Hi Laura - This means that there is only 1 line in each of the files, so the end-of-line characters aren't recognized. I'd make sure that the file is saved as plain text.
a.y On Tue, 15 Oct 2013, Laura Christine Anderson wrote: > When I run "wc -l" on the bvec and bval files, I get "1" for both. Running > just "wc" gives "1 279 3312" for bvec and "1 93 456" for bval > > Laura C. Anderson, B.A. > Graduate Student > Clinical & Developmental Psychology > University of Maryland > College Park, MD 20742 > BPS 0112 > > > > > On 10/14/13 5:18 PM, "Anastasia Yendiki" <ayend...@nmr.mgh.harvard.edu> > wrote: > >> >> Hi Laura - I don't think the error "bvecs and bvals don't have the same >> number of entries" should have to do with interspersed zero b-values. >> When >> you run "wc -l" on the bvecs and bvals files, what do you get? >> >> a.y >> >> On Mon, 14 Oct 2013, Laura Christine Anderson wrote: >> >>> Hi Anastasia, the bval/bvec files were created on a Mac and not with >>> excel. I am not seeing the ^M character when I view the files in unix >>> with >>> the more command or in gedit perhaps when I sent you the files, >>> something >>> became corrupted? I am wondering if my issue has something to do with >>> the >>> fact that there are 3 sets of 30 rows with a b0 image before each of >>> the 3 >>> sets. In the examples I have seen, the b0 images all seem to be at the >>> beginning of the bvec and bval files. I am attaching a screenshot of the >>> bvec and bval files as I see them in case that is helpful. If you would >>> rather me send the actual files again, what is the best way to do that >>> without the formatting getting messed up? Before, I was using a free >>> fileshare program. >>> >>> Thank you! >>> Laura >>> >>> Laura C. Anderson, B.A. >>> Graduate Student >>> Clinical & Developmental Psychology >>> University of Maryland >>> College Park, MD 20742 >>> BPS 0112 >>> >>> >>> >>> >>> On 10/11/13 2:38 PM, "Anastasia Yendiki" <ayend...@nmr.mgh.harvard.edu> >>> wrote: >>> >>>> >>>> Hi Laura - Were these bval/bvec files created on windows or with excel >>>> by >>>> any chance? When you view them in unix (with the more command for >>>> example) >>>> you'll see an "^M" character instead of every end-of-line. Can you try >>>> editing these files in a unix editor to fix that? Let me know if this >>>> solves the problem. >>>> >>>> a.y >>>> >>>> On Fri, 11 Oct 2013, Laura Christine Anderson wrote: >>>> >>>>> Hi Anastasia, >>>>> Thanks so much for your help! Attached are bvec, bval and trac-all.log >>>>> files. >>>>> >>>>> I have been stuck at one of the preprocessing steps (trac all) for >>>>> some >>>>> time and keep getting the >>>>> error: bvecs and bvals don't have the same number of entries. I saw a >>>>> couple blogs online about >>>>> this, but did not see any resolution. I am wondering if it is because >>>>> the B0 images are >>>>> interspersed? (see attached bvec file). If you have any insight, I >>>>> would love some feedback >>>>> whenever you get the chance. >>>>> >>>>> Laura >>>>> >>>>> >>>> >>>> >>>> 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
