External Email - Use Caution Hi Bruce, same result.
Question, Is it possible run two recon-all at the same time? Emanuel On Thu, Nov 7, 2019 at 4:41 PM Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > hmmm, does it always happen for this subject? What if you don't use > -parallel? > On Thu, 7 Nov 2019, Emanuel Alvaredo wrote: > > > > > External Email - Use Caution > > > > Hi Bruce! Thanks for answer!! > > * The command line is > > > > recon-all -s SUBJECT_NAME -i > > > /patients/SUBJECT_NAME/2_COGNITIVO/4_Accelerated_Ax_IR-FSPGR/i1602413.MRDC.127 > -all -parallel > > > > > > > > * In this mail is attached the log. There is > > > > Segmentation fault (core dumped) > > > > * This happens running when I call a process from a Java application, > but too if I run the > > command manually. > > > > > > > > I think this is the problem, but I dont know why. > > > > Thanks in advance > > > > > > Emanuel > > > > > > On Wed, Oct 30, 2019 at 10:51 AM Bruce Fischl < > fis...@nmr.mgh.harvard.edu> wrote: > > Hi Emanuel > > > > can you give us more details. What was your command line? What was > the > > full job output? What is in the recon-all.log? Does this happen if > you > > run directly instead of through some type of batch server? > > > > cheers > > Bruce > > On Wed, 30 Oct > > 2019, Emanuel Alvaredo wrote: > > > > > > > > External Email - Use Caution > > > > > > Hello Developers! > > > I am getting the same error in several patients (not all). The > common error > > > between all of them is this line > > > > > > Waiting for PID 2778 of (2778 2781) to complete... > > > /usr/local/freesurfer/bin/reconbatchjobs: line 81: 2778 > Segmentation fault > > > (core dumped) exec $JOB >> $LOG 2>&1 > > > Waiting for PID 2781 of (2778 2781) to complete... > > > > > > Any idea? > > > > > > Thanks in advance! > > > > > > > > > > > > Emanuel > > > > > > > > > On Tue, Oct 1, 2019 at 5:07 PM Emanuel Alvaredo < > ealvar...@gmail.com> wrote: > > > > > > Hello FreeSurfer Developers, > > > > > > I am running de following command > > > /usr/local/freesurfer/subjects/SOME_SUBJECT > > > /usr/local/freesurfer/bin/recon-all > > > -s SOME_SUBJECT -i > /fleni/patients/KING_LUCAS_JAVIER_25-09-2019/2_COGNITIVO_ > > > FLENI/4_Accelerated_Ax_IR-FSPGR/i2750291.MRDC.58 - > > > all -parallel > > > I've searched the list and no similar errors have been reported. > Does anyone > > > have any thoughts on how to trouble-shoot this one? Also, Ive > attached the > > > recon-all.log in case it's of any use. > > > I have checked the log but I dont find de cause. > > > > > > 1) FreeSurfer > version:freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb > > > 96c > > > 2) Platform:Intel(R) Core(TM) i9-9900K CPU @ 3.60GHz > > > 3) uname -a: Linux fisicos-ub2 5.0.0-29-generic > #31~18.04.1-Ubuntu SMP Thu S > > > ep 12 18:29:21 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux > > > 4) recon-all.log: see attached > > > Thanks in advance > > > Emanuel > > > > > > > > >_______________________________________________ > > 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
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