Hi Bruce, thank you very much for your answer!
Am 15.01.2014 um 14:33 schrieb Bruce Fischl <fis...@nmr.mgh.harvard.edu>: > Hi Janosch > > it will certainly make your life easier if you don't change the names. So the subject names are saved in other places/files than the folder name? > Symlinking is fine if you keep the same name, but particularly for the > longitudinal runs the names have meaning and are stored in files like the tps > one which stores the timepoints that went into the base. OK, so if I understand you correctly, the folder structure for the initial processing does not matter as I can collect different subjects from different places in one $SUBJECTS_DIR for doing (cross-sectional or longitudinal) stats by either copying or symlinking their subject folders. But the name of the symlink has to be the same as the one used in the initial processing, so I would have to include the time point in the subject name even in the initial processing? BTW, does one have to use your naming scheme, i.e., "tp1SUBJECTID" or is this flexible, e.g., "tp0_SUBJECTID", "SUBJECTID_tp1", "2011__SUBJECTID", etc.? Thanks a lot, Janosch > > cheers > Bruce > On Wed, 15 Jan 2014, Janosch Linkersdörfer wrote: > >> Hi, >> >> sorry if my question was to basic, but I would really appreciate if somebody >> could give me some insight into whether the folder organization and the >> subject name used in the first run of recon-all have to be stable over all >> all following processing steps or if one can, e.g., change the names of the >> subject folders and/or symlink them to another location (with another name) >> and continue with further processing. >> >> Thanks, >> >> Janosch >> >> Am 13.01.2014 um 13:34 schrieb Janosch Linkersdörfer >> <notes4ja...@googlemail.com>: >> >>> Hi all, >>> >>> I have 4 years of structural scans from children and 2 from adults. I would >>> like to analyze the data both cross-sectionally and longitudinally. In the >>> recommendations for the longitudinal analysis, it says one should process >>> all images in one folder with the time point in the subjectID/subject >>> folder, e.g., >>> >>> .../data/tp1_subj001 >>> .../data/tp2_subj001 >>> .../data/tp3_subj001 >>> .../data/tp4_subj001 >>> .../data/tp1_subj002 >>> ... >>> >>> For the cross-sectional analyses, I would like to organize the analyses in >>> folders for subject age and year, e.g., >>> >>> .../data/children/tp1/subj001 >>> .../data/children/tp1/subj002 >>> .../data/children/tp2/subj001 >>> .../data/children/tp2/subj002 >>> ... >>> .../data/adults/tp1/adult_subj001 >>> .../data/adults/tp1/adult_subj002 >>> .../data/adults/tp2/adult_subj001 >>> .../data/adults/tp2/adult_subj001 >>> >>> Is it possible to organize the data this way and to symlink the individual >>> folders into another folder for the longitudinal analysis, i.e., >>> >>> .../longitudinal_analysis/tp1_subj001 -> .../data/children/tp1/subj001 >>> .../longitudinal_analysis/tp2_subj001 -> .../data/children/tp2/subj001 >>> ... >>> >>> Additionally, are there any considerations regarding renaming/moving >>> subject folders (as long as anything inside a subject folder remains >>> unchanged), i.e. are there any hard links or similar that would break >>> further processing? >>> >>> Thanks a lot! >>> >>> Janosch >> >> >> _______________________________________________ >> 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 list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
