Hi - the list of patched files, in incrasing date order, are below.
However, it's trivial to just re-download the current FSL from scratch, so
you could just do that.
Cheers, Steve.
-rwxr-xr-x 1 steve analysis 12131574 Oct 11 2004 fslview_exe
-rwxr-xr-x 1 steve analysis 1502088 Oct 14 2004 img2talcoord
-rwxr-xr-x 1 steve analysis 145615 Oct 14 2004 avwcreatehd
-rwxr-xr-x 1 steve analysis 4068 Oct 28 2004 eddy_correct
-rwxr-xr-x 1 steve analysis 1502344 Nov 2 2004 tal2imgcoord
-rwxr-xr-x 1 steve analysis 659934 Jan 7 2005 mean
-rwxr-xr-x 1 steve analysis 672633 Jan 7 2005 diff_pvm
-rwxr-xr-x 1 steve analysis 3778 Jan 7 2005 zeropad
-rwxr-xr-x 1 steve analysis 9918 Jan 7 2005 bedpost
-rwxr-xr-x 1 steve analysis 4337 Jan 10 2005 bedpost_proc
-rwxr-xr-x 1 steve analysis 2816323 Jan 23 2005 drawmesh
-rwxr-xr-x 1 steve analysis 1032134 Jan 23 2005 selfintersection
-rwxr-xr-x 1 steve analysis 4264 Jan 23 2005 betall
-rwxr-xr-x 1 steve analysis 2437184 Jan 23 2005 bet2
-rwxr-xr-x 1 steve analysis 2585019 Jan 23 2005 betsurf
-rwxr-xr-x 1 steve analysis 1655323 Feb 23 2005 mcflirt
-rwxr-xr-x 1 steve analysis 1515714 Feb 23 2005 vmapper
-rwxr-xr-x 1 steve analysis 1283 Mar 14 2005 fast
-rwxr-xr-x 1 steve analysis 1284 Mar 14 2005 mfast
-rwxr-xr-x 1 steve analysis 5741 Mar 14 2005 updatefeatreg
-rwxr-xr-x 1 steve analysis 1792908 Mar 24 2005 flame
-rwxr-xr-x 1 steve analysis 1205 May 27 2005 facalc
-rwxr-xr-x 1 steve analysis 1562341 May 27 2005 dtifit
-rwxr-xr-x 1 steve analysis 5856 Jul 8 15:00 slices
-rwxr-xr-x 1 steve analysis 4141 Aug 4 08:31 remove_ext
-rwxr-xr-x 1 steve analysis 4234 Aug 4 08:31 imtest
-rwxr-xr-x 1 steve analysis 3809 Aug 4 08:31 imrm
-rwxr-xr-x 1 steve analysis 5273 Aug 4 08:31 immv
-rwxr-xr-x 1 steve analysis 4278 Aug 4 08:31 imln
-rwxr-xr-x 1 steve analysis 4473 Aug 4 08:31 imglob
-rwxr-xr-x 1 steve analysis 5327 Aug 4 08:31 imcp
-rwxr-xr-x 1 steve analysis 1523534 Aug 4 09:54 fdr
-rwxr-xr-x 1 steve analysis 5223 Aug 4 09:54 renderhighres
-rwxr-xr-x 1 steve analysis 164230 Aug 4 09:54 ip_8UI
-rwxr-xr-x 1 steve analysis 164134 Aug 4 09:54 ip_8SI
-rwxr-xr-x 1 steve analysis 164646 Aug 4 09:54 ip_32UI
-rwxr-xr-x 1 steve analysis 163302 Aug 4 09:54 ip_32SI
-rwxr-xr-x 1 steve analysis 162758 Aug 4 09:54 ip_32R
-rwxr-xr-x 1 steve analysis 164710 Aug 4 09:54 ip_16UI
-rwxr-xr-x 1 steve analysis 163590 Aug 4 09:54 ip_16SI
-rwxr-xr-x 1 steve analysis 1026709 Aug 4 09:56 fast_exe
-rwxr-xr-x 1 steve analysis 1835646 Aug 4 09:59 flirt
-rwxr-xr-x 1 steve analysis 1497958 Aug 4 09:59 convert_xfm
-rwxr-xr-x 1 steve analysis 188363 Aug 4 10:01 avwmaths_8UI
-rwxr-xr-x 1 steve analysis 188139 Aug 4 10:01 avwmaths_8SI
-rwxr-xr-x 1 steve analysis 185803 Aug 4 10:01 avwmaths_64R
-rwxr-xr-x 1 steve analysis 189579 Aug 4 10:01 avwmaths_32UI
-rwxr-xr-x 1 steve analysis 187083 Aug 4 10:01 avwmaths_32SI
-rwxr-xr-x 1 steve analysis 185803 Aug 4 10:01 avwmaths_32R
-rwxr-xr-x 1 steve analysis 189355 Aug 4 10:01 avwmaths_16UI
-rwxr-xr-x 1 steve analysis 187243 Aug 4 10:01 avwmaths_16SI
-rwxr-xr-x 1 steve analysis 2230933 Aug 4 10:40 mm
-rwxr-xr-x 1 steve analysis 1493617 Aug 5 13:02 avwstats++
-rwxr-xr-x 1 steve analysis 643857 Aug 11 18:06 ttologp
-rwxr-xr-x 1 steve analysis 4354 Sep 1 15:33 betpremask
On Fri, 23 Dec 2005, Miller, Saul wrote:
> Hi Steve,
> I've been working with some system administrators in order to re-download the
> latest version of FSL onto our machines in order to fix this problem. However,
> they are a bit confused. I was wondering if you could clarify some questions? We
> downloaded our FSL 3.2b in August - was the avwstats++ bug fixed after that? If
> so, was it fixed in the 3.2b version or is there a new patch that can be
> downloaded? Thanks for the help.
> -Saul
>
> -----Original Message-----
> From: FSL - FMRIB's Software Library [mailto:[log in to unmask]]On
> Behalf Of Stephen Smith
> Sent: Friday, December 09, 2005 11:51 AM
> To: [log in to unmask]
> Subject: Re: [FSL] Featquery error
>
>
> Hi - I think that the problem is that avwstats++ is not working right -
> and this is probably the old bug that was fixed a few months ago - so if
> you redownload FSL from scratch hopefully things will start working ok.
>
> Cheers, Steve.
>
>
>
> On Fri, 9 Dec 2005, Miller, Saul wrote:
>
> > Steve, Here's the output from $thevals:
> >
> > 31.992584 -3625.955322 1350.703735 69507 556056.000000 Image Exception : #5 ::
> > Out of Bounds (time index)
> > expected floating-point number but got "Image"
> > while executing
> > "format %.2f $perc10 "
> > ("foreach" body line 122)
> > invoked from within
> > "foreach spaces { example_func highres standard } {
> >
> > if { $matchmask == 0 && [ imtest reg/$spaces ] &&
> > $maskdimx == [ exec sh -c "$FSLDIR/bin/avw..."
> > ("for" body line 75)
> > invoked from within
> > "for { set f 1 } { $f <= $featquery(multiple) } { incr f 1 } {
> >
> > #{{{ setup output dir and logging etc.
> >
> > set mask $origmask
> >
> > -Saul
> >
> > -----Original Message-----
> > From: FSL - FMRIB's Software Library [mailto:[log in to unmask]]On
> > Behalf Of Stephen Smith
> > Sent: Friday, December 09, 2005 11:06 AM
> > To: [log in to unmask]
> > Subject: Re: [FSL] Featquery error
> >
> >
> > Yep - this all looks fine - and what did $thevals contain?
> > Cheers.
> >
> >
> >
> > On Fri, 9 Dec 2005, Miller, Saul wrote:
> >
> > > Thanks for your help. Below is the output of the commands you requested.
> > >
> > >
> > > avwinfo stats/pe2.hdr -r -R
> > >
> > > dim1 128
> > > dim2 20
> > > dim3 128
> > > dim4 1
> > > datatype 16
> > > pixdim1 -2.0000000000
> > > pixdim2 2.0000000000
> > > pixdim3 2.0000000000
> > > pixdim4 0.0000000000
> > > cal_max 2618.0000
> > > cal_min 0.0000
> > > glmax 0
> > > glmin 0
> > > origin1 128
> > > origin2 182
> > > origin3 20
> > > file_type ANALYZE-7.5
> > >
> > > avwinfo example_func.hdr -r -R
> > >
> > > dim1 128
> > > dim2 20
> > > dim3 128
> > > dim4 1
> > > datatype 16
> > > pixdim1 -2.0000000000
> > > pixdim2 2.0000000000
> > > pixdim3 2.0000000000
> > > pixdim4 2.0000000000
> > > cal_max 2618.0000
> > > cal_min 0.0000
> > > glmax 0
> > > glmin 0
> > > origin1 128
> > > origin2 182
> > > origin3 20
> > > file_type ANALYZE-7.5
> > >
> > > avwstats++ stats/pe2.hdr -r -R
> > >
> > > -85.311234 148.591736 -3625.955322 1350.703735
> > >
> > > avwstats++ example_func.hdr -r -R
> > >
> > > 0.000000 992.935974 0.000000 2533.000000
> > >
> > >
> > >
> > >
> > >
> > > -----Original Message-----
> > > From: FSL - FMRIB's Software Library [mailto:[log in to unmask]]On
> > > Behalf Of Stephen Smith
> > > Sent: Friday, December 09, 2005 10:33 AM
> > > To: [log in to unmask]
> > > Subject: Re: [FSL] Featquery error
> > >
> > >
> > > Hi - the featquery call looks valid; it seems that either something is
> > > wrong with the
> > >
> /space/elvin/1/users/hires_hippo/FSL/HRFN04/analysis/boldenc01.feat/stats/pe2
> > > image or the
> > >
> >
> /space/elvin/1/users/hires_hippo/FSL/HRFN04/analysis/boldenc01.feat/example_func
> > > .hdr
> > > image. Could you run avwinfo and avwstats++ <im> -r -R on each of these.
> > >
> > > Also, you could edit $FSLDIR/bin/featquery and after the
> > > catch { exec sh -c "${FSLDIR}/bin/avwstats++ ....
> > > line insert
> > > puts "$thevals"
> > > and see what output it gives.
> > >
> > > Cheers, Steve.
> > >
> > >
> > >
> > > On Fri, 9 Dec 2005, Saul Miller wrote:
> > >
> > > > Hi,
> > > > I've tried to run Featquery on several different sets of data, but I keep
> > > > getting the same error every time. I'm not quite sure what this error is
> > > > refering to, so I'm not sure what to change. The error is below. Any help
> > > > would be appreciated. Thank you.
> > > > -Saul
> > > >
> > > > /usr/pubsw/packages/fsl/current/bin/featquery
> > > > 1 /space/elvin/1/users/hires_hippo/FSL/HRFN04/analysis/boldenc01.feat 1
> > > > stats/pe2
> /space/elvin/1/users/hires_hippo/FSL/HRFN04/analysis/boldenc01.fea
> > > > t/example_func.hdr
> > > > expected floating-point number but got "Image"
> > > > while executing
> > > > "format %.2f $perc10 "
> > > > ("foreach" body line 120)
> > > > invoked from within
> > > > "foreach spaces { example_func highres standard } {
> > > >
> > > > if { $matchmask == 0 && [ imtest reg/$spaces ] &&
> > > > $maskdimx == [ exec sh -c "$FSLDIR/bin/avw..."
> > > > ("for" body line 75)
> > > > 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/pubsw/packages/fsl/current/bin/featquery" line 152)
> > > >
> > >
> > >
> >
> >
>
>
--
Stephen M. Smith, Professor of Biomedical Engineering
Associate Director, Oxford University FMRIB Centre
FMRIB, John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
[log in to unmask] http://www.fmrib.ox.ac.uk/~steve
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