dear oxford_asl experts,
the command
oxford_asl -i ${1}${N}PASL_diff_brain.nii.gz -o ${1}${N}PASL_results -c ${1}${N}PASL_M0_brain.nii.gz --tis 1.8 --bolus 1.1 --bat 0.7 --artoff --tr 5 -s ${1}${N}brainmask_c.nii.gz --regfrom ${1}${N}PASL_mc_mean_brain.nii.gz --senscorr --pvcorr
produces the following error (only if --pvcorr is set):
Welcome to FABBER v2.0
Logfile started: /tmp/fsl_huPBhg_ox_asl/basil/step2/logfile
Start time: Sat Dec 12 22:31:32 2015
FABBER release v2.0
Forward Model version:
$Id: fwdmodel_asl_pvc.cc,v 1.6 2013/09/03 15:08:04 chappell Exp $
Loading mask data from '/tmp/fsl_huPBhg_ox_asl/mask'
Loading data from '/Users/MAC/Documents/data/Folder_1/Subfolder_1/Subject_1/PASL_diff.nii.gz'
Assertion failed: (checkNofN == 1), function CalcNeighbours, file inference_spatialvb.cc, line 1822.
/opt/fsl/bin/basil: line 100: 41071 Abort trap: 6 $fabber --data=$infile --mask=$mask --output=$outdir/step$step --model=$model --max-iterations=$nbiter $allinstruct $vbinstruct $extras -@ $options $1
End.
Cannot open volume /tmp/fsl_huPBhg_ox_asl/basil/step2/mean_ftiss for reading!
Cannot open volume /tmp/fsl_huPBhg_ox_asl/ftiss for reading!
Cannot open volume /tmp/fsl_huPBhg_ox_asl/basil/step2/mean_delttiss for reading!
Cannot open volume /tmp/fsl_huPBhg_ox_asl/basil/step2/mean_fwm for reading!
Cannot open volume /tmp/fsl_huPBhg_ox_asl/ftisswm for reading!
Cannot open volume /tmp/fsl_huPBhg_ox_asl/basil/step2/mean_deltwm for reading!
Image Exception : #22 :: ERROR: Could not open image /tmp/fsl_huPBhg_ox_asl///ftiss
libc++abi.dylib: terminating with uncaught exception of type RBD_COMMON::BaseException
/opt/fsl/bin/oxford_asl: line 172: 41314 Abort trap: 6 flirt -in $tempdir/$subdir/$param -applyxfm -init $tempdir/asl2struct.mat -ref $struc -out $outdir/struct_space/$subdir/$parname
Image Exception : #22 :: ERROR: Could not open image /tmp/fsl_huPBhg_ox_asl///delttiss
libc++abi.dylib: terminating with uncaught exception of type RBD_COMMON::BaseException
/opt/fsl/bin/oxford_asl: line 172: 41363 Abort trap: 6 flirt -in $tempdir/$subdir/$param -applyxfm -init $tempdir/asl2struct.mat -ref $struc -out $outdir/struct_space/$subdir/$parname
Image Exception : #22 :: ERROR: Could not open image /tmp/fsl_huPBhg_ox_asl///ftisswm
libc++abi.dylib: terminating with uncaught exception of type RBD_COMMON::BaseException
/opt/fsl/bin/oxford_asl: line 172: 41412 Abort trap: 6 flirt -in $tempdir/$subdir/$param -applyxfm -init $tempdir/asl2struct.mat -ref $struc -out $outdir/struct_space/$subdir/$parname
Image Exception : #22 :: ERROR: Could not open image /tmp/fsl_huPBhg_ox_asl///deltwm
libc++abi.dylib: terminating with uncaught exception of type RBD_COMMON::BaseException
/opt/fsl/bin/oxford_asl: line 172: 41461 Abort trap: 6 flirt -in $tempdir/$subdir/$param -applyxfm -init $tempdir/asl2struct.mat -ref $struc -out $outdir/struct_space/$subdir/$parname
Cannot open volume /Users/MAC/Documents/data/Folder_1/Subfolder_1/Subject_1/PASL_results/native_space///deltwm for reading!
Output is /Users/MAC/Documents/data/Folder_1/Subfolder_1/Subject_1/PASL_results/
OXFORD_ASL - done.¬¬¬¬––
the pv-corrected results look sensible (compared to uncorrected CBF values there is an increase in WM and, to a lesser extent, in GM upon pvc). in a previous post on a similar error message this kind of error was rendered "internal / bug" and not affecting the results. is this also true for the above posted error message?
any help is very much appreciated!
best,
armin
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