[vtkusers] Extract a slice and save it as jpg/png

Jothy jothybasu at gmail.com
Wed Jul 14 11:55:04 EDT 2010 

Are you able to render this atleast, before trying to save?

Jothy

On Wed, Jul 14, 2010 at 4:27 PM, Chris Turner <cturnercomplex at googlemail.com
> wrote:

> bounds are (-69.3 ,323 ,332 ,9.68,468,448)
> extents are (0,0,0,79,145,116)
>
> I changed the SetVOI to (-69,323,332,-68,468,448) but same result.
>
>
> On Wed, Jul 14, 2010 at 11:01 AM, Jothy <jothybasu at gmail.com> wrote:
> > Have you checked that your setVOi is with the bounds of the Image. What
> are
> > your bounds?
> >
> > Jothy
> >
> > On Wed, Jul 14, 2010 at 3:58 PM, Chris Turner
> > <cturnercomplex at googlemail.com> wrote:
> >>
> >> No didn't do the trick either.
> >>
> >> No file, no error/warning message.
> >>
> >> Thanks though!
> >>
> >> On Wed, Jul 14, 2010 at 10:54 AM, Jothy <jothybasu at gmail.com> wrote:
> >> > Try SetVOI(0,0,0,79,1,146)
> >> >
> >> > Jothy
> >> >
> >> > On Wed, Jul 14, 2010 at 3:44 PM, Chris Turner
> >> > <cturnercomplex at googlemail.com> wrote:
> >> >>
> >> >> Hi David & Bill,
> >> >>
> >> >> thanks for your patience and your help I appreciate it a lot!  So
> this
> >> >> is the code with David's suggestion:
> >> >>
> >> >> import os
> >> >> import vtk
> >> >> import sys
> >> >>
> >> >>
> >> >> reader=vtk.vtkImageReader()
> >> >> reader.SetFileName("/tmp/lungROI.vtk")
> >> >> reader.Update()
> >> >>
> >> >> lut=vtk.vtkLookupTable()
> >> >> lut.SetRange(-1024, +4095)
> >> >>
> >> >> map=vtk.vtkImageMapToColors()
> >> >> map.SetInput(reader.GetOutput())
> >> >> map.SetLookupTable(lut)
> >> >>
> >> >>
> >> >> voi=vtk.vtkExtractVOI()
> >> >> voi.SetInput(map.GetOutput())
> >> >> voi.SetVOI(0,0,0,79,146,1)
> >> >> voi.Update()
> >> >>
> >> >> writerp=vtk.vtkPNGWriter()
> >> >> writerp.SetInput(voi.GetOutput())
> >> >> writerp.SetFileName("/tmp/out.png")
> >> >> writerp.Write()
> >> >>
> >> >> print "done"
> >> >>
> >> >>
> >> >> .... but still no output nor an error message. You can take a look at
> >> >> the Image here:
> >> >>
> >> >> http://www.load.to/t8MWurwasf/lungROI.vtk (~10mb)
> >> >>
> >> >> Thanks Again,
> >> >> Chris
> >> >>
> >> >>
> >> >> On Tue, Jul 13, 2010 at 4:38 PM, David Gobbi <david.gobbi at gmail.com>
> >> >> wrote:
> >> >> > Hi Chris,
> >> >> >
> >> >> > This could be an instance of trying to write 16-bit data to a JPEG
> >> >> > file.  Try adding vtkImageMapToColors with a suitable
> vtkLookupTable.
> >> >> >  The Range of the lookup table will have to be set to something
> >> >> > reasonable for the image, a range of (-1024, +4095) is a good place
> >> >> > to
> >> >> > start and then you can increase or decrease the range in order to
> get
> >> >> > the contrast right.
> >> >> >
> >> >> >   David
> >> >> >
> >> >> >
> >> >> > On Tue, Jul 13, 2010 at 2:15 PM, Bill Lorensen
> >> >> > <bill.lorensen at gmail.com>
> >> >> > wrote:
> >> >> >> Post you entire example. And, if you can post a link to your
> data...
> >> >> >>
> >> >> >> On Tue, Jul 13, 2010 at 3:57 PM, Chris Turner
> >> >> >> <cturnercomplex at googlemail.com> wrote:
> >> >> >>> Hi Bill,
> >> >> >>>
> >> >> >>> thanks for your answer! But didn't do the trick.
> >> >> >>> So strange I thought this was a standard question and procedure.
> >> >> >>> And
> >> >> >>> that there has to be a easy way to do that.
> >> >> >>>
> >> >> >>> And why don't I even get a error message or something. Even when
> I
> >> >> >>> turn on the debug mode there is nothing suspicious.
> >> >> >>>
> >> >> >>> Anybody has another approach?
> >> >> >>>
> >> >> >>> Thanks
> >> >> >>> Chris
> >> >> >>>
> >> >> >>> On Mon, Jul 12, 2010 at 10:16 AM, Bill Lorensen
> >> >> >>> <bill.lorensen at gmail.com> wrote:
> >> >> >>>> Try,
> >> >> >>>> voi.SetVOI(0,0,0,511,511,0)
> >> >> >>>>
> >> >> >>>> On Mon, Jul 12, 2010 at 10:07 AM, Chris Turner
> >> >> >>>> <cturnercomplex at googlemail.com> wrote:
> >> >> >>>>> Really? Am I the only one with that problem?
> >> >> >>>>>
> >> >> >>>>> On Fri, Jul 9, 2010 at 5:02 PM, Chris Turner
> >> >> >>>>> <cturnercomplex at googlemail.com> wrote:
> >> >> >>>>>> Hi Everyone!
> >> >> >>>>>>
> >> >> >>>>>> I'm trying to extract a slice from a vtkImageData object and
> >> >> >>>>>> save
> >> >> >>>>>> it as picture.
> >> >> >>>>>>
> >> >> >>>>>> That's how I do it:
> >> >> >>>>>>
> >> >> >>>>>> voi=vtkExtractVOI()
> >> >> >>>>>> voi.SetInput(imageData)
> >> >> >>>>>> voi.SetVOI(0,0,0,512,512,1)
> >> >> >>>>>> voi.Update()
> >> >> >>>>>>
> >> >> >>>>>> writer=vtkJPEGWriter()
> >> >> >>>>>> writer.SetInput(voi.GetOutput())
> >> >> >>>>>> writer.SetFileName("slice.jpg")
> >> >> >>>>>> writer.Write()
> >> >> >>>>>>
> >> >> >>>>>> ImageData is 512x512x40 spacing 1,1,1
> >> >> >>>>>>
> >> >> >>>>>> The strange thing is I don't get an output nor an error
> message.
> >> >> >>>>>> So
> >> >> >>>>>> I
> >> >> >>>>>> think I'm missing something here.... but it can't figure out
> >> >> >>>>>> what.
> >> >> >>>>>>
> >> >> >>>>>> So does anybody have an idea or a better solution?
> >> >> >>>>>>
> >> >> >>>>>> Thanks
> >> >> >>>>>> Chris
> >> >> >>>>>>
> >> >> >>>>> _______________________________________________
> >> >> >>>>> Powered by www.kitware.com
> >> >> >>>>>
> >> >> >>>>> Visit other Kitware open-source projects at
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> >> >> >>>>>
> >> >> >>>>> Please keep messages on-topic and check the VTK FAQ at:
> >> >> >>>>> http://www.vtk.org/Wiki/VTK_FAQ
> >> >> >>>>>
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> >> >> >>>>>
> >> >> >>>>
> >> >> >>>
> >> >> >> _______________________________________________
> >> >> >> Powered by www.kitware.com
> >> >> >>
> >> >> >> Visit other Kitware open-source projects at
> >> >> >> http://www.kitware.com/opensource/opensource.html
> >> >> >>
> >> >> >> Please keep messages on-topic and check the VTK FAQ at:
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> >> >> >>
> >> >> >
> >> >> _______________________________________________
> >> >> Powered by www.kitware.com
> >> >>
> >> >> Visit other Kitware open-source projects at
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> >> >>
> >> >> Please keep messages on-topic and check the VTK FAQ at:
> >> >> http://www.vtk.org/Wiki/VTK_FAQ
> >> >>
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> >> >
> >> >
> >> _______________________________________________
> >> Powered by www.kitware.com
> >>
> >> Visit other Kitware open-source projects at
> >> http://www.kitware.com/opensource/opensource.html
> >>
> >> Please keep messages on-topic and check the VTK FAQ at:
> >> http://www.vtk.org/Wiki/VTK_FAQ
> >>
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> >
> >
> _______________________________________________
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>
> Visit other Kitware open-source projects at
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>
> Please keep messages on-topic and check the VTK FAQ at:
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