<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><div>Hi all,</div><div><br></div><div>I am getting some weird error w/ rgbscalarimg. I want to superimpose my tracks on an FA map using paraview. However, the tracks are not superimposing properly and are shifted by some value.</div><div><br></div><div>I suspect it is rgbscalarimg, which when I run with the following command:</div><div>rgbscalarimg -scalarfile *FA.nii -outputfile fa.mhd -inputfile EIG.Bdouble -rgbgamma 0.0</div><div><br></div><div>Gives me the following error:</div><div>Apr 18, 2013 9:40:25 PM apps.RGB_ScalarImage writeMeta</div><div>WARNING: Header template is not Meta, physical space information may be lost</div><div><br></div><div>I know this is the culprit, because if I zero out the sforms and qforms in my seed files and my FA file, things overlap perfectly (though this is an undesirable hack).</div><div><br></div><div>Any help would be wonderful, thank you. It seems I need some kind of tool to translate nifti headers to mhd/mha headers. c3d does this from the nifti files, but the images are still offset from the tracks generated from the same nifti files.</div><div><br></div><div apple-content-edited="true">
<div><span class="Apple-style-span" style="font-family: Helvetica, sans-serif; font-size: 18px; ">Michael Zeineh, M.D.-Ph.D.</span></div><div><div><div style="margin-top: 0in; margin-right: 0in; margin-left: 0in; margin-bottom: 0.0001pt; font-size: 12pt; font-family: 'Times New Roman', serif; "><span style="font-size: 13.5pt; font-family: Helvetica, sans-serif; color: black; ">Assistant Professor, Dept of Radiology<o:p></o:p></span></div></div><div style="margin-top: 0in; margin-right: 0in; margin-left: 0in; margin-bottom: 0.0001pt; font-size: 12pt; font-family: 'Times New Roman', serif; "><span style="font-size: 13.5pt; font-family: Helvetica, sans-serif; color: black; ">300 Pasteur Drive, Room S-047<br>Stanford, CA 94305-5105<o:p></o:p></span></div><div><div style="margin-top: 0in; margin-right: 0in; margin-left: 0in; margin-bottom: 0.0001pt; font-size: 12pt; font-family: 'Times New Roman', serif; "><span style="font-size: 13.5pt; font-family: Helvetica, sans-serif; color: black; ">t: 650-721-1419<o:p></o:p></span></div></div><div><div style="margin-top: 0in; margin-right: 0in; margin-left: 0in; margin-bottom: 0.0001pt; font-size: 12pt; font-family: 'Times New Roman', serif; "><span style="font-size: 13.5pt; font-family: Helvetica, sans-serif; color: black; ">c: 650-722-2235<o:p></o:p></span></div></div><div><div style="margin-top: 0in; margin-right: 0in; margin-left: 0in; margin-bottom: 0.0001pt; font-size: 12pt; font-family: 'Times New Roman', serif; "><span style="font-size: 13.5pt; font-family: Helvetica, sans-serif; color: black; ">f: 650-498-5374<o:p></o:p></span></div></div><div><div style="margin-top: 0in; margin-right: 0in; margin-left: 0in; margin-bottom: 0.0001pt; font-size: 12pt; font-family: 'Times New Roman', serif; "><span style="font-size: 13.5pt; font-family: Helvetica, sans-serif; color: black; "><a href="mailto:mzeineh@stanford.edu" style="color: blue; text-decoration: underline; ">mzeineh@stanford.edu</a></span></div></div></div><div><br></div><br class="Apple-interchange-newline">
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