Re: [FusionViewer-users] Experience with FusionViewer

[Annie L. <al...@in...>]

Hey Robert,

Thanks for your clarification.  Yes, we haven't put any effort to =
support
NRRD format or raw image so far and we will look forward to doing so in
future, hopefully in Beta version. =20

>From your description, I think you took the right approach.  To deal =
with raw
files, you need to create a header file for it as follows:

ObjectType =3D Image
NDims =3D 3
BinaryData =3D True
BinaryDataByteOrderMSB =3D False
CompressedData =3D False
TransformMatrix =3D 1 0 0 0 1 0 0 0 1
Offset =3D -225 -225 -723.75
CenterOfRotation =3D 0 0 0
AnatomicalOrientation =3D RPI
ElementSpacing =3D 0.878906 0.878906 3.75
DimSize =3D 512 512 194
ElementType =3D MET_FLOAT
ElementDataFile =3D CT.raw

You need to provide some information such as image dimension, pixel =
spacing,
pixel type etc.  Instead of specify the single raw file (e.g. "CT.raw") =
you
can also use the list expression such as "ElementDataFile =3D =
FileBaseName.%03d
1 100 1" or "ElementDataFile =3D LIST FileName1 FileName2...FileNameN"

Thanks,

Annie
=20

-----Original Message-----
From: Robert Harrison [mailto:roberth@u.washington.edu]=20
Sent: Thursday, May 03, 2007 1:13 PM
To: Annie Lu
Subject: Re: Experience with FusionViewer

Hi Annie -

I thought that the error reporting problems might be an alpha release =
issue,
but thought I should mention them anyway.  I'll join the mailing list!

And I'll put together an NRRD file - it may or may not be valid!  These =
image
format definitions seem both overcomplicated and unspecific to me.

And by switching to MetaIO, I mean that I have raw data files with no
Dicom/Interfile/etc., and I was looking for the easiest possible way to =
get
them into FusionViewer.  The documentation suggested MetaIO, but when =
the web
page didn't come up I quickly surveyed the other formats and NRRD seemed =
the
quickest for throwing something together.  When I had troubles with NRRD =
I
searched a bit harder for the MetaIO documentation.

- Robert


On 5/3/07 12:38 AM, "Annie Lu" <al...@in...> wrote:

> =20
> Hi Robert,
>=20
> Thank you for your reporting.  Please join our user's mailing list at=20
> https://lists.sourceforge.net/lists/listinfo/fusionviewer-users so=20
> that you can get up-to-date information about FusionViewer.
>=20
> The MetaIO link in FusionViewer User's Guide has been updated.  You=20
> check the link at
http://fusionviewer.sourceforge.net/docs/FusionViewerUsersGuide.pdf.
> The User's Guide has also been updated for the demo package at=20
> http://fusionviewer.sourceforge.net/demo/FusionViewer-demo_mac.tar.gz=20
> and http://fusionviewer.sourceforge.net/demo/FusionViewer-demo_win.zip
>=20
> The alpha version of FusionViewer has not been tested using NRRD=20
> format image. And if possible, could you please send your image to me=20
> so that I can test it?
>=20
> I was a little confused by your words "switching to MetaIO", did you=20
> use the executable file called "Dicom2MetaIO"?  Or did you just=20
> specify the MetaIO image by using ".mhd" extension?
>=20
> And we are working on the exception reporting functions as well as the =

> display window helps.  You can expect these functions to be added=20
> and/or improved in the Beta version.
>=20
> Regards,
>=20
> Annie
>=20
> -----Original Message-----
> From: Robert Harrison [mailto:roberth@u.washington.edu]
> Sent: Wednesday, May 02, 2007 12:07 PM
> To: Annie Lu
> Subject: Experience with FusionViewer
>=20
> Hi Annie,
>=20
> Welcome back - congrats on the visa!
>=20
> Just wanted to let you know some problems I had with FusionViewer.
>=20
> First off, the link you give in the documentation for MetaIO appears=20
> to be
> out-of-date:  I had no luck with it.  I found documentation, however,=20
> at http://www.itk.org/Wiki/MetaIO.
>=20
> Before I found that, I tried using NRRD.  I couldn't get it to work -=20
> it may be that I did not format things correctly.  However, the way=20
> that FusionViewer responded was not ideal: it sat and thought forever, =

> no error reported, no image displayed.
>=20
> After switching to MetaIO, I made mistakes on my first several tries=20
> and again found no error reporting or help.  In one case I had the=20
> wrong dimensions for the array - I think I said it was 600 slices but=20
> it was only
> 256 - and FusionViewer crashed.
>=20
> I'm not much further yet - I did get an image up, but I'm not really=20
> ready for image display yet - I was just trying to figure it out while =

> waiting for programs to run.  I'll let you know how I come along - I'm =

> going to try and use FusionViewer for the image display for my InfoSNM
presentation.
>=20
> - Robert
>=20
>=20