[Freesurfer] checking talairach.lta

[Eric Cunningham]

Hi folks,
In previous threads, the command provided to check the talairach.lta is...

tkregister2 --mov $FREESURFER_HOME/average/RB_all_2008-03-26.gca \
--targ ../brainmask.mgz --lta-inv talairach.lta --reg
talairach.lta.reg.dat \  --surfs --s $subject


When I try to run this command, I run into trouble with the --lta-inv
portion.  (it is an unknown option).  I am running version 5.1.
Can anyone help?
Thanks,
-Eric
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Re: [Freesurfer] checking talairach.lta

[Douglas N Greve]

Try using this version 
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/tkregister2.bin
copy it into $FREESURFER_HOME/bin (but make a back up of the existing 
tkregister2.bin first!)
doug

On 11/02/2012 03:58 PM, Eric Cunningham wrote:
> Hi folks,
> In previous threads, the command provided to check the talairach.lta is...
> tkregister2 --mov $FREESURFER_HOME/average/RB_all_2008-03-26.gca \  --targ 
> ../brainmask.mgz --lta-inv talairach.lta --reg talairach.lta.reg.dat \  
> --surfs --s $subject
>
> When I try to run this command, I run into trouble with the --lta-inv 
> portion.  (it is an unknown option).  I am running version 5.1.
> Can anyone help?
> Thanks,
> -Eric
>
>
> ___
> 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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html

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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.

Re: [Freesurfer] checking talairach.lta

[Douglas N Greve]

are you sure you are using the new version?

On 11/05/2012 02:38 PM, Eric Cunningham wrote:
> tried the new version, and it errored out at the same step
>
> ERROR: Option --lta-inv unknown
>
> thanks again for your help!
>
> On Mon, Nov 5, 2012 at 8:16 AM, Douglas N Greve 
> mailto:gr...@nmr.mgh.harvard.edu>> wrote:
>
> Try using this version
> 
> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/tkregister2.bin
> copy it into $FREESURFER_HOME/bin (but make a back up of the existing
> tkregister2.bin first!)
> doug
>
> On 11/02/2012 03:58 PM, Eric Cunningham wrote:
> > Hi folks,
> > In previous threads, the command provided to check the
> talairach.lta is...
> > tkregister2 --mov $FREESURFER_HOME/average/RB_all_2008-03-26.gca
> \  --targ ../brainmask.mgz --lta-inv talairach.lta --reg
> talairach.lta.reg.dat \  --surfs --s $subject
> >
> > When I try to run this command, I run into trouble with the
> --lta-inv
> > portion.  (it is an unknown option).  I am running version 5.1.
> > Can anyone help?
> > Thanks,
> > -Eric
> >
> >
> > ___
> > 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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
> 
>
> ___
> 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.
>
>

-- 
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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html

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Re: [Freesurfer] checking talairach.lta

[Douglas N Greve]

I'm not sure that was the right thing to do. There should be two files: 
tkregister2 and tkregister2.bin. tkregister2 is just a script that calls 
tkregister2.bin after setting up some environment variables. Try keeping 
the original file name.
doug

On 11/05/2012 03:43 PM, Eric Cunningham wrote:
> i am sure
> there is one irregularity, namely that the '.bin' extension is absent 
> from our old file, so i renamed the new file without it (as 
> tkregister2) and moved the other one to tkregister2_backup
>
> the command i listed from previous threads was given to someone else 
> from our lab (and probably worked), so it is likely that the problem 
> is somewhere on our side, i was just hoping that it was known and 
> recognizable from the error
>
>
>
> On Mon, Nov 5, 2012 at 10:15 AM, Douglas N Greve 
> mailto:gr...@nmr.mgh.harvard.edu>> wrote:
>
> are you sure you are using the new version?
>
>
> On 11/05/2012 02:38 PM, Eric Cunningham wrote:
>
> tried the new version, and it errored out at the same step
>
> ERROR: Option --lta-inv unknown
>
> thanks again for your help!
>
> On Mon, Nov 5, 2012 at 8:16 AM, Douglas N Greve
> mailto:gr...@nmr.mgh.harvard.edu>
>  >> wrote:
>
> Try using this version
> 
> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/tkregister2.bin
> copy it into $FREESURFER_HOME/bin (but make a back up of
> the existing
> tkregister2.bin first!)
> doug
>
> On 11/02/2012 03:58 PM, Eric Cunningham wrote:
> > Hi folks,
> > In previous threads, the command provided to check the
> talairach.lta is...
> > tkregister2 --mov $FREESURFER_HOME/average/RB_all_2008-03-26.gca
> \  --targ ../brainmask.mgz --lta-inv talairach.lta --reg
> talairach.lta.reg.dat \  --surfs --s $subject
> >
> > When I try to run this command, I run into trouble with the
> --lta-inv
> > portion.  (it is an unknown option).  I am running version 5.1.
> > Can anyone help?
> > Thanks,
> > -Eric
> >
> >
> > ___
> > 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:
> www.nmr.mgh.harvard.edu/facility/filedrop/index.html
> 
> 
>
> ___
> 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.
>
>
>
> -- 
> 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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
> 
>
>

-- 
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
Fi

Re: [Freesurfer] checking talairach.lta

[Douglas Greve]

OK, I see the problem. I should have told you to put tkregsiter2.bin 
into /apps/fs510/tktools/ (after making a copy of the one there).

doug



On 11/5/12 5:00 PM, Eric Cunningham wrote:

[e4fs@cluster bin]$ ls -l `which tkregister2.bin`
-rwxr-xr--  1 jsadinol fs 21663433 May 22   2011 /apps/fs510/tktools/
tkregister2.bin

[e4fs@cluster bin]$ tkregister2 --all-info
ProgramName: tkregister2.in  ProgramArguments: 
--all-info   ProgramVersion:  $Name: stable5 $   TimeStamp: 
2012/11/05-21:43:36-GMT   BuildtimeStamp: May 22 2011 08:23:31   CVS: 
$Id: tkregister2.c,v 1.121.2.1 2011/03/28 20:25:16 greve Exp $User: 
e4fs  Machine: cluster.mrilab.net   
Playform: Linux PlatformVersion: 2.6.9-55.0.2.ELsmp  CompilerName: GCC 
CompilerVersion: 30400




fyi: /apps/fs510/ = $FREESURFER_HOME
i tried replacing this file in tktools with the new tkregister2.bin, 
and i get a new error:

/lib64/tls/libc.so.6:  version GLIBC_2.4 not found



On Mon, Nov 5, 2012 at 11:34 AM, Douglas N Greve 
mailto:gr...@nmr.mgh.harvard.edu>> wrote:


Can you send me the result of

ls -l `which tkregister2.bin`

and

tkregister2 --all-info


doug




On 11/05/2012 03:54 PM, Eric Cunningham wrote:

retried it, same error

new file is .bin, old file is tkregister2, no old
tkregister2.bin file appeared to be in the folder
$FREESURFER_HOME/bin

On Mon, Nov 5, 2012 at 10:49 AM, Douglas N Greve
mailto:gr...@nmr.mgh.harvard.edu>
>> wrote:

I'm not sure that was the right thing to do. There should
be two
files:
tkregister2 and tkregister2.bin. tkregister2 is just a
script that
calls
tkregister2.bin after setting up some environment
variables. Try
keeping
the original file name.
doug

On 11/05/2012 03:43 PM, Eric Cunningham wrote:
> i am sure
> there is one irregularity, namely that the '.bin'
extension is
absent
> from our old file, so i renamed the new file without it (as
> tkregister2) and moved the other one to tkregister2_backup
>
> the command i listed from previous threads was given to
someone else
> from our lab (and probably worked), so it is likely that
the problem
> is somewhere on our side, i was just hoping that it was
known and
> recognizable from the error
>
>
>
> On Mon, Nov 5, 2012 at 10:15 AM, Douglas N Greve
> mailto:gr...@nmr.mgh.harvard.edu>
>


> are you sure you are using the new version?
>
>
> On 11/05/2012 02:38 PM, Eric Cunningham wrote:
>
> tried the new version, and it errored out at the
same step
>
> ERROR: Option --lta-inv unknown
>
> thanks again for your help!
>
> On Mon, Nov 5, 2012 at 8:16 AM, Douglas N Greve
> mailto:gr...@nmr.mgh.harvard.edu>
>

>>
> 
>
> 
 wrote:
>
> Try using this version
>

ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/tkregister2.bin
> copy it into $FREESURFER_HOME/bin (but make
a back up of
> the existing
> tkregister2.bin first!)
> doug
>
> On 11/02/2012 03:58 PM, Eric Cunningham wrote:
> > Hi folks,
> > In previous threads, the command provided to check the
> talairach.lta is...
> > tkregister2 --mov
$FREESURFER_HOME/average/RB_all_2008-03-26.gca
> \  --targ ../brainmask.mgz --l

Re: [Freesurfer] checking talairach.lta

[Eric Cunningham]

i tried replacing this file in tktools with the new tkregister2.bin, and i
get a new error:
/lib64/tls/libc.so.6:  version GLIBC_2.4 not found


On Mon, Nov 5, 2012 at 6:06 PM, Douglas Greve wrote:

>
> OK, I see the problem. I should have told you to put tkregsiter2.bin into
> /apps/fs510/tktools/ (after making a copy of the one there).
> doug
>
>
>
>
> On 11/5/12 5:00 PM, Eric Cunningham wrote:
>
> [e4fs@cluster bin]$ ls -l `which tkregister2.bin`
> -rwxr-xr--  1 jsadinol fs 21663433 May 22   2011  /apps/fs510/tktools/
> tkregister2.bin
>
> [e4fs@cluster bin]$ tkregister2 --all-info
> ProgramName: tkregister2.in   ProgramArguments: --all-info
> ProgramVersion:  $Name: stable5 $   TimeStamp: 2012/11/05-21:43:36-GMT
> BuildtimeStamp: May 22 2011 08:23:31   CVS: $Id: tkregister2.c,v 1.121.2.1
> 2011/03/28 20:25:16 greve Exp $User: e4fs  Machine: cluster.mrilab.net
> Playform: Linux  PlatformVersion: 2.6.9-55.0.2.ELsmp  CompilerName: GCC
> CompilerVersion: 30400
>
>
>
> fyi: /apps/fs510/ = $FREESURFER_HOME
> i tried replacing this file in tktools with the new tkregister2.bin, and i
> get a new error:
> /lib64/tls/libc.so.6:  version GLIBC_2.4 not found
>
>
>
> On Mon, Nov 5, 2012 at 11:34 AM, Douglas N Greve <
> gr...@nmr.mgh.harvard.edu> wrote:
>
>> Can you send me the result of
>>
>> ls -l `which tkregister2.bin`
>>
>> and
>>
>> tkregister2 --all-info
>>
>>
>> doug
>>
>>
>>
>>
>> On 11/05/2012 03:54 PM, Eric Cunningham wrote:
>>
>>> retried it, same error
>>>
>>> new file is .bin, old file is tkregister2, no old tkregister2.bin file
>>> appeared to be in the folder $FREESURFER_HOME/bin
>>>
>>> On Mon, Nov 5, 2012 at 10:49 AM, Douglas N Greve <
>>> gr...@nmr.mgh.harvard.edu > wrote:
>>>
>>> I'm not sure that was the right thing to do. There should be two
>>> files:
>>> tkregister2 and tkregister2.bin. tkregister2 is just a script that
>>> calls
>>> tkregister2.bin after setting up some environment variables. Try
>>> keeping
>>> the original file name.
>>> doug
>>>
>>> On 11/05/2012 03:43 PM, Eric Cunningham wrote:
>>> > i am sure
>>> > there is one irregularity, namely that the '.bin' extension is
>>> absent
>>> > from our old file, so i renamed the new file without it (as
>>> > tkregister2) and moved the other one to tkregister2_backup
>>> >
>>> > the command i listed from previous threads was given to someone
>>> else
>>> > from our lab (and probably worked), so it is likely that the
>>> problem
>>> > is somewhere on our side, i was just hoping that it was known and
>>> > recognizable from the error
>>> >
>>> >
>>> >
>>> > On Mon, Nov 5, 2012 at 10:15 AM, Douglas N Greve
>>> > mailto:gr...@nmr.mgh.harvard.edu>
>>> >> >> wrote:
>>> >
>>> > are you sure you are using the new version?
>>> >
>>> >
>>> > On 11/05/2012 02:38 PM, Eric Cunningham wrote:
>>> >
>>> > tried the new version, and it errored out at the same step
>>> >
>>> > ERROR: Option --lta-inv unknown
>>> >
>>> > thanks again for your help!
>>> >
>>> > On Mon, Nov 5, 2012 at 8:16 AM, Douglas N Greve
>>> > mailto:gr...@nmr.mgh.harvard.edu>
>>> >> >>
>>> > > gr...@nmr.mgh.harvard.edu>
>>> > >> >> >
>>> > Try using this version
>>> >
>>>
>>> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/tkregister2.bin
>>> > copy it into $FREESURFER_HOME/bin (but make a back up
>>> of
>>> > the existing
>>> > tkregister2.bin first!)
>>> > doug
>>> >
>>> > On 11/02/2012 03:58 PM, Eric Cunningham wrote:
>>> > > Hi folks,
>>> > > In previous threads, the command provided to check the
>>> > talairach.lta is...
>>> > > tkregister2 --mov $FREESURFER_HOME/average/RB_all_2008-03-26.gca
>>> > \  --targ ../brainmask.mgz --lta-inv talairach.lta
>>> --reg
>>> > talairach.lta.reg.dat \  --surfs --s $subject
>>> > >
>>> > > When I try to run this command, I run into trouble with the
>>> > --lta-inv
>>> > > portion.  (it is an unknown option).  I am running version 5.1.
>>> > > Can anyone help?
>>> > > Thanks,
>>> > > -Eric
>>> > >
>>> > >
>>> > > ___
>>> > > Freesurfer mailing list
>>> > > Freesurfer@nmr.mgh.harvard.edu
>>> 
>>> > >> >
>>> > 

Re: [Freesurfer] checking talairach.lta

[Douglas N Greve]

This could be a number of things. Did you restore the tkregister2 to the 
original? The tkregister2.bin command was compiled under Redhat OS5. 
What OS are you using?
doug



On 11/07/2012 06:15 PM, Eric Cunningham wrote:
> i tried replacing this file in tktools with the new tkregister2.bin, 
> and i get a new error:
> /lib64/tls/libc.so.6:  version GLIBC_2.4 not found
>
>
> On Mon, Nov 5, 2012 at 6:06 PM, Douglas Greve 
> mailto:gr...@nmr.mgh.harvard.edu>> wrote:
>
>
> OK, I see the problem. I should have told you to put
> tkregsiter2.bin into /apps/fs510/tktools/ (after making a copy of
> the one there).
> doug
>
>
>
>
> On 11/5/12 5:00 PM, Eric Cunningham wrote:
>> [e4fs@cluster bin]$ ls -l `which tkregister2.bin`
>> -rwxr-xr--  1 jsadinol fs 21663433 May 22   2011 
>> /apps/fs510/tktools/
>> tkregister2.bin
>>
>> [e4fs@cluster bin]$ tkregister2 --all-info
>> ProgramName: tkregister2.in   
>> ProgramArguments: --all-info   ProgramVersion:  $Name: stable5
>> $   TimeStamp: 2012/11/05-21:43:36-GMT   BuildtimeStamp: May 22
>> 2011 08:23:31   CVS: $Id: tkregister2.c,v 1.121.2.1 2011/03/28
>> 20:25:16 greve Exp $User: e4fs  Machine: cluster.mrilab.net
>>   Playform: Linux  PlatformVersion:
>> 2.6.9-55.0.2.ELsmp  CompilerName: GCC CompilerVersion: 30400
>>
>>
>>
>> fyi: /apps/fs510/ = $FREESURFER_HOME
>> i tried replacing this file in tktools with the new
>> tkregister2.bin, and i get a new error:
>> /lib64/tls/libc.so.6:  version GLIBC_2.4 not found
>>
>>
>>
>> On Mon, Nov 5, 2012 at 11:34 AM, Douglas N Greve
>> mailto:gr...@nmr.mgh.harvard.edu>> wrote:
>>
>> Can you send me the result of
>>
>> ls -l `which tkregister2.bin`
>>
>> and
>>
>> tkregister2 --all-info
>>
>>
>> doug
>>
>>
>>
>>
>> On 11/05/2012 03:54 PM, Eric Cunningham wrote:
>>
>> retried it, same error
>>
>> new file is .bin, old file is tkregister2, no old
>> tkregister2.bin file appeared to be in the folder
>> $FREESURFER_HOME/bin
>>
>> On Mon, Nov 5, 2012 at 10:49 AM, Douglas N Greve
>> > 
>> > >> wrote:
>>
>> I'm not sure that was the right thing to do. There
>> should be two
>> files:
>> tkregister2 and tkregister2.bin. tkregister2 is just
>> a script that
>> calls
>> tkregister2.bin after setting up some environment
>> variables. Try
>> keeping
>> the original file name.
>> doug
>>
>> On 11/05/2012 03:43 PM, Eric Cunningham wrote:
>> > i am sure
>> > there is one irregularity, namely that the '.bin'
>> extension is
>> absent
>> > from our old file, so i renamed the new file without it (as
>> > tkregister2) and moved the other one to tkregister2_backup
>> >
>> > the command i listed from previous threads was given to
>> someone else
>> > from our lab (and probably worked), so it is likely
>> that the problem
>> > is somewhere on our side, i was just hoping that it was
>> known and
>> > recognizable from the error
>> >
>> >
>> >
>> > On Mon, Nov 5, 2012 at 10:15 AM, Douglas N Greve
>> > > 
>> > >
>> > 
>> > > >
>> > are you sure you are using the new version?
>> >
>> >
>> > On 11/05/2012 02:38 PM, Eric Cunningham wrote:
>> >
>> > tried the new version, and it errored out at
>> the same step
>> >
>> > ERROR: Option --lta-inv unknown
>> >
>> > thanks again for your help!
>> >
>> > On Mon, Nov 5, 2012 at 8:16 AM, Douglas N Greve
>> > > 
>> > >
>> > 
>> > >>
>> > 

Re: [Freesurfer] checking talairach.lta

[Douglas N Greve]

yes, that info will be helpful
doug

On 11/09/2012 03:46 AM, Knut J Bjuland wrote:
> Could you please send the information in /etc/redhat-release  or the 
> first lines when you start dmesg |less to the list. Do the cluster 
> have Ubuntu or Redhat Linux?
>
> Knut J Bjuland
>
> On 08. nov. 2012 20:19, Eric Cunningham wrote:
>> i did restore tkregister2 to the original
>>
>> as for OS, uname -a yields:
>>
>> Linux cluster.mrilab.net  
>> 2.6.9-55.0.2.ELsmp #1 SMP Tue Jun 26 14:14:47 EDT 2007 x86_64 x86_64 
>> x86_64 GNU/Linux
>>
>> does that answer your question?  i am less than completely familiar 
>> with linux, and would welcome advice from anyone more experienced than i.
>>
>> thank you,
>> -eric
>>
>> On Thu, Nov 8, 2012 at 6:05 AM, Douglas N Greve 
>> mailto:gr...@nmr.mgh.harvard.edu>> wrote:
>>
>>
>> This could be a number of things. Did you restore the tkregister2
>> to the original? The tkregister2.bin command was compiled under
>> Redhat OS5. What OS are you using?
>> doug
>>
>>
>>
>>
>> On 11/07/2012 06:15 PM, Eric Cunningham wrote:
>>
>> i tried replacing this file in tktools with the new
>> tkregister2.bin, and i get a new error:
>> /lib64/tls/libc.so.6:  version GLIBC_2.4 not found
>>
>>
>> On Mon, Nov 5, 2012 at 6:06 PM, Douglas Greve
>> mailto:gr...@nmr.mgh.harvard.edu>
>> > >> wrote:
>>
>>
>> OK, I see the problem. I should have told you to put
>> tkregsiter2.bin into /apps/fs510/tktools/ (after making a
>> copy of
>> the one there).
>> doug
>>
>>
>>
>>
>> On 11/5/12 5:00 PM, Eric Cunningham wrote:
>>
>> [e4fs@cluster bin]$ ls -l `which tkregister2.bin`
>> -rwxr-xr--  1 jsadinol fs 21663433 May 22   2011
>> /apps/fs510/tktools/
>> tkregister2.bin
>>
>> [e4fs@cluster bin]$ tkregister2 --all-info
>> ProgramName: tkregister2.in 
>>   ProgramArguments:
>> --all-info   ProgramVersion:  $Name: stable5
>>
>> $   TimeStamp: 2012/11/05-21:43:36-GMT  
>> BuildtimeStamp: May 22
>> 2011 08:23:31   CVS: $Id: tkregister2.c,v 1.121.2.1
>> 2011/03/28
>> 20:25:16 greve Exp $User: e4fs  Machine:
>> cluster.mrilab.net 
>>   Playform: Linux
>>  PlatformVersion:
>>
>> 2.6.9-55.0.2.ELsmp  CompilerName: GCC
>> CompilerVersion: 30400
>>
>>
>>
>> fyi: /apps/fs510/ = $FREESURFER_HOME
>> i tried replacing this file in tktools with the new
>> tkregister2.bin, and i get a new error:
>> /lib64/tls/libc.so.6:  version GLIBC_2.4 not found
>>
>>
>>
>> On Mon, Nov 5, 2012 at 11:34 AM, Douglas N Greve
>> > 
>> > >> wrote:
>>
>> Can you send me the result of
>>
>> ls -l `which tkregister2.bin`
>>
>> and
>>
>> tkregister2 --all-info
>>
>>
>> doug
>>
>>
>>
>>
>> On 11/05/2012 03:54 PM, Eric Cunningham wrote:
>>
>> retried it, same error
>>
>> new file is .bin, old file is tkregister2, no old
>> tkregister2.bin file appeared to be in the folder
>> $FREESURFER_HOME/bin
>>
>> On Mon, Nov 5, 2012 at 10:49 AM, Douglas N Greve
>> mailto:gr...@nmr.mgh.harvard.edu>
>> > >
>> > 
>> > >
>> I'm not sure that was the right thing to
>> do. There
>> should be two
>> files:
>> tkregister2 and tkregister2.bin.
>> tkregister2 is just
>> a script that
>> calls
>> tkregister2.bin after setting up some
>> environment
>> variables. Try
>> keeping
>> the original file name.
>> doug
>>
>> On 11/05/2012 03:43 PM, Eric Cunningham
>> wrote

Re: [Freesurfer] checking talairach.lta

[Douglas N Greve]

Oh, you have CentOS4, try this version instead
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/tkregister2.bin.centos4.0_x86_64

doug


On 11/09/2012 02:23 PM, Eric Cunningham wrote:
> thanks for the tip knut.
> it appears to be redhat CentOS release 4.6
> -eric
>
> On Fri, Nov 9, 2012 at 6:49 AM, Douglas N Greve 
> mailto:gr...@nmr.mgh.harvard.edu>> wrote:
>
> yes, that info will be helpful
> doug
>
> On 11/09/2012 03:46 AM, Knut J Bjuland wrote:
> > Could you please send the information in /etc/redhat-release  or the
> > first lines when you start dmesg |less to the list. Do the cluster
> > have Ubuntu or Redhat Linux?
> >
> > Knut J Bjuland
> >
> > On 08. nov. 2012 20:19, Eric Cunningham wrote:
> >> i did restore tkregister2 to the original
> >>
> >> as for OS, uname -a yields:
> >>
> >> Linux cluster.mrilab.net 
> 
> >> 2.6.9-55.0.2.ELsmp #1 SMP Tue Jun 26 14:14:47 EDT 2007 x86_64
> x86_64
> >> x86_64 GNU/Linux
> >>
> >> does that answer your question?  i am less than completely familiar
> >> with linux, and would welcome advice from anyone more
> experienced than i.
> >>
> >> thank you,
> >> -eric
> >>
> >> On Thu, Nov 8, 2012 at 6:05 AM, Douglas N Greve
> >> mailto:gr...@nmr.mgh.harvard.edu>
>  >> wrote:
> >>
> >>
> >> This could be a number of things. Did you restore the
> tkregister2
> >> to the original? The tkregister2.bin command was compiled under
> >> Redhat OS5. What OS are you using?
> >> doug
> >>
> >>
> >>
> >>
> >> On 11/07/2012 06:15 PM, Eric Cunningham wrote:
> >>
> >> i tried replacing this file in tktools with the new
> >> tkregister2.bin, and i get a new error:
> >> /lib64/tls/libc.so.6:  version GLIBC_2.4 not found
> >>
> >>
> >> On Mon, Nov 5, 2012 at 6:06 PM, Douglas Greve
> >> mailto:gr...@nmr.mgh.harvard.edu>
> >
> >>  
> >>   >>
> >>
> >> OK, I see the problem. I should have told you to put
> >> tkregsiter2.bin into /apps/fs510/tktools/ (after
> making a
> >> copy of
> >> the one there).
> >> doug
> >>
> >>
> >>
> >>
> >> On 11/5/12 5:00 PM, Eric Cunningham wrote:
> >>
> >> [e4fs@cluster bin]$ ls -l `which tkregister2.bin`
> >> -rwxr-xr--  1 jsadinol fs 21663433 May 22   2011
> >> /apps/fs510/tktools/
> >> tkregister2.bin
> >>
> >> [e4fs@cluster bin]$ tkregister2 --all-info
> >> ProgramName: tkregister2.in
>  
> >>   ProgramArguments:
> >> --all-info   ProgramVersion:  $Name: stable5
> >>
> >> $   TimeStamp: 2012/11/05-21:43:36-GMT
> >> BuildtimeStamp: May 22
> >> 2011 08:23:31   CVS: $Id: tkregister2.c,v 1.121.2.1
> >> 2011/03/28
> >> 20:25:16 greve Exp $User: e4fs  Machine:
> >> cluster.mrilab.net 
> 
> >>   Playform: Linux
> >>  PlatformVersion:
> >>
> >> 2.6.9-55.0.2.ELsmp  CompilerName: GCC
> >> CompilerVersion: 30400
> >>
> >>
> >>
> >> fyi: /apps/fs510/ = $FREESURFER_HOME
> >> i tried replacing this file in tktools with the new
> >> tkregister2.bin, and i get a new error:
> >> /lib64/tls/libc.so.6:  version GLIBC_2.4 not found
> >>
> >>
> >>
> >> On Mon, Nov 5, 2012 at 11:34 AM, Douglas N Greve
> >> mailto:gr...@nmr.mgh.harvard.edu>
> >>  >
> >>  
> >>   >>
> >> Can you send me the result of
> >>
> >> ls -l `which tkregister2.bin`
> >>
> >> and
> >>
> >> tkregister2 --all-info
> >>
> >>
> >> doug
> >>
> >>
> >>
> >>
> >> On 11/05/2