There is not actually a "-meas" option. It should be either " -m volume"
or " --measure=volume". Strange, it should have exited with an error but
some reason it did not and used area as the default.
On 3/16/16 10:27 AM, Clare Loane wrote:
Hi Doug,
I am using version 5.3 and the terminal output does not state an error (below)
and the file is created (attached) but as you will see, it is the area
measurements which are output.
dcnmac75:Freesurfer clare$ aparcstats2table --subjects CON_001 CON_002 CON_003
CON_004 CON_006 CON_007 CON_008 CON_009 CON_010 CON_011 CON_013 CON_014 CON_015
CON_016 CON_017 CON_018 CON_019 CON_021 CON_022 CON_025 CON_026 CON_027 CON_028
CON_029 CON_030 CON_032 CON_033 CON_034 CON_035 CON_036 CON_038 CON_039 CON_040
CON_041 CON_042 CON_045 CON_049 CON_054 CON_055 CON_057 CON_063 OXCON_005
OXCON_009 OXCON_012 OXCON_025 OXCON_026 OXCON_028 OXCON_029 OXCON_031 OXCON_040
OXCON_042 OXCON_052 OXCON_053 OXCON_054 OXCON_055 OXCON_058 OXCON_059 OXCON_060
OXCON_061 OXCON_062 OXCON_064 OXCON_065 OXCON_066 OXCON_067 --hemi rh –meas
volume --tablefile aparc_stats_volume_rh.txt --skip
SUBJECTS_DIR : /Users/clare/Desktop/MAP/Volumetrics/FreeSurfer/CONTROLS/
Parsing the .stats files
Building the table..
Writing the table to aparc_stats_volume_rh.txt
Since posting the original message, it does seem that the correct measurement
can be acquired when I aparcstat2table on subjects individually. Although often
it will state error that the rh.aparc.stats is not found or is too small to be
a valid stats file. This is not the case as they are all there and full of
measurements.
Many thanks,
Clare
________________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu
[freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve
[gr...@nmr.mgh.harvard.edu]
Sent: 15 March 2016 16:55
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] aparc stats volume outputting area instead
Can you send the terminal output? Also, what version are you using?
On 03/14/2016 09:56 AM, Clare Loane wrote:
Hi,
I am trying to pull out the volumes from the aparc stats file but when
I input the following (below) it produces a file identical to the area
instead:
aparcstats2table --subjects 001 002 003 --hemi rh --meas volume
--tablefile aparc_stats_volume_rh.txt
It works fine for thickness and area as well aseg_stats.
I would appreciate any help with this.
Thank you!
Clare
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
_______________________________________________
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
_______________________________________________
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.
