Re: [Freesurfer] error with mris_make_face_parcellation
what are you using as lh.surf? It should be ?h.sphere or ?h.sphere.reg On 3/24/17 12:12 PM, Almarshad F. wrote: Hi freesurfer's experts; I was trying to use mris_make_face_parcellation lh.surf $FREESURFER_HOME/lib/bem/ic3.tri ./lh.ic3.annot to generate uniform-sized parcellation .. but i get the following error *** Error in `mris_make_face_parcellation': double free or corruption (out): 0x03fec560 *** === Backtrace: = /lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7f96d00ef7e5] /lib/x86_64-linux-gnu/libc.so.6(+0x7fe0a)[0x7f96d00f7e0a] /lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7f96d00fb98c] mris_make_face_parcellation[0x41065b] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f96d0098830] mris_make_face_parcellation[0x40b529] i also attached the log file kidest regards, fatima ___ 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.
Re: [Freesurfer] error with mris_make_face_parcellation
With the ?h.sphere it gives the message (INFO: CATBunique( ) could not find a unique set in 100 tries) ! From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve Sent: 24 March 2017 16:20 To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] error with mris_make_face_parcellation what are you using as lh.surf? It should be ?h.sphere or ?h.sphere.reg On 3/24/17 12:12 PM, Almarshad F. wrote: Hi freesurfer's experts; I was trying to use mris_make_face_parcellation lh.surf $FREESURFER_HOME/lib/bem/ic3.tri ./lh.ic3.annot to generate uniform-sized parcellation .. but i get the following error *** Error in `mris_make_face_parcellation': double free or corruption (out): 0x03fec560 *** === Backtrace: = /lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7f96d00ef7e5] /lib/x86_64-linux-gnu/libc.so.6(+0x7fe0a)[0x7f96d00f7e0a] /lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7f96d00fb98c] mris_make_face_parcellation[0x41065b] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f96d0098830] mris_make_face_parcellation[0x40b529] i also attached the log file kidest regards, fatima ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto: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.
Re: [Freesurfer] error with mris_make_face_parcellation
can you please send your complete command line and all screen output? thanks Bruce On Fri, 24 Mar 2017, Almarshad F. wrote: With the ?h.sphere it gives the message (INFO: CATBunique( ) could not find a unique set in 100 tries) ! From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve Sent: 24 March 2017 16:20 To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] error with mris_make_face_parcellation what are you using as lh.surf? It should be ?h.sphere or ?h.sphere.reg On 3/24/17 12:12 PM, Almarshad F. wrote: Hi freesurfer's experts; I was trying to use mris_make_face_parcellation lh.surf $FREESURFER_HOME/lib /bem/ic3.tri ./lh.ic3.annot to generate uniform-sized parcellation .. but i get the following error *** Error in `mris_make_face_parcellation': double free or corruption (out): 0x03fec560 *** === Backtrace: = /lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7f96d00ef7e5] /lib/x86_64-linux-gnu/libc.so.6(+0x7fe0a)[0x7f96d00f7e0a] /lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7f96d00fb98c] mris_make_face_parcellation[0x41065b] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f96d0098830] mris_make_face_parcellation[0x40b529] i also attached the log file kidest regards, fatima ___ 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.
Re: [Freesurfer] error with mris_make_face_parcellation
can you just send it as text? Screen shots are not nearly as useful for us On Fri, 24 Mar 2017, Almarshad F. wrote: > i attached a screen shot of the command and the output > > > mris_make_face_parcellation lh.sphere.reg $FREESURFER_HOME/lib/bem/ic3.tri > ./lh.ic3.annot > > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl > [fis...@nmr.mgh.harvard.edu] > Sent: Friday, March 24, 2017 5:15 PM > To: Freesurfer support list > Subject: Re: [Freesurfer] error with mris_make_face_parcellation > > can you please send your complete command line and all screen output? > > thanks > Bruce > On > Fri, 24 Mar 2017, Almarshad F. wrote: > >> >> With the ?h.sphere it gives the message (INFO: CATBunique( ) could not find >> a unique set in 100 tries) ! >> >> >> >> >> >> From: freesurfer-boun...@nmr.mgh.harvard.edu >> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve >> Sent: 24 March 2017 16:20 >> To: freesurfer@nmr.mgh.harvard.edu >> Subject: Re: [Freesurfer] error with mris_make_face_parcellation >> >> >> >> what are you using as lh.surf? It should be ?h.sphere or ?h.sphere.reg >> >> >> >> On 3/24/17 12:12 PM, Almarshad F. wrote: >> >> Hi freesurfer's experts; >> >> >> >> >> >> I was trying to use mris_make_face_parcellation lh.surf $FREESURFER_HOME/lib >> /bem/ic3.tri ./lh.ic3.annot to generate uniform-sized parcellation .. >> >> >> >> but i get the following error >> >> >> >> >> >> *** Error in `mris_make_face_parcellation': double free or corruption (out): >> 0x03fec560 *** >> >> === Backtrace: = >> >> /lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7f96d00ef7e5] >> >> /lib/x86_64-linux-gnu/libc.so.6(+0x7fe0a)[0x7f96d00f7e0a] >> >> /lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7f96d00fb98c] >> >> mris_make_face_parcellation[0x41065b] >> >> /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f96d0098830] >> >> mris_make_face_parcellation[0x40b529] >> >> >> >> i also attached the log file >> >> >> >> kidest regards, >> >> fatima >> >> >> >> >> >> >> ___ >> >> Freesurfer mailing list >> >> Freesurfer@nmr.mgh.harvard.edu >> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> >> >> ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Re: [Freesurfer] error with mris_make_face_parcellation
~/Downloads/tutorial_data/buckner_data/tutorial_subjs/004/surf$ mris_make_face_parcellation lh.sphere.reg $FREESURFER_HOME/lib/bem/ic3.tri ./lh.ic3.annot From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl [fis...@nmr.mgh.harvard.edu] Sent: Friday, March 24, 2017 5:48 PM To: Freesurfer support list Subject: Re: [Freesurfer] error with mris_make_face_parcellation can you just send it as text? Screen shots are not nearly as useful for us On Fri, 24 Mar 2017, Almarshad F. wrote: > i attached a screen shot of the command and the output > > > mris_make_face_parcellation lh.sphere.reg $FREESURFER_HOME/lib/bem/ic3.tri > ./lh.ic3.annot > > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl > [fis...@nmr.mgh.harvard.edu] > Sent: Friday, March 24, 2017 5:15 PM > To: Freesurfer support list > Subject: Re: [Freesurfer] error with mris_make_face_parcellation > > can you please send your complete command line and all screen output? > > thanks > Bruce > On > Fri, 24 Mar 2017, Almarshad F. wrote: > >> >> With the ?h.sphere it gives the message (INFO: CATBunique( ) could not find >> a unique set in 100 tries) ! >> >> >> >> >> >> From: freesurfer-boun...@nmr.mgh.harvard.edu >> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve >> Sent: 24 March 2017 16:20 >> To: freesurfer@nmr.mgh.harvard.edu >> Subject: Re: [Freesurfer] error with mris_make_face_parcellation >> >> >> >> what are you using as lh.surf? It should be ?h.sphere or ?h.sphere.reg >> >> >> >> On 3/24/17 12:12 PM, Almarshad F. wrote: >> >> Hi freesurfer's experts; >> >> >> >> >> >> I was trying to use mris_make_face_parcellation lh.surf $FREESURFER_HOME/lib >> /bem/ic3.tri ./lh.ic3.annot to generate uniform-sized parcellation .. >> >> >> >> but i get the following error >> >> >> >> >> >> *** Error in `mris_make_face_parcellation': double free or corruption (out): >> 0x03fec560 *** >> >> === Backtrace: = >> >> /lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7f96d00ef7e5] >> >> /lib/x86_64-linux-gnu/libc.so.6(+0x7fe0a)[0x7f96d00f7e0a] >> >> /lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7f96d00fb98c] >> >> mris_make_face_parcellation[0x41065b] >> >> /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f96d0098830] >> >> mris_make_face_parcellation[0x40b529] >> >> >> >> i also attached the log file >> >> >> >> kidest regards, >> >> fatima >> >> >> >> >> >> >> ___ >> >> Freesurfer mailing list >> >> Freesurfer@nmr.mgh.harvard.edu >> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> >> >> ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] error with mris_make_face_parcellation
can you send the command line and the terminal output as plain text in the email? On 3/24/17 1:50 PM, Almarshad F. wrote: > ~/Downloads/tutorial_data/buckner_data/tutorial_subjs/004/surf$ > mris_make_face_parcellation lh.sphere.reg $FREESURFER_HOME/lib/bem/ic3.tri > ./lh.ic3.annot > > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl > [fis...@nmr.mgh.harvard.edu] > Sent: Friday, March 24, 2017 5:48 PM > To: Freesurfer support list > Subject: Re: [Freesurfer] error with mris_make_face_parcellation > > can you just send it as text? Screen shots are not nearly as useful for > us > On Fri, 24 Mar 2017, Almarshad F. wrote: > >> i attached a screen shot of the command and the output >> >> >> mris_make_face_parcellation lh.sphere.reg $FREESURFER_HOME/lib/bem/ic3.tri >> ./lh.ic3.annot >> >> From: freesurfer-boun...@nmr.mgh.harvard.edu >> [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl >> [fis...@nmr.mgh.harvard.edu] >> Sent: Friday, March 24, 2017 5:15 PM >> To: Freesurfer support list >> Subject: Re: [Freesurfer] error with mris_make_face_parcellation >> >> can you please send your complete command line and all screen output? >> >> thanks >> Bruce >> On >> Fri, 24 Mar 2017, Almarshad F. wrote: >> >>> With the ?h.sphere it gives the message (INFO: CATBunique( ) could not find >>> a unique set in 100 tries) ! >>> >>> >>> >>> >>> >>> From: freesurfer-boun...@nmr.mgh.harvard.edu >>> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve >>> Sent: 24 March 2017 16:20 >>> To: freesurfer@nmr.mgh.harvard.edu >>> Subject: Re: [Freesurfer] error with mris_make_face_parcellation >>> >>> >>> >>> what are you using as lh.surf? It should be ?h.sphere or ?h.sphere.reg >>> >>> >>> >>> On 3/24/17 12:12 PM, Almarshad F. wrote: >>> >>> Hi freesurfer's experts; >>> >>> >>> >>> >>> >>> I was trying to use mris_make_face_parcellation lh.surf $FREESURFER_HOME/lib >>> /bem/ic3.tri ./lh.ic3.annot to generate uniform-sized parcellation .. >>> >>> >>> >>> but i get the following error >>> >>> >>> >>> >>> >>> *** Error in `mris_make_face_parcellation': double free or corruption (out): >>> 0x03fec560 *** >>> >>> === Backtrace: = >>> >>> /lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7f96d00ef7e5] >>> >>> /lib/x86_64-linux-gnu/libc.so.6(+0x7fe0a)[0x7f96d00f7e0a] >>> >>> /lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7f96d00fb98c] >>> >>> mris_make_face_parcellation[0x41065b] >>> >>> /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f96d0098830] >>> >>> mris_make_face_parcellation[0x40b529] >>> >>> >>> >>> i also attached the log file >>> >>> >>> >>> kidest regards, >>> >>> fatima >>> >>> >>> >>> >>> >>> >>> ___ >>> >>> 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. > > > ___ > 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
Re: [Freesurfer] error with mris_make_face_parcellation
/usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7ff209848000-7ff20995 r-xp 08:01 2234165 /lib/x86_64-linux-gnu/libm-2.23.so 7ff20995-7ff209b4f000 ---p 00108000 08:01 2234165 /lib/x86_64-linux-gnu/libm-2.23.so 7ff209b4f000-7ff209b5 r--p 00107000 08:01 2234165 /lib/x86_64-linux-gnu/libm-2.23.so 7ff209b5-7ff209b51000 rw-p 00108000 08:01 2234165 /lib/x86_64-linux-gnu/libm-2.23.so 7ff209b51000-7ff209cc3000 r-xp 08:01 25830265 /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21 7ff209cc3000-7ff209ec3000 ---p 00172000 08:01 25830265 /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21 7ff209ec3000-7ff209ecd000 r--p 00172000 08:01 25830265 /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21 7ff209ecd000-7ff209ecf000 rw-p 0017c000 08:01 25830265 /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21 7ff209ecf000-7ff209ed3000 rw-p 00:00 0 7ff209ed3000-7ff209eeb000 r-xp 08:01 2234178 /lib/x86_64-linux-gnu/libpthread-2.23.so 7ff209eeb000-7ff20a0ea000 ---p 00018000 08:01 2234178 /lib/x86_64-linux-gnu/libpthread-2.23.so 7ff20a0ea000-7ff20a0eb000 r--p 00017000 08:01 2234178 /lib/x86_64-linux-gnu/libpthread-2.23.so 7ff20a0eb000-7ff20a0ec000 rw-p 00018000 08:01 2234178 /lib/x86_64-linux-gnu/libpthread-2.23.so 7ff20a0ec000-7ff20a0f rw-p 00:00 0 7ff20a0f-7ff20a0f3000 r-xp 08:01 2234163 /lib/x86_64-linux-gnu/libdl-2.23.so 7ff20a0f3000-7ff20a2f2000 ---p 3000 08:01 2234163 /lib/x86_64-linux-gnu/libdl-2.23.so 7ff20a2f2000-7ff20a2f3000 r--p 2000 08:01 2234163 /lib/x86_64-linux-gnu/libdl-2.23.so 7ff20a2f3000-7ff20a2f4000 rw-p 3000 08:01 2234163 /lib/x86_64-linux-gnu/libdl-2.23.so 7ff20a2f4000-7ff20a2fd000 r-xp 08:01 2234182 /lib/x86_64-linux-gnu/libcrypt-2.23.so 7ff20a2fd000-7ff20a4fc000 ---p 9000 08:01 2234182 /lib/x86_64-linux-gnu/libcrypt-2.23.so 7ff20a4fc000-7ff20a4fd000 r--p 8000 08:01 2234182 /lib/x86_64-linux-gnu/libcrypt-2.23.so 7ff20a4fd000-7ff20a4fe000 rw-p 9000 08:01 2234182 /lib/x86_64-linux-gnu/libcrypt-2.23.so 7ff20a4fe000-7ff20a52c000 rw-p 00:00 0 7ff20a52c000-7ff20a545000 r-xp 08:01 2232918 /lib/x86_64-linux-gnu/libz.so.1.2.8 7ff20a545000-7ff20a744000 ---p 00019000 08:01 2232918 /lib/x86_64-linux-gnu/libz.so.1.2.8 7ff20a744000-7ff20a745000 r--p 00018000 08:01 2232918 /lib/x86_64-linux-gnu/libz.so.1.2.8 7ff20a745000-7ff20a746000 rw-p 00019000 08:01 2232918 /lib/x86_64-linux-gnu/libz.so.1.2.8 7ff20a746000-7ff20a76c000 r-xp 08:01 2234168 /lib/x86_64-linux-gnu/ld-2.23.so 7ff20a949000-7ff20a951000 rw-p 00:00 0 7ff20a968000-7ff20a96b000 rw-p 00:00 0 7ff20a96b000-7ff20a96c000 r--p 00025000 08:01 2234168 /lib/x86_64-linux-gnu/ld-2.23.so 7ff20a96c000-7ff20a96d000 rw-p 00026000 08:01 2234168 /lib/x86_64-linux-gnu/ld-2.23.so 7ff20a96d000-7ff20a96e000 rw-p 00:00 0 7ffc1ff2c000-7ffc20087000 rw-p 00:00 0 [stack] 7ffc200df000-7ffc200e1000 r--p 00:00 0 [vvar] 7ffc200e1000-7ffc200e3000 r-xp 00:00 0 [vdso] ff60-ff601000 r-xp 00:00 0 [vsyscall] Aborted (core dumped) fatima@fatima-DQ67SW:~/Downloads/tutorial_data/buckner_data/tutorial_subjs/004/surf$ cd ~ From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl [fis...@nmr.mgh.harvard.edu] Sent: Friday, March 24, 2017 5:48 PM To: Freesurfer support list Subject: Re: [Freesurfer] error with mris_make_face_parcellation can you just send it as text? Screen shots are not nearly as useful for us On Fri, 24 Mar 2017, Almarshad F. wrote: > i attached a screen shot of the command and the output > > > mris_make_face_parcellation lh.sphere.reg $FREESURFER_HOME/lib/bem/ic3.tri > ./lh.ic3.annot From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas Greve [gr...@nmr.mgh.harvard.edu] Sent: Friday, March 24, 2017 6:07 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] error with mris_make_face_parcellation can you send the command line and the terminal output as plain text in the email? On 3/24/17 1:50 PM, Almarshad F. wrote: > ~/Downloads/tutorial_data/buckner_data/tutorial_subjs/004/surf$ > mris_make_face_parcellation lh.sphere.reg $FREESURFER_HO
Re: [Freesurfer] error with mris_make_face_parcellation
> /lib/x86_64-linux-gnu/libgcc_s.so.1 > 7ff209625000-7ff209626000 rw-p 00015000 08:01 2232765 > /lib/x86_64-linux-gnu/libgcc_s.so.1 > 7ff209626000-7ff209647000 r-xp 08:01 25829649 > /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 > 7ff209647000-7ff209846000 ---p 00021000 08:01 25829649 > /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 > 7ff209846000-7ff209847000 r--p 0002 08:01 25829649 > /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 > 7ff209847000-7ff209848000 rw-p 00021000 08:01 25829649 > /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 > 7ff209848000-7ff20995 r-xp 08:01 2234165 > /lib/x86_64-linux-gnu/libm-2.23.so > 7ff20995-7ff209b4f000 ---p 00108000 08:01 2234165 > /lib/x86_64-linux-gnu/libm-2.23.so > 7ff209b4f000-7ff209b5 r--p 00107000 08:01 2234165 > /lib/x86_64-linux-gnu/libm-2.23.so > 7ff209b5-7ff209b51000 rw-p 00108000 08:01 2234165 > /lib/x86_64-linux-gnu/libm-2.23.so > 7ff209b51000-7ff209cc3000 r-xp 08:01 25830265 > /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21 > 7ff209cc3000-7ff209ec3000 ---p 00172000 08:01 25830265 > /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21 > 7ff209ec3000-7ff209ecd000 r--p 00172000 08:01 25830265 > /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21 > 7ff209ecd000-7ff209ecf000 rw-p 0017c000 08:01 25830265 > /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21 > 7ff209ecf000-7ff209ed3000 rw-p 00:00 0 > 7ff209ed3000-7ff209eeb000 r-xp 08:01 2234178 > /lib/x86_64-linux-gnu/libpthread-2.23.so > 7ff209eeb000-7ff20a0ea000 ---p 00018000 08:01 2234178 > /lib/x86_64-linux-gnu/libpthread-2.23.so > 7ff20a0ea000-7ff20a0eb000 r--p 00017000 08:01 2234178 > /lib/x86_64-linux-gnu/libpthread-2.23.so > 7ff20a0eb000-7ff20a0ec000 rw-p 00018000 08:01 2234178 > /lib/x86_64-linux-gnu/libpthread-2.23.so > 7ff20a0ec000-7ff20a0f rw-p 00:00 0 > 7ff20a0f-7ff20a0f3000 r-xp 08:01 2234163 > /lib/x86_64-linux-gnu/libdl-2.23.so > 7ff20a0f3000-7ff20a2f2000 ---p 3000 08:01 2234163 > /lib/x86_64-linux-gnu/libdl-2.23.so > 7ff20a2f2000-7ff20a2f3000 r--p 2000 08:01 2234163 > /lib/x86_64-linux-gnu/libdl-2.23.so > 7ff20a2f3000-7ff20a2f4000 rw-p 3000 08:01 2234163 > /lib/x86_64-linux-gnu/libdl-2.23.so > 7ff20a2f4000-7ff20a2fd000 r-xp 08:01 2234182 > /lib/x86_64-linux-gnu/libcrypt-2.23.so > 7ff20a2fd000-7ff20a4fc000 ---p 9000 08:01 2234182 > /lib/x86_64-linux-gnu/libcrypt-2.23.so > 7ff20a4fc000-7ff20a4fd000 r--p 8000 08:01 2234182 > /lib/x86_64-linux-gnu/libcrypt-2.23.so > 7ff20a4fd000-7ff20a4fe000 rw-p 9000 08:01 2234182 > /lib/x86_64-linux-gnu/libcrypt-2.23.so > 7ff20a4fe000-7ff20a52c000 rw-p 00:00 0 > 7ff20a52c000-7ff20a545000 r-xp 08:01 2232918 > /lib/x86_64-linux-gnu/libz.so.1.2.8 > 7ff20a545000-7ff20a744000 ---p 00019000 08:01 2232918 > /lib/x86_64-linux-gnu/libz.so.1.2.8 > 7ff20a744000-7ff20a745000 r--p 00018000 08:01 2232918 > /lib/x86_64-linux-gnu/libz.so.1.2.8 > 7ff20a745000-7ff20a746000 rw-p 00019000 08:01 2232918 > /lib/x86_64-linux-gnu/libz.so.1.2.8 > 7ff20a746000-7ff20a76c000 r-xp 08:01 2234168 > /lib/x86_64-linux-gnu/ld-2.23.so > 7ff20a949000-7ff20a951000 rw-p 00:00 0 > 7ff20a968000-7ff20a96b000 rw-p 00:00 0 > 7ff20a96b000-7ff20a96c000 r--p 00025000 08:01 2234168 > /lib/x86_64-linux-gnu/ld-2.23.so > 7ff20a96c000-7ff20a96d000 rw-p 00026000 08:01 2234168 > /lib/x86_64-linux-gnu/ld-2.23.so > 7ff20a96d000-7ff20a96e000 rw-p 00:00 0 > 7ffc1ff2c000-7ffc20087000 rw-p 00:00 0 > [stack] > 7ffc200df000-7ffc200e1000 r--p 00:00 0 > [vvar] > 7ffc200e1000-7ffc200e3000 r-xp 00:00 0 > [vdso] > ff60-ff601000 r-xp 00:00 0 > [vsyscall] > Aborted (core dumped) > fatima@fatima-DQ67SW:~/Downloads/tutorial_data/buckner_data/tutorial_subjs/004/surf$ > cd ~ > > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl > [fis...@nmr.mgh.harvard.edu] &
Re: [Freesurfer] error with mris_make_face_parcellation
Everything just disappear and the first line that I can see is this CTABannotationAtIndex: index -1 was OOB -Original Message- From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl Sent: 24 March 2017 18:20 To: Freesurfer support list Subject: Re: [Freesurfer] error with mris_make_face_parcellation can you send us say the first 10 lines of the output? This command runs fine for me on another dataset On Fri, 24 Mar 2017, Almarshad F. wrote: > the command line exactly is this > > -DQ67SW:~/Downloads/tutorial_data/buckner_data/tutorial_subjs/004/surf > $ mris_make_face_parcellation lh.sphere.reg > $FREESURFER_HOME/lib/bem/ic3.tri ./lh.ic3.annot > > and the output are many lines of this i coundt evevn copy them all > "CTABannotationAtIndex: index -1 was OOB > CTABannotationAtIndex: index -1 was OOB > CTABannotationAtIndex: index -1 was OOB > CTABannotationAtIndex: index -1 was OOB > CTABannotationAtIndex: index -1 was OOB > CTABannotationAtIndex: index -1 was OOB > CTABannotationAtIndex: index -1 was OOB > CTABannotationAtIndex: index -1 was OOB > CTABannotationAtIndex: index -1 was OOB > CTABannotationAtIndex: index -1 was OOB" > > *** Error in `mris_make_face_parcellation': double free or corruption > (out): 0x02f7ad80 *** === Backtrace: = > /lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7ff2090be7e5] > /lib/x86_64-linux-gnu/libc.so.6(+0x7fe0a)[0x7ff2090c6e0a] > /lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7ff2090ca98c] > mris_make_face_parcellation[0x41065b] > /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7ff209067830 > ] > mris_make_face_parcellation[0x40b529] > === Memory map: > 0040-00929000 r-xp 08:01 3020757 > /home/fatima/Downloads/freesurfer/bin/mris_make_face_parcellation > 00b28000-00b66000 rw-p 00528000 08:01 3020757 > /home/fatima/Downloads/freesurfer/bin/mris_make_face_parcellation > 00b66000-00b78000 rw-p 00:00 0 > 0247-07cb6000 rw-p 00:00 0 > [heap] > 7ff1fc00-7ff1fc021000 rw-p 00:00 0 > 7ff1fc021000-7ff2 ---p 00:00 0 > 7ff202566000-7ff20852f000 rw-p 00:00 0 > 7ff20852f000-7ff208807000 r--p 08:01 25821537 > /usr/lib/locale/locale-archive > 7ff208807000-7ff208812000 r-xp 08:01 2234171 > /lib/x86_64-linux-gnu/libnss_files-2.23.so > 7ff208812000-7ff208a11000 ---p b000 08:01 2234171 > /lib/x86_64-linux-gnu/libnss_files-2.23.so > 7ff208a11000-7ff208a12000 r--p a000 08:01 2234171 > /lib/x86_64-linux-gnu/libnss_files-2.23.so > 7ff208a12000-7ff208a13000 rw-p b000 08:01 2234171 > /lib/x86_64-linux-gnu/libnss_files-2.23.so > 7ff208a13000-7ff208a19000 rw-p 00:00 0 > 7ff208a19000-7ff208a24000 r-xp 08:01 2234164 > /lib/x86_64-linux-gnu/libnss_nis-2.23.so > 7ff208a24000-7ff208c23000 ---p b000 08:01 2234164 > /lib/x86_64-linux-gnu/libnss_nis-2.23.so > 7ff208c23000-7ff208c24000 r--p a000 08:01 2234164 > /lib/x86_64-linux-gnu/libnss_nis-2.23.so > 7ff208c24000-7ff208c25000 rw-p b000 08:01 2234164 > /lib/x86_64-linux-gnu/libnss_nis-2.23.so > 7ff208c25000-7ff208c3b000 r-xp 08:01 2234166 > /lib/x86_64-linux-gnu/libnsl-2.23.so > 7ff208c3b000-7ff208e3a000 ---p 00016000 08:01 2234166 > /lib/x86_64-linux-gnu/libnsl-2.23.so > 7ff208e3a000-7ff208e3b000 r--p 00015000 08:01 2234166 > /lib/x86_64-linux-gnu/libnsl-2.23.so > 7ff208e3b000-7ff208e3c000 rw-p 00016000 08:01 2234166 > /lib/x86_64-linux-gnu/libnsl-2.23.so > 7ff208e3c000-7ff208e3e000 rw-p 00:00 0 > 7ff208e3e000-7ff208e46000 r-xp 08:01 2234173 > /lib/x86_64-linux-gnu/libnss_compat-2.23.so > 7ff208e46000-7ff209045000 ---p 8000 08:01 2234173 > /lib/x86_64-linux-gnu/libnss_compat-2.23.so > 7ff209045000-7ff209046000 r--p 7000 08:01 2234173 > /lib/x86_64-linux-gnu/libnss_compat-2.23.so > 7ff209046000-7ff209047000 rw-p 8000 08:01 2234173 > /lib/x86_64-linux-gnu/libnss_compat-2.23.so > 7ff209047000-7ff209206000 r-xp 08:01 2234167 > /lib/x86_64-linux-gnu/libc-2.23.so > 7ff209206000-7ff209406000 ---p 001bf000 08:01 2234167 > /lib/x86_64-linux-gnu/libc-2.23.so > 7ff209406000-7ff20940a000 r--p 001bf000 08:01 2234167 > /lib/x86_64-linux-gnu/lib
