Difference between revisions of "Fsl"
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| + | This is an example about [[install]]ing [http://www.fmrib.ox.ac.uk/fsl/fsl/linux.html FSL], tool for brain image analysis. | ||
| + | |||
| + | = get it = | ||
| + | * get a server in the internet e.g. from [[rackspace]]. As operating system, choose CentOS 6. | ||
| + | * download fsl_installer.sh and fsl-4.1.9-centos5_64.tar.gz | ||
| + | <pre> | ||
| + | [root@gosia centos]# ls | ||
| + | fsl-4.1.9-centos5_64.tar.gz fsl_installer.sh | ||
| + | [root@gosia centos]# bash fsl_installer.sh | ||
| + | FSL install script | ||
| + | ================== | ||
| + | |||
| + | Looking for FSL tarball in the current directory... | ||
| + | *************************************************************** | ||
| + | No FSL tarball specified, assuming you want me to install | ||
| + | /root/centos/fsl-4.1.9-centos5_64.tar.gz | ||
| + | from the current directory. | ||
| + | *************************************************************** | ||
| + | |||
| + | Where would you like to install FSL to? [/usr/local] | ||
| + | |||
| + | Checking OS release ... | ||
| + | ls: cannot access ld-*.so: No such file or directory | ||
| + | fsl_installer.sh: line 660: [: -lt: unary operator expected | ||
| + | fsl_installer.sh: line 663: [: -gt: unary operator expected | ||
| + | [OK] | ||
| + | Checking CPU type... | ||
| + | [OK] | ||
| + | Checking install file...(this may take several minutes) | ||
| + | </pre> | ||
| + | |||
| + | After you have done this, on CentOs 6, you have to | ||
| + | yum install compat-expat1 | ||
| + | and you must install libjpeg and libtiff. | ||
| + | |||
| + | == start fsl == | ||
| + | You start fsl: | ||
| + | export FSLDIR=/usr/local/fsl | ||
| + | . /usr/local/fsl/etc/fslconf/fsl.sh | ||
| + | /usr/local/fsl/bin/fsl | ||
| + | |||
| + | = TroubleShooting = | ||
SUSE 12.1 and CentOs 6.0: | SUSE 12.1 and CentOs 6.0: | ||
<pre> | <pre> | ||
| Line 19: | Line 61: | ||
[Failed] This is Linux and you have provided a non-Linux build of FSL! | [Failed] This is Linux and you have provided a non-Linux build of FSL! | ||
</pre> | </pre> | ||
| − | + | ||
| − | + | = See also = | |
| − | + | * http://www.linuxquestions.org/questions/linux-from-scratch-13/usr-bin-ginstall-doesnt-exist-32513/ - about ginstall | |
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Latest revision as of 16:56, 21 August 2012
This is an example about installing FSL, tool for brain image analysis.
Contents
get it
- get a server in the internet e.g. from rackspace. As operating system, choose CentOS 6.
- download fsl_installer.sh and fsl-4.1.9-centos5_64.tar.gz
[root@gosia centos]# ls fsl-4.1.9-centos5_64.tar.gz fsl_installer.sh [root@gosia centos]# bash fsl_installer.sh FSL install script ================== Looking for FSL tarball in the current directory... *************************************************************** No FSL tarball specified, assuming you want me to install /root/centos/fsl-4.1.9-centos5_64.tar.gz from the current directory. *************************************************************** Where would you like to install FSL to? [/usr/local] Checking OS release ... ls: cannot access ld-*.so: No such file or directory fsl_installer.sh: line 660: [: -lt: unary operator expected fsl_installer.sh: line 663: [: -gt: unary operator expected [OK] Checking CPU type... [OK] Checking install file...(this may take several minutes)
After you have done this, on CentOs 6, you have to
yum install compat-expat1
and you must install libjpeg and libtiff.
start fsl
You start fsl:
export FSLDIR=/usr/local/fsl . /usr/local/fsl/etc/fslconf/fsl.sh /usr/local/fsl/bin/fsl
TroubleShooting
SUSE 12.1 and CentOs 6.0:
# ls fsl-4.1.9-sources.tar.gz fsl_installer.sh suse:/home/gosia/src # bash fsl_installer.sh FSL install script ================== Looking for FSL tarball in the current directory... *************************************************************** No FSL tarball specified, assuming you want me to install /home/gosia/src/fsl-4.1.9-sources.tar.gz from the current directory. *************************************************************** Where would you like to install FSL to? [/usr/local] Checking OS release ... [Failed] This is Linux and you have provided a non-Linux build of FSL!
