300mb is fine. --------------------------------------------------------------------- Pedro Paulo de Magalhães Oliveira Junior Netfilter & SpeedComm Telecom -- www.netfilter.com.br -- For mobile: http://itunes.apple.com/br/artist/netfilter/id365306441
On Mon, Feb 24, 2014 at 3:01 PM, Durai Arasan <dura...@gmail.com> wrote: > Hi Freesurfer experts, > > I am successfully running recon-all on my cluster. However I find that the > subject folders have sizes ranging from 300mb to 900mb. > > I grepped all recon-all.log files for "finished without error" and that > seemed fine for all subjects. > > But I would like to know what is the expected subject folder size when you > run recon-all (with -all option) starting from a standard MPRAGE T1 image. > This might be useful since I have limited control over the cluster nodes > where the processing takes place. > > Thank you > Durai > > > On Mon, Feb 17, 2014 at 2:55 AM, Durai Arasan <dura...@gmail.com> wrote: > >> Hi Freesurfer experts, >> >> so I got this error when I ran recon-all on my cluster. I am really >> hoping this is just a case of missing GCC libraries and nothing is wrong >> with the Freesurfer installation on the nodes. Kindly confirm this. >> >> Thank you >> >> >> ********************************************************************************************************************************** >> >> Subject Stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 >> Current Stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 >> INFO: SUBJECTS_DIR is /****************** >> Actual FREESURFER_HOME /************************************** >> Linux ***************************** SMP Fri Mar 22 05:41:51 EDT 2013 >> x86_64 x86_64 x86_64 GNU/Linux >> mri_convert: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_convert) >> mri_convert: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mri_convert) >> mri_convert: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mri_convert) >> mri_convert: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_convert) >> mri_convert: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mri_convert) >> mri_convert: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mri_convert) >> tkregister2_cmdl: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by tkregister2_cmdl) >> tkregister2_cmdl: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by tkregister2_cmdl) >> tkregister2_cmdl: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by tkregister2_cmdl) >> mri_make_uchar: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_make_uchar) >> mri_make_uchar: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mri_make_uchar) >> mri_make_uchar: /lib64/libc.so.6: version `GLIBC_2.7' not found (required >> by mri_make_uchar) >> mri_normalize: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_normalize) >> mri_normalize: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mri_normalize) >> mri_normalize: /lib64/libc.so.6: version `GLIBC_2.7' not found (required >> by mri_normalize) >> mri_watershed: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_watershed) >> mri_watershed: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mri_watershed) >> mri_watershed: /lib64/libc.so.6: version `GLIBC_2.7' not found (required >> by mri_watershed) >> mri_gcut: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not found >> (required by mri_gcut) >> mri_gcut: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mri_gcut) >> mri_gcut: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mri_gcut) >> mri_segment: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_segment) >> mri_segment: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mri_segment) >> mri_segment: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mri_segment) >> mri_label2label: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_label2label) >> mri_label2label: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mri_label2label) >> mri_label2label: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mri_label2label) >> mri_em_register: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_em_register) >> mri_em_register: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mri_em_register) >> mri_em_register: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mri_em_register) >> mri_ca_normalize: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_ca_normalize) >> mri_ca_normalize: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mri_ca_normalize) >> mri_ca_normalize: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mri_ca_normalize) >> mri_ca_register: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_ca_register) >> mri_ca_register: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mri_ca_register) >> mri_ca_register: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mri_ca_register) >> mri_ca_label: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_ca_label) >> mri_ca_label: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mri_ca_label) >> mri_ca_label: /lib64/libc.so.6: version `GLIBC_2.7' not found (required >> by mri_ca_label) >> mri_pretess: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_pretess) >> mri_pretess: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mri_pretess) >> mri_pretess: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mri_pretess) >> mri_fill: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not found >> (required by mri_fill) >> mri_fill: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mri_fill) >> mri_fill: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mri_fill) >> mri_tessellate: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_tessellate) >> mri_tessellate: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mri_tessellate) >> mri_tessellate: /lib64/libc.so.6: version `GLIBC_2.7' not found (required >> by mri_tessellate) >> mri_concatenate_lta: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' >> not found (required by mri_concatenate_lta) >> mri_concatenate_lta: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' >> not found (required by mri_concatenate_lta) >> mri_concatenate_lta: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mri_concatenate_lta) >> mri_normalize_tp2: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' >> not found (required by mri_normalize_tp2) >> mri_normalize_tp2: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mri_normalize_tp2) >> mri_normalize_tp2: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mri_normalize_tp2) >> mris_smooth: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mris_smooth) >> mris_smooth: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mris_smooth) >> mris_smooth: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mris_smooth) >> mris_inflate: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mris_inflate) >> mris_inflate: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mris_inflate) >> mris_inflate: /lib64/libc.so.6: version `GLIBC_2.7' not found (required >> by mris_inflate) >> mris_curvature: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mris_curvature) >> mris_curvature: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mris_curvature) >> mris_curvature: /lib64/libc.so.6: version `GLIBC_2.7' not found (required >> by mris_curvature) >> mris_sphere: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mris_sphere) >> mris_sphere: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mris_sphere) >> mris_sphere: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mris_sphere) >> mris_fix_topology: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' >> not found (required by mris_fix_topology) >> mris_fix_topology: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mris_fix_topology) >> mris_fix_topology: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mris_fix_topology) >> mris_topo_fixer: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mris_topo_fixer) >> mris_topo_fixer: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mris_topo_fixer) >> mris_topo_fixer: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mris_topo_fixer) >> mris_ca_label: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mris_ca_label) >> mris_ca_label: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mris_ca_label) >> mris_ca_label: /lib64/libc.so.6: version `GLIBC_2.7' not found (required >> by mris_ca_label) >> mris_euler_number: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' >> not found (required by mris_euler_number) >> mris_euler_number: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mris_euler_number) >> mris_euler_number: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mris_euler_number) >> mris_make_surfaces: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' >> not found (required by mris_make_surfaces) >> mris_make_surfaces: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' >> not found (required by mris_make_surfaces) >> mris_make_surfaces: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mris_make_surfaces) >> mris_register: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mris_register) >> mris_register: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mris_register) >> mris_register: /lib64/libc.so.6: version `GLIBC_2.7' not found (required >> by mris_register) >> mris_volmask: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mris_volmask) >> mris_volmask: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mris_volmask) >> mris_volmask: /lib64/libc.so.6: version `GLIBC_2.7' not found (required >> by mris_volmask) >> mris_anatomical_stats: /usr/lib64/libstdc++.so.6: version >> `GLIBCXX_3.4.11' not found (required by mris_anatomical_stats) >> mris_anatomical_stats: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' >> not found (required by mris_anatomical_stats) >> mris_anatomical_stats: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mris_anatomical_stats) >> mrisp_paint: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mrisp_paint) >> mrisp_paint: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mrisp_paint) >> mrisp_paint: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mrisp_paint) >> mris_curvature_stats: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' >> not found (required by mris_curvature_stats) >> mris_curvature_stats: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' >> not found (required by mris_curvature_stats) >> mris_curvature_stats: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mris_curvature_stats) >> mris_calc: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not found >> (required by mris_calc) >> mris_calc: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mris_calc) >> mris_calc: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mris_calc) >> mri_robust_register: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' >> not found (required by mri_robust_register) >> mri_robust_register: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' >> not found (required by mri_robust_register) >> mri_robust_register: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mri_robust_register) >> mri_robust_template: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' >> not found (required by mri_robust_template) >> mri_robust_template: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' >> not found (required by mri_robust_template) >> mri_robust_template: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mri_robust_template) >> mri_and: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not found >> (required by mri_and) >> mri_and: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mri_and) >> mri_and: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mri_and) >> mri_or: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not found >> (required by mri_or) >> mri_or: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mri_or) >> mri_or: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mri_or) >> mri_fuse_segmentations: /usr/lib64/libstdc++.so.6: version >> `GLIBCXX_3.4.11' not found (required by mri_fuse_segmentations) >> mri_fuse_segmentations: /usr/lib64/libstdc++.so.6: version >> `GLIBCXX_3.4.9' not found (required by mri_fuse_segmentations) >> mri_fuse_segmentations: /lib64/libc.so.6: version `GLIBC_2.7' not found >> (required by mri_fuse_segmentations) >> mri_segstats: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_segstats) >> mri_segstats: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not >> found (required by mri_segstats) >> mri_segstats: /lib64/libc.so.6: version `GLIBC_2.7' not found (required >> by mri_segstats) >> /****************/***444 >> >> mri_convert /********************/***_mp.nii >> /*******************/****444/mri/orig/001.mgz >> >> mri_convert: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not >> found (required by mri_convert) >> mri_convert: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not found >> (required by mri_convert) >> mri_convert: /lib64/libc.so.6: version `GLIBC_2.7' not found (required by >> mri_convert) >> Linux ************************************ ************************ SMP >> Fri Mar 22 ******** EDT 2013 x86_64 x86_64 x86_64 GNU/Linux >> >> recon-all -s ***444 exited with ERRORS at Mon Feb 17 02:24:00 EST 2014 >> >> For more details, see the log file >> **********************/***444/scripts/recon-all.log >> To report a problem, see >> http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> >> >> >> > > _______________________________________________ > 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 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.
