[Neurodebian-users] Many questions regarding FSL

[Yaroslav Halchenko]

sorry -- too many questions require too much time hard to spare....  quick and
cryptic but probably complete answer to the "many questions" would be:

$> apt-cache show fsl | grep Depends
Depends: fsl-4.1 (>= 4.1.6-4~)

$> dpkg -L fsl-4.1 | head
/.
/etc
/etc/fsl
/etc/fsl/4.1
/etc/fsl/4.1/feat.tcl
/etc/fsl/4.1/fsl.sh
/usr
/usr/lib
/usr/lib/fsl
/usr/lib/fsl/4.1

$> dpkg -L fsl-4.1 | grep -e README -e man | head
/usr/share/doc/fsl-4.1/README.Debian
/usr/share/man
/usr/share/man/man1
/usr/share/man/man1/fsl-4.1.1.gz
/usr/share/man/man1/fsl4.1-flameo.1.gz
...

On Fri, 16 Mar 2012, Jonathan Berrebi wrote:

>    Hi,

>    I really enjoy using the neurodebian repositories on different versions of
>    ubuntu.

>    We would like to use FSL with most efficiency and I am still half a newbie
>    in linux so I have some questions regarding FSL.

>    * There are three ways of installing FSL. The first is installing the
>    binaries from the website of FSL which is easy. The second is to compile
>    the source from FSL website and that would be ok if it was possible to
>    first compile  GCC 4.1 or 4.2 (harder to compile on debians because of the
>    way libraries are placed in debian/ubuntu) to run on newer distributions
>    of ubuntu (typically oneiric)...I am still blocked. The third would be to
>    use the neurdebian repository, and "sudo apt-get install fsl" but then
>    several questions come to me:

>    1 - where is fsl then installed? I have looked at previous threads and it
>    looked like FSL should be installed under /usr/lib/fsl

>    I got many links in return of the command, they were all pointing to
>    /usr/lib/

>    Now I have deleted them and it is impossible to get them back.

>    ls -l /usr/bin/fsl4.1-fsl

>    but nothing under
>    /usr/lib/

>    also nothing under

>    /usr/local/

>    /usr/local/share/

>    /usr/share/

>    The only thing "sudo apt-get install fsl" does is to create
>    /etc/fsl/fsl.sh.

>    So I did sudo apt-get remove fsl
>    and sudo apt-get --purge remove fsl

>    is still impossible to install fsl.

>    This is what I get from sudo apt-get install fsl:
>    Reading package lists... Done
>    Building dependency tree      
>    Reading state information... Done
>    The following NEW packages will be installed:
>      fsl
>    0 upgraded, 1 newly installed, 0 to remove and 1 not upgraded.
>    Need to get 18.4 kB of archives.
>    After this operation, 41.0 kB of additional disk space will be used.
>    Get:1 http://neuro.debian.net/debian/ oneiric/non-free fsl all
>    4.1.9-2~nd11.10+1 [18.4 kB]
>    Fetched 18.4 kB in 0s (34.0 kB/s)
>    Selecting previously deselected package fsl.
>    (Reading database ... 341949 files and directories currently installed.)
>    Unpacking fsl (from .../fsl_4.1.9-2~nd11.10+1_all.deb) ...
>    Processing triggers for man-db ...
>    Setting up fsl (4.1.9-2~nd11.10+1) ...

>    2 - Are my problems due to an incorrect uninstall of fsl? In that case
>    what should I do?

>    3 -  I have more questions about if it would be better to do "sudo apt-get
>    build-dep fsl" first and then "sudo apt-get -b source fsl" or if "install"
>    is as good.

>    4 - If I get all that then I could use your new package "condor"  for
>    parallelising the jobs. But could I use "condor" for parallelising jobs
>    run by manual installation (binaries, compiling) of FSL or should I modify
>    anything?

>    I am sorry for all these questions but I hope this would help many
>    neuro-debianer not always linux experts! :)

>    Thank you,
>    Jonathan Berrebi
>    Karolinska Institute
>    Stockholm Brain Institute
>    Sweden

> _______________________________________________
> Neurodebian-users mailing list
> Neurodebian-users at lists.alioth.debian.org
> http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/neurodebian-users


-- 
=------------------------------------------------------------------=
Keep in touch                                     www.onerussian.com
Yaroslav Halchenko                 www.ohloh.net/accounts/yarikoptic