External Email - Use Caution
Hello,
I am running trac-all preproc with the following code
setenv FREESURFER_HOME /Applications/freesurfer_dev
source $FREESURFER_HOME/SetUpFreeSurfer.csh
*#Must set SUBJECTS_DIR to where data is or else uses what was set up when installing freesurfer*
setenv SUBJECTS_DIR /Volumes/DANIEL/dti_freesurfer_MCIP/diffusion_recons
*#Must set up configuration file - see trac-all-config-file in dti_analysis compository*
*#In configuration file can change number of subject to perform analysis on each cluster*
*#RUN FIRST* trac-all -prep -c /Volumes/DANIEL/dmrirc.long.MCIP.example.sh
*and the attached configuration file. *
*However, I get the following error.*
#@# Intra-subject registration Tue Jul 2 18:21:42 EDT 2019
mri_convert /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz
mri_convert /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz
$Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $
reading from /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz...
TR=9.62, TE=3.90, TI=450.00, flip angle=12.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
writing to /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz...
orientLAS /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
INFO: input image orientation is LIA
INFO: input image determinant is -1
mri_convert -oni 256 -onj 256 -onk 256 -oid -1 0 0 -ojd 0 1 0 -okd 0 0 1 -oc -6.32147 -1.97853 6.55573 -rt nearest /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
mri_convert -oni 256 -onj 256 -onk 256 -oid -1 0 0 -ojd 0 1 0 -okd 0 0 1 -oc -6.32147 -1.97853 6.55573 -rt nearest /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
$Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $
reading from /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz...
TR=9.62, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
Reslicing using nearest
writing to /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz...
tkregister2 --mov /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz --targ /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz --regheader --noedit --fslregout /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/xfms/anatorig2anat.mat --reg /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/xfms/anat2anatorig.dat
tkregister2: Command not found.
Darwin 255a-280.umd.edu 18.5.0 Darwin Kernel Version 18.5.0: Mon Mar 11 20:40:32 PDT 2019; root:xnu-4903.251.3~3/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Tue Jul 2 18:21:47 EDT 2019
#-------------------------------------
/Applications/freesurfer_dev/bin/trac-preproc
#-------------------------------------
#@# Inter-subject registration (base template) Tue Jul 2 18:21:49 EDT 2019
cp /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/mni2anatorig.mat /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/anatorig2mni.mat /Volumes/DANIEL/dti_freesurf_MCIP/trac/base_MCIP0006/dmri/xfms
cp: /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/mni2anatorig.mat: No such file or directory
cp: /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/anatorig2mni.mat: No such file or directory
Darwin 255a-280.umd.edu 18.5.0 Darwin Kernel Version 18.5.0: Mon Mar 11 20:40:32 PDT 2019; root:xnu-4903.251.3~3/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Tue Jul 2 18:21:49 EDT 2019
*What might be causing the issue? Does it seem like tkregister2 isn't working?*
*Thank you for help or assistance you can provide.*
*Daniel Callow* *PhD Student, Neuroscience and Cognitive Science* Exercise for Brain Health Lab University of Maryland, College Park *ddcc2442@gmail.com ddcc2442@gmail.com* 443-254-6298
Hi Daniel - Yes, this seems to be the problem: " tkregister2: Command not found." What version of freesurfer are you using?
a.y
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Daniel Callow ddcc2442@gmail.com Sent: Wednesday, July 3, 2019 2:06:27 PM To: Freesurfer support list Subject: [Freesurfer] Trac-all error
External Email - Use Caution
Hello,
I am running trac-all preproc with the following code
setenv FREESURFER_HOME /Applications/freesurfer_dev
source $FREESURFER_HOME/SetUpFreeSurfer.csh
#Must set SUBJECTS_DIR to where data is or else uses what was set up when installing freesurfer
setenv SUBJECTS_DIR /Volumes/DANIEL/dti_freesurfer_MCIP/diffusion_recons
#Must set up configuration file - see trac-all-config-file in dti_analysis compository
#In configuration file can change number of subject to perform analysis on each cluster
#RUN FIRST
trac-all -prep -c /Volumes/DANIEL/dmrirc.long.MCIP.example.shhttp://dmrirc.long.MCIP.example.sh
and the attached configuration file.
However, I get the following error.
#@# Intra-subject registration Tue Jul 2 18:21:42 EDT 2019
mri_convert /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz
mri_convert /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz
$Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $
reading from /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz...
TR=9.62, TE=3.90, TI=450.00, flip angle=12.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
writing to /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz...
orientLAS /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
INFO: input image orientation is LIA
INFO: input image determinant is -1
mri_convert -oni 256 -onj 256 -onk 256 -oid -1 0 0 -ojd 0 1 0 -okd 0 0 1 -oc -6.32147 -1.97853 6.55573 -rt nearest /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
mri_convert -oni 256 -onj 256 -onk 256 -oid -1 0 0 -ojd 0 1 0 -okd 0 0 1 -oc -6.32147 -1.97853 6.55573 -rt nearest /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
$Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $
reading from /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz...
TR=9.62, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
Reslicing using nearest
writing to /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz...
tkregister2 --mov /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz --targ /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz --regheader --noedit --fslregout /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/xfms/anatorig2anat.mat --reg /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/xfms/anat2anatorig.dat
tkregister2: Command not found.
Darwin 255a-280.umd.eduhttp://255a-280.umd.edu 18.5.0 Darwin Kernel Version 18.5.0: Mon Mar 11 20:40:32 PDT 2019; root:xnu-4903.251.3~3/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Tue Jul 2 18:21:47 EDT 2019
#-------------------------------------
/Applications/freesurfer_dev/bin/trac-preproc
#-------------------------------------
#@# Inter-subject registration (base template) Tue Jul 2 18:21:49 EDT 2019
cp /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/mni2anatorig.mat /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/anatorig2mni.mat /Volumes/DANIEL/dti_freesurf_MCIP/trac/base_MCIP0006/dmri/xfms
cp: /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/mni2anatorig.mat: No such file or directory
cp: /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/anatorig2mni.mat: No such file or directory
Darwin 255a-280.umd.eduhttp://255a-280.umd.edu 18.5.0 Darwin Kernel Version 18.5.0: Mon Mar 11 20:40:32 PDT 2019; root:xnu-4903.251.3~3/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Tue Jul 2 18:21:49 EDT 2019
What might be causing the issue? Does it seem like tkregister2 isn't working?
Thank you for help or assistance you can provide.
Daniel Callow PhD Student, Neuroscience and Cognitive Science Exercise for Brain Health Lab University of Maryland, College Park ddcc2442@gmail.commailto:ddcc2442@gmail.com 443-254-6298
External Email - Use Caution
Hello Anastasia,
I was running this on freesurfer's dev version. I will try running it on freesurfer 6.0.
Best, *Daniel Callow* *PhD Student, Neuroscience and Conitive Science* Exercise for Brain Health Lab University of Maryland, College Park *ddcc2442@gmail.com ddcc2442@gmail.com* 443-254-6298
On Thu, Jul 4, 2019 at 4:26 AM Yendiki, Anastasia AYENDIKI@mgh.harvard.edu wrote:
Hi Daniel - Yes, this seems to be the problem: " tkregister2: Command not found." What version of freesurfer are you using?
a.y
*From:* freesurfer-bounces@nmr.mgh.harvard.edu < freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Daniel Callow < ddcc2442@gmail.com> *Sent:* Wednesday, July 3, 2019 2:06:27 PM *To:* Freesurfer support list *Subject:* [Freesurfer] Trac-all error
External Email - Use CautionHello,
I am running trac-all preproc with the following code
setenv FREESURFER_HOME /Applications/freesurfer_dev
source $FREESURFER_HOME/SetUpFreeSurfer.csh
*#Must set SUBJECTS_DIR to where data is or else uses what was set up when installing freesurfer*
setenv SUBJECTS_DIR /Volumes/DANIEL/dti_freesurfer_MCIP/diffusion_recons
*#Must set up configuration file - see trac-all-config-file in dti_analysis compository*
*#In configuration file can change number of subject to perform analysis on each cluster*
*#RUN FIRST* trac-all -prep -c /Volumes/DANIEL/dmrirc.long.MCIP.example.sh
*and the attached configuration file. *
*However, I get the following error.*
#@# Intra-subject registration Tue Jul 2 18:21:42 EDT 2019
mri_convert /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz
mri_convert /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz
$Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $
reading from /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz...
TR=9.62, TE=3.90, TI=450.00, flip angle=12.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
writing to /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz...
orientLAS /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
INFO: input image orientation is LIA
INFO: input image determinant is -1
mri_convert -oni 256 -onj 256 -onk 256 -oid -1 0 0 -ojd 0 1 0 -okd 0 0 1 -oc -6.32147 -1.97853 6.55573 -rt nearest /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
mri_convert -oni 256 -onj 256 -onk 256 -oid -1 0 0 -ojd 0 1 0 -okd 0 0 1 -oc -6.32147 -1.97853 6.55573 -rt nearest /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
$Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $
reading from /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz...
TR=9.62, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
Reslicing using nearest
writing to /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz...
tkregister2 --mov /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz --targ /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz --regheader --noedit --fslregout /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/xfms/anatorig2anat.mat --reg /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/xfms/anat2anatorig.dat
tkregister2: Command not found.
Darwin 255a-280.umd.edu 18.5.0 Darwin Kernel Version 18.5.0: Mon Mar 11 20:40:32 PDT 2019; root:xnu-4903.251.3~3/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Tue Jul 2 18:21:47 EDT 2019
#-------------------------------------
/Applications/freesurfer_dev/bin/trac-preproc
#-------------------------------------
#@# Inter-subject registration (base template) Tue Jul 2 18:21:49 EDT 2019
cp /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/mni2anatorig.mat /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/anatorig2mni.mat /Volumes/DANIEL/dti_freesurf_MCIP/trac/base_MCIP0006/dmri/xfms
cp: /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/mni2anatorig.mat: No such file or directory
cp: /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/anatorig2mni.mat: No such file or directory
Darwin 255a-280.umd.edu 18.5.0 Darwin Kernel Version 18.5.0: Mon Mar 11 20:40:32 PDT 2019; root:xnu-4903.251.3~3/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Tue Jul 2 18:21:49 EDT 2019
*What might be causing the issue? Does it seem like tkregister2 isn't working?*
*Thank you for help or assistance you can provide.*
*Daniel Callow* *PhD Student, Neuroscience and Cognitive Science* Exercise for Brain Health Lab University of Maryland, College Park *ddcc2442@gmail.com ddcc2442@gmail.com* 443-254-6298 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
External Email - Use Caution
When running on freesurfer 6.0 I get the following pop-up screen as well.
*“tkregister2.bin” is not optimized for your Mac and needs to be updated.*
This software will not work with future versions of macOS and needs to be updated to improve compatibility. Contact the developer for more information.
Just FYI. It does work on the freesurfer 6.0 version despite the pop-up. It seems like trac-all is not compatible with the development version then?
Best,
*Daniel Callow* *PhD Student, Neuroscience and Cognitive Science* Exercise for Brain Health Lab University of Maryland, College Park *ddcc2442@gmail.com ddcc2442@gmail.com* 443-254-6298
On Thu, Jul 4, 2019 at 8:08 AM Daniel Callow ddcc2442@gmail.com wrote:
Hello Anastasia,
I was running this on freesurfer's dev version. I will try running it on freesurfer 6.0.
Best, *Daniel Callow* *PhD Student, Neuroscience and Conitive Science* Exercise for Brain Health Lab University of Maryland, College Park *ddcc2442@gmail.com ddcc2442@gmail.com* 443-254-6298
On Thu, Jul 4, 2019 at 4:26 AM Yendiki, Anastasia < AYENDIKI@mgh.harvard.edu> wrote:
Hi Daniel - Yes, this seems to be the problem: " tkregister2: Command not found." What version of freesurfer are you using?
a.y
*From:* freesurfer-bounces@nmr.mgh.harvard.edu < freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Daniel Callow < ddcc2442@gmail.com> *Sent:* Wednesday, July 3, 2019 2:06:27 PM *To:* Freesurfer support list *Subject:* [Freesurfer] Trac-all error
External Email - Use CautionHello,
I am running trac-all preproc with the following code
setenv FREESURFER_HOME /Applications/freesurfer_dev
source $FREESURFER_HOME/SetUpFreeSurfer.csh
*#Must set SUBJECTS_DIR to where data is or else uses what was set up when installing freesurfer*
setenv SUBJECTS_DIR /Volumes/DANIEL/dti_freesurfer_MCIP/diffusion_recons
*#Must set up configuration file - see trac-all-config-file in dti_analysis compository*
*#In configuration file can change number of subject to perform analysis on each cluster*
*#RUN FIRST* trac-all -prep -c /Volumes/DANIEL/dmrirc.long.MCIP.example.sh
*and the attached configuration file. *
*However, I get the following error.*
#@# Intra-subject registration Tue Jul 2 18:21:42 EDT 2019
mri_convert /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz
mri_convert /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz
$Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $
reading from /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz...
TR=9.62, TE=3.90, TI=450.00, flip angle=12.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
writing to /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz...
orientLAS /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
INFO: input image orientation is LIA
INFO: input image determinant is -1
mri_convert -oni 256 -onj 256 -onk 256 -oid -1 0 0 -ojd 0 1 0 -okd 0 0 1 -oc -6.32147 -1.97853 6.55573 -rt nearest /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
mri_convert -oni 256 -onj 256 -onk 256 -oid -1 0 0 -ojd 0 1 0 -okd 0 0 1 -oc -6.32147 -1.97853 6.55573 -rt nearest /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
$Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $
reading from /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz...
TR=9.62, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
Reslicing using nearest
writing to /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz...
tkregister2 --mov /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz --targ /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz --regheader --noedit --fslregout /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/xfms/anatorig2anat.mat --reg /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/xfms/anat2anatorig.dat
tkregister2: Command not found.
Darwin 255a-280.umd.edu 18.5.0 Darwin Kernel Version 18.5.0: Mon Mar 11 20:40:32 PDT 2019; root:xnu-4903.251.3~3/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Tue Jul 2 18:21:47 EDT 2019
#-------------------------------------
/Applications/freesurfer_dev/bin/trac-preproc
#-------------------------------------
#@# Inter-subject registration (base template) Tue Jul 2 18:21:49 EDT 2019
cp /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/mni2anatorig.mat /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/anatorig2mni.mat /Volumes/DANIEL/dti_freesurf_MCIP/trac/base_MCIP0006/dmri/xfms
cp: /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/mni2anatorig.mat: No such file or directory
cp: /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/anatorig2mni.mat: No such file or directory
Darwin 255a-280.umd.edu 18.5.0 Darwin Kernel Version 18.5.0: Mon Mar 11 20:40:32 PDT 2019; root:xnu-4903.251.3~3/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Tue Jul 2 18:21:49 EDT 2019
*What might be causing the issue? Does it seem like tkregister2 isn't working?*
*Thank you for help or assistance you can provide.*
*Daniel Callow* *PhD Student, Neuroscience and Cognitive Science* Exercise for Brain Health Lab University of Maryland, College Park *ddcc2442@gmail.com ddcc2442@gmail.com* 443-254-6298 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
It's not an issue of compatibility. The tkregister2 executable doesn't exist in whatever version you're sourcing when you run tracula. As far as I can see, it should be there in both the stable6 and dev versions. Any chance that something went wrong when you built the dev version on your system and tkregister2 did not compile?
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Daniel Callow ddcc2442@gmail.com Sent: Thursday, July 4, 2019 8:24:32 AM To: Freesurfer support list Subject: Re: [Freesurfer] Trac-all error
External Email - Use Caution
When running on freesurfer 6.0 I get the following pop-up screen as well.
“tkregister2.bin” is not optimized for your Mac and needs to be updated.
This software will not work with future versions of macOS and needs to be updated to improve compatibility. Contact the developer for more information.
Just FYI. It does work on the freesurfer 6.0 version despite the pop-up. It seems like trac-all is not compatible with the development version then?
Best,
Daniel Callow PhD Student, Neuroscience and Cognitive Science Exercise for Brain Health Lab University of Maryland, College Park ddcc2442@gmail.commailto:ddcc2442@gmail.com 443-254-6298
On Thu, Jul 4, 2019 at 8:08 AM Daniel Callow <ddcc2442@gmail.commailto:ddcc2442@gmail.com> wrote: Hello Anastasia,
I was running this on freesurfer's dev version. I will try running it on freesurfer 6.0.
Best, Daniel Callow PhD Student, Neuroscience and Conitive Science Exercise for Brain Health Lab University of Maryland, College Park ddcc2442@gmail.commailto:ddcc2442@gmail.com 443-254-6298
On Thu, Jul 4, 2019 at 4:26 AM Yendiki, Anastasia <AYENDIKI@mgh.harvard.edumailto:AYENDIKI@mgh.harvard.edu> wrote:
Hi Daniel - Yes, this seems to be the problem: " tkregister2: Command not found." What version of freesurfer are you using?
a.y
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Daniel Callow <ddcc2442@gmail.commailto:ddcc2442@gmail.com> Sent: Wednesday, July 3, 2019 2:06:27 PM To: Freesurfer support list Subject: [Freesurfer] Trac-all error
External Email - Use Caution
Hello,
I am running trac-all preproc with the following code
setenv FREESURFER_HOME /Applications/freesurfer_dev
source $FREESURFER_HOME/SetUpFreeSurfer.csh
#Must set SUBJECTS_DIR to where data is or else uses what was set up when installing freesurfer
setenv SUBJECTS_DIR /Volumes/DANIEL/dti_freesurfer_MCIP/diffusion_recons
#Must set up configuration file - see trac-all-config-file in dti_analysis compository
#In configuration file can change number of subject to perform analysis on each cluster
#RUN FIRST
trac-all -prep -c /Volumes/DANIEL/dmrirc.long.MCIP.example.shhttp://dmrirc.long.MCIP.example.sh
and the attached configuration file.
However, I get the following error.
#@# Intra-subject registration Tue Jul 2 18:21:42 EDT 2019
mri_convert /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz
mri_convert /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz
$Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $
reading from /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz...
TR=9.62, TE=3.90, TI=450.00, flip angle=12.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
writing to /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz...
orientLAS /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
INFO: input image orientation is LIA
INFO: input image determinant is -1
mri_convert -oni 256 -onj 256 -onk 256 -oid -1 0 0 -ojd 0 1 0 -okd 0 0 1 -oc -6.32147 -1.97853 6.55573 -rt nearest /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
mri_convert -oni 256 -onj 256 -onk 256 -oid -1 0 0 -ojd 0 1 0 -okd 0 0 1 -oc -6.32147 -1.97853 6.55573 -rt nearest /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
$Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $
reading from /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz...
TR=9.62, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
Reslicing using nearest
writing to /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz...
tkregister2 --mov /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz --targ /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz --regheader --noedit --fslregout /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/xfms/anatorig2anat.mat --reg /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/xfms/anat2anatorig.dat
tkregister2: Command not found.
Darwin 255a-280.umd.eduhttp://255a-280.umd.edu 18.5.0 Darwin Kernel Version 18.5.0: Mon Mar 11 20:40:32 PDT 2019; root:xnu-4903.251.3~3/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Tue Jul 2 18:21:47 EDT 2019
#-------------------------------------
/Applications/freesurfer_dev/bin/trac-preproc
#-------------------------------------
#@# Inter-subject registration (base template) Tue Jul 2 18:21:49 EDT 2019
cp /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/mni2anatorig.mat /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/anatorig2mni.mat /Volumes/DANIEL/dti_freesurf_MCIP/trac/base_MCIP0006/dmri/xfms
cp: /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/mni2anatorig.mat: No such file or directory
cp: /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/anatorig2mni.mat: No such file or directory
Darwin 255a-280.umd.eduhttp://255a-280.umd.edu 18.5.0 Darwin Kernel Version 18.5.0: Mon Mar 11 20:40:32 PDT 2019; root:xnu-4903.251.3~3/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Tue Jul 2 18:21:49 EDT 2019
What might be causing the issue? Does it seem like tkregister2 isn't working?
Thank you for help or assistance you can provide.
Daniel Callow PhD Student, Neuroscience and Cognitive Science Exercise for Brain Health Lab University of Maryland, College Park ddcc2442@gmail.commailto:ddcc2442@gmail.com 443-254-6298 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
External Email - Use Caution
Thank you for the reply. I guess it is possible that there were some issues with compiling, however I have been using it for a while without issue. I will look into that issue further. Thanks for all your help and feedback!
Best, Daniel Callow
On Thu, Jul 4, 2019 at 8:42 AM Yendiki, Anastasia AYENDIKI@mgh.harvard.edu wrote:
It's not an issue of compatibility. The tkregister2 executable doesn't exist in whatever version you're sourcing when you run tracula. As far as I can see, it should be there in both the stable6 and dev versions. Any chance that something went wrong when you built the dev version on your system and tkregister2 did not compile?
*From:* freesurfer-bounces@nmr.mgh.harvard.edu < freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Daniel Callow < ddcc2442@gmail.com> *Sent:* Thursday, July 4, 2019 8:24:32 AM *To:* Freesurfer support list *Subject:* Re: [Freesurfer] Trac-all error
External Email - Use CautionWhen running on freesurfer 6.0 I get the following pop-up screen as well.
*“tkregister2.bin” is not optimized for your Mac and needs to be updated.*
This software will not work with future versions of macOS and needs to be updated to improve compatibility. Contact the developer for more information.
Just FYI. It does work on the freesurfer 6.0 version despite the pop-up. It seems like trac-all is not compatible with the development version then?
Best,
*Daniel Callow* *PhD Student, Neuroscience and Cognitive Science* Exercise for Brain Health Lab University of Maryland, College Park *ddcc2442@gmail.com ddcc2442@gmail.com* 443-254-6298
On Thu, Jul 4, 2019 at 8:08 AM Daniel Callow ddcc2442@gmail.com wrote:
Hello Anastasia,
I was running this on freesurfer's dev version. I will try running it on freesurfer 6.0.
Best, *Daniel Callow* *PhD Student, Neuroscience and Conitive Science* Exercise for Brain Health Lab University of Maryland, College Park *ddcc2442@gmail.com ddcc2442@gmail.com* 443-254-6298
On Thu, Jul 4, 2019 at 4:26 AM Yendiki, Anastasia < AYENDIKI@mgh.harvard.edu> wrote:
Hi Daniel - Yes, this seems to be the problem: " tkregister2: Command not found." What version of freesurfer are you using?
a.y
*From:* freesurfer-bounces@nmr.mgh.harvard.edu < freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Daniel Callow < ddcc2442@gmail.com> *Sent:* Wednesday, July 3, 2019 2:06:27 PM *To:* Freesurfer support list *Subject:* [Freesurfer] Trac-all error
External Email - Use CautionHello,
I am running trac-all preproc with the following code
setenv FREESURFER_HOME /Applications/freesurfer_dev
source $FREESURFER_HOME/SetUpFreeSurfer.csh
*#Must set SUBJECTS_DIR to where data is or else uses what was set up when installing freesurfer*
setenv SUBJECTS_DIR /Volumes/DANIEL/dti_freesurfer_MCIP/diffusion_recons
*#Must set up configuration file - see trac-all-config-file in dti_analysis compository*
*#In configuration file can change number of subject to perform analysis on each cluster*
*#RUN FIRST* trac-all -prep -c /Volumes/DANIEL/dmrirc.long.MCIP.example.sh
*and the attached configuration file. *
*However, I get the following error.*
#@# Intra-subject registration Tue Jul 2 18:21:42 EDT 2019
mri_convert /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz
mri_convert /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz
$Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $
reading from /Volumes/DANIEL/freesurfer_MCIP/MCIP0006_post.long.base_MCIP0006/mri/brain.mgz...
TR=9.62, TE=3.90, TI=450.00, flip angle=12.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
writing to /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz...
orientLAS /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
INFO: input image orientation is LIA
INFO: input image determinant is -1
mri_convert -oni 256 -onj 256 -onk 256 -oid -1 0 0 -ojd 0 1 0 -okd 0 0 1 -oc -6.32147 -1.97853 6.55573 -rt nearest /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
mri_convert -oni 256 -onj 256 -onk 256 -oid -1 0 0 -ojd 0 1 0 -okd 0 0 1 -oc -6.32147 -1.97853 6.55573 -rt nearest /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz
$Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $
reading from /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz...
TR=9.62, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
Reslicing using nearest
writing to /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz...
tkregister2 --mov /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat_orig.nii.gz --targ /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/brain_anat.nii.gz --regheader --noedit --fslregout /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/xfms/anatorig2anat.mat --reg /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_post.long.base_MCIP0006/dmri/xfms/anat2anatorig.dat
tkregister2: Command not found.
Darwin 255a-280.umd.edu 18.5.0 Darwin Kernel Version 18.5.0: Mon Mar 11 20:40:32 PDT 2019; root:xnu-4903.251.3~3/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Tue Jul 2 18:21:47 EDT 2019
#-------------------------------------
/Applications/freesurfer_dev/bin/trac-preproc
#-------------------------------------
#@# Inter-subject registration (base template) Tue Jul 2 18:21:49 EDT 2019
cp /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/mni2anatorig.mat /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/anatorig2mni.mat /Volumes/DANIEL/dti_freesurf_MCIP/trac/base_MCIP0006/dmri/xfms
cp: /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/mni2anatorig.mat: No such file or directory
cp: /Volumes/DANIEL/dti_freesurf_MCIP/trac/MCIP0006_pre.long.base_MCIP0006/dmri/xfms/anatorig2mni.mat: No such file or directory
Darwin 255a-280.umd.edu 18.5.0 Darwin Kernel Version 18.5.0: Mon Mar 11 20:40:32 PDT 2019; root:xnu-4903.251.3~3/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Tue Jul 2 18:21:49 EDT 2019
*What might be causing the issue? Does it seem like tkregister2 isn't working?*
*Thank you for help or assistance you can provide.*
*Daniel Callow* *PhD Student, Neuroscience and Cognitive Science* Exercise for Brain Health Lab University of Maryland, College Park *ddcc2442@gmail.com ddcc2442@gmail.com* 443-254-6298 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Daniel Callow -
Yendiki, Anastasia