Is that all it says? Can you send the log file? On 12/16/2013 10:00 PM, Rujing Zha wrote: > Hi Doug, > Thanks Doug. > I tried the "-run 15" option, it generate a "015" folder. However > unpacksdcmdir code echo ERROR message: > "ERROR:mri_convert > child killed: segmentation violation ", > and the script terminated. > All the best. > 2013-12-17 > ------------------------------------------------------------------------ > /Rujing Zha/ > ------------------------------------------------------------------------ > *发件人：*Douglas N Greve <gr...@nmr.mgh.harvard.edu> > *发送时间：*2013-12-17 02:56 > *主题：*Re: [Freesurfer] unpacksdcmdir: specifies unpacking rules from > the command-line ERROR > *收件人：*"freesurfer"<freesurfer@nmr.mgh.harvard.edu> > *抄送：* > If you passed "-run 015" it should have generated a 015 folder and not a > 013 folder. The only thing I can think may have gone wrong is that it > expected 15 instead of 015. > doug > On 12/16/2013 09:24 AM, Bruce Fischl wrote: > > sorry, I don't know that code very well. Doug is probably the right > > one to help you > > Bruce > > > > > > On Mon, 16 Dec 2013, Rujing Zha wrote: > > > >> Dear Bruce, > >> I did setup the "-run 015" not "013" in unpacksdcmdir as I told in > >> previous > >> message. But it generated the "013" folder automatically after running > >> unpacksdcdir, which made me so confused. > >> As it created the "013" folder, I guess unpacksdcmdir didnot recognized > > >> structure image correctly which was in the "15th" line of the scan.info. > > >> Thanks Bruce. > >> All the best. > >> > >> 2013-12-16 > >> > >> ____________________________________________________________________________ > >> > > >> > >> Rujing Zha > >> > >> ____________________________________________________________________________ > >> > > >> > >> 发件 人：Bruce Fischl <fis...@nmr.mgh.harvard.edu> > >> 发送时间：2013-12-16 22:12 > >> 主 > 题：Re: [Freesurfer] unpacksdcmdir: specifies unpacking rules from the > >> command-line ERROR > >> 收件人："Rujing Zha"<charujing...@163.com> > >> 抄 送："freesurfer"<freesurfer@nmr.mgh.harvard.edu> > >> > >> but why are you giving recon-all the path to run 013 instead of 015? I > >> don't know the fsfast file structure, but your scan.info says that > >> 013 is > > ?? ?an EPI fun and 015 is the mprage > >> > >> On Sat, > >> 14 Dec 2013, Rujing Zha wrote: > >> > >> > Hi Bruce, > >> > It generated a 013 subfolder in after running this code "unpacksdcmdir > > >> > -src ../data/liujunhao -targ ../work/liujunhao -fsfast -run 015 > >> 3danat mg > >> z > >> > 001.mgz". It is 15 that I can see the number of > >> t1_mpr_ns_sag_iso_zhang > > ?? ?in > >> > the unpack.log. > >> > Then I ran "recon-all -i ../work/liujunhao/3danat/013/001.mgz -s > >> liujunha > >> o", > >> > and it finished without error. > >> > "recon-all -s liujunhao -all" was run and ERROR would be displayed: > >> > ERROR: input(s) cannot have multiple frames! > >> > The recon-all.log unpack.log and scan.info were unloaded in the > >> attachmen > >> t. > >> > Thanks. > >> > All the best. > >> > > >> > 2013-12-14 > >> > > >> > > >> _________________________________________________________________________ > > >> > >> ___ > >> > Rujing Zha > >> > > >> > > >> _______________________________________________ > >> 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 i > >> s > >> addressed. If you believe this e-mail was sent to you in error and > >> the e-ma > >> il > >> contains patient information, please contact the Partners Compliance > >> HelpLi > >> ne at > >> http://www.partners.org/complianceline . If the e-mail was sent to > >> you in e > >> rror > >> but does not contain patient information, please contact the sender > >> and pro > >> perly > >> dispose of the e-mail. > >> > >> > >> > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > Phone Number: 617-724-2358 > Fax: 617-726-7422 > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
