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<p class="MsoNormal"><a name="_MailEndCompose"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">I believe the conversion to byte is referring to reformatting the subject data from data types of, e.g., integer 16-bit or float 32-bit,
to an 8-bit data type (byte) so that mapping can be computed from the 8-bit data format template. It could be confusing if folks are thinking data formats as in Analyze vs. NIFTI.<o:p></o:p></span></a></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D">--Lei<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D">--<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D">Lei Wang, Ph.D.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D">-----------------------------------------------------------------<o:p></o:p></span></p>
<p class="MsoNormal"><a href="http://www.northwestern.edu/"><span style="font-size:10.0pt;font-family:"Courier New"">Northwestern University</span></a><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D">
</span><a href="http://www.feinberg.northwestern.edu/"><span style="font-size:10.0pt;font-family:"Courier New"">Feinberg School of Medicine</span></a><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D"><o:p></o:p></span></p>
<p class="MsoNormal"><a href="http://psychiatry.northwestern.edu/"><span style="font-size:10.0pt;font-family:"Courier New"">Departments of Psychiatry and Behavioral Sciences</span></a><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D"> and
</span><a href="http://www.radiology.northwestern.edu/"><span style="font-size:10.0pt;font-family:"Courier New"">Radiology</span></a><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D"><o:p></o:p></span></p>
<p class="MsoNormal"><a href="https://maps.google.com/maps?q=710+N+Lake+Shore+Dr,+Chicago,+IL&hl=en&sll=41.916102,-87.639604&sspn=0.012231,0.016093&oq=710&hnear=710+N+Lake+Shore+Dr,+Chicago,+Illinois+60611&t=m&z=16"><span style="font-size:10.0pt;font-family:"Courier New"">710
N. Lake Shore Drive</span></a><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D">, Abbott Hall 1322<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D">Chicago, IL 60611<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D">Tel. office: 312-503-3983<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D">Fax: 312-503-0527<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D">Email:
</span><a href="mailto:leiwang1@northwestern.edu"><span style="font-size:10.0pt;font-family:"Courier New"">leiwang1@northwestern.edu</span></a><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D"><o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D">URL:
</span><a href="http://niacal.northwestern.edu/"><span style="font-size:10.0pt;font-family:"Courier New"">http://niacal.northwestern.edu</span></a><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D"><o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:#1F497D">-----------------------------------------------------------------<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><img border="0" width="143" height="44" id="Picture_x0020_3" src="cid:image001.jpg@01D21BFB.DB08E460"><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><b><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">From:</span></b><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"> mristudio-users [mailto:mristudio-users-bounces@mristudio.org]
<b>On Behalf Of </b>susumu mori<br>
<b>Sent:</b> Tuesday, September 27, 2016 8:09 AM<br>
<b>To:</b> DTI Studio, ROI Editor, DiffeoMap Questions/Support <mristudio-users@mristudio.org><br>
<b>Subject:</b> Re: [Mristudio-users] Diffeomorph file format<o:p></o:p></span></p>
<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Hi Mark,<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">In DiffeoMap, there is a button that can convert images to a byte format. I don't have DiffeoMap in my laptop (I'm out of my office), but it is one of those in the upper right column with a letter "B", I thought...<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">On Wed, Sep 21, 2016 at 5:46 PM, Mark Wagshul <<a href="mailto:Mark.Wagshul@einstein.yu.edu" target="_blank">Mark.Wagshul@einstein.yu.edu</a>> wrote:<o:p></o:p></p>
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<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Hi. I am new to using Diffeomorph and am running into a file format problem. When I try to run a
single channel LDDMM using one of the supplied templates (JHU-MNI-SS-T1), it gives me an error saying that the template needs to be a byte image. I thought this was supplied by the Diffeomorph software so would already be in the required format.
</span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Anyone have an experience with this?</span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Thanks,</span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Mark</span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-family:"Calibri",sans-serif;color:black">____________________<br>
Mark Wagshul, PhD<br>
Associate Professor<br>
Gruss Magnetic Resonance Research Center<br>
Albert Einstein College of Medicine<br>
Bronx, NY 10461<br>
<br>
Ph: <a href="tel:718-430-4011" target="_blank">718-430-4011</a></span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-family:"Calibri",sans-serif;color:black">FAX:
<a href="tel:718-430-3399" target="_blank">718-430-3399</a></span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-family:"Calibri",sans-serif;color:black">Email:
<a href="mailto:mark.wagshul@einstein.yu.edu" target="_blank">mark.wagshul@einstein.yu.edu</a></span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-family:"Calibri",sans-serif;color:black"> </span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-family:"Calibri",sans-serif;color:black"><img border="0" width="298" height="95" id="_x0000_i1025" src="cid:image002.jpg@01D21BFB.DB08E460" alt="einstein-logo-rgb"></span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:7.5pt;font-family:"Tahoma",sans-serif;color:black">This email message and any accompanying attachments may contain privileged information intended only for
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please notify the sender at the email address above, delete this email from your computer, and destroy any copies in any form immediately.</span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-family:"Calibri",sans-serif;color:black"> </span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><b><span style="font-size:10.0pt;font-family:"Tahoma",sans-serif">From:</span></b><span style="font-size:10.0pt;font-family:"Tahoma",sans-serif"> mristudio-users [mailto:<a href="mailto:mristudio-users-bounces@mristudio.org" target="_blank">mristudio-users-bounces@mristudio.org</a>]
<b>On Behalf Of </b>Ming Peng<br>
<b>Sent:</b> Wednesday, July 13, 2016 11:52 AM<br>
<b>To:</b> <a href="mailto:mristudio-users@mristudio.org" target="_blank">mristudio-users@mristudio.org</a><br>
<b>Subject:</b> [Mristudio-users] How to recalculate gradient table of Philips DICOM files with 'gradient overplus' on</span><o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"> <o:p></o:p></p>
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<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:10.0pt;font-family:"Arial",sans-serif">Hi: <br>
I have a dataset of DICOM files (a directory contains lots of .dcm files), and these data are collected from Philips device with "gradient overplus" option on. <br>
After googling, I found that the gradient table of these data should be recalculated if the "gradient overplus" option is on for Philips devices. And I found several tools: <br>
1 - DTI_gradient_table_creator <br>
</span><a href="https://urldefense.proofpoint.com/v2/url?u=http-3A__godzilla.kennedykrieger.org_-7Ejfarrell_software-5Fweb.htm-23DTI-5Fgradient-5Ftable-5Fcreator&d=CwMFaQ&c=yHlS04HhBraes5BQ9ueu5zKhE7rtNXt_d012z2PA6ws&r=T3LTsygGGhu6owN1Pl2H1LXJhiO_q6jqSIoDGjOwCcI&m=gFJYZTSGCw1yFrD8Se-etG4obMROKCNoMhkLTW47vVE&s=fSc4zc2iPDOXZM3pYeKOK5VSatrV96goWForGsJHPRQ&e=" target="_blank"><span style="font-size:10.0pt;font-family:"Arial",sans-serif;color:#6611CC;border:none windowtext 1.0pt;padding:0in;text-decoration:none">http://godzilla.kennedykrieger.org/~jfarrell/software_web.htm#DTI_gradient_table_creator</span></a><span style="font-size:10.0pt;font-family:"Arial",sans-serif"> <br>
<br>
This tool can only parse data in PAR/REC format, however my data are thousands of separate .dcm files from a single patient.</span><o:p></o:p></p>
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<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:10.0pt;font-family:"Arial",sans-serif"><br>
2 - DTI gradient table <br>
</span><a href="https://urldefense.proofpoint.com/v2/url?u=http-3A__jp.mathworks.com_matlabcentral_fileexchange_41876-2Ddti-2Dgradient-2Dtable_content_dti-5Fgrad-5Ftable.m&d=CwMFaQ&c=yHlS04HhBraes5BQ9ueu5zKhE7rtNXt_d012z2PA6ws&r=T3LTsygGGhu6owN1Pl2H1LXJhiO_q6jqSIoDGjOwCcI&m=gFJYZTSGCw1yFrD8Se-etG4obMROKCNoMhkLTW47vVE&s=mcKGyZ_k9X1-hKXo4MIwvrMKxXCa9Sv5I04EFnxO52A&e=" target="_blank"><span style="font-size:10.0pt;font-family:"Arial",sans-serif;color:#6611CC;border:none windowtext 1.0pt;padding:0in;text-decoration:none">http://jp.mathworks.com/matlabcentral/fileexchange/41876-dti-gradient-table/content/dti_grad_table.m</span></a><span style="font-size:10.0pt;font-family:"Arial",sans-serif"> <br>
<br>
It only works for a multi-frame dcm file. <br>
<br>
My questions is: <br>
a - How can i recalculate the gradient table from these .dcm files ? <br>
b - Is there any other tools suited for this situation ? <br>
<br>
Thanks </span><o:p></o:p></p>
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