Hi Luca,
I paste two different output, got on the vtkOutputWindow and on the command
line respectively:
---------------------------------------------------------------------------------------------------------
vtkOutputWindow
ERROR: In C:\Users\vmtk\local\build\VTK\Graphics\vtkPlaneSource.cxx, line
386
vtkPlaneSource (045BF320): Bad plane coordinate system
ERROR: In C:\Users\vmtk\local\build\VTK\Filtering\vtkExecutive.cxx, line 757
vtkStreamingDemandDrivenPipeline (045BF688): Algorithm
vtkPlaneSource(045BF320) returned failure for request: vtkInformation
(045C9988)
Debug: Off
Modified Time: 6910
Reference Count: 1
Registered Events: (none)
Request: REQUEST_DATA
FROM_OUTPUT_PORT: 0
FORWARD_DIRECTION: 0
ALGORITHM_AFTER_FORWARD: 1
ERROR: In C:\Users\vmtk\local\build\VTK\Graphics\vtkPlaneSource.cxx, line
386
vtkPlaneSource (045D4310): Bad plane coordinate system
ERROR: In C:\Users\vmtk\local\build\VTK\Widgets\vtkImagePlaneWidget.cxx,
line 1689
vtkImagePlaneWidget (045D4088): Invalid Y extent: 2.14748e+009
ERROR: In C:\Users\vmtk\local\build\VTK\Graphics\vtkPlaneSource.cxx, line
386
vtkPlaneSource (045D4310): Bad plane coordinate system
ERROR: In C:\Users\vmtk\local\build\VTK\Filtering\vtkExecutive.cxx, line 757
vtkStreamingDemandDrivenPipeline (045D4678): Algorithm
vtkPlaneSource(045D4310) returned failure for request: vtkInformation
(045DE970)
Debug: Off
Modified Time: 7260
Reference Count: 1
Registered Events: (none)
Request: REQUEST_DATA
FROM_OUTPUT_PORT: 0
FORWARD_DIRECTION: 0
ALGORITHM_AFTER_FORWARD: 1
ERROR: In C:\Users\vmtk\local\build\VTK\Graphics\vtkPlaneSource.cxx, line
386
vtkPlaneSource (045D4310): Bad plane coordinate system
---------------------------------------------------------------------------------------
Command Line
C:\Programmi\vmtk 0.9.0>rem @echo off
C:\Programmi\vmtk 0.9.0>set VMTK_DIR=C:\Programmi\vmtk 0.9.0\
C:\Programmi\vmtk 0.9.0>set PATH=C:\Programmi\vmtk
0.9.0\bin;C:\Programmi\vmtk 0
.9.0\lib\InsightToolkit;C:\Programmi\vmtk
0.9.0\lib\Python;C:\Programmi\Tecplot\
Tec360
2009\Bin;C:\Python25\;C:\WINXP\system32;C:\WINXP;C:\WINXP\System32\Wbem;C
:\Programmi\Hummingbird\Connectivity\11.00\Accessories\;C:\Programmi\Hummingbird
\Connectivity\11.00\NFS
Maestro\;;C:\Programmi\MATLAB\R2009a\bin;C:\Programmi\MA
TLAB\R2009a\bin\win32;c:\fluent.inc\ntbin\ntx86
C:\Programmi\vmtk 0.9.0>set PYTHONPATH=C:\Programmi\vmtk
0.9.0\lib\site-packages
;C:\Programmi\vmtk 0.9.0\lib\vtk-5.6;C:\Programmi\vmtk 0.9.0\lib\vmtk
C:\Programmi\vmtk 0.9.0>cd C:\Programmi\vmtk 0.9.0\
C:\Programmi\vmtk 0.9.0>python bin\vmtk-exe.py
vmtk> vmtkimagereader -f dicom -d T1 --pipe vmtkimageviewer
Executing vmtkimagereader -f dicom -d T1 --pipe vmtkimageviewer
Creating vmtkImageReader instance.
Automatic piping vmtkimagereader
Parsing options vmtkimagereader
Format = dicom
InputDirectoryName = T1
Explicit piping vmtkimagereader
Input vmtkimagereader members:
Id = 0
Disabled = 0
Format = dicom
GuessFormat = 1
UseITKIO = 1
Image = 0
InputFileName =
InputFilePrefix =
InputFilePattern =
InputDirectoryName = T1
DataExtent = [-1, -1, -1, -1, -1, -1]
HeaderSize = 0
DataSpacing = [1.0, 1.0, 1.0]
DataOrigin = [0.0, 0.0, 0.0]
DataByteOrder = littleendian
DataScalarType = float
FileDimensionality = 3
Flip = [0, 0, 0]
AutoOrientDICOMImage = 1
ImageOutputFileName =
Executing vmtkimagereader ...
Reading DICOM directory.
VTK Orientation: L AI IP
Flipping: 1 0 1
Spacing (0.21484375, 0.21484375, 0.0)
Origin (0.0, 0.0, 0.0)
Dimensions (512, 304, 1)
Done executing vmtkimagereader.
Output vmtkimagereader members:
Id = 0
Image = vtkImageData
RasToIjkMatrixCoefficients = [1, 0, 0, 0, 0, 1, 0, 0, 0, 0, 1, 0, 0, 0,
0, 1
]
XyzToRasMatrixCoefficients = [1, 0, 0, 0, 0, 1, 0, 0, 0, 0, 1, 0, 0, 0,
0, 1
]
Creating vmtkImageViewer instance.
Automatic piping vmtkimageviewer
Image = vmtkimagereader-0.Image
Parsing options vmtkimageviewer
Explicit piping vmtkimageviewer
Input vmtkimageviewer members:
Id = 0
Disabled = 0
Image = vtkImageData
ImageInputFileName =
ArrayName =
vmtkRenderer = None
WindowLevel = [0.0, 0.0]
Display = 1
Margins = 0
TextureInterpolation = 1
ContinuousCursor = 0
ImageOutputFileName =
Executing vmtkimageviewer ...
Done executing vmtkimageviewer.
Output vmtkimageviewer members:
Id = 0
Image = vtkImageData
PlaneWidgetX = vtkImagePlaneWidget
PlaneWidgetY = vtkImagePlaneWidget
PlaneWidgetZ = vtkImagePlaneWidget
vmtk>
----------------------------------------------------------------------------------------------------
I thank you so much again. I can't understand what's wrong.
Best Regards
2011/10/12 Luca Antiga <luca.ant...@orobix.com>
> Hi Giuseppe,
> can you copy and paste the output you get on the terminal when the pipe is
> running?
> Thanks
>
> Luca
>
>
> On Oct 12, 2011, at 11:57 AM, Giuseppe Isu wrote:
>
> Hi Luca,
>
> first of all thank you for your prompt response.
>
> I start from the beginning with the explaination of the problem.
> I have two different directories of MR dicom images and both of them refer
> to the same patient. I reckoned that the difference between them is the time
> of relaxation because the directories are named respectively T1 and T2.
> Within T1 there's a sequence of images named as follows:
>
> MR010001001.dcm, MR011001001.dcm, MR012001001.dcm, ...., MR039001001.dcm
>
> for a total of 30 images.
> Within T2 there are only 5 images named as above starting by
> MR039001001.dcm to MR043001001.dcm.
> When I tryed to open the sequence for the first time I copied T1 directory
> within the vmtk folder and ran the command
>
> vmtkimagereader -f dicom -d T1 --pipe vmtkimageviewer
>
> and like I said in the previous mail only the first image named
> MR010001001.dcm opened.
> I tryed to do what you suggested on a Unix platform
> I wrote
>
> vmtkimagereader -ifile MR010001001.dcm --pipe vmtkimageviewer
>
> and the result is the same. The only image opened is this one.
>
> Now I think the problem could be clearer to you. I hope what I wrote is
> enough to find a solution.
>
> Thank you in advance
>
> Best Regards
>
>
>
>
>
>
> 2011/10/12 Luca Antiga <luca.ant...@orobix.com>
>
>> Hi Giuseppe,
>> welcome to vmtk. There shouldn't be any difference between Windows and
>> Unix-like.
>>
>> Can you please post the exact command you are running (not the reference,
>> as you did, but the actual command with the paths)?
>>
>> Also, you may want to try the following:
>> vmtkimagereader -ifile first_file_in_the_series.dcm --pipe vmtkimageviewer
>>
>> It is also possible that your MR dicom directory contains more than one
>> series, so you'll need to separate them beforehands. Just try the above and
>> we'll move from there.
>>
>> Best regards
>>
>>
>> Luca
>>
>>
>> On Oct 11, 2011, at 10:08 PM, Giuseppe Isu wrote:
>>
>> Hi everybody,
>> I'm Giuseppe. I'm new to vmtk. Recently I've started to get into it and
>> I've done all the tutorials. I'm now dealing with a project for which I need
>> to open a sequence of MR DICOM images in order to reconstruct a carotid
>> geometry. I use vmtk on a win32 platform and I've already used vmtk to
>> perform meshes and computing centerlines successfully.
>> Using the command
>> *vmtkimagereader -f dicom -d "directory_path *" --pipe vmtkimageviewer
>> *where *directory_path* is my files directory located within the vmtk
>> main directory.
>> When I write this command only the first image of the sequence is opened
>> but I can't understand which is the problem.
>> Can you give me some tips? Should I try to open these files on a Unix
>> platform?
>> Best regards
>> --
>> Giuseppe
>>
>> ------------------------------------------------------------------------------
>> All the data continuously generated in your IT infrastructure contains a
>> definitive record of customers, application performance, security
>> threats, fraudulent activity and more. Splunk takes this data and makes
>> sense of it. Business sense. IT sense. Common sense.
>>
>> http://p.sf.net/sfu/splunk-d2d-oct_______________________________________________
>> vmtk-users mailing list
>> vmtk-users@lists.sourceforge.net
>> https://lists.sourceforge.net/lists/listinfo/vmtk-users
>>
>>
>>
>
>
> --
> Giuseppe
>
> ------------------------------------------------------------------------------
> All the data continuously generated in your IT infrastructure contains a
> definitive record of customers, application performance, security
> threats, fraudulent activity and more. Splunk takes this data and makes
> sense of it. Business sense. IT sense. Common sense.
>
> http://p.sf.net/sfu/splunk-d2d-oct_______________________________________________
> vmtk-users mailing list
> vmtk-users@lists.sourceforge.net
> https://lists.sourceforge.net/lists/listinfo/vmtk-users
>
>
>
--
Giuseppe
------------------------------------------------------------------------------
All the data continuously generated in your IT infrastructure contains a
definitive record of customers, application performance, security
threats, fraudulent activity and more. Splunk takes this data and makes
sense of it. Business sense. IT sense. Common sense.
http://p.sf.net/sfu/splunk-d2d-oct
_______________________________________________
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