Hello,
I do not have a list of dependencies. In trying this approach, I kept
running into such dependencies. Rather than track them all down and list
them, I simply installed everything. I would suggest that you keep with
your approach and keep a list of the dependencies you find, it would be
a valuable addition to this mailing list's archives. Be aware, though,
that FSL can fail silently and in non-obvious ways. One such failure
occurs when newer Linux kernels report that something like 'head -1' is
deprecated and that you should use 'head -n 1'. This is a warning, but
FSL sees it as an error. Under cygwin, this is particular issue is not a
problem, but missing dependencies may cause this type of failure.
I'm sure you've seen on this list that Linux is greatly recommended over
cygwin. I would second that. Even more, though, I would suggest that
your choice of platform be consistent. It is problematic for a number of
reasons to try using cygwin and Linux FSL to analyze the same set of
data. Specifically, the paths and links FSL uses are not cross-platform.
If you have multiple machines analyzing data, make them as similar as
possible.
For our write-up on travails with cygwin/FSL, see:
http://lcni.uoregon.edu/mediawiki/index.php/SOFT:Cygwin
Chuck
Alle Meije Wink wrote:
> Dear Chuck, thanks for your suggestion. Unfortunately, the 2GB option
> (all of cygwin + all of FSL?) is not something that I can do at the
> moment.
>
> The FSL documentation says that it relies on gnuplot, ImageMagic and
> Tcl/Tk/Tix (which in turn rely on other things such as X, bash, etc),
> so I thought that starting with those packages and resolving the
> dependencies would give an FSL-ready system.
>
> A bit naive, I guess... Are there other (not listed) packages then
> that FSL requires?
>
> thanks
> AM
>
> Chuck Theobald wrote:
>> This sounds like a long-standing problem with later releases of
>> cygwin, which, in effect, break FSL. We use cygwin 1.5.13 and install
>> everything. Note that cygwin, by default, does not install everything
>> needed for FSL. Disk is cheaper than our time trying to track down
>> just what packages are needed, so installing the whole 2 GB is the
>> best way to go.
>>
>> Chuck
>
--
Chuck Theobald
System Administrator
The Robert and Beverly Lewis Center for Neuroimaging
University of Oregon
P: 541-346-0343
F: 541-346-0345
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