Hi Denis,
The missing structural extended packages should now be up on Amazon S3. Please let me know if you see any other issues. Best, Michael ________________________________ From: Hodge, Michael Sent: Thursday, September 8, 2016 2:18 PM To: Denis-Alexander Engemann; Jennifer Elam; hcp-users@humanconnectome.org Subject: RE: [HCP-Users] structrual extended package for HCP_900 subjects on aws Hi Denis, I checked, and the structural extended packages are not yet available on AWS, but they are available via Aspera download. The person who publishes data to AWS is out of the office until the 17th, but hopefully this data can be put out there once he returns. The thing I’m not sure of is whether or not there is a reason that data has not been able to be made available on AWS, possibly having to do with production of Connectome-in-a-Box drives. I’ll follow up on this, and hopefully the data can be published to AWS soon. Regards, Mike From: hcp-users-boun...@humanconnectome.org [mailto:hcp-users-boun...@humanconnectome.org] On Behalf Of Denis-Alexander Engemann Sent: Thursday, September 8, 2016 12:42 PM To: Hodge, Michael <hod...@wustl.edu>; Jennifer Elam <el...@pcg.wustl.edu>; hcp-users@humanconnectome.org Subject: Re: [HCP-Users] structrual extended package for HCP_900 subjects on aws Hi there, I'm back on this after a few months. It seems we now have complete data for 67 instead of 66 (May). Any news/progress on this front? Cheers, Denis On Mon, May 9, 2016 at 5:40 PM Hodge, Michael <hod...@wustl.edu<mailto:hod...@wustl.edu>> wrote: Hi Denis, We’ve had a number of system issues since Friday night stemming from a power outage over the weekend that took out some equipment. Our Aspera server was definitely in a bad state over the weekend, and we were unable to download as of this morning. Some of the issues are still being worked through, and we’re once again able to download from here. Things should be going back to normal over the next couple of hours. You might try your downloads again, and hopefully they will work. Let us know if you are still unable to download via Aspera. Regards, Mike Hodge From: hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org> [mailto:hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>] On Behalf Of Denis-Alexander Engemann Sent: Saturday, May 7, 2016 3:07 AM To: Jennifer Elam <el...@pcg.wustl.edu<mailto:el...@pcg.wustl.edu>>; hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org> Subject: Re: [HCP-Users] structrual extended package for HCP_900 subjects on aws Hi Jenn, in the mean time we have tried downloading some of the packages available via connectome DB. Using the most recent version of the Aspera client, trying 3 different browsers, 3 different computers at different locations including Mac and Windows the download never started (progress bar frozen at 0). Would you have any suggestions how to access the files? Or has there been any progress with updating the files on AWS? Best, Denis On Wed, Apr 20, 2016 at 1:56 AM Denis-Alexander Engemann <denis.engem...@gmail.com<mailto:denis.engem...@gmail.com>> wrote: Hi Jenn, thanks for your reply, this is good news! Denis On Tue, Apr 19, 2016 at 7:10 PM Jennifer Elam <el...@pcg.wustl.edu<mailto:el...@pcg.wustl.edu>> wrote: Hi Denis and all, Sorry for the confusion. The structural extended packages have been fixed/updated in ConnectomeDB for download there and in the CinaB hard drives being ordered, but we are doing some further checking/fixing before we go through the several day process of updating all of the data in Amazon S3. We’ll send out another announcement when S3 is up to date. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue St. Louis, MO 63110 314-362-9387<tel:314-362-9387> e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: Denis-Alexander Engemann [mailto:denis.engem...@gmail.com<mailto:denis.engem...@gmail.com>] Sent: Monday, April 18, 2016 3:42 PM To: Jennifer Elam; hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org> Subject: Re: [HCP-Users] structrual extended package for HCP_900 subjects on aws Hi Jenn, I checked it once more after having waited for a few days. The numbers remain incomplete. Essentially the data are not there for a good amount of subjects, it seems at least all MEG subjects from the 900 release. Can you confirm this? Or am I missing something? Cheers, Denis On Sat, Apr 16, 2016 at 11:51 AM Denis-Alexander Engemann <denis.engem...@gmail.com<mailto:denis.engem...@gmail.com>> wrote: Great, thanks for the update! Something seems to have moved indeed, but not too much apparently. I just checked some 90 MEG subjects, and still the structural preprocessing is not fully complete. I'm not sure though if this may now have different reasons. Consider this script where I go through the MEG subjects to see what is available. https://gist.github.com/dengemann/e6a76197fb07c543120f8cc35ca495e1 For the HCP500 subjects I find "mri", "surf" and "label" subfoldes, the others only seem to have "stats". Is this expected? Denis On Fri, Apr 15, 2016 at 8:55 PM Jennifer Elam <el...@pcg.wustl.edu<mailto:el...@pcg.wustl.edu>> wrote: Hi Denis and all HCP-Users, We now have all Structural Extended Preprocessed data packages available for ALL 900 Subjects Release (S900) subjects with structural MRI data (897 subjects) in ConnectomeDB. Yay! The structural extended packages includes outputs from Freesurfer that are not in the main Structural Preprocessed packages. The structural extended packages are included in the S900 Connectome in a Box, which is available for order now. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue St. Louis, MO 63110 314-362-9387<tel:314-362-9387> e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: Denis-Alexander Engemann [mailto:denis.engem...@gmail.com<mailto:denis.engem...@gmail.com>] Sent: Monday, April 04, 2016 3:30 AM To: Jennifer Elam; hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org> Subject: Re: [HCP-Users] structrual extended package for HCP_900 subjects on aws Dear Jenn, thanks for letting me know and for looking into it! Cheers, Denis On Fri, Apr 1, 2016 at 9:59 PM Jennifer Elam <el...@pcg.wustl.edu<mailto:el...@pcg.wustl.edu>> wrote: Hi Denis, We’ve looked into the problem and have found that the structural extended data for 178 newly added subjects for S900 was inadvertently unpackaged and therefore not available for download in ConnectomeDB. We are working on fixing this and we’ll send out another message when its available. Best, Jenn Jennifer Elam, Ph.D. Outreach Coordinator, Human Connectome Project Washington University School of Medicine Department of Anatomy and Neurobiology, Box 8108 660 South Euclid Avenue St. Louis, MO 63110 314-362-9387<tel:314-362-9387> el...@pcg.wustl.edu<mailto:el...@pcg.wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org> From: hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org> [mailto:hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>] On Behalf Of Denis-Alexander Engemann Sent: Thursday, March 31, 2016 3:24 AM To: hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org> Subject: Re: [HCP-Users] structrual extended package for HCP_900 subjects on aws It turns out that the structural extended preprocessing package is not available for the new subjects. Is there any fix planned for this or is there a way to at least get some of the outputs from 'surf' and 'mri'? Denis On Tue, Mar 29, 2016 at 10:35 AM Denis-Alexander Engemann <denis.engem...@gmail.com<mailto:denis.engem...@gmail.com>> wrote: Dear HCPers, it seems that the freesurfer files included in the structural extended subjects are not available on aws for the HCP_900 subjects, at least not for the MEG subjects. I am referring to the following outputs: ${subject}/T1w/${subject}/mri ${subject}/T1w/${subject}/surf ${subject}/T1w/${subject}/label Can anyone confirm? Cheers, Denis _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
