bedpostx tests

README

@@ -8,4 +8,8 @@ Run the tests from the repository root as follows:
     pyfeeds -c pyfeeds_config.cfg -o /path/to/output_direcfory .
 
 Before running the tests, make sure to update the paths in
-`pyfeeds_config.cfg`.
+`pyfeeds_config.cfg`.
\ No newline at end of file
+
+
+Note that some tests (e.g. `fsl_course/fdt/bedpostx_gpu/`) need to be run on a
+CUDA-capable machine.
\ No newline at end of file

fsl_course/fdt/bedpostx_cpu/feedsInputs

+fsl_course_data/fdt2/subj1

fsl_course/fdt/bedpostx_cpu/feedsRun

+#!/bin/bash
+
+set -e
+
+unset SGE_ROOT
+
+outdir=$1
+datadir=$2
+
+basedir=$datadir/fsl_course_data/fdt2/subj1
+
+# make a cut-down data set,
+# with just one slice
+mkdir  $outdir/subj1
+cp     $basedir/bvals            $outdir/subj1/
+cp     $basedir/bvecs            $outdir/subj1/
+fslroi $basedir/data             $outdir/subj1/data             0 -1 0 -1 31 1
+fslroi $basedir/nodif_brain_mask $outdir/subj1/nodif_brain_mask 0 -1 0 -1 31 1
+
+bedpostx $outdir/subj1 --nf=2 --fudge=1  --bi=1000 --seed=1234
+
+chmod -R u+w $outdir/subj1
+rm -r        $outdir/subj1

fsl_course/fdt/bedpostx_gpu/feedsInputs

+fsl_course_data/fdt2/subj1

fsl_course/fdt/bedpostx_gpu/feedsRun

+#!/bin/bash
+
+# This test needs to be executed
+# on a CUDA-capable machine
+
+set -e
+
+unset SGE_ROOT
+
+outdir=$1
+datadir=$2
+
+cp -r $datadir/fsl_course_data/fdt2/subj1 $outdir/
+
+bedpostx_gpu $outdir/subj1 --nf=2 --fudge=1  --bi=1000 --seed=1234
+
+chmod -R u+w $outdir/subj1
+rm -r        $outdir/subj1