Hello,
I am trying to run the new hippocampal module. I successfully complete recon-all, but the receive the following error message when attempting to run the hippocampal module - any help would be greatly appreciated:
USER developer
HOST developer-VirtualBox
PROCESSID 14407
PROCESSOR x86_64
OS Linux
ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS 1
Linux developer-VirtualBox 5.3.0-53-generic #47~18.04.1-Ubuntu SMP Thu May 7 13:10:50 UTC 2020 x86_64 x86_64 x86_64 GNU/Linux
------------------------------
freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b
setenv SUBJECTS_DIR /usr/local/freesurfer/7.1.0-1/subjects
cd /usr/local/freesurfer/7.1.0-1/subjects
/usr/local/freesurfer/7.1.0-1/bin/segmentHA_T1.sh sub1
#--------------------------------------------
#@# Hippocampal Subfields processing (T1) left Mon Aug 16 21:52:59 EDT 2021
------------------------------------------
Setting up environment variables
---
LD_LIBRARY_PATH is .:/usr/lib/x86_64-linux-gnu:/usr/local/freesurfer/7.1.0-1/MCRv84//runtime/glnxa64:/usr/local/freesurfer/7.1.0-1/MCRv84//bin/glnxa64:/usr/local/freesurfer/7.1.0-1/MCRv84//sys/os/glnxa64:/usr/local/freesurfer/7.1.0-1/MCRv84//sys/java/jre/glnxa64/jre/lib/amd64/native_threads:/usr/local/freesurfer/7.1.0-1/MCRv84//sys/java/jre/glnxa64/jre/lib/amd64/server:/usr/local/freesurfer/7.1.0-1/MCRv84//sys/java/jre/glnxa64/jre/lib/amd64/client:/usr/local/freesurfer/7.1.0-1/MCRv84//sys/java/jre/glnxa64/jre/lib/amd64::/usr/lib/libreoffice/program
Error using checkRequiredMCRProducts (line 25)
Java exception occurred:
java.lang.NullPointerException
at com.mathworks.install.InstalledProductFactory$1.execute(InstalledProductFactory.java:56)
at com.mathworks.install.InstalledProductFactory$1.execute(InstalledProductFactory.java:49)
at com.mathworks.install.InstalledProductFactory$InstallerWorkSpace.executeTask(InstalledProductFactory.java:193)
at com.mathworks.install.InstalledProductFactory$InstallerWorkSpace.access$200(InstalledProductFactory.java:108)
at com.mathworks.install.InstalledProductFactory.getInstalledProducts(InstalledProductFactory.java:67)
Error in deployrc (line 9)
Error in matlabrc (line 238)
Command exited with non-zero status 255
@#@FSTIME 2021:08:16:21:52:59 run_segmentSubjectT1_autoEstimateAlveusML.sh N 13 e 27.66 S 0.35 U 4.99 P 19% M 230080 F 1257 R 31454 W 0 c 1432 w 5142 I 386408 O 84096 L 1.33 1.10 0.95
@#@FSLOADPOST 2021:08:16:21:53:27 run_segmentSubjectT1_autoEstimateAlveusML.sh N 13 1.47 1.17 0.98
Linux developer-VirtualBox 5.3.0-53-generic #47~18.04.1-Ubuntu SMP Thu May 7 13:10:50 UTC 2020 x86_64 x86_64 x86_64 GNU/Linux
T1 hippocampal subfields exited with ERRORS at Mon Aug 16 21:53:27 EDT 2021
--
James Allebone | MPsych, Ph.D. (Clinical Neuropsychology)
Melbourne School of Psychological Sciences
The University of Melbourne
Florey Institute of Neuroscience and Mental Health