Sorry for the confusion there, Matthew. I used the GUI, and it was working with 20 stat images, but when I sent the email I removed a bunch of the stats/copeX and stats/zstatX parts from the command line quote in the hopes of making it easier to read. I suppose I should have realized that only I'd be making it more confusing! I'm using version 4.1.6, from the fsl-4.1.6-centos5_64 build. Also, I'll note that running featquery on otherwise identical but FLIRT-registered feat analyses runs without any problems. Thanks! -Jim On Tue, 23 Aug 2011 11:02:27 +0100, Matthew Webster <[log in to unmask]> wrote: >Hello James, > Did you construct the featquery command-line call manually or use the Featquery GUI? Looking at the command line call below it is requesting the processing of 20 stat images, but only 8 are supplied ( cope and zstat 1-4 ). If you did use the GUI, then upload your 4 feat directories and we'll check what is going wrong. Could you also confirm which version of FSL you are using ( number and architecture? ) > >Many Regards > >Matthew >> Howdy- >> >> I'm receiving exactly the same message when I try to run featquery on FNIRT-registered data. It doesn't matter is I supply my own mask image, if I use the atlas functions in featquery to select a standard mask, or if I choose to use XYZ coordinates. >> >> I'd like to upload my files if you have the time to look at them. Thanks! >> >> -Jim Porter >> >> >> p.s., Here's my error from the standard atlas attempt: >> >> /opt/bliss/fsl/bin/featquery 4 fnirt_test/fnirt_Blk1.feat fnirt_test/fnirt_Blk2.feat fnirt_test/fnirt_Blk3.feat fnirt_test/fnirt_Blk4.feat 20 stats/cope1 stats/cope2 stats/cope3 stats/cope4 stats/zstat1 stats/zstat2 stats/zstat3 stats/zstat4 AtlasLeftNAcc_fqtest -a 5 -p -s -w -b /tmp/featquery_vz8eIz >> >> expected floating-point number but got "Mask" >> while executing >> "format %.4g [ lindex $thevals 0 ] " >> ("for" body line 243) >> invoked from within >> "for { set f 1 } { $f <= $featquery(multiple) } { incr f 1 } { >> >> #{{{ setup output dir and logging etc. >> >> set mask $origmask >> >> cd [ lindex $argv $f ] >> ..." >> (file "/opt/bliss/fsl/bin/featquery" line 167) >> >> >> >> On Mon, 18 Jul 2011 13:36:25 +0200, Cornelius Werner <[log in to unmask]> wrote: >> >>> Hi Steve, >>> >>> I understood the help output of featquery sucht that if no leading >>> slash is supplied, featquery will look inside the *.feat directories >>> for the mask (i.e., relative path). However, I also tried masks >>> located in the directory I ran featquery from and also tried absolute >>> paths, to no avail. I will give it another shot, but if that doesn't >>> work either, I'd be thankful if you could have a look at the data. >>> >>> Thanks a lot, >>> Cornelius >>> >>> On Sat, Jul 16, 2011 at 10:12 AM, Stephen Smith <[log in to unmask]> wrote: >>>> Hi Cornelius - are you sure that reg_standard/mask exists relative to the >>>> directory you are calling featquery from? >>>> If you're still stuck, feel free to upload the output featquery directory >>>> (and a copy of what appears in your terminal when you run it) and email us >>>> the upload ID and we can take a look. >>>> Cheers. >>>> >>>> >>>> >>>> On 15 Jul 2011, at 14:31, Cornelius Werner wrote: >>>> >>>> Dear list, >>>> >>>> I tried to overcome my previously posted problem by running featquery >>>> from the command line. But every time I try to run it against FNIRT#ed >>>> feat directories, it fails. FLIRT'ed ones do not seem to pose a >>>> problem. However, I really need the FNIRT ones... >>>> >>>> This is the call: >>>> featquery 16 /path-to-data/7511_TTT4-7.feat >>>> /path-to-data/7441_TTT4-7.feat /path-to-data/7519_TTT4-7.feat >>>> /path-to-data/7442_TTT4-7.feat /path-to-data/7520_TTT4-7.feat >>>> /path-to-data/7486_TTT4-7.feat /path-to-data/7521_TTT4-7.feat >>>> /path-to-data/7487_TTT4-7.feat /path-to-data/7488_TTT4-7.feat >>>> /path-to-data/7576_TTT4-7.feat /path-to-data/7507_TTT4-7.feat >>>> /path-to-data/7577_TTT4-7.feat /path-to-data/7718_TTT4-7.feat >>>> /path-to-data/7508_TTT4-7.feat /path-to-data/7510_TTT4-7.feat >>>> /path-to-data/7719_TTT4-7.feat 6 stats/pe5 stats/pe7 stats/pe13 >>>> stats/pe15 stats/pe21 stats/pe23 acc_46-75-60 reg_standard/mask -vox >>>> 46 75 60 >>>> >>>> And this is the error: >>>> >>>> expected floating-point number but got "Mask" >>>> while executing >>>> "format %.4g [ lindex $thevals 0 ] " >>>> ("for" body line 243) >>>> invoked from within >>>> "for { set f 1 } { $f <= $featquery(multiple) } { incr f 1 } { >>>> >>>> #{{{ setup output dir and logging etc. >>>> >>>> set mask $origmask >>>> >>>> cd [ lindex $argv $f ] >>>> ..." >>>> (file "/usr/lib/fsl/4.1/featquery" line 167) >>>> >>>> It does not seem to depend on the actual mask I am using. It crashes >>>> with all masks tried so far. >>>> Thanks in advance and best regards, >>>> Cornelius >>>> -- >>>> Dr. med. Cornelius J. Werner >>>> Department of Neurology >>>> RWTH Aachen University >>>> Pauwelsstr. 30 >>>> 52074 Aachen >>>> Germany >>>> >>>> >>>> >>>> --------------------------------------------------------------------------- >>>> Stephen M. Smith, Professor of Biomedical Engineering >>>> Associate Director, Oxford University FMRIB Centre >>>> >>>> FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK >>>> +44 (0) 1865 222726 (fax 222717) >>>> [log in to unmask] http://www.fmrib.ox.ac.uk/~steve >>>> --------------------------------------------------------------------------- >>>> >>>> >>>> >>>> >>> >>> >>> >>> -- >>> Dr. med. Cornelius J. Werner >>> Department of Neurology >>> RWTH Aachen University >>> Pauwelsstr. 30 >>> 52074 Aachen >>> Germany >>