Hi FS Experts, When I use Qdec for Group Analysis,I come with an error.Here it is.
-------- freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0 -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /usr/local/freesurfer FSFAST_HOME /usr/local/freesurfer/fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR /usr/local/freesurfer/subjects MNI_DIR /usr/local/freesurfer/mni FSL_DIR /usr/local/fsl
setenv TUTORIAL_DATA /media/work/FC_DATA/ckd-T1 setenv SUBJECTS_DIR $TUTORIAL_DATA cd $SUBJECTS_DIR
Data table /media/work/FC_DATA/ckd-T1/qdec/qdec.table.dat loaded.
Verifying subject data.sh: Syntax error: Bad fd number ERROR: QdecProject::VerifySubjects: Couldn't find subject 'con_chenchen' in SUBJECTS_DIR
Input table: /media/work/FC_DATA/ckd-T1/qdec/qdec.table.dat Subj#, SubjID, Data... 1 con_chenchen con ...
I load qdec.table.dat successfully.However,QdecProject couldn't find subject 'con_chenchen' in SUBJECTS_DIR. As a result,when I use FDR for correction,there is nothing showing in the terminal. I did not dowload the tutorial data.what's more,I have not put the subjs in my Freesurfer install path. How can I deal with it? Thanks for your patience and I am looking forward for your prompt reply.
Does that subject exist in $SUBJECTS_DIR?
On 10/20/15 10:23 PM, haidong wang wrote:
Hi FS Experts, When I use Qdec for Group Analysis,I come with an error.Here it is.
-------- freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0 -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /usr/local/freesurfer FSFAST_HOME /usr/local/freesurfer/fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR /usr/local/freesurfer/subjects MNI_DIR /usr/local/freesurfer/mni FSL_DIR /usr/local/fsl
setenv TUTORIAL_DATA /media/work/FC_DATA/ckd-T1 setenv SUBJECTS_DIR $TUTORIAL_DATA cd $SUBJECTS_DIR
Data table /media/work/FC_DATA/ckd-T1/qdec/qdec.table.dat loaded.
Verifying subject data.sh: Syntax error: Bad fd number ERROR: QdecProject::VerifySubjects: Couldn't find subject 'con_chenchen' in SUBJECTS_DIR
Input table: /media/work/FC_DATA/ckd-T1/qdec/qdec.table.dat Subj#, SubjID, Data... 1 con_chenchen con ...
I load qdec.table.dat successfully.However,QdecProject couldn't find subject 'con_chenchen' in SUBJECTS_DIR. As a result,when I use FDR for correction,there is nothing showing in the terminal. I did not dowload the tutorial data.what's more,I have not put the subjs in my Freesurfer install path. How can I deal with it? Thanks for your patience and I am looking forward for your prompt reply.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thank you, Doug.I have computed the percent difference between a 2-group comparison. However when I open the results the percent difference is showing all over the cortex. Instead I would like to only display the percent difference in the area that survived multiple comparisons. Is there a way I can use that cluster for displaying the pctdiff.mgh? I am using tksurfer for this.Thanks!Pablo
Yes,'con_chenchen' exists in $SUBJECTS_DIR,/media/work/FC_DATA/ckd-T1.
2015-10-21 11:15 GMT+08:00 Douglas Greve greve@nmr.mgh.harvard.edu:
Does that subject exist in $SUBJECTS_DIR?
On 10/20/15 10:23 PM, haidong wang wrote:
Hi FS Experts, When I use Qdec for Group Analysis,I come with an error.Here it is.
-------- freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0 -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /usr/local/freesurfer FSFAST_HOME /usr/local/freesurfer/fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR /usr/local/freesurfer/subjects MNI_DIR /usr/local/freesurfer/mni FSL_DIR /usr/local/fsl
setenv TUTORIAL_DATA /media/work/FC_DATA/ckd-T1 setenv SUBJECTS_DIR $TUTORIAL_DATA cd $SUBJECTS_DIR
Data table /media/work/FC_DATA/ckd-T1/qdec/qdec.table.dat loaded.
Verifying subject data.sh: Syntax error: Bad fd number ERROR: QdecProject::VerifySubjects: Couldn't find subject 'con_chenchen' in SUBJECTS_DIR
Input table: /media/work/FC_DATA/ckd-T1/qdec/qdec.table.dat Subj#, SubjID, Data... 1 con_chenchen con ...
I load qdec.table.dat successfully.However,QdecProject couldn't find subject 'con_chenchen' in SUBJECTS_DIR. As a result,when I use FDR for correction,there is nothing showing in the terminal. I did not dowload the tutorial data.what's more,I have not put the subjs in my Freesurfer install path. How can I deal with it? Thanks for your patience and I am looking forward for your prompt reply.
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can you send your qdec.table.dat?
On 10/25/15 9:42 PM, haidong wang wrote:
Yes,'con_chenchen' exists in $SUBJECTS_DIR,/media/work/FC_DATA/ckd-T1.
2015-10-21 11:15 GMT+08:00 Douglas Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu>:
Does that subject exist in $SUBJECTS_DIR? On 10/20/15 10:23 PM, haidong wang wrote:Hi FS Experts, When I use Qdec for Group Analysis,I come with an error.Here it is. -------- freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0 -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /usr/local/freesurfer FSFAST_HOME /usr/local/freesurfer/fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR /usr/local/freesurfer/subjects MNI_DIR /usr/local/freesurfer/mni FSL_DIR /usr/local/fsl setenv TUTORIAL_DATA /media/work/FC_DATA/ckd-T1 setenv SUBJECTS_DIR $TUTORIAL_DATA cd $SUBJECTS_DIR Data table /media/work/FC_DATA/ckd-T1/qdec/qdec.table.dat loaded. Verifying subject data.sh: Syntax error: Bad fd number ERROR: QdecProject::VerifySubjects: Couldn't find subject 'con_chenchen' in SUBJECTS_DIR Input table: /media/work/FC_DATA/ckd-T1/qdec/qdec.table.dat Subj#, SubjID, Data... 1 con_chenchen con ... I load qdec.table.dat successfully.However,QdecProject couldn't find subject 'con_chenchen' in SUBJECTS_DIR. As a result,when I use FDR for correction,there is nothing showing in the terminal. I did not dowload the tutorial data.what's more,I have not put the subjs in my Freesurfer install path. How can I deal with it? Thanks for your patience and I am looking forward for your prompt reply. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
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Thanks a lot.
2015-10-26 10:35 GMT+08:00 Douglas Greve greve@nmr.mgh.harvard.edu:
can you send your qdec.table.dat?
On 10/25/15 9:42 PM, haidong wang wrote:
Yes,'con_chenchen' exists in $SUBJECTS_DIR,/media/work/FC_DATA/ckd-T1.
2015-10-21 11:15 GMT+08:00 Douglas Greve greve@nmr.mgh.harvard.edu:
Does that subject exist in $SUBJECTS_DIR?
On 10/20/15 10:23 PM, haidong wang wrote:
Hi FS Experts, When I use Qdec for Group Analysis,I come with an error.Here it is.
-------- freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0 -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /usr/local/freesurfer FSFAST_HOME /usr/local/freesurfer/fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR /usr/local/freesurfer/subjects MNI_DIR /usr/local/freesurfer/mni FSL_DIR /usr/local/fsl
setenv TUTORIAL_DATA /media/work/FC_DATA/ckd-T1 setenv SUBJECTS_DIR $TUTORIAL_DATA cd $SUBJECTS_DIR
Data table /media/work/FC_DATA/ckd-T1/qdec/qdec.table.dat loaded.
Verifying subject data.sh: Syntax error: Bad fd number ERROR: QdecProject::VerifySubjects: Couldn't find subject 'con_chenchen' in SUBJECTS_DIR
Input table: /media/work/FC_DATA/ckd-T1/qdec/qdec.table.dat Subj#, SubjID, Data... 1 con_chenchen con ...
I load qdec.table.dat successfully.However,QdecProject couldn't find subject 'con_chenchen' in SUBJECTS_DIR. As a result,when I use FDR for correction,there is nothing showing in the terminal. I did not dowload the tutorial data.what's more,I have not put the subjs in my Freesurfer install path. How can I deal with it? Thanks for your patience and I am looking forward for your prompt reply.
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://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
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://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
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
freesurfer@nmr.mgh.harvard.edu
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Douglas Greve -
haidong wang -
pablo najt