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Haiyong Xu-2

On Mar 15, 2017 12:00 PM, <[hidden email]> wrote:
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Today's Topics:

   1. Re: DWI Converter error - how to convert NRRD to FSL?
      (Isaiah Norton)
   2. Re: Trouble with Cone beam CT model making (Gagnon, Greg)
   3. Re: Trouble with Cone beam CT model making (Andras Lasso)
   4. RT dose evaluation (Lukas)
   5. Re: About Python (Mohamed Atef)
   6. Re: RT dose evaluation (Andras Lasso)
   7. Re: About Python (Andras Lasso)
   8. Re: RT dose evaluation (Luk?? Knybel)
   9. Re: RT dose evaluation (Luk?? Knybel)
  10. Re: RT dose evaluation (Andras Lasso)
  11. Unable to install any extension with today's nightly
      (Andrey Fedorov)


----------------------------------------------------------------------

Message: 1
Date: Tue, 14 Mar 2017 16:14:05 +0000
From: Isaiah Norton <[hidden email]>
To: MeganS <[hidden email]>
Cc: SPL Slicer Users <[hidden email]>
Subject: Re: [slicer-users] DWI Converter error - how to convert NRRD
        to FSL?
Message-ID: <[hidden email]>
Content-Type: text/plain; charset="windows-1252"

Hi Megan,

I can take a look and see if there is anything we can do (that conversion may be safe if the range is in bounds for a short. DTIPrep might be changing the output datatype for no reason). I'll either suggest a fix directly or file a bug report for DWIConvert (https://github.com/BRAINSia/BRAINSTools/issues).

If you have a de-identified NRRD dataset you can share that would be helpful. Please make sure there is no protected information in the file itself or the filename. Also probably best to send directly since this mailing list is archived.

Best,
Isaiah

On Mon, Mar 6, 2017 at 1:53 PM, MeganS <[hidden email]<mailto:[hidden email]>> wrote:
Hello,

I am having some problems converting the output of DTIPrep .nrrd file into
FSL format.

In the 3D Slicer, DWI Convert I get the following error log:

Found CommandLine Module, target is
/Applications/Slicer.app/Contents/lib/Slicer-4.6/cli-modules/DWIConvert
ModuleType: CommandLineModule
DWIConverter command line:

/Applications/Slicer.app/Contents/lib/Slicer-4.6/cli-modules/DWIConvert
--conversionMode NrrdToFSL --inputVolume
/var/folders/gm/5xjgw9fs1cd6w3f79y7bj72w0000gn/T/Slicer/GHAD_vtkMRMLDiffusionWeightedVolumeNodeB.nrrd
--outputVolume
/var/folders/gm/5xjgw9fs1cd6w3f79y7bj72w0000gn/T/Slicer/GHAD_vtkMRMLDiffusionWeightedVolumeNodeB.nrrd
--inputDicomDirectory
/Users/MEGAN/Documents/WORK/DataAnalyses/DTI/CWANAdol/CW_0044B_4/dicom_dti/new
--outputBValues
/Users/MEGAN/Documents/WORK/DataAnalyses/DTI/CWANAdol/CW_0044B_4/dicom_dti/new/bvals.bval
--outputBVectors
/Users/MEGAN/Documents/WORK/DataAnalyses/DTI/CWANAdol/CW_0044B_4/dicom_dti/new/bvecs.bvec
--outputDirectory
/Users/MEGAN/Documents/WORK/DataAnalyses/DTI/CWANAdol/CW_0044B_4/dicom_dti/new
--smallGradientThreshold 0.2


DWIConverter standard error:

Error: ReadVolume: Unsupported source pixel type.
Input volume: unsigned_short
Output volume: short
The only supported output type is <short>. You may consider using
allowLossyConversion option.
However, use this option with caution! Conversion from images of a different
type may cause data loss due to rounding or truncation.


DWIConverter standard error:

Error: ReadVolume: Unsupported source pixel type.
Input volume: unsigned_short
Output volume: short
The only supported output type is <short>. You may consider using
allowLossyConversion option.
However, use this option with caution! Conversion from images of a different
type may cause data loss due to rounding or truncation.

DWIConverter completed with errors


Found CommandLine Module, target is
/Applications/Slicer.app/Contents/lib/Slicer-4.6/cli-modules/DWIConvert
ModuleType: CommandLineModule
DWIConverter command line:

/Applications/Slicer.app/Contents/lib/Slicer-4.6/cli-modules/DWIConvert
--conversionMode NrrdToFSL --inputVolume
/var/folders/gm/5xjgw9fs1cd6w3f79y7bj72w0000gn/T/Slicer/GHAD_vtkMRMLDiffusionWeightedVolumeNodeB.nrrd
--outputVolume
/var/folders/gm/5xjgw9fs1cd6w3f79y7bj72w0000gn/T/Slicer/GHAD_vtkMRMLDiffusionWeightedVolumeNodeD.nrrd
--inputDicomDirectory
/Users/MEGAN/Documents/WORK/DataAnalyses/DTI/CWANAdol/CW_0044B_4/dicom_dti/new
--outputBValues
/Users/MEGAN/Documents/WORK/DataAnalyses/DTI/CWANAdol/CW_0044B_4/dicom_dti/new/bvals.bval
--outputBVectors
/Users/MEGAN/Documents/WORK/DataAnalyses/DTI/CWANAdol/CW_0044B_4/dicom_dti/new/bvecs.bvec
--outputDirectory
/Users/MEGAN/Documents/WORK/DataAnalyses/DTI/CWANAdol/CW_0044B_4/dicom_dti/new
--smallGradientThreshold 0.2


DWIConverter standard error:

Error: ReadVolume: Unsupported source pixel type.
Input volume: unsigned_short
Output volume: short
The only supported output type is <short>. You may consider using
allowLossyConversion option.
However, use this option with caution! Conversion from images of a different
type may cause data loss due to rounding or truncation.



DWIConverter completed with errors


Found CommandLine Module, target is
/Applications/Slicer.app/Contents/lib/Slicer-4.6/cli-modules/DWIConvert
ModuleType: CommandLineModule

DWIConverter command line:

/Applications/Slicer.app/Contents/lib/Slicer-4.6/cli-modules/DWIConvert
--conversionMode NrrdToFSL --inputVolume
/var/folders/gm/5xjgw9fs1cd6w3f79y7bj72w0000gn/T/Slicer/GHAD_vtkMRMLDiffusionWeightedVolumeNodeB.nrrd
--outputVolume
/var/folders/gm/5xjgw9fs1cd6w3f79y7bj72w0000gn/T/Slicer/GHAD_vtkMRMLDiffusionWeightedVolumeNodeD.nrrd
--inputDicomDirectory
/Users/MEGAN/Documents/WORK/DataAnalyses/DTI/CWANAdol/CW_0044B_4/dicom_dti/new
--outputBValues
/Users/MEGAN/Documents/WORK/DataAnalyses/DTI/CWANAdol/CW_0044B_4/dicom_dti/new/bvals.bval
--outputBVectors
/Users/MEGAN/Documents/WORK/DataAnalyses/DTI/CWANAdol/CW_0044B_4/dicom_dti/new/bvecs.bvec
--outputDirectory
/Users/MEGAN/Documents/WORK/DataAnalyses/DTI/CWANAdol/CW_0044B_4/dicom_dti/new
--smallGradientThreshold 0.2


DWIConverter standard error:

Error: ReadVolume: Unsupported source pixel type.
Input volume: unsigned_short
Output volume: short
The only supported output type is <short>. You may consider using
allowLossyConversion option.
However, use this option with caution! Conversion from images of a different
type may cause data loss due to rounding or truncation.

DWIConverter completed with errors




I checked the ?Lossy Conversion? option and it ran with no errors, but my
output files that were saved included the .bvec and .bval file but not NIFTI
file.

I?m not sure what I am doing wrong. Any help is much appreciated.

Thanks,

Megan






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------------------------------

Message: 2
Date: Tue, 14 Mar 2017 20:30:30 +0000
From: "Gagnon, Greg" <[hidden email]>
To: "Sharp, Gregory C." <[hidden email]>, SPL Slicer Users
        <[hidden email]>
Subject: Re: [slicer-users] Trouble with Cone beam CT model making
Message-ID: <[hidden email]>
Content-Type: text/plain; charset="windows-1252"

Well I thought I had everything correct.  The image is the correct size and shape but it is a mirror image of what it?s supposed to be.  I tried doing the -1.0 diagonal in the transforms screen but nothing happened.  Am I missing something simple again?  I can always just mirror it in Meshmixer but I figured if it?s simple in Slicer I might as well do it ahead of time.

Thanks again,
Greg

From: Sharp, Gregory C. [mailto:[hidden email]]
Sent: Monday, March 13, 2017 11:37 AM
To: Gagnon, Greg; SPL Slicer Users
Subject: RE: Trouble with Cone beam CT model making

Glad to help.  If you are doing quantitative analysis, please contact the data provider or manufacturer.  Maybe (x,y) spacing or other image parameters are incorrect too.  -Greg

From: slicer-users [mailto:[hidden email]]<mailto:[mailto:[hidden email]]> On Behalf Of Gagnon, Greg
Sent: Monday, March 13, 2017 9:48 AM
To: Sharp, Gregory C.; SPL Slicer Users
Subject: Re: [slicer-users] Trouble with Cone beam CT model making

Mr. Sharp.  You NAILED it haha.  Thank you so much.  I can?t believe I spent two days trying to figure that out and it was so simple.  Like anything else every day I learn something new.  Today is no different!  Thanks to everyone

From: Sharp, Gregory C. [mailto:[hidden email]]
Sent: Monday, March 13, 2017 9:39 AM
To: Gagnon, Greg; SPL Slicer Users
Subject: RE: Trouble with Cone beam CT model making

It looks like your slice spacing is not set correctly.
Try this:


? Volumes module

? Volume Information

? Image Spacing

? Edit Z value (the third one), decrease by a factor of 3

Does it look better?

Many CBCT are isotropic (same spacing in x, y, and z).
If your X and Y spacing are the same, but Z is different,
try making Z the same as X and Y.

From: slicer-users [mailto:[hidden email]] On Behalf Of Gagnon, Greg
Sent: Monday, March 13, 2017 9:16 AM
To: SPL Slicer Users
Subject: [slicer-users] Trouble with Cone beam CT model making

Hi, I was wondering if there is an  easy way to deal with a CBCT.  I don?t know if it?s normal but it looks as though the axial window looks like a normal CT but the coronal and sagittal look stretched and upside down.  Everything I?ve read so far about different modules either don?t seem to exist like the Plastimatch or doing some sort of Transform does all three views.  We are trying to view and print the 3d model of the mandible for possible implant planning.  The disk doesn?t seem to have the raw dicom data like most disks I?m used to receiving, I have to just take the entire folder and put it into Slicer.  Do you think that I need to try and get the raw data?  Or if there is any other free software out there that would make easy work of this please advise.  Any help is greatly appreciated.

Thanks,
Greg

[cid:image001.jpg@01D29CE0.493E4230]
________________________________
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________________________________
Please view our annual report at http://www.bhannualreport.org


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------------------------------

Message: 3
Date: Tue, 14 Mar 2017 20:51:51 +0000
From: Andras Lasso <[hidden email]>
To: "Gagnon, Greg" <[hidden email]>, "Sharp, Gregory
        C." <[hidden email]>, SPL Slicer Users
        <[hidden email]>
Subject: Re: [slicer-users] Trouble with Cone beam CT model making
Message-ID: <[hidden email]>
Content-Type: text/plain; charset="windows-1252"

Make sure to apply the transform to the nodes that you want to mirror (nodes should be listed on the right side in the Transforms module?s Apply section).

Andras

From: Gagnon, Greg<mailto:[hidden email]>
Sent: Tuesday, March 14, 2017 4:30 PM
To: Sharp, Gregory C.<mailto:[hidden email]>; SPL Slicer Users<mailto:[hidden email]>
Subject: Re: [slicer-users] Trouble with Cone beam CT model making

Well I thought I had everything correct.  The image is the correct size and shape but it is a mirror image of what it?s supposed to be.  I tried doing the -1.0 diagonal in the transforms screen but nothing happened.  Am I missing something simple again?  I can always just mirror it in Meshmixer but I figured if it?s simple in Slicer I might as well do it ahead of time.

Thanks again,
Greg

From: Sharp, Gregory C. [mailto:[hidden email]]
Sent: Monday, March 13, 2017 11:37 AM
To: Gagnon, Greg; SPL Slicer Users
Subject: RE: Trouble with Cone beam CT model making

Glad to help.  If you are doing quantitative analysis, please contact the data provider or manufacturer.  Maybe (x,y) spacing or other image parameters are incorrect too.  -Greg

From: slicer-users [mailto:[hidden email]]<mailto:[mailto:[hidden email]]> On Behalf Of Gagnon, Greg
Sent: Monday, March 13, 2017 9:48 AM
To: Sharp, Gregory C.; SPL Slicer Users
Subject: Re: [slicer-users] Trouble with Cone beam CT model making

Mr. Sharp.  You NAILED it haha.  Thank you so much.  I can?t believe I spent two days trying to figure that out and it was so simple.  Like anything else every day I learn something new.  Today is no different!  Thanks to everyone

From: Sharp, Gregory C. [mailto:[hidden email]]
Sent: Monday, March 13, 2017 9:39 AM
To: Gagnon, Greg; SPL Slicer Users
Subject: RE: Trouble with Cone beam CT model making

It looks like your slice spacing is not set correctly.
Try this:


? Volumes module

? Volume Information

? Image Spacing

? Edit Z value (the third one), decrease by a factor of 3

Does it look better?

Many CBCT are isotropic (same spacing in x, y, and z).
If your X and Y spacing are the same, but Z is different,
try making Z the same as X and Y.

From: slicer-users [mailto:[hidden email]] On Behalf Of Gagnon, Greg
Sent: Monday, March 13, 2017 9:16 AM
To: SPL Slicer Users
Subject: [slicer-users] Trouble with Cone beam CT model making

Hi, I was wondering if there is an  easy way to deal with a CBCT.  I don?t know if it?s normal but it looks as though the axial window looks like a normal CT but the coronal and sagittal look stretched and upside down.  Everything I?ve read so far about different modules either don?t seem to exist like the Plastimatch or doing some sort of Transform does all three views.  We are trying to view and print the 3d model of the mandible for possible implant planning.  The disk doesn?t seem to have the raw dicom data like most disks I?m used to receiving, I have to just take the entire folder and put it into Slicer.  Do you think that I need to try and get the raw data?  Or if there is any other free software out there that would make easy work of this please advise.  Any help is greatly appreciated.

Thanks,
Greg

[cid:image001.jpg@01D29CE0.493E4230]
________________________________
Please view our annual report at http://www.bhannualreport.org<https://urldefense.proofpoint.com/v2/url?u=http-3A__www.bhannualreport.org&d=DwMFAw&c=BLF1codk7grETTA02F6JwR5DiXMTPyNdcZpbXT_1iEc&r=WYMXkKwt_zuyKDn1hxI1fKlgO5s4lc0_3uBmeIULdKw&m=rYCSp_v72isn9SIbJT1A_yD3znkxLPC_NgQYdIZdp64&s=K8rMtv2yQPcaUq4KeZLEo_kRR2vcPv147P6uV5_RebA&e=>


CONFIDENTIALITY NOTICE: This e-mail communication and any attachments may contain confidential and privileged information for the use of the designated recipients named above. If you are not the intended recipient, you are hereby notified that you have received this communication in error and that any review, disclosure, dissemination, distribution or copying of it or its contents is prohibited. If you have received this communication in error, please reply to the sender immediately or by telephone at <a href="tel:413-794-0000" value="&#43;14137940000">413-794-0000 and destroy all copies of this communication and any attachments. For further information regarding Baystate Health's privacy policy, please visit our Internet site at https://www.baystatehealth.org.

The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline<https://urldefense.proofpoint.com/v2/url?u=http-3A__www.partners.org_complianceline&d=DwMFAw&c=BLF1codk7grETTA02F6JwR5DiXMTPyNdcZpbXT_1iEc&r=WYMXkKwt_zuyKDn1hxI1fKlgO5s4lc0_3uBmeIULdKw&m=ArDvA7hRD3b4NEmM88XS3L3vkAvawiBpf790yQrSNRA&s=BeEpsYR_fmdMBxAMikPYO0hmWDuI_ELprqqxTnpuvuo&e=> . If the e-mail was sent to you in error
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________________________________
Please view our annual report at http://www.bhannualreport.org<https://urldefense.proofpoint.com/v2/url?u=http-3A__www.bhannualreport.org&d=DwMFAw&c=BLF1codk7grETTA02F6JwR5DiXMTPyNdcZpbXT_1iEc&r=WYMXkKwt_zuyKDn1hxI1fKlgO5s4lc0_3uBmeIULdKw&m=ArDvA7hRD3b4NEmM88XS3L3vkAvawiBpf790yQrSNRA&s=3jOnC8WOtdzqA01jtkt2XR_mfUIVlii2P2UfG99PFhM&e=>


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________________________________
Please view our annual report at http://www.bhannualreport.org


CONFIDENTIALITY NOTICE: This e-mail communication and any attachments may contain confidential and privileged information for the use of the designated recipients named above. If you are not the intended recipient, you are hereby notified that you have received this communication in error and that any review, disclosure, dissemination, distribution or copying of it or its contents is prohibited. If you have received this communication in error, please reply to the sender immediately or by telephone at <a href="tel:413-794-0000" value="&#43;14137940000">413-794-0000 and destroy all copies of this communication and any attachments. For further information regarding Baystate Health's privacy policy, please visit our Internet site at https://www.baystatehealth.org.
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------------------------------

Message: 4
Date: Wed, 15 Mar 2017 08:08:28 +0000
From: Lukas <[hidden email]>
To: SPL Slicer Users <[hidden email]>
Subject: [slicer-users] RT dose evaluation
Message-ID: <[hidden email]>
Content-Type: text/plain; charset="iso-8859-1"

Dear Slicer Users,
I would like to evaluate dose distributions- planned (RTdose dcm) vs real
dose (film). Usually I used gamma analysis (The DoseComparison module). Now
I would like to fing a way how to get different results.

1) I need to set area in the square film as my volume of interest (circle
area)- I need to compare dose to target only and my target is a circle in
the middle of film.

2)I need to evaluate the dose inside circle (more than compare with
reference, I see differences from gamma analysis but I need to specify them
in Gy and only in circle area)

Don?t you have any idea how to deal with this?

Thank you very much for any help.

BR

Lukas



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------------------------------

Message: 5
Date: Wed, 15 Mar 2017 09:10:54 +0000
From: Mohamed Atef <[hidden email]>
To: Andras Lasso <[hidden email]>
Cc: SPL Slicer Users <[hidden email]>
Subject: Re: [slicer-users] About Python
Message-ID: <[hidden email]>
Content-Type: text/plain; charset="us-ascii"

Thanks Andras for response.
The main error is about "IndentationError" that i think led to failure in the loading the desired file.
Attached the error log file as well.

Appreciate your help

Mohamed

On Tue, Mar 14, 2017 at 10:14 PM, Andras Lasso <[hidden email]<mailto:[hidden email]>> wrote:
> but an error keeps appearing to me because of the file
Please send the actual error message.

Information on indentation:
http://www.diveintopython.net/getting_to_know_python/indenting_code.html

Andras

From: slicer-users [mailto:[hidden email]<mailto:[hidden email]>] On Behalf Of Mohamed Atef
Sent: March 14, 2017 4:37
To: SPL Slicer Users <[hidden email]<mailto:[hidden email]>>
Subject: [slicer-users] About Python

Hi all,
I'm currently using Python 3.6 (32-bit) with Windows 10 64-bit. I'm trying to import an example of the slicer tutorial into Slicer but an error keeps appearing to me because of the file. So i wanted to ask some questions about python editor:
1- Does the format used in the editor changes the output and could cause error? If so, what is the suitable format for the writing the code?
2- what does 'indentation' and 'indentation level' mean exactly? and does it differ from the normal space between words?

Appreciate your time for answering in advance.

Regards,

Mohamed


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Message: 6
Date: Wed, 15 Mar 2017 11:40:37 +0000
From: Andras Lasso <[hidden email]>
To: Lukas <[hidden email]>, SPL Slicer Users
        <[hidden email]>
Subject: Re: [slicer-users] RT dose evaluation
Message-ID: <[hidden email]>
Content-Type: text/plain; charset="iso-8859-1"

Have you tried the Film dosimetry extension?



https://www.slicer.org/wiki/Documentation/Nightly/Modules/FilmDosimetry



(available for recent nightly builds)



Andras



From: Lukas<mailto:[hidden email]>
Sent: Wednesday, March 15, 2017 4:08 AM
To: SPL Slicer Users<mailto:[hidden email]>
Subject: [slicer-users] RT dose evaluation



Dear Slicer Users,
I would like to evaluate dose distributions- planned (RTdose dcm) vs real
dose (film). Usually I used gamma analysis (The DoseComparison module). Now
I would like to fing a way how to get different results.

1) I need to set area in the square film as my volume of interest (circle
area)- I need to compare dose to target only and my target is a circle in
the middle of film.

2)I need to evaluate the dose inside circle (more than compare with
reference, I see differences from gamma analysis but I need to specify them
in Gy and only in circle area)

Don?t you have any idea how to deal with this?

Thank you very much for any help.

BR

Lukas



--
View this message in context: http://slicer-users.65878.n3.nabble.com/RT-dose-evaluation-tp4031987.html
Sent from the slicer-users mailing list archive at Nabble.com.
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Message: 7
Date: Wed, 15 Mar 2017 11:45:26 +0000
From: Andras Lasso <[hidden email]>
To: Mohamed Atef <[hidden email]>
Cc: SPL Slicer Users <[hidden email]>
Subject: Re: [slicer-users] About Python
Message-ID: <[hidden email]>
Content-Type: text/plain; charset="us-ascii"

You have incorrect number of spaces or tabs in your .py file at the indicates line. Use a Python IDE, such as PyCharm to prevent errors like this (it tries to maintain proper indentation and highlights indentation errors while you are editing).

Andras

From: Mohamed Atef<mailto:[hidden email]>
Sent: Wednesday, March 15, 2017 5:10 AM
To: Andras Lasso<mailto:[hidden email]>
Cc: SPL Slicer Users<mailto:[hidden email]>
Subject: Re: About Python

Thanks Andras for response.
The main error is about "IndentationError" that i think led to failure in the loading the desired file.
Attached the error log file as well.

Appreciate your help

Mohamed

On Tue, Mar 14, 2017 at 10:14 PM, Andras Lasso <[hidden email]<mailto:[hidden email]>> wrote:
> but an error keeps appearing to me because of the file
Please send the actual error message.

Information on indentation:
http://www.diveintopython.net/getting_to_know_python/indenting_code.html

Andras

From: slicer-users [mailto:[hidden email]<mailto:[hidden email]>] On Behalf Of Mohamed Atef
Sent: March 14, 2017 4:37
To: SPL Slicer Users <[hidden email]<mailto:[hidden email]>>
Subject: [slicer-users] About Python

Hi all,
I'm currently using Python 3.6 (32-bit) with Windows 10 64-bit. I'm trying to import an example of the slicer tutorial into Slicer but an error keeps appearing to me because of the file. So i wanted to ask some questions about python editor:
1- Does the format used in the editor changes the output and could cause error? If so, what is the suitable format for the writing the code?
2- what does 'indentation' and 'indentation level' mean exactly? and does it differ from the normal space between words?

Appreciate your time for answering in advance.

Regards,

Mohamed


-------------- next part --------------
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------------------------------

Message: 8
Date: Wed, 15 Mar 2017 11:48:17 +0000
From: Luk?? Knybel <[hidden email]>
To: Andras Lasso <[hidden email]>
Cc: SPL Slicer Users <[hidden email]>
Subject: Re: [slicer-users] RT dose evaluation
Message-ID: <[hidden email]>
Content-Type: text/plain; charset="iso-8859-2"

Dear Andras,
No...I will try to use it...It is not very clear from document for me but I have to try it first...

Lukas


---------- P?vodn? zpr?va ----------
Od: Andras Lasso <[hidden email]>
Komu: Lukas <[hidden email]>, SPL Slicer Users <[hidden email]>
Datum: 15. 3. 2017 12:40:43
P?edm?t: RE: [slicer-users] RT dose evaluation


Have you tried the Film dosimetry extension?



https://www.slicer.org/wiki/Documentation/Nightly/Modules/FilmDosimetry



(available for recent nightly builds)



Andras



From: Lukas<mailto:[hidden email]>
Sent: Wednesday, March 15, 2017 4:08 AM
To: SPL Slicer Users<mailto:[hidden email]>
Subject: [slicer-users] RT dose evaluation



Dear Slicer Users,
I would like to evaluate dose distributions- planned (RTdose dcm) vs real
dose (film). Usually I used gamma analysis (The DoseComparison module). Now
I would like to fing a way how to get different results.

1) I need to set area in the square film as my volume of interest (circle
area)- I need to compare dose to target only and my target is a circle in
the middle of film.

2)I need to evaluate the dose inside circle (more than compare with
reference, I see differences from gamma analysis but I need to specify them
in Gy and only in circle area)

Don?t you have any idea how to deal with this?

Thank you very much for any help.

BR

Lukas



--
View this message in context: http://slicer-users.65878.n3.nabble.com/RT-dose-evaluation-tp4031987.html
Sent from the slicer-users mailing list archive at Nabble.com.
_______________________________________________
slicer-users mailing list
[hidden email]
http://massmail.spl.harvard.edu/mailman/listinfo/slicer-users
To unsubscribe: send email to [hidden email] with unsubscribe as the subject
http://www.slicer.org/slicerWiki/index.php/Documentation/4.3/FAQ
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------------------------------

Message: 9
Date: Wed, 15 Mar 2017 12:16:43 +0000
From: Luk?? Knybel <[hidden email]>
To: Andras Lasso <[hidden email]>
Cc: SPL Slicer Users <[hidden email]>
Subject: Re: [slicer-users] RT dose evaluation
Message-ID: <[hidden email]>
Content-Type: text/plain; charset="iso-8859-2"

Dear Andras,
I tried to install the extension FilmDosimetry but I didn?t succed.
Nothing happened after I wanted to install and Extension Manager is not possible to open again...
When I wanted to install I saw: Retrieving extension metadata and I waited 15minutes with no result...

I attached picture of command prompt...

Thank you
Lukas



---------- P?vodn? zpr?va ----------
Od: Andras Lasso <[hidden email]>
Komu: Lukas <[hidden email]>, SPL Slicer Users <[hidden email]>
Datum: 15. 3. 2017 12:40:43
P?edm?t: RE: [slicer-users] RT dose evaluation


Have you tried the Film dosimetry extension?



https://www.slicer.org/wiki/Documentation/Nightly/Modules/FilmDosimetry



(available for recent nightly builds)



Andras



From: Lukas<mailto:[hidden email]>
Sent: Wednesday, March 15, 2017 4:08 AM
To: SPL Slicer Users<mailto:[hidden email]>
Subject: [slicer-users] RT dose evaluation



Dear Slicer Users,
I would like to evaluate dose distributions- planned (RTdose dcm) vs real
dose (film). Usually I used gamma analysis (The DoseComparison module). Now
I would like to fing a way how to get different results.

1) I need to set area in the square film as my volume of interest (circle
area)- I need to compare dose to target only and my target is a circle in
the middle of film.

2)I need to evaluate the dose inside circle (more than compare with
reference, I see differences from gamma analysis but I need to specify them
in Gy and only in circle area)

Don?t you have any idea how to deal with this?

Thank you very much for any help.

BR

Lukas



--
View this message in context: http://slicer-users.65878.n3.nabble.com/RT-dose-evaluation-tp4031987.html
Sent from the slicer-users mailing list archive at Nabble.com.
_______________________________________________
slicer-users mailing list
[hidden email]
http://massmail.spl.harvard.edu/mailman/listinfo/slicer-users
To unsubscribe: send email to [hidden email] with unsubscribe as the subject
http://www.slicer.org/slicerWiki/index.php/Documentation/4.3/FAQ
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------------------------------

Message: 10
Date: Wed, 15 Mar 2017 12:23:54 +0000
From: Andras Lasso <[hidden email]>
To: Luk?? Knybel <[hidden email]>
Cc: SPL Slicer Users <[hidden email]>
Subject: Re: [slicer-users] RT dose evaluation
Message-ID: <[hidden email]>
Content-Type: text/plain; charset="iso-8859-2"

There may be intermittent download errors from the extension manager. Try again a few times. You can also download the extension using a web browser as described here:
https://www.slicer.org/wiki/Documentation/Nightly/SlicerApplication/ExtensionsManager#How_to_manually_download_an_extension_package.3F

After download and installation is complete and restarted Slicer, the module should show up in Slicelets category.

Andras

From: Luk?? Knybel [mailto:[hidden email]]
Sent: March 15, 2017 8:17
To: Andras Lasso <[hidden email]>
Cc: SPL Slicer Users <[hidden email]>
Subject: RE: [slicer-users] RT dose evaluation

Dear Andras,
I tried to install the extension FilmDosimetry but I didn?t succed.
Nothing happened after I wanted to install and Extension Manager is not possible to open again...
When I wanted to install I saw: Retrieving extension metadata and I waited 15minutes with no result...

I attached picture of command prompt...

Thank you
Lukas


---------- P?vodn? zpr?va ----------
Od: Andras Lasso <[hidden email]<mailto:[hidden email]>>
Komu: Lukas <[hidden email]<mailto:[hidden email]>>, SPL Slicer Users <[hidden email]<mailto:[hidden email]>>
Datum: 15. 3. 2017 12:40:43
P?edm?t: RE: [slicer-users] RT dose evaluation


Have you tried the Film dosimetry extension?



https://www.slicer.org/wiki/Documentation/Nightly/Modules/FilmDosimetry



(available for recent nightly builds)



Andras



From: Lukas<mailto:[hidden email]>
Sent: Wednesday, March 15, 2017 4:08 AM
To: SPL Slicer Users<mailto:[hidden email]>
Subject: [slicer-users] RT dose evaluation


Dear Slicer Users,
I would like to evaluate dose distributions- planned (RTdose dcm) vs real
dose (film). Usually I used gamma analysis (The DoseComparison module). Now
I would like to fing a way how to get different results.

1) I need to set area in the square film as my volume of interest (circle
area)- I need to compare dose to target only and my target is a circle in
the middle of film.

2)I need to evaluate the dose inside circle (more than compare with
reference, I see differences from gamma analysis but I need to specify them
in Gy and only in circle area)

Don?t you have any idea how to deal with this?

Thank you very much for any help.

BR

Lukas



--
View this message in context: http://slicer-users.65878.n3.nabble.com/RT-dose-evaluation-tp4031987.html
Sent from the slicer-users mailing list archive at Nabble.com.
_______________________________________________
slicer-users mailing list
[hidden email]<mailto:[hidden email]>
http://massmail.spl.harvard.edu/mailman/listinfo/slicer-users
To unsubscribe: send email to [hidden email]<mailto:[hidden email]> with unsubscribe as the subject
http://www.slicer.org/slicerWiki/index.php/Documentation/4.3/FAQ
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------------------------------

Message: 11
Date: Wed, 15 Mar 2017 13:17:52 +0000
From: Andrey Fedorov <[hidden email]>
To: SPL Slicer Users <[hidden email]>
Subject: [slicer-users] Unable to install any extension with today's
        nightly
Message-ID: <[hidden email]>
Content-Type: text/plain; charset="us-ascii"

Hi,

I downloaded today's nightly for Mac, and tried to install an extension.

No matter what extension I try to install, I get tooltip message "Retrieving extension metadata [ extensionId: ... ], tooltip disappears, and nothing happens after that. No extension can be installed.

AF
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