Hi Bruce, I have now re-uploaded all the requested files and info via the ftp site (see below). The zipped file name is fsMedialSurfaceProblem.zip
Name (surfer.nmr.mgh.harvard.edu:Bronwyn): anonymous 331 Please specify the password. Password: 230 Login successful. Remote system type is UNIX. Using binary mode to transfer files. ftp> cd transfer/incoming 250 Directory successfully changed. ftp> put fsMedialSurfaceProblem.zip local: fsMedialSurfaceProblem.zip remote: fsMedialSurfaceProblem.zip 229 Entering Extended Passive Mode (|||37889|). 150 Ok to send data. 100% |***********************************| 2017 MiB 51.01 KiB/s 00:00 ETA 226 Transfer complete. 2116019235 bytes sent in 11:15:08 (51.01 KiB/s) Kind regards, Bronwyn Overs Research Assistant Neuroscience Research Australia Margarete Ainsworth Building Barker Street Randwick Sydney NSW 2031 Australia M 0411 308 769 T +61 2 9399 1883 F +61 2 9399 1265 neura.edu.au <http://neura.edu.au/> <https://twitter.com/neuraustralia> <https://www.facebook.com/NeuroscienceResearchAustralia> <http://www.neura.edu.au/help-research/subscribe> > On 5 Jul 2017, at 3:40 am, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > > sure. Can you upload the data again to our ftp site? Don't use the filedrop - > use ftp and make sure you include the cross and the long of all the > timepoints for this subject, and also the coordinates of the location you are > seeing the problem > > > cheers > Bruce > > > On Tue, 4 Jul 2017, Bronwyn Overs wrote: > >> Thanks Bruce. >> Kind regards, >> Bronwyn Overs >> Research Assistant >> Neuroscience Research Australia >> Neuroscience Research Australia >> Margarete Ainsworth Building >> Barker Street Randwick Sydney NSW 2031 Australia >> M 0411 308 769 T +61 2 9399 1883 F +61 2 9399 1265 >> neura.edu.au >> Follow @neuraustralia on twitter Follow NeuRA on facebook Subscribe to the >> NeuRA Magazine >> >> On 3 Jul 2017, at 11:55 pm, Bruce Fischl >> <fis...@nmr.mgh.harvard.edu> wrote: >> Hi Bronwyn >> not yet, but we'll get to it soon >> cheers >> Bruce >> On Mon, 3 Jul 2017, Bronwyn Overs wrote: >> >> Hi Bruce, >> Just wanted to check in on the status of reviewing our >> medial surface >> problem. Any luck so far? >> Kind regards, >> Bronwyn Overs >> Research Assistant >> Neuroscience Research Australia >> Neuroscience Research Australia >> Margarete Ainsworth Building >> Barker Street Randwick Sydney NSW 2031 Australia >> M 0411 308 769 T +61 2 9399 1883 F +61 2 9399 1265 >> neura.edu.au >> Follow @neuraustralia on twitter Follow NeuRA on facebook >> Subscribe to the >> NeuRA Magazine >> >> On 14 Jun 2017, at 9:52 am, Bronwyn Overs >> <b.ov...@neura.edu.au> >> wrote: >> Hi Bruce, >> That's fine, thanks very much. >> Bronwyn Overs >> Research Assistant >> <neura-logo-email.png> >> Neuroscience Research Australia >> Margarete Ainsworth Building >> Barker Street Randwick Sydney NSW 2031 Australia >> M 0411 308 769 T +61 2 9399 1883 >> neura.edu.au >> Twitter | Facebook | Subscribe >> ___________________________________________________________________________ >> _ >> From: "Bruce Fischl" <fis...@nmr.mgh.harvard.edu> >> To: "Freesurfer support list" >> <freesurfer@nmr.mgh.harvard.edu> >> Sent: Wednesday, 14 June, 2017 00:02:04 >> Subject: Re: [Freesurfer] Medial Surface Problem >> thanks Bronwyn >> I got them. It will take a bit for us to get to as this is >> in the long >> stream and we have a new postdoc who will be taking it >> over. >> cheers >> Bruce >> On Tue, 13 Jun >> 2017, Bronwyn Overs wrote: >> > Hi Bruce, >> > Sure, files have been dropped again. >> > >> > Kind regards, >> > >> > Bronwyn Overs >> > Research Assistant >> > >> > Neuroscience Research Australia >> > >> > Neuroscience Research Australia >> > Margarete Ainsworth Building >> > Barker Street Randwick Sydney NSW 2031 Australia >> > M 0411 308 769 T +61 2 9399 1883 F +61 2 9399 1265 >> > >> > neura.edu.au >> > >> > Follow @neuraustralia on twitter Follow NeuRA on >> facebook Subscribe >> to the >> > NeuRA Magazine >> > >> > >> > On 13 Jun 2017, at 11:44 am, Bruce Fischl >> > <fis...@nmr.mgh.harvard.edu> wrote: >> > >> > Hi Bronwyn >> > Can you filedrop it again? I don't think I have it >> > Thanks >> > Bruce >> > >> > On May 15, 2017, at 8:27 PM, Bronwyn Overs >> <b.ov...@neura.edu.au> >> > wrote: >> > >> > Hi Bruce, >> > Thank you for offering to take a look at this medial >> surface >> > problem. >> > >> > I have uploaded all of the relevant files to through the >> > Martinos Centre FileDrop v2.0 to your email address >> > (fis...@nmr.mgh.harvard.edu). Please let me know if you >> require >> > any additional information. >> > >> > Kind regards, >> > >> > Bronwyn Overs >> > Research Assistant >> > >> > Neuroscience Research Australia >> > >> > Neuroscience Research Australia >> > Margarete Ainsworth Building >> > Barker Street Randwick Sydney NSW 2031 Australia >> > M 0411 308 769 T +61 2 9399 1883 F +61 2 9399 1265 >> > >> > neura.edu.au >> > >> > Follow @neuraustralia on twitter Follow NeuRA on >> facebook >> > Subscribe to the NeuRA Magazine >> > >> > >> > On 5 May 2017, at 8:25 am, Bruce Fischl >> > <fis...@nmr.mgh.harvard.edu> wrote: >> > >> > if someone can upload a dataset as well as the exact >> > coordinates of the problem I'll take a look >> > >> > cheers >> > Bruce >> > >> > On Fri, 5 May 2017, Yann Quidé wrote: >> > >> > Hi all, >> > We also have the same issue, any >> > idea/suggestion? >> > Thanks. >> > Yann >> > >> > On 27 Apr 2017, at 9:43 am, Bronwyn Overs >> > <b.ov...@neura.edu.au> >> > wrote: >> > Hi Mailing List, >> > Still trying to solve the below medial surface >> > problem. Does anyone >> > have any ideas? >> > Kind regards, >> > Bronwyn Overs >> > Research Assistant >> > Neuroscience Research Australia >> > Neuroscience Research Australia >> > Margarete Ainsworth Building >> > Barker Street Randwick Sydney NSW 2031 >> > Australia >> > M 0411 308 769 T +61 2 9399 1883 F +61 2 9399 >> > 1265 >> > neura.edu.au >> > Follow @neuraustralia on twitter Follow NeuRA >> > on facebook Subscribe to >> > the NeuRA Magazine >> > >> > On 28 Mar 2017, at 10:51 pm, Yann Quidé >> > <yannqu...@gmail.com> wrote: >> > Dear all, >> > I have an equivalent issue with my data. Any >> > idea on how to fix >> > this? >> > Thanks. >> > Yann >> > >> > Begin forwarded message: >> > From: Bronwyn Overs <b.ov...@neura.edu.au> >> > Subject: Re: [Freesurfer] Medial Surface >> > Problem >> > Date: 20 March 2017 10:28:37 am AEDT >> > To: Freesurfer support list >> > <freesurfer@nmr.mgh.harvard.edu> >> > Reply-To: Freesurfer support list >> > <freesurfer@nmr.mgh.harvard.edu> >> > Hello again mailing list, >> > Can anyone address the possible cause of the >> > medial >> > surface problem shown below (overestimating of >> > rh medial >> > surface, shows up in the long image and not >> > the tp or base >> > images). Forgot to mention that I am using >> > freesurfer v5.3 >> > with an updated mris_make_surfaces binary >> > (sourced from >> > thedevelopmentversionat >> ftp://surfer.nmr.mgh.harvard.edu//pub/dist/freesurf >> er/ >> dev_binarie >> > s/cento >> > s6_x86_64/ ). >> > Here is the image again: >> > <unknown.png> >> > Kind regards, >> > Bronwyn Overs >> > Research Assistant >> > Neuroscience Research Australia >> > Neuroscience Research Australia >> > Margarete Ainsworth Building >> > Barker Street Randwick Sydney NSW 2031 >> > Australia >> > M 0411 308 769 T +61 2 9399 1883 F +61 2 9399 >> > 1265 >> > neura.edu.au >> > Follow @neuraustralia on twitter Follow NeuRA >> > on facebook >> > Subscribe to the NeuRA Magazine >> > >> > On 6 Mar 2017, at 1:17 pm, Bronwyn Overs >> > <b.ov...@neura.edu.au> wrote: >> > Hi mailing list, >> > I am currently processing a longitudinal image >> > and >> > have come across a problem at the medial >> > surface in >> > the long image (step 3). As you can see in the >> > attached image, the rh medial surface has been >> > significantly overestimated and extends into >> > the lh >> > surface. This error showed up only in only 1 >> > of the >> > 2 long images for this subject, and both the >> > time-point images and the base are perfectly >> > fine. >> > Do you know why this is happening? >> > <Screen Shot 2017-03-06 at 1.09.53 pm.png> >> > Kind regards, >> > Bronwyn Overs >> > Research Assistant >> > Neuroscience Research Australia >> > Neuroscience Research Australia >> > Margarete Ainsworth Building >> > Barker Street Randwick Sydney NSW 2031 >> > Australia >> > M 0411 308 769 T +61 2 9399 1883 F +61 2 9399 >> > 1265 >> > neura.edu.au >> > Follow @neuraustralia on twitter Follow NeuRA >> > on >> > facebook Subscribe to the NeuRA Magazine >> > _______________________________________________ >> > 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. >> > _______________________________________________ >> > 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. >> > >> > _______________________________________________ >> > 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 >> > >> > >> > 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. >> _______________________________________________ >> 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. > _______________________________________________ > 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.
