is running MAC OS X
                                    10.3.9.  Please let me know if
                                    there is any fix I 
                                    can do for this error?  Thank
                                    you very much.
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