Re: [Freesurfer] mri_info crashing (bits stored vs bits allocated?)
Hi John apparently Nick already fixed this bug. If you send us the details of your hardware/software environment we'll send you updated mri_info and mri_convert binaries cheers Bruce On Wed, 20 Mar 2013, Ostuni, John (NIH/NINDS) [E] wrote: > We have a data set that mri_info cannot work with. > > We've tried multiple architectures and freesurfer versions, but mri_info > either crashes with segmentation fault or generates errors such as > *** glibc detected *** mri_info: free(): invalid pointer: 0x006b > *** > > One feature of the data set is that the bits stored(12) is different than the > bits allocated(16). > Could this be the problem? > > I have an anonymized version of the data set I can upload if that helps. > > Thanks for any assistance, > John > > > > ___ > 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] mri_info crashing (bits stored vs bits allocated?)
HI I have similar problem and filled a bug report at. Product: Fedorahttps://bugzilla.redhat.com/show_bug.cgi?id=905638 Patsy Franklin changed: What |Removed |Added Flags|needinfo?(pfrankli@redhat.c | |om) | Flags|needinfo?(pfrankli@redhat.c | |om) | --- Comment #27 from Patsy Franklin --- The most immediate solution is for the application to be changed to use a compliant crypt salt value. After further investigation, we found that the application is passing unsupported, nonstandard salt to crypt(). This will result in crypt() returning NULL and setting errno to EINVAL. It does not appear that the application is checking for a NULL return value from crypt. It also appears that the application is using this NULL return value in a subsequent function call resulting in a segmentation fault. Previously glibc would accept unsupported salt values, but newer versions of the library have become stricter. We are currently reviewing the implementation to see if the accepted salt values can be expanded while still meeting our standards compliance requirements. -- Knut J On 03/20/2013 09:59 PM, Bruce Fischl wrote: > Hi John > > if you email it to me I'll take a look > Bruce > On Wed, 20 Mar 2013, Ostuni, John > (NIH/NINDS) [E] wrote: > >> We have a data set that mri_info cannot work with. >> >> We've tried multiple architectures and freesurfer versions, but mri_info >> either crashes with segmentation fault or generates errors such as >> *** glibc detected *** mri_info: free(): invalid pointer: 0x006b >> *** >> >> One feature of the data set is that the bits stored(12) is different than >> the bits allocated(16). >> Could this be the problem? >> >> I have an anonymized version of the data set I can upload if that helps. >> >> Thanks for any assistance, >>John >> >> >> >> ___ >> 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] mri_info crashing (bits stored vs bits allocated?)
Hi John if you email it to me I'll take a look Bruce On Wed, 20 Mar 2013, Ostuni, John (NIH/NINDS) [E] wrote: > We have a data set that mri_info cannot work with. > > We've tried multiple architectures and freesurfer versions, but mri_info > either crashes with segmentation fault or generates errors such as > *** glibc detected *** mri_info: free(): invalid pointer: 0x006b > *** > > One feature of the data set is that the bits stored(12) is different than the > bits allocated(16). > Could this be the problem? > > I have an anonymized version of the data set I can upload if that helps. > > Thanks for any assistance, > John > > > > ___ > 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] mri_info crashing (bits stored vs bits allocated?)
We have a data set that mri_info cannot work with. We've tried multiple architectures and freesurfer versions, but mri_info either crashes with segmentation fault or generates errors such as *** glibc detected *** mri_info: free(): invalid pointer: 0x006b *** One feature of the data set is that the bits stored(12) is different than the bits allocated(16). Could this be the problem? I have an anonymized version of the data set I can upload if that helps. Thanks for any assistance, John ___ 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.
