Difference between revisions of "NiftyPipe"
| Line 4: | Line 4: | ||
<h1>Using NiftyPipe on the Computer Science cluster</h1> | <h1>Using NiftyPipe on the Computer Science cluster</h1> | ||
| + | The nipype enabled python version can be find here: <code>/share/apps/cmic/nipype</code> | ||
| + | We recommend to add the following line to your <code>~/.bashrc</code> file. | ||
| + | <pre> | ||
| + | export PATH=/share/apps/cmic/nipype/bin:${PATH} | ||
| + | export LD_LIBRARY_PATH=/share/apps/cmic/nipype/bin:${LD_LIBRARY_PATH} | ||
| + | </pre> | ||
| + | |||
| + | |||
| + | ''Kirsi, for the time being, I installed the latest NiftyPipe version in <code>/share/apps/cmic/niftypipe</code> and you should set the <code>PYTHONPATH</code> variable to <code>/share/apps/cmic/niftypipe/python</code> by using:'' | ||
| + | <pre> | ||
| + | export PYTHONPATH=/share/apps/cmic/niftypipe/python:${PYTHONPATH} | ||
| + | export PATH=/share/apps/cmic/niftypipe/python:${PATH} | ||
| + | </pre> | ||
| + | |||
<h1>Using NiftyPipe on the DRC network</h1> | <h1>Using NiftyPipe on the DRC network</h1> | ||
| Line 17: | Line 31: | ||
<pre> | <pre> | ||
export PYTHONPATH=/var/drc/scratch1/modat/Code/NiftyPipe_install/python:${PYTHONPATH} | export PYTHONPATH=/var/drc/scratch1/modat/Code/NiftyPipe_install/python:${PYTHONPATH} | ||
| − | |||
| − | |||
| − | |||
export PATH=/var/drc/scratch1/modat/Code/NiftyPipe_install/python:${PATH} | export PATH=/var/drc/scratch1/modat/Code/NiftyPipe_install/python:${PATH} | ||
</pre> | </pre> | ||
Revision as of 08:23, 27 August 2015
Description of NiftyPipe
NiftyPipe is installed as part of NifTK (or NiftyMIDAS) and requires to have python set to use nipype. You can find more information about the nipype package on | this page
Using NiftyPipe on the Computer Science cluster
The nipype enabled python version can be find here: /share/apps/cmic/nipype
We recommend to add the following line to your ~/.bashrc file.
export PATH=/share/apps/cmic/nipype/bin:${PATH}
export LD_LIBRARY_PATH=/share/apps/cmic/nipype/bin:${LD_LIBRARY_PATH}
Kirsi, for the time being, I installed the latest NiftyPipe version in /share/apps/cmic/niftypipe and you should set the PYTHONPATH variable to /share/apps/cmic/niftypipe/python by using:
export PYTHONPATH=/share/apps/cmic/niftypipe/python:${PYTHONPATH}
export PATH=/share/apps/cmic/niftypipe/python:${PATH}
Using NiftyPipe on the DRC network
The nipype enabled python version can be find here: /var/drc/software/64bit/nipype
We recommend to add the following line to your ~/.bash_profile file.
export PATH=/var/drc/software/64bit/nipype/bin:${PATH}
export LD_LIBRARY_PATH=/var/drc/software/64bit/nipype/bin:${LD_LIBRARY_PATH}
Kirsi, for the time being, I installed the latest NiftyPipe version in /var/drc/scratch1/modat/Code/NiftyPipe_install and you should set the PYTHONPATH variable to /var/drc/scratch1/modat/Code/NiftyPipe_install/python by using:
export PYTHONPATH=/var/drc/scratch1/modat/Code/NiftyPipe_install/python:${PYTHONPATH}
export PATH=/var/drc/scratch1/modat/Code/NiftyPipe_install/python:${PATH}
