Dear FS experts: when I running hippocampus subfield, I got error messages:" Cannot find CTF archive".
I copied command and screen to you. Thank you very much! [silun.wang@node5 N01]$ *recon-all -s N01 -hippocampal-subfields-T1* Subject Stamp: freesurfer-Linux-centos6_x86_64-dev-20160611-876a0e6 Current Stamp: freesurfer-Linux-centos6_x86_64-dev-20160611-876a0e6 INFO: SUBJECTS_DIR is /data/home/silun.wang/silun_data Actual FREESURFER_HOME /usr/local/freesurfer -rw-rw-r--. 1 silun.wang silun.wang 489034 Feb 2 13:43 /data/home/silun.wang/silun_data/N01/scripts/recon-all.log Linux node5.cluster 3.10.0-327.36.1.el7.x86_64 #1 SMP Sun Sep 18 13:04:29 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux '/usr/local/freesurfer/bin/recon-all' -> '/data/home/silun.wang/silun_data/N01/scripts/recon-all.local-copy' #-------------------------------------------- #@# Hippocampal Subfields processing (T1 only) left Thu Feb 2 13:53:46 EST 2017 /usr/local/freesurfer/bin/segmentSF_T1.sh /usr/local/freesurfer/MCRv80 /usr/local/freesurfer N01 /data/home/silun.wang/silun_data left See log file: /data/home/silun.wang/silun_data/N01/scripts/hippocampal-subfields-T1.log ------------------------------------------ Setting up environment variables --- LD_LIBRARY_PATH is .:/usr/local/freesurfer/MCRv80/runtime/glnxa64:/usr/local/freesurfer/MCRv80/bin/glnxa64:/usr/local/freesurfer/MCRv80/sys/os/glnxa64:/usr/local/freesurfer/MCRv80/sys/java/jre/glnxa64/jre/lib/amd64/native_threads:/usr/local/freesurfer/MCRv80/sys/java/jre/glnxa64/jre/lib/amd64/server:/usr/local/freesurfer/MCRv80/sys/java/jre/glnxa64/jre/lib/amd64/client:/usr/local/freesurfer/MCRv80/sys/java/jre/glnxa64/jre/lib/amd64: Error:Cannot find CTF archive /usr/local/freesurfer/bin/segmentSubjectT1_autoEstimateAlveusML.ctf #-------------------------------------------- #@# Hippocampal Subfields processing (T1 only) right Thu Feb 2 13:53:53 EST 2017 /usr/local/freesurfer/bin/segmentSF_T1.sh /usr/local/freesurfer/MCRv80 /usr/local/freesurfer N01 /data/home/silun.wang/silun_data right See log file: /data/home/silun.wang/silun_data/N01/scripts/hippocampal-subfields-T1.log ------------------------------------------ Setting up environment variables --- LD_LIBRARY_PATH is .:/usr/local/freesurfer/MCRv80/runtime/glnxa64:/usr/local/freesurfer/MCRv80/bin/glnxa64:/usr/local/freesurfer/MCRv80/sys/os/glnxa64:/usr/local/freesurfer/MCRv80/sys/java/jre/glnxa64/jre/lib/amd64/native_threads:/usr/local/freesurfer/MCRv80/sys/java/jre/glnxa64/jre/lib/amd64/server:/usr/local/freesurfer/MCRv80/sys/java/jre/glnxa64/jre/lib/amd64/client:/usr/local/freesurfer/MCRv80/sys/java/jre/glnxa64/jre/lib/amd64: *Error:Cannot find CTF archive /usr/local/freesurfer/bin/segmentSubjectT1_autoEstimateAlveusML.ctf* Started at Thu Feb 2 13:53:41 EST 2017 Ended at Thu Feb 2 13:54:01 EST 2017 #@#%# recon-all-run-time-hours 0.006 recon-all -s N01 finished without error at Thu Feb 2 13:54:02 EST 2017 done
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