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
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