Xin,<br><br>Yes, they are analyze files. But I've actually figured out (and fixed) what happened. Apparently a (-) was being inserted into the "field of view width" input. I simply clicked on "raw image" and removed the (-) and everything worked!<br>
<br>Thanks so much for your suggestions!<br><br>Paul<br><br><br><div class="gmail_quote">On Fri, Mar 27, 2009 at 1:22 PM, <span dir="ltr"><<a href="mailto:mristudio-users-request@mristudio.org">mristudio-users-request@mristudio.org</a>></span> wrote:<br>
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Today's Topics:<br>
<br>
1. Re: About the registration of the rat brain (susumu)<br>
2. Re: Problem with Landmarker not loading subjects (XIN LI)<br>
3. loading AIR files (Copeland, Sarah A.)<br>
4. loading AIR files (Copeland, Sarah A.)<br>
5. loading AIR files (Copeland, Sarah A.)<br>
6. loading AIR files (Copeland, Sarah A.)<br>
7. loading AIR files (Copeland, Sarah A.)<br>
<br>
<br>
----------------------------------------------------------------------<br>
<br>
Message: 1<br>
Date: Wed, 25 Mar 2009 17:19:51 -0400<br>
From: susumu <<a href="mailto:susumu@mri.jhu.edu">susumu@mri.jhu.edu</a>><br>
Subject: Re: [Mristudio-users] About the registration of the rat brain<br>
To: "'DTI Studio, ROI Editor, Landmarker Questions/Support'"<br>
<<a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a>><br>
Message-ID: <7k7ed7$<a href="mailto:6rnn4i@ipex3.johnshopkins.edu">6rnn4i@ipex3.johnshopkins.edu</a>><br>
Content-Type: text/plain; charset="gb2312"<br>
<br>
Currently we are not providing rat atlases. We have mouse atlases, though.<br>
<br>
<br>
<br>
_____<br>
<br>
From: <a href="mailto:mristudio-users-bounces@mristudio.org">mristudio-users-bounces@mristudio.org</a><br>
[mailto:<a href="mailto:mristudio-users-bounces@mristudio.org">mristudio-users-bounces@mristudio.org</a>] On Behalf Of zhongsuyu123<br>
Sent: Monday, March 23, 2009 12:14 AM<br>
To: <a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a><br>
Subject: [Mristudio-users] About the registration of the rat brain<br>
<br>
<br>
<br>
Hi,<br>
<br>
I want to kown where I can get the template of the rat brain.In the<br>
Landermarker,I can only load the Human's template.Are there any templates<br>
for registration of the rat brain? If not, how can I do the registration of<br>
the rat brain.<br>
<br>
Thank you.<br>
<br>
Suyu<br>
<br>
<br>
<br>
<br>
<br>
<br>
_____<br>
<br>
<<a href="http://www.yeah.net" target="_blank">http://www.yeah.net</a>> ?????????????????<br>
<br>
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------------------------------<br>
<br>
Message: 2<br>
Date: Wed, 25 Mar 2009 17:24:16 -0400<br>
From: XIN LI <<a href="mailto:xli16@jhmi.edu">xli16@jhmi.edu</a>><br>
Subject: Re: [Mristudio-users] Problem with Landmarker not loading<br>
subjects<br>
To: "DTI Studio, ROI Editor, Landmarker Questions/Support"<br>
<<a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a>><br>
Message-ID: <<a href="mailto:f54aa46a1c6f.49ca68c0@johnshopkins.edu">f54aa46a1c6f.49ca68c0@johnshopkins.edu</a>><br>
Content-Type: text/plain; charset=us-ascii<br>
<br>
Paul,<br>
<br>
When you loaded the subject, did you select "Analyze" as the image file format in the image parameter window?<br>
<br>
<br>
Xin<br>
<br>
<br>
----- Original Message -----<br>
From: Paul Beach <<a href="mailto:pabeach1@gmail.com">pabeach1@gmail.com</a>><br>
Date: Wednesday, March 25, 2009 1:56 pm<br>
Subject: [Mristudio-users] Problem with Landmarker not loading subjects<br>
To: <a href="mailto:Mristudio-users@mristudio.org">Mristudio-users@mristudio.org</a><br>
<br>
<br>
> Hi everyone,<br>
><br>
> So every once and a while I'll be on Landmarker and when I'm trying<br>
> to load<br>
> a subject I'll receive an error message saying "please enter a number<br>
> between 0 and 4096." The first time this happened I just closed all<br>
> my<br>
> programs and reopened Landmarker and things worked again. Other<br>
> times (such<br>
> as the latest one) I went so far as to restart my computer, which<br>
> lead to no<br>
> effect.<br>
><br>
> This is obviously a huge problem as I can't load subjects whatsoever.<br>
><br>
> Any ideas?<br>
><br>
> Thanks,<br>
><br>
> Paul<br>
><br>
> p.s. In case this is necessary information, I've been using landmarks<br>
> to<br>
> reorient subject brains and fiber tracts using affine/rigid transformations.<br>
> _______________________________________________<br>
> Mristudio-users mailing list<br>
> <a href="mailto:Mristudio-users@mristudio.org">Mristudio-users@mristudio.org</a><br>
><br>
<br>
<br>
------------------------------<br>
<br>
Message: 3<br>
Date: Fri, 27 Mar 2009 10:09:27 -0700<br>
From: "Copeland, Sarah A." <<a href="mailto:SCopeland@mednet.ucla.edu">SCopeland@mednet.ucla.edu</a>><br>
Subject: [Mristudio-users] loading AIR files<br>
To: "<a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a>" <<a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a>><br>
Message-ID:<br>
<<a href="mailto:F1A13CFB4AA1D04DBDDB2DC4183DA69749DFB4C9@EMGMB1.ad.medctr.ucla.edu">F1A13CFB4AA1D04DBDDB2DC4183DA69749DFB4C9@EMGMB1.ad.medctr.ucla.edu</a>><br>
Content-Type: text/plain; charset=us-ascii<br>
<br>
Hello,<br>
<br>
I think that I may have managed to use AIR's linear registration to register my anatomic image to the mean B0 image in landmarker. The program asks you to supply a filename, and after the process is complete I can find a file of type "AIR" in the correct location, but can't open it. It's obviously not analyze format, but when I try to open as "raw" I get the error "please enter an integer between 1 and 4096" that pops up from time to time. However, the boxes which contain 0s are greyed out and can't be changed. Any suggestions as to how I can open and view the file?<br>
<br>
Also, the anatomic image filename in the open "subject" window now has the name "updated_filename". Is this still the original, or is the registered image? I can't open the original when this one is open, so I thought perhaps this is still the original file just with "updated" appended, but I'm not sure. If it's the registered image, the registration is not working very well, so I'm hoping it's not.<br>
<br>
Thanks so much -<br>
<br>
Sarah Copeland<br>
<br>
IMPORTANT WARNING: This email (and any attachments) is only intended for the use of the person or entity to which it is addressed, and may contain information that is privileged and confidential. You, the recipient, are obligated to maintain it in a safe, secure and confidential manner. Unauthorized redisclosure or failure to maintain confidentiality may subject you to federal and state penalties. If you are not the intended recipient, please immediately notify us by return email, and delete this message from your computer.<br>
<br>
<br>
<br>
------------------------------<br>
<br>
Message: 4<br>
Date: Fri, 27 Mar 2009 10:09:32 -0700<br>
From: "Copeland, Sarah A." <<a href="mailto:SCopeland@mednet.ucla.edu">SCopeland@mednet.ucla.edu</a>><br>
Subject: [Mristudio-users] loading AIR files<br>
To: "<a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a>" <<a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a>><br>
Message-ID:<br>
<<a href="mailto:F1A13CFB4AA1D04DBDDB2DC4183DA69749DFB4CA@EMGMB1.ad.medctr.ucla.edu">F1A13CFB4AA1D04DBDDB2DC4183DA69749DFB4CA@EMGMB1.ad.medctr.ucla.edu</a>><br>
Content-Type: text/plain; charset=us-ascii<br>
<br>
Hello,<br>
<br>
I think that I may have managed to use AIR's linear registration to register my anatomic image to the mean B0 image in landmarker. The program asks you to supply a filename, and after the process is complete I can find a file of type "AIR" in the correct location, but can't open it. It's obviously not analyze format, but when I try to open as "raw" I get the error "please enter an integer between 1 and 4096" that pops up from time to time. However, the boxes which contain 0s are greyed out and can't be changed. Any suggestions as to how I can open and view the file?<br>
<br>
Also, the anatomic image filename in the open "subject" window now has the name "updated_filename". Is this still the original, or is the registered image? I can't open the original when this one is open, so I thought perhaps this is still the original file just with "updated" appended, but I'm not sure. If it's the registered image, the registration is not working very well, so I'm hoping it's not.<br>
<br>
Thanks so much -<br>
<br>
Sarah Copeland<br>
<br>
IMPORTANT WARNING: This email (and any attachments) is only intended for the use of the person or entity to which it is addressed, and may contain information that is privileged and confidential. You, the recipient, are obligated to maintain it in a safe, secure and confidential manner. Unauthorized redisclosure or failure to maintain confidentiality may subject you to federal and state penalties. If you are not the intended recipient, please immediately notify us by return email, and delete this message from your computer.<br>
<br>
<br>
<br>
------------------------------<br>
<br>
Message: 5<br>
Date: Fri, 27 Mar 2009 10:09:37 -0700<br>
From: "Copeland, Sarah A." <<a href="mailto:SCopeland@mednet.ucla.edu">SCopeland@mednet.ucla.edu</a>><br>
Subject: [Mristudio-users] loading AIR files<br>
To: "<a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a>" <<a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a>><br>
Message-ID:<br>
<<a href="mailto:F1A13CFB4AA1D04DBDDB2DC4183DA69749DFB4CB@EMGMB1.ad.medctr.ucla.edu">F1A13CFB4AA1D04DBDDB2DC4183DA69749DFB4CB@EMGMB1.ad.medctr.ucla.edu</a>><br>
Content-Type: text/plain; charset=us-ascii<br>
<br>
Hello,<br>
<br>
I think that I may have managed to use AIR's linear registration to register my anatomic image to the mean B0 image in landmarker. The program asks you to supply a filename, and after the process is complete I can find a file of type "AIR" in the correct location, but can't open it. It's obviously not analyze format, but when I try to open as "raw" I get the error "please enter an integer between 1 and 4096" that pops up from time to time. However, the boxes which contain 0s are greyed out and can't be changed. Any suggestions as to how I can open and view the file?<br>
<br>
Also, the anatomic image filename in the open "subject" window now has the name "updated_filename". Is this still the original, or is the registered image? I can't open the original when this one is open, so I thought perhaps this is still the original file just with "updated" appended, but I'm not sure. If it's the registered image, the registration is not working very well, so I'm hoping it's not.<br>
<br>
Thanks so much -<br>
<br>
Sarah Copeland<br>
<br>
IMPORTANT WARNING: This email (and any attachments) is only intended for the use of the person or entity to which it is addressed, and may contain information that is privileged and confidential. You, the recipient, are obligated to maintain it in a safe, secure and confidential manner. Unauthorized redisclosure or failure to maintain confidentiality may subject you to federal and state penalties. If you are not the intended recipient, please immediately notify us by return email, and delete this message from your computer.<br>
<br>
<br>
<br>
------------------------------<br>
<br>
Message: 6<br>
Date: Fri, 27 Mar 2009 10:09:42 -0700<br>
From: "Copeland, Sarah A." <<a href="mailto:SCopeland@mednet.ucla.edu">SCopeland@mednet.ucla.edu</a>><br>
Subject: [Mristudio-users] loading AIR files<br>
To: "<a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a>" <<a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a>><br>
Message-ID:<br>
<<a href="mailto:F1A13CFB4AA1D04DBDDB2DC4183DA69749DFB4CC@EMGMB1.ad.medctr.ucla.edu">F1A13CFB4AA1D04DBDDB2DC4183DA69749DFB4CC@EMGMB1.ad.medctr.ucla.edu</a>><br>
Content-Type: text/plain; charset=us-ascii<br>
<br>
Hello,<br>
<br>
I think that I may have managed to use AIR's linear registration to register my anatomic image to the mean B0 image in landmarker. The program asks you to supply a filename, and after the process is complete I can find a file of type "AIR" in the correct location, but can't open it. It's obviously not analyze format, but when I try to open as "raw" I get the error "please enter an integer between 1 and 4096" that pops up from time to time. However, the boxes which contain 0s are greyed out and can't be changed. Any suggestions as to how I can open and view the file?<br>
<br>
Also, the anatomic image filename in the open "subject" window now has the name "updated_filename". Is this still the original, or is the registered image? I can't open the original when this one is open, so I thought perhaps this is still the original file just with "updated" appended, but I'm not sure. If it's the registered image, the registration is not working very well, so I'm hoping it's not.<br>
<br>
Thanks so much -<br>
<br>
Sarah Copeland<br>
<br>
IMPORTANT WARNING: This email (and any attachments) is only intended for the use of the person or entity to which it is addressed, and may contain information that is privileged and confidential. You, the recipient, are obligated to maintain it in a safe, secure and confidential manner. Unauthorized redisclosure or failure to maintain confidentiality may subject you to federal and state penalties. If you are not the intended recipient, please immediately notify us by return email, and delete this message from your computer.<br>
<br>
<br>
<br>
------------------------------<br>
<br>
Message: 7<br>
Date: Fri, 27 Mar 2009 10:22:06 -0700<br>
From: "Copeland, Sarah A." <<a href="mailto:SCopeland@mednet.ucla.edu">SCopeland@mednet.ucla.edu</a>><br>
Subject: [Mristudio-users] loading AIR files<br>
To: "<a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a>" <<a href="mailto:mristudio-users@mristudio.org">mristudio-users@mristudio.org</a>><br>
Message-ID:<br>
<<a href="mailto:F1A13CFB4AA1D04DBDDB2DC4183DA69749DFB4CD@EMGMB1.ad.medctr.ucla.edu">F1A13CFB4AA1D04DBDDB2DC4183DA69749DFB4CD@EMGMB1.ad.medctr.ucla.edu</a>><br>
Content-Type: text/plain; charset=us-ascii<br>
<br>
Hello,<br>
<br>
I think that I may have managed to use AIR's linear registration to register my anatomic image to the mean B0 image in landmarker. The program asks you to supply a filename, and after the process is complete I can find a file of type "AIR" in the correct location, but can't open it. It's obviously not analyze format, but when I try to open as "raw" I get the error "please enter an integer between 1 and 4096" that pops up from time to time. However, the boxes which contain 0s are greyed out and can't be changed. Any suggestions as to how I can open and view the file?<br>
<br>
Also, the anatomic image filename in the open "subject" window now has the name "updated_filename". Is this still the original, or is the registered image? I can't open the original when this one is open, so I thought perhaps this is still the original file just with "updated" appended, but I'm not sure. If it's the registered image, the registration is not working very well, so I'm hoping it's not.<br>
<br>
Thanks so much -<br>
<br>
Sarah Copeland<br>
<br>
IMPORTANT WARNING: This email (and any attachments) is only intended for the use of the person or entity to which it is addressed, and may contain information that is privileged and confidential. You, the recipient, are obligated to maintain it in a safe, secure and confidential manner. Unauthorized redisclosure or failure to maintain confidentiality may subject you to federal and state penalties. If you are not the intended recipient, please immediately notify us by return email, and delete this message from your computer.<br>
<br>
<br>
<br>
------------------------------<br>
<br>
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<br>
End of Mristudio-users Digest, Vol 14, Issue 24<br>
***********************************************<br>
</blockquote></div><br><br clear="all"><br>-- <br>Paul Beach<br>Michigan State University<br>College of Osteopathic Medicine<br> - Medical Scientist Training Program<br>Neuroscience Program<br>