<div style="line-height:1.7;color:#000000;font-size:14px;font-family:arial"><div>Hello, professor,I am very grateful for your kind help. Since&nbsp;I was using Camino to do multi fiber tractography, and tutorial I refered to&nbsp;was on this website <a href="http://cmic.cs.ucl.ac.uk/camino/index.php?n=Tutorials.MultiFibreTractography">http://cmic.cs.ucl.ac.uk/camino/index.php?n=Tutorials.MultiFibreTractography</a> .I found that the codes&nbsp; there were still using&nbsp;oogl and .img format, did I use&nbsp;your&nbsp;old tutorial website on this subject? </div><div>&nbsp;</div><div>Thanks again for your help!</div><h1 style="font: 600 1.4em/normal Arial, Verdana, Helvetica, sans-serif; margin: 0pt 0pt 4pt; color: rgb(80, 80, 80); text-transform: none; text-indent: 0px; letter-spacing: normal; padding-left: 10px; word-spacing: 0px; white-space: normal; orphans: 2; widows: 2; font-size-adjust: none; font-stretch: normal; background-color: rgb(255, 255, 255); -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px;">&nbsp;</h1><div><br><br><br><br></div><div></div><div id="divNeteaseMailCard"></div><div></div><pre><br>At&nbsp;2013-04-03&nbsp;03:00:09,camino-users-request@www.nitrc.org&nbsp;wrote:

&gt;Send&nbsp;Camino-users&nbsp;mailing&nbsp;list&nbsp;submissions&nbsp;to

&gt;        camino-users@www.nitrc.org

&gt;

&gt;To&nbsp;subscribe&nbsp;or&nbsp;unsubscribe&nbsp;via&nbsp;the&nbsp;World&nbsp;Wide&nbsp;Web,&nbsp;visit

&gt;        http://www.nitrc.org/mailman/listinfo/camino-users

&gt;or,&nbsp;via&nbsp;email,&nbsp;send&nbsp;a&nbsp;message&nbsp;with&nbsp;subject&nbsp;or&nbsp;body&nbsp;'help'&nbsp;to

&gt;        camino-users-request@www.nitrc.org

&gt;

&gt;You&nbsp;can&nbsp;reach&nbsp;the&nbsp;person&nbsp;managing&nbsp;the&nbsp;list&nbsp;at

&gt;        camino-users-owner@www.nitrc.org

&gt;

&gt;When&nbsp;replying,&nbsp;please&nbsp;edit&nbsp;your&nbsp;Subject&nbsp;line&nbsp;so&nbsp;it&nbsp;is&nbsp;more&nbsp;specific

&gt;than&nbsp;"Re:&nbsp;Contents&nbsp;of&nbsp;Camino-users&nbsp;digest..."

&gt;

&gt;

&gt;Today's&nbsp;Topics:

&gt;

&gt;&nbsp;&nbsp;&nbsp;1.&nbsp;ask&nbsp;for&nbsp;help&nbsp;on&nbsp;track&nbsp;(=?GBK?B?wt7otL2/?=)

&gt;&nbsp;&nbsp;&nbsp;2.&nbsp;Re:&nbsp;ask&nbsp;for&nbsp;help&nbsp;on&nbsp;track&nbsp;(Philip&nbsp;A&nbsp;Cook)

&gt;&nbsp;&nbsp;&nbsp;3.&nbsp;Expanded&nbsp;NIfTI&nbsp;support&nbsp;since&nbsp;r1175&nbsp;(Philip&nbsp;A&nbsp;Cook)

&gt;

&gt;

&gt;----------------------------------------------------------------------

&gt;

&gt;Message:&nbsp;1

&gt;Date:&nbsp;Tue,&nbsp;2&nbsp;Apr&nbsp;2013&nbsp;14:45:09&nbsp;+0800&nbsp;(CST)

&gt;From:&nbsp;=?GBK?B?wt7otL2/?=&nbsp;&lt;lujiaoluo1990@126.com&gt;

&gt;Subject:&nbsp;[Camino-users]&nbsp;ask&nbsp;for&nbsp;help&nbsp;on&nbsp;track

&gt;To:&nbsp;camino-users@www.nitrc.org

&gt;Message-ID:

&gt;        &lt;7fd45c62.24d4b.13dc97dfc90.Coremail.lujiaoluo1990@126.com&gt;

&gt;Content-Type:&nbsp;text/plain;&nbsp;charset="gbk"

&gt;

&gt;Hello,&nbsp;I&nbsp;was&nbsp;using&nbsp;this&nbsp;code&nbsp;below&nbsp;to&nbsp;do&nbsp;fiber&nbsp;tracking:

&gt;&nbsp;track&nbsp;-inputmodel&nbsp;dt&nbsp;-seedfile&nbsp;lADT_FA.hdr&nbsp;-outputroot&nbsp;A_DT&nbsp;-outputtracts&nbsp;oogl&nbsp;&lt;&nbsp;A_DT.Bdouble

&gt;but&nbsp;it&nbsp;gave&nbsp;a&nbsp;warning&nbsp;below:

&gt;"&nbsp;tools.CL_Initializer&nbsp;checkParsing

&gt;WARNING:&nbsp;WARNING:&nbsp;couldn't&nbsp;parse&nbsp;arg&nbsp;6:&nbsp;'-outputtracts'

&gt;tools.CL_Initializer&nbsp;checkParsing

&gt;WARNING:&nbsp;WARNING:&nbsp;couldn't&nbsp;parse&nbsp;arg&nbsp;7:&nbsp;'oogl'&nbsp;&nbsp;"

&gt;What&nbsp;can&nbsp;I&nbsp;do&nbsp;to&nbsp;sovle&nbsp;this&nbsp;problem?

&gt;Thanks&nbsp;in&nbsp;advance!

&gt;

&gt;--------------&nbsp;next&nbsp;part&nbsp;--------------

&gt;An&nbsp;HTML&nbsp;attachment&nbsp;was&nbsp;scrubbed...

&gt;URL:&nbsp;http://www.nitrc.org/pipermail/camino-users/attachments/20130402/34816706/attachment-0001.html

&gt;

&gt;------------------------------

&gt;

&gt;Message:&nbsp;2

&gt;Date:&nbsp;Tue,&nbsp;2&nbsp;Apr&nbsp;2013&nbsp;11:43:46&nbsp;-0400

&gt;From:&nbsp;Philip&nbsp;A&nbsp;Cook&nbsp;&lt;cookpa@mail.med.upenn.edu&gt;

&gt;Subject:&nbsp;Re:&nbsp;[Camino-users]&nbsp;ask&nbsp;for&nbsp;help&nbsp;on&nbsp;track

&gt;To:&nbsp;???&nbsp;&lt;lujiaoluo1990@126.com&gt;

&gt;Cc:&nbsp;camino-users@www.nitrc.org

&gt;Message-ID:&nbsp;&lt;5992233F-F096-40FB-B74A-9C93FA3CAF97@mail.med.upenn.edu&gt;

&gt;Content-Type:&nbsp;text/plain;&nbsp;charset=utf-8

&gt;

&gt;Hi,

&gt;

&gt;The&nbsp;OOGL&nbsp;output&nbsp;was&nbsp;removed&nbsp;some&nbsp;time&nbsp;ago,&nbsp;we&nbsp;use&nbsp;VTK&nbsp;now.&nbsp;We&nbsp;are&nbsp;moving&nbsp;away&nbsp;from&nbsp;Analyze&nbsp;also,&nbsp;in&nbsp;favor&nbsp;of&nbsp;NIFTI,&nbsp;but&nbsp;Analyze&nbsp;still&nbsp;works.

&gt;

&gt;&nbsp;&nbsp;&nbsp;&nbsp;track&nbsp;-inputmodel&nbsp;dt&nbsp;-seedfile&nbsp;lADT_FA.hdr&nbsp;-outputroot&nbsp;A_DT&nbsp;&lt;&nbsp;A_DT.Bdouble&nbsp;|&nbsp;vtkstreamlines&nbsp;&gt;&nbsp;tracts.vtk

&gt;

&gt;Older&nbsp;versions&nbsp;of&nbsp;Camino&nbsp;(before&nbsp;r1020)&nbsp;support&nbsp;OOGL.&nbsp;

&gt;

&gt;

&gt;On&nbsp;Apr&nbsp;2,&nbsp;2013,&nbsp;at&nbsp;2:45&nbsp;AM,&nbsp;ç½çå¨&nbsp;wrote:

&gt;

&gt;&gt;&nbsp;Hello,&nbsp;I&nbsp;was&nbsp;using&nbsp;this&nbsp;code&nbsp;below&nbsp;to&nbsp;do&nbsp;fiber&nbsp;tracking:

&gt;&gt;&nbsp;&nbsp;track&nbsp;-inputmodel&nbsp;dt&nbsp;-seedfile&nbsp;lADT_FA.hdr&nbsp;-outputroot&nbsp;A_DT&nbsp;-outputtracts&nbsp;oogl&nbsp;&lt;&nbsp;A_DT.Bdouble

&gt;&gt;&nbsp;but&nbsp;it&nbsp;gave&nbsp;a&nbsp;warning&nbsp;below:

&gt;&gt;&nbsp;"&nbsp;tools.CL_Initializer&nbsp;checkParsing

&gt;&gt;&nbsp;WARNING:&nbsp;WARNING:&nbsp;couldn't&nbsp;parse&nbsp;arg&nbsp;6:&nbsp;'-outputtracts'

&gt;&gt;&nbsp;tools.CL_Initializer&nbsp;checkParsing

&gt;&gt;&nbsp;WARNING:&nbsp;WARNING:&nbsp;couldn't&nbsp;parse&nbsp;arg&nbsp;7:&nbsp;'oogl'&nbsp;&nbsp;"

&gt;&gt;&nbsp;What&nbsp;can&nbsp;I&nbsp;do&nbsp;to&nbsp;sovle&nbsp;this&nbsp;problem?&nbsp;

&gt;&gt;&nbsp;Thanks&nbsp;in&nbsp;advance!

&gt;&gt;&nbsp;

&gt;&gt;&nbsp;

&gt;&gt;&nbsp;

&gt;&gt;&nbsp;_______________________________________________

&gt;&gt;&nbsp;Camino-users&nbsp;mailing&nbsp;list

&gt;&gt;&nbsp;Camino-users@www.nitrc.org

&gt;&gt;&nbsp;http://www.nitrc.org/mailman/listinfo/camino-users

&gt;

&gt;

&gt;

&gt;------------------------------

&gt;

&gt;Message:&nbsp;3

&gt;Date:&nbsp;Tue,&nbsp;2&nbsp;Apr&nbsp;2013&nbsp;11:55:06&nbsp;-0400

&gt;From:&nbsp;Philip&nbsp;A&nbsp;Cook&nbsp;&lt;cookpa@mail.med.upenn.edu&gt;

&gt;Subject:&nbsp;[Camino-users]&nbsp;Expanded&nbsp;NIfTI&nbsp;support&nbsp;since&nbsp;r1175

&gt;To:&nbsp;camino-users@www.nitrc.org

&gt;Message-ID:&nbsp;&lt;064DC9C4-7A21-433F-B183-E7568BDC72E4@mail.med.upenn.edu&gt;

&gt;Content-Type:&nbsp;text/plain;&nbsp;charset=us-ascii

&gt;

&gt;Hi,

&gt;

&gt;Most&nbsp;apps&nbsp;should&nbsp;now&nbsp;support&nbsp;output&nbsp;to&nbsp;an&nbsp;nii&nbsp;file,&nbsp;and&nbsp;should&nbsp;accept&nbsp;nii&nbsp;input.&nbsp;I&nbsp;have&nbsp;tested&nbsp;some&nbsp;common&nbsp;use&nbsp;cases&nbsp;but&nbsp;it&nbsp;is&nbsp;still&nbsp;fairly&nbsp;new&nbsp;code&nbsp;so&nbsp;please&nbsp;let&nbsp;me&nbsp;know&nbsp;if&nbsp;there&nbsp;are&nbsp;any&nbsp;problems.&nbsp;Backwards&nbsp;compatibility&nbsp;is&nbsp;preserved&nbsp;for&nbsp;people&nbsp;handling&nbsp;raw&nbsp;data.

&gt;

&gt;Example:

&gt;

&gt;&nbsp;&nbsp;track&nbsp;-inputfile&nbsp;dwi4D.nii.gz

&gt;

&gt;&nbsp;&nbsp;dtfit&nbsp;dwi4D.nii.gz&nbsp;schemefile&nbsp;|&nbsp;fa&nbsp;-header&nbsp;dwi4D.nii.gz&nbsp;-outputfile&nbsp;fa.nii.gz

&gt;

&gt;Using&nbsp;large&nbsp;nii&nbsp;input&nbsp;files&nbsp;will&nbsp;require&nbsp;more&nbsp;memory&nbsp;as&nbsp;the&nbsp;entire&nbsp;file&nbsp;is&nbsp;read&nbsp;in&nbsp;and&nbsp;re-ordered&nbsp;on&nbsp;the&nbsp;fly,&nbsp;but&nbsp;it&nbsp;can&nbsp;be&nbsp;more&nbsp;convenient.

&gt;

&gt;

&gt;Vector&nbsp;data&nbsp;can&nbsp;be&nbsp;written&nbsp;to&nbsp;a&nbsp;4D&nbsp;NIFTI&nbsp;file.&nbsp;One&nbsp;possibly&nbsp;confusing&nbsp;thing,&nbsp;if&nbsp;you&nbsp;do

&gt;

&gt;&nbsp;&nbsp;dtfit&nbsp;dwi4D.nii.gz&nbsp;schemefile&nbsp;-outputfile&nbsp;dt.nii.gz

&gt;

&gt;You&nbsp;will&nbsp;get&nbsp;the&nbsp;8-component&nbsp;Camino&nbsp;output&nbsp;in&nbsp;nii&nbsp;vector&nbsp;form,&nbsp;not&nbsp;a&nbsp;DT&nbsp;image.&nbsp;To&nbsp;get&nbsp;a&nbsp;DT&nbsp;image,&nbsp;do

&gt;

&gt;&nbsp;&nbsp;&nbsp;&nbsp;dtfit&nbsp;dwi4D.nii.gz&nbsp;schemefile&nbsp;|&nbsp;dt2nii&nbsp;-header&nbsp;dwi4D.nii.gz&nbsp;-outputroot&nbsp;dt_

&gt;

&gt;To&nbsp;convert&nbsp;vector&nbsp;data&nbsp;to&nbsp;3D&nbsp;nii&nbsp;images,&nbsp;call&nbsp;voxel2image.

&gt;

&gt;

&gt;Vector&nbsp;data&nbsp;can&nbsp;also&nbsp;be&nbsp;read,&nbsp;eg

&gt;

&gt;&nbsp;&nbsp;modelfit&nbsp;-model&nbsp;pospos&nbsp;...&nbsp;-outputfile&nbsp;twoDT.nii.gz

&gt;

&gt;&nbsp;&nbsp;dteig&nbsp;-inputfile&nbsp;twoDT.nii.gz&nbsp;-inputmodel&nbsp;multitensor&nbsp;&gt;&nbsp;eig.Bdouble

&gt;

&gt;

&gt;

&gt;There&nbsp;is&nbsp;one&nbsp;special&nbsp;case,&nbsp;allowing&nbsp;input&nbsp;of&nbsp;tensors&nbsp;when&nbsp;DT&nbsp;input&nbsp;is&nbsp;expected.&nbsp;

&gt;

&gt;Example:

&gt;

&gt;&nbsp;&nbsp;track&nbsp;-inputmodel&nbsp;dt&nbsp;-inputfile&nbsp;dtitk_dt.nii.gz&nbsp;...

&gt;

&gt;will&nbsp;read&nbsp;a&nbsp;NIFTI_SYMMATRIX&nbsp;correctly,&nbsp;though&nbsp;obviously&nbsp;there's&nbsp;no&nbsp;exit&nbsp;code&nbsp;etc.&nbsp;This&nbsp;is&nbsp;therefore&nbsp;equivalent&nbsp;to

&gt;

&gt;&nbsp;&nbsp;nii2dt&nbsp;-inputfile&nbsp;dtitk_dt.nii.gz&nbsp;|&nbsp;&nbsp;track&nbsp;-inputmodel&nbsp;dt&nbsp;...

&gt;

&gt;Meanwhile,&nbsp;

&gt;

&gt;&nbsp;&nbsp;dtfit&nbsp;data.nii.gz&nbsp;scheme&nbsp;-outputfile&nbsp;caminodt.nii.gz

&gt;

&gt;&nbsp;&nbsp;dteig&nbsp;-inputfile&nbsp;caminodt.nii.gz&nbsp;-outputfile&nbsp;eig.nii.gz&nbsp;

&gt;

&gt;will&nbsp;read&nbsp;the&nbsp;standard&nbsp;Camino&nbsp;output&nbsp;(8&nbsp;components)&nbsp;and&nbsp;produce&nbsp;a&nbsp;NIFTI&nbsp;output.

&gt;

&gt;image2voxel&nbsp;will&nbsp;convert&nbsp;any&nbsp;of&nbsp;these&nbsp;files&nbsp;back&nbsp;to&nbsp;voxel&nbsp;order&nbsp;if&nbsp;needed.&nbsp;

&gt;

&gt;

&gt;

&gt;

&gt;

&gt;------------------------------

&gt;

&gt;_______________________________________________

&gt;Camino-users&nbsp;mailing&nbsp;list

&gt;Camino-users@www.nitrc.org

&gt;http://www.nitrc.org/mailman/listinfo/camino-users

&gt;

&gt;

&gt;End&nbsp;of&nbsp;Camino-users&nbsp;Digest,&nbsp;Vol&nbsp;22,&nbsp;Issue&nbsp;1

&gt;*******************************************

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