Hello,

I am attempting to follow the FSL course and continue to run into a problem while running BET, whether from the GUI or the command line. I am using macOS Catalina 10.15.2. The error message when running BET and the report output are below. Thank you so much in advance, and my apologies if the solution is simple!

Sarahs-MacBook-Pro-2:subj1_preproc schiang$ Fsl_gui

/usr/local/fsl/bin/bet /Users/schiang/fsl_course_data/intro/structural /Users/schiang/fsl_course_data/intro/structural_brain -f 0.5 -g 0

Error. Expected to find bet2 output (/Users/schiang/fsl_course_data/intro/structural_brain), but it did not exist. Perhaps this is a writing issue or memory issue

libc++abi.dylib: terminating with uncaught exception of type NiftiIO::NiftiException: Error: cant open file /Users/schiang/fsl_course_data/intro/structural_brain.nii.gz

/usr/local/fsl/bin/bet: line 393: 28802 Abort trap: 6 ${FSLDIR}/bin/bet2 $IN $OUT $bet2opts

Finished

Sarahs-MacBook-Pro-2:subj1_preproc schiang$ fslerrorreport

/usr/local/fsl/bin/fslerrorreport: line 101: vmstat: command not found

Image Exception : #63 :: No image files match: /Users/schiang/fsl_course_data/fdt1/subj1_preproc

No image files match: /Users/schiang/fsl_course_data/fdt1/subj1_preproc

######################################################################

#### MACHINE INFORMATION

######################################################################

Uname:

Darwin

df:

Filesystem 512-blocks Used Available Capacity iused ifree %iused Mounted on

/dev/disk1s1 489825072 395387296 67249704 86% 1636564 2447488796 0% /System/Volumes/Data

quota:

Disk quotas for user schiang (uid 501): none

Memory and Swap info:

Mach Virtual Memory Statistics: (page size of 4096 bytes)

Pages free: 119351.

Pages active: 1527325.

Pages inactive: 1456460.

Pages speculative: 70825.

Pages throttled: 0.

Pages wired down: 640287.

Pages purgeable: 42296.

"Translation faults": 1493201970.

Pages copy-on-write: 17538774.

Pages zero filled: 377589430.

Pages reactivated: 2139446.

Pages purged: 6968567.

File-backed pages: 777297.

Anonymous pages: 2277313.

Pages stored in compressor: 1005198.

Pages occupied by compressor: 379585.

Decompressions: 4590818.

Compressions: 6845157.

Pageins: 12307068.

Pageouts: 37675.

Swapins: 4867134.

Swapouts: 5010533.

######################################################################

#### ENVIRONMENT INFORMATION

######################################################################

FSLMULTIFILEQUIT=TRUE

FSLGECUDAQ=cuda.q

FSLTCLSH=/usr/local/fsl/bin/fsltclsh

FSLMACHINELIST=

FSLREMOTECALL=

FSLWISH=/usr/local/fsl/bin/fslwish

FSLDIR=/usr/local/fsl

FSLLOCKDIR=

FSLOUTPUTTYPE=NIFTI_GZ

PATH=/usr/local/fsl/bin:/anaconda3/bin:/usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin:/opt/X11/bin

######################################################################

#### DIRECTORY INFORMATION

######################################################################

PWD:

/Users/schiang/fsl_course_data/fdt1/subj1_preproc

total 557288

dr-xr-xr-x 11 schiang staff 352 Jul 21 2017 .

dr-xr-xr-x 5 schiang staff 160 Jul 21 2017 ..

-r-xr-xr-x 1 schiang staff 8196 Jul 21 2017 .DS_Store

-r-xr-xr-x 1 schiang staff 25 Jul 21 2017 acqparams.txt

-r-xr-xr-x 1 schiang staff 82040617 Jul 21 2017 b1500.nii.gz

-r-xr-xr-x 1 schiang staff 542 Jul 21 2017 bvals

-r-xr-xr-x 1 schiang staff 6407 Jul 21 2017 bvecs

-r-xr-xr-x 1 schiang staff 197392512 Jul 21 2017 dwidata.nii.gz

-r-xr-xr-x@ 1 schiang staff 230 Jul 21 2017 index.txt

-r-xr-xr-x 1 schiang staff 1811770 Jul 21 2017 nodif_PA.nii.gz

dr-xr-xr-x 10 schiang staff 320 Jul 21 2017 pre_baked

######################################################################

#### IMAGE INFORMATION

######################################################################

This error report is saved in the file: /tmp/fsl_5lUPNj.gz

########################################################################

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