[Gate-users] Gate-users Digest, Vol 98, Issue 8
Mike Tabriz
mtabriz at yahoo.com
Wed Jul 9 00:32:08 CEST 2014
Hi Tibo,
I have tried it and I'm afraid it does not work in the format that you are suggesting. I believe since it is saved as zubal-HU2mat.txt, it would need to be set up as a range. Essentially trying to "trick" Gate by replacing Hounsfield Units with the index numbers.
Best regards,
Mike
On Tuesday, July 8, 2014 1:04 PM, "gate-users-request at lists.opengatecollaboration.org" <gate-users-request at lists.opengatecollaboration.org> wrote:
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Today's Topics:
1. Re: Reading in tissues / organs from the Zubal phantom
(thibaultmauxion)
2. HTML emails (Stathis Kamperis)
3. File Transfer from vGATE (LARS.EWELL at HAMPTONU.EDU)
4. Re: File Transfer from vGATE (Nicolas Karakatsanis)
5. Re: File Transfer from vGATE (LARS.EWELL at HAMPTONU.EDU)
----------------------------------------------------------------------
Message: 1
Date: Tue, 8 Jul 2014 09:28:03 -0400
From: thibaultmauxion <thibault.mauxion at gmail.com>
To: "gate-users at lists.opengatecollaboration.org"
<gate-users at lists.opengatecollaboration.org>
Subject: Re: [Gate-users] Reading in tissues / organs from the Zubal
phantom
Message-ID: <5B42104E-098A-4005-83BE-D31C9B98DD97 at gmail.com>
Content-Type: text/plain; charset="iso-8859-1"
Hi Mike,
if vacuum is 0, skin is 1, etc etc I would use :
0 0 vacum
1 1 skin
2 2 brain
etc etc
regards
Tibo
On Jul 7, 2014, at 7:25 PM, Mike Tabriz <mtabriz at yahoo.com> wrote:
> Dear Gate users,
>
> I am trying to simulate energy distribution originating from different source organs. My final output images appear to be very illogical which makes me suspect there is a problem with the way I set up tissues / organs.
>
> I am using the Zubal phantom which comes with unique index numbers for each individual tissue / organ. So the way I have associated each organ with their respective index numbers is as follows:
> #=============
> #zubal-HU2mat.txt
> #=============
> 0 1 Vacuum
> 1 2 Skin
> 2 3 Brain
> 3 4 SpinalCord
> 4 5 Skull
> 5 6 Spine
> 6 7 RibCage
> 7 8 Pelvis
> .
> .
> .
> My question is whether this is the right way of reading in the organs and if not whether you could make a suggestion as to how I can correctly identify these tissues so that GATE recognizes them.
>
> Thank you in advance.
> _______________________________________________
> Gate-users mailing list
> Gate-users at lists.opengatecollaboration.org
> http://lists.opengatecollaboration.org/mailman/listinfo/gate-users
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Message: 2
Date: Tue, 8 Jul 2014 17:26:56 +0300
From: Stathis Kamperis <ekamperi at gmail.com>
To: gate-users <gate-users at lists.opengatecollaboration.org>
Subject: [Gate-users] HTML emails
Message-ID:
<CACYCkUtnTPEiFgB_Uwtz16JOjiRL=C4OzenOU4gGCrBJsqP+WQ at mail.gmail.com>
Content-Type: text/plain; charset="utf-8"
Hi people,
sorry for the kind of offtopic message.
It would be awesome if the administrators disabled HTML emails in the
mailing list. HTML emails look *very ugly* most of the times and when they
are archived by various sites the HTML tags show up.
Thank you for considering!
-Stathis
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Message: 3
Date: Tue, 8 Jul 2014 15:30:44 +0000
From: <LARS.EWELL at HAMPTONU.EDU>
To: <gate-users at lists.opengatecollaboration.org>
Cc: LARS.EWELL at HAMPTONU.EDU
Subject: [Gate-users] File Transfer from vGATE
Message-ID:
<47F349D2693A7144AA7408C96DC8847E121662A0 at exbl1.infotech.hamptonu.edu>
Content-Type: text/plain; charset="us-ascii"
To Whom it May Concern,
I've been trying to enable file transfer between my virtual machine running vGATE (linux, Ubutnu) and my host machine running Windows.
I have created a shared file in the virtual machine, and then I was attempting to mount this file from within linux. However, the mount command requires root/su, which I do not have.
Any suggestions?
Thanks in advance.
Regards,
Lars Ewell
The information contained in this message is intended only for the recipient, and may otherwise be privileged and confidential. If the reader of this message is not the intended recipient, or an employee or agent responsible for delivering this message to the intended recipient, please be aware that any dissemination or copying of this communication is strictly prohibited. If you have received this communication in error, please immediately notify us by replying to the message and deleting it from your computer. This footnote also confirms that this email has been scanned for all viruses by the Hampton University Center for Information Technology Enterprise Systems service.
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Message: 4
Date: Tue, 8 Jul 2014 17:44:50 +0200
From: Nicolas Karakatsanis <nkaraka2 at jhmi.edu>
To: "LARS.EWELL at HAMPTONU.EDU" <LARS.EWELL at hamptonu.edu>
Cc: "gate-users at lists.opengatecollaboration.org"
<gate-users at lists.opengatecollaboration.org>
Subject: Re: [Gate-users] File Transfer from vGATE
Message-ID:
<CAPjDHBMrbboLjFpk=aiNkSmiX+NCcY0b_92ZGGJ0wz1g9emTmA at mail.gmail.com>
Content-Type: text/plain; charset="utf-8"
Dear Lars,
try the password "virtual"
Regards
Nicolas
Nicolas A. Karakatsanis, PhD
Electrical and Computer Engineer | Postdoctoral Research Associate
PET Instrumentation and Neuroimaging Laboratory
Division of Nuclear Medicine | Geneva University Hospital
Faculty of Medicine | University of Geneva
Site Cluse - Roseraie, Rue Gabrielle-Perret-Gentil 4,
CH-1211, Geneva 14, Switzerland
Tomographic Image Reconstruction and Analysis Lab
Division of Nuclear Medicine | Johns Hopkins Hospital
School of Medicine | Johns Hopkins University
601 N Caroline St, JHOC Room 3263
Baltimore, MD, USA, 21287
On Tue, Jul 8, 2014 at 5:30 PM, LARS.EWELL at HAMPTONU.EDU <
LARS.EWELL at hamptonu.edu> wrote:
> To Whom it May Concern,
>
>
>
> I?ve been trying to enable file transfer between my virtual machine
> running vGATE (linux, Ubutnu) and my host machine running Windows.
>
>
>
> I have created a shared file in the virtual machine, and then I was
> attempting to mount this file from within linux. However, the mount
> command requires root/su, which I do not have.
>
>
>
> Any suggestions?
>
>
>
> Thanks in advance.
>
>
>
> Regards,
>
>
>
> Lars Ewell
> The information contained in this message is intended only for the
> recipient, and may otherwise be privileged and confidential. If the reader
> of this message is not the intended recipient, or an employee or agent
> responsible for delivering this message to the intended recipient, please
> be aware that any dissemination or copying of this communication is
> strictly prohibited. If you have received this communication in error,
> please immediately notify us by replying to the message and deleting it
> from your computer. This footnote also confirms that this email has been
> scanned for all viruses by the Hampton University Center for Information
> Technology Enterprise Systems service.
>
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Message: 5
Date: Tue, 8 Jul 2014 17:02:05 +0000
From: <LARS.EWELL at HAMPTONU.EDU>
To: <nkaraka2 at jhmi.edu>
Cc: gate-users at lists.opengatecollaboration.org
Subject: Re: [Gate-users] File Transfer from vGATE
Message-ID:
<47F349D2693A7144AA7408C96DC8847E121662F8 at exbl1.infotech.hamptonu.edu>
Content-Type: text/plain; charset="utf-8"
Nicolas,
Thanks for the suggestion.
Unfortunately, it did not work. That password gets me logged in, but it did not give me su/root.
Thanks again.
Regards,
Lars
From: Nicolas Karakatsanis [mailto:nkaraka2 at jhmi.edu]
Sent: Tuesday, July 08, 2014 11:45 AM
To: EWELL LARS
Cc: gate-users at lists.opengatecollaboration.org
Subject: Re: [Gate-users] File Transfer from vGATE
Dear Lars,
try the password "virtual"
Regards
Nicolas
Nicolas A. Karakatsanis, PhD
Electrical and Computer Engineer | Postdoctoral Research Associate
PET Instrumentation and Neuroimaging Laboratory
Division of Nuclear Medicine | Geneva University Hospital
Faculty of Medicine | University of Geneva
Site Cluse - Roseraie, Rue Gabrielle-Perret-Gentil 4,
CH-1211, Geneva 14, Switzerland
Tomographic Image Reconstruction and Analysis Lab
Division of Nuclear Medicine | Johns Hopkins Hospital
School of Medicine | Johns Hopkins University
601 N Caroline St, JHOC Room 3263
Baltimore, MD, USA, 21287
On Tue, Jul 8, 2014 at 5:30 PM, LARS.EWELL at HAMPTONU.EDU<mailto:LARS.EWELL at HAMPTONU.EDU> <LARS.EWELL at hamptonu.edu<mailto:LARS.EWELL at hamptonu.edu>> wrote:
To Whom it May Concern,
I?ve been trying to enable file transfer between my virtual machine running vGATE (linux, Ubutnu) and my host machine running Windows.
I have created a shared file in the virtual machine, and then I was attempting to mount this file from within linux. However, the mount command requires root/su, which I do not have.
Any suggestions?
Thanks in advance.
Regards,
Lars Ewell
The information contained in this message is intended only for the recipient, and may otherwise be privileged and confidential. If the reader of this message is not the intended recipient, or an employee or agent responsible for delivering this message to the intended recipient, please be aware that any dissemination or copying of this communication is strictly prohibited. If you have received this communication in error, please immediately notify us by replying to the message and deleting it from your computer. This footnote also confirms that this email has been scanned for all viruses by the Hampton University Center for Information Technology Enterprise Systems service.
The information contained in this message is intended only for the recipient, and may otherwise be privileged and confidential. If the reader of this message is not the intended recipient, or an employee or agent responsible for delivering this message to the intended recipient, please be aware that any dissemination or copying of this communication is strictly prohibited. If you have received this communication in error, please immediately notify us by replying to the message and deleting it from your computer. This footnote also confirms that this email has been scanned for all viruses by the Hampton University Center for Information Technology Enterprise Systems service.
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