External Email - Use Caution haha. Thanks, works.
On Wed, Aug 25, 2021 at 7:49 PM Iglesias Gonzalez, Juan E. < jiglesiasgonza...@mgh.harvard.edu> wrote: > That must be a record! > > Seriously speaking: try adding -all to the command; I guarantee it won’t > take 4 seconds this time :-P > > Juan Eugenio Iglesias > Senior research fellow > CMIC (UCL), MGH (HMS) and CSAIL (MIT) > http://secure-web.cisco.com/1Q9HyXagUyT4lCMcetbg6yt7AnWPT9pldyicLP8-uK13t8fkXdETMILEHXdDAGz7qNgK8MBIkcb8HLpqYV-oxewpPioG_EspLQVYYhLHfLOvPXk3vSbb5DVJ6nRs2V4QwQZXulUxg2M2_GqOROHWi-TB9KyiBcPWmc4JGUIhhIGtJ6o3uCFNb6kCnhApPYc-Y4O-LPm1SacVHfhu2Ed2QzkGUtwgxu8u5MqaBpajJz7zSqpwpiURhxidPnsAAQhOMyMO5-qsvqwIExnTA9maNlw/http%3A%2F%2Fwww.jeiglesias.com > > On Aug 25, 2021, at 12:04, vin rasa <vimr...@gmail.com> wrote: > > External Email - Use Caution > > Dear Freesurfer Experts, > Greetings! > > I am trying to run freesurfer on Synthetic T1 data (see in snapshot: > *''Simulated > T1 image', last sentence in the snapshot*') from Brainweb (*MailScanner > has detected a possible fraud attempt from "secure-web.cisco.com" claiming > to be* > https://secure-web.cisco.com/1jlTJcPH2Z123dCmKJ2XGWu2qwl-BatM3mCIgVhwsiDIyhb8whhhtTEsew8YqgTo4wjLkuH1qKETfILsqQg7bVld1BfOTeDAux8zhhQzqPe1mH0Ce_Z46Z7ifN0gGAOUYc6aJgG80D5zV5nwAof8-41A0fdPo91POBTPr6BfkI8xI5wCQECTdjzjjYK_EPQXcQZRR_jtcFrgf9LG6ns_IK355o-18iv-JAVf2RtVDHWkLIxbjnsulDpZDC9RQ2vq8OR1rQ89xS4A_BUDsdaXCcA/https%3A%2F%2Fbrainweb.bic.mni.mcgill.ca%2Fanatomic_normal_20.html > <https://secure-web.cisco.com/1M8y2jTKqcaZLr3pWIX9ajloxBQ00by9kyM5AmTJvStE6dr5d7BqISQ4OX0IXN53ZgfgLg7fOkHGB7XNRBVvnJnU9CE4TEtRcWizxFRY_pRv26ETLXNIv5BPad84Buj7d3t9drquuWyy6sJ8OVKyynC7ZrWvntCYV05UdwauRqJ-Oj5s7jHBcdgH0rSemnHFVmzXqmZYZiC_RorP1GIfM75Xqw6gwIQhI5qvEOkv_yqtoRk3YLk-9S13Pwu3HA8eCnsiR73m0AaIeaLDbA5qYqg/https%3A%2F%2Fbrainweb.bic.mni.mcgill.ca%2Fanatomic_normal_20.html>) > . > > After i run recon-all, freesurfer ends without any error in 4 seconds. > > > ###### > >recon-all -i $data_dir/$i/mT1t.nii.gz -sd $rdir/results/freesurfer -s $i > > Subject Stamp: freesurfer-linux-centos7_x86_64-7.1.1-20200723-8b40551 > Current Stamp: freesurfer-linux-centos7_x86_64-7.1.1-20200723-8b40551 > INFO: SUBJECTS_DIR is /results/freesurfer > Actual FREESURFER_HOME /FreeSurfer/freesurfer-linux-centos8_x86_64-7.1.1 > > mri_convert /data/subject54_t1w_p4/mT1t.nii.gz > /results/freesurfer/subject54_t1w_p4/mri/orig/001.mgz > mri_convert /data/subject54_t1w_p4/mT1t.nii.gz > /results/freesurfer/subject54_t1w_p4/mri/orig/001.mgz > reading from /data/subject54_t1w_p4/mT1t.nii.gz... > TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 > i_ras = (1, 0, 0) > j_ras = (0, 1, 0) > k_ras = (0, 0, 1) > writing to /results/freesurfer/subject54_t1w_p4/mri/orig/001.mgz... > @#@FSTIME 2021:08:25:16:50:08 mri_convert N 2 e 3.56 S 0.08 U 2.84 P 82% > M 53580 F 0 R 12154 W 0 c 1228 w 1454 I 83632 O 83736 L 3.30 2.59 1.96 > @#@FSLOADPOST 2021:08:25:16:50:12 mri_convert N 2 3.27 2.59 1.97 > /results/freesurfer/subject54_t1w_p4/mri/transforms > /results/freesurfer/subject54_t1w_p4 > /results/freesurfer/subject54_t1w_p4 > > Started at Mi 25. Aug 16:50:07 CEST 2021 > Ended at Mi 25. Aug 16:50:13 CEST 2021 > #@#%# recon-all-run-time-hours 0.002 > recon-all -s subject54_t1w_p4 finished without error at Mi 25. Aug > 16:50:13 CEST 2021 > done > ###### > > Please help! > > Thanks! > > <image.png> > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://secure-web.cisco.com/17QYxP1UcRXp_uuW5xKORvDs2Z7vX5x0OJjypIlggHJWn45EmuVOzPhbk1OKn0kBjH4FnFIo9kHWk5PXh3Qerh71rqIisSKPzKnvuUK-5L7zBxX0YYdSUJWd7Fz1IDZIkKW8L8uj4gk0U_Ks0V793N2rLGI4VrNJKjLP8R0oLkWVjunqU7LspvM89zghlfhKitNcNAMWAHu_ecocPPMbf18OLcV9F4seuB3eURBysNrXJhPqJexVGRZZ8HxApWHUErhf2J-B4E9JHWNHsXCxQfA/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer > > > 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 Mass General > Brigham Compliance HelpLine at > http://secure-web.cisco.com/1Owmy2DujkCvlVfpkSze6Ieerxe9BNG_ZTKVsEBRcjUYPmkGjm3urytxIhNPBzjG3ZZQpO-xpNY1gwd54VyAUtbXOSHs-2zY_MSK8Bfct-VLhzu9U69SJ-n0XsJjIXD3EROLea4DOgqZjwjSl7DN5DT2F8JbkLRI61kjji9MBNaX9WvyzPwknTz7_7pm62rBVybDCQlzcGkdq6UZ2mMxbZUcR1gPVEiZmH-4nl_QIbv8m6eLtUK3lEHWTpMd341p947wwNdI47no_DBZXUDUxVA/http%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline > . 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. > > Please note that this e-mail is not secure (encrypted). If you do not > wish to continue communication over unencrypted e-mail, please notify the > sender of this message immediately. Continuing to send or respond to > e-mail after receiving this message means you understand and accept this > risk and wish to continue to communicate over unencrypted e-mail. >
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