Re: [HCP-Users] mris_make_surfaces: undefined symbol ncerr in FreesurferPipelineBatch.sh

[Glasser, Matthew]

That doesn’t seem too old.  Where did you get FreeSurfer from (including that binary)? Peace, Matt. From: "dkumar.in...@gmail.com" <dkumar.in...@gmail.com> Date: Thursday, January 29, 2015 at 1:02 AM To: Matt Glasser <glass...@wusm.wustl.edu>, "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> Cc: "Brown, Tim" <bro...@mir.wustl.edu> Subject: Re: [HCP-Users] mris_make_surfaces: undefined symbol ncerr in FreesurferPipelineBatch.sh Hi Thank you. It is CentOS 6.5(Final). Kernel 2.6.32-431.3.1.el6.x86_64 Regards Devakumar Sent from Windows Mail From: Glasser, Matthew Sent: Thursday, January 29, 2015 11:58 AM To: Devakumar gmail, hcp-users@humanconnectome.org Cc: Brown, Tim What OS is this?  It’s probably too old.   Peace, Matt. From: "dkumar.in...@gmail.com" <dkumar.in...@gmail.com> Date: Wednesday, January 28, 2015 at 11:30 PM To: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> Subject: [HCP-Users] mris_make_surfaces: undefined symbol ncerr in FreesurferPipelineBatch.sh Dear users I got the error message “mris_make_surfaces: symbol lookup error: mris_make_surfaces: undefined symbol: ncerr” when running the FreesurferPipelineBatch.sh. Can anyone help me to get out of this problem. Regards Devakumar Sent from Windows Mail From: hcp-users-requ...@humanconnectome.org Sent: Monday, January 26, 2015 11:30 PM To: hcp-users@humanconnectome.org Send HCP-Users mailing list submissions to  hcp-users@humanconnectome.org To subscribe or unsubscribe via the World Wide Web, visit  http://lists.humanconnectome.org/mailman/listinfo/hcp-users or, via email, send a message with subject or body 'help' to  hcp-users-requ...@humanconnectome.org You can reach the person managing the list at  hcp-users-ow...@humanconnectome.org When replying, please edit your Subject line so it is more specific than "Re: Contents of HCP-Users digest..." Today's Topics:    1. Re: 7 RSN Netoworks label file (Timothy Coalson)    2. Node timeseries - How many ROI's to use? (David Hofmann)    3. Re: Node timeseries - How many ROI's to use? (Stephen Smith) ---------------------------------------------------------------------- Message: 1 Date: Mon, 26 Jan 2015 01:37:20 -0600 From: Timothy Coalson <tsc...@mst.edu> Subject: Re: [HCP-Users] 7 RSN Netoworks label file To: Marta Moreno <mmorenoort...@icloud.com> Cc: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> Message-ID:  <CAK_=tawv-W4swzC0yrgk7iXjEn5xvTP1RkGvFr8GPB0Y7=d...@mail.gmail.com> Content-Type: text/plain; charset="utf-8" The map name/number is not a label name, it is the map index or name that you select in the overlays toolbox in the gui, use "1" and it will probably give you what you want.  A single map usually has multiple labels, specifically all the ones that get displayed at the same time in the gui. Tim On Sat, Jan 24, 2015 at 10:20 PM, Marta Moreno <mmorenoort...@icloud.com> wrote: > I was doing: wb_command -cifti-label-export-table but the map from > RSN-netwoks.32k was not recognized. > I did what Donna suggested and I got the information that way so the > problem is resolved, but still can not find which is the map from RSN just > in case someone has that information. > > I want to extract the connectivity from my seed to different networks, > that is why I needed the table to know which networks to extract in matlab. > I did it that way and is working. > > Thanks, > _______________ > Marta Moreno-Ortega, Ph.D. > Postdoctoral Research Fellow > Division of Experimental Therapeutics > New York State Psychiatric Institute > Department of Psychiatry > Columbia University College of Physicians and Surgeons > > > > > On Jan 23, 2015, at 12:03 AM, "Glasser, Matthew" <glass...@wusm.wustl.edu> > wrote: > > You can also use the map number if that is the issue.  Else perhaps we > need more info on what you are trying to do. > > Peace, > > Matt. > > On 1/22/15, 9:20 PM, "Marta Moreno" <mmorenoort...@icloud.com> wrote: > > Hi users, > > I am trying to get the labels from 7 RSN Networks but "map" on export > table command is not recognized and I am not sure if frontoparietal is 6 > and DMN 7. Any idea? > > Thanks > > Sent from my iPhone > _______________________________________________ > HCP-Users mailing list > 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 > -------------- next part -------------- An HTML attachment was scrubbed... URL: http://lists.humanconnectome.org/pipermail/hcp-users/attachments/20150126/26e6fcab/attachment-0001.html ------------------------------ Message: 2 Date: Mon, 26 Jan 2015 12:35:24 +0100 From: David Hofmann <davidhofma...@gmail.com> Subject: [HCP-Users] Node timeseries - How many ROI's to use? To: hcp-users <hcp-users@humanconnectome.org> Message-ID:  <caetivj0oa0orjn59pajvvaeyrrawsunjaoxomvhzwujmj9t...@mail.gmail.com> Content-Type: text/plain; charset="utf-8" Hi @all, I downloaded the node timeseries for the HCP subjects. There are different amounts of "ICA-ROIs", that is 25,50,100,200,300. I have to make a trade-off between amount of computation time, amount of persons to include and what might be generally "prefered" or accepted by reviewers. For example, I thought of either using the 25 ROI's and analyse about 50 people or use the 100 ROI's and analyse 10 people. Both would require approximately the same amount of computation time. I personally prefer to use the 100 ROI's but on the other hand 25 ROI's are easier to handle computationally. But then I'm wondering if 25 ROI's is "enough". I know there is no general answer, but I just wanted to hear some opinions on that from you. In other words which amount of ROIs and people (25/50 or 100/10) would you choose and why? Thanks in advance David -------------- next part -------------- An HTML attachment was scrubbed... URL: http://lists.humanconnectome.org/pipermail/hcp-users/attachments/20150126/8b1167d3/attachment-0001.html ------------------------------ Message: 3 Date: Mon, 26 Jan 2015 11:41:13 +0000 From: Stephen Smith <st...@fmrib.ox.ac.uk> Subject: Re: [HCP-Users] Node timeseries - How many ROI's to use? To: David Hofmann <davidhofma...@gmail.com> Cc: hcp-users <hcp-users@humanconnectome.org> Message-ID: <d7654c7b-b306-4ea6-a0a4-101f587dd...@fmrib.ox.ac.uk> Content-Type: text/plain; charset="utf-8" Hi - separate from your main question, in general I have a "better feeling" about netmat analysis from the 50 and 200 node datasets than the other options.   Please don't ask me to defend that (or be correct about it!) - because it's just a gut feeling from having played with the datasets a lot. Wrt your main question -   if your final analysis involves any cross-subject modelling, then the analysis is *likely* to be most limited by subject variability - and as a result probably the single most important thing to maximise is subject numbers. More generally, I would say you should aim to use all the data (subjects), even if you have to wait a bit longer for the results! Cheers, Steve. > On 26 Jan 2015, at 11:35, David Hofmann <davidhofma...@gmail.com> wrote: > > Hi @all, > > I downloaded the node timeseries for the HCP subjects. There are different amounts of "ICA-ROIs", that is 25,50,100,200,300. > > I have to make a trade-off between amount of computation time, amount of persons to include and what might be generally "prefered" or accepted by reviewers. > > For example, I thought of either using the 25 ROI's and analyse about 50 people or use the 100 ROI's and analyse 10 people. Both would require approximately the same amount of computation time. > > I personally prefer to use the 100 ROI's but on the other hand 25 ROI's are easier to handle computationally. But then I'm wondering if 25 ROI's is "enough". > > I know there is no general answer, but I just wanted to hear some opinions on that from you. In other words which amount of ROIs and people (25/50 or 100/10) would you choose and why? > > Thanks in advance > > David > > > > > > _______________________________________________ > HCP-Users mailing list > HCP-Users@humanconnectome.org > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > --------------------------------------------------------------------------- Stephen M. Smith, Professor of Biomedical Engineering Associate Director,  Oxford University FMRIB Centre FMRIB, JR Hospital, Headington, Oxford  OX3 9DU, UK +44 (0) 1865 222726  (fax 222717) st...@fmrib.ox.ac.uk    http://www.fmrib.ox.ac.uk/~steve <http://www.fmrib.ox.ac.uk/~steve> --------------------------------------------------------------------------- Stop the cultural?destruction?of Tibet <http://smithinks.net/> -------------- next part -------------- An HTML attachment was scrubbed... URL: http://lists.humanconnectome.org/pipermail/hcp-users/attachments/20150126/422d615b/attachment-0001.html ------------------------------ _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users End of HCP-Users Digest, Vol 26, Issue 23 ***************************************** _______________________________________________ HCP-Users mailing list 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.   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