Re: [vmtk-users] vmtkApps?

[Evan K. <to...@gm...>]

Hello Luca,

I tried the batch file, but it didn't work.  I think "set" in Win XP only
allows temporary changes to environmental variables.  I can however use My
Computer > System Properties > Advanced > Environmental Variables to modify
PATH permanently and create a new variable PYTHONPATH.  But some of the
directories you gave didn't match up to what was installed.  Here are the
list of directories in vmtk on my machine:

C:\Program Files (x86)\vmtk\icon
C:\Program Files (x86)\vmtk\Install
C:\Program Files (x86)\vmtk\Install\bin
C:\Program Files (x86)\vmtk\Install\lib
C:\Program Files (x86)\vmtk\Install\bin\Python
C:\Program Files (x86)\vmtk\Install\bin\Python\vtk
C:\Program Files (x86)\vmtk\Install\bin\Python\vtk\gtk
C:\Program Files (x86)\vmtk\Install\bin\Python\vtk\qt
C:\Program Files (x86)\vmtk\Install\bin\Python\vtk\qt4
C:\Program Files (x86)\vmtk\Install\bin\Python\vtk\test
C:\Program Files (x86)\vmtk\Install\bin\Python\vtk\tk
C:\Program Files (x86)\vmtk\Install\bin\Python\vtk\util
C:\Program Files (x86)\vmtk\Install\bin\Python\vtk\wx
C:\Program Files (x86)\vmtk\Install\lib\vmtk
C:\Program Files (x86)\vmtk\Install\lib\vtk-5.8
C:\Program Files (x86)\vmtk\Install\lib\vmtk\vmtk

I can make guesses on a few, but not all (like site-packages or
InsightToolkit).

Thanks,
Evan Kao


On Mon, May 6, 2013 at 5:44 AM, Luca Antiga <luc...@or...> wrote:

> Hi Evan,
>  it's an environment variables issue and yes, it's currently not nice to
> run vmtkApps in Windows, sorry about this.
>
> What you can do is create a patchanterinterpolatecenterlines.bat file (the
> name is irrelevant, the important is the .bat extension) with the following
> content:
>
> set VMTK_DIR=C:\"Program Files (x86)"\vmtk
> set
> PATH=%VMTK_DIR%bin;%VMTK_DIR%lib\InsightToolkit;%VMTK_DIR%lib\Python;%PATH%
> set
> PYTHONPATH=%VMTK_DIR%lib\site-packages;%VMTK_DIR%lib\vtk-5.6;%VMTK_DIR%lib\vmtk
> cd %VMTK_DIR%
> python patchanterinterpolatecenterlines.py
>
> Then double click on the .bat file. Let me know if this works or what
> error messages it produces.
>
> We'll have to think about a nicer solution than this in the future.
>
>
> Luca
>
>
> On May 2, 2013, at 10:04 PM, Evan Kao wrote:
>
> Hi Luca,
>
> You can move the files (you just need the files in
>> vmtkApps/CerebralAneurysms/ParentVesselReconstruction) into any directory.
>> The you should invoke the scripts at the command line, but in order to do
>> this you need Windows to "see" python and the vmtk modules.
>> What are the directories where Python and vmtk are installed on our
>> machine?
>>
>
> Both vmtk and Python are in their default directories (Python was
> installed through vmtk):
>
> C:\Program Files (x86)\vmtk
> C:\Python27
>
> It seems I was able to open patchanterinterpolatecenterlin
> es.py in the command line interface, but it doesn't see the vmtk modules
> ("Import Error: no module named vtk").  How can I remedy this?
>
> Thanks,
> Evan Kao
>
>
> On Wed, May 1, 2013 at 5:30 AM, Luca Antiga <luc...@or...>wrote:
>
>> Hi Evan,
>>
>> On Apr 26, 2013, at 8:39 AM, Evan Kao wrote:
>>
>> Hi Luca,
>>
>> I had some questions on using the Python scripts (having little Python
>> experience):
>>
>> 1.  Into which directory should I move the files (in Windows; files
>> obtained from the source file zip)?
>>
>>
>> You can move the files (you just need the files in
>> vmtkApps/CerebralAneurysms/ParentVesselReconstruction) into any directory.
>> The you should invoke the scripts at the command line, but in order to do
>> this you need Windows to "see" python and the vmtk modules.
>> What are the directories where Python and vmtk are installed on our
>> machine?
>>
>> 2.  I was confused by the form of the command "python
>> patchandinterpolatecenterline.py directoryPath id1 lateral" from the
>> tutorial.  Are we supposed to call these functions from the command
>> line/Python shell or can we still do it inside vmtk?
>>
>>
>> They are meant to be run outside of vmtk, at the command line.
>>
>> Luca
>>
>> Thanks for the help,
>> Evan Kao
>>
>>
>>
>> On Mon, Apr 22, 2013 at 11:03 AM, Evan Kao <to...@gm...> wrote:
>>
>>> Hi Luca,
>>>
>>> Thanks for the info.
>>>
>>>
>>> On Mon, Apr 22, 2013 at 7:01 AM, Luca Antiga <luc...@or...>wrote:
>>>
>>>> Hello Evan,
>>>>  at the present stage you can download them from github.com/vmtk/vmtk
>>>>
>>>> If you don't use git, just get the source code zip at
>>>>
>>>> https://github.com/vmtk/vmtk/archive/master.zip
>>>>
>>>> and unpack. vmtkApps contains the Python scripts you're looking for.
>>>>
>>>> Best,
>>>>
>>>> Luca
>>>>
>>>>
>>>> On Apr 20, 2013, at 12:09 AM, Evan Kao wrote:
>>>>
>>>> > Hello vmtk-users,
>>>> >
>>>> > I'm interested in going through the parent vessel reconstruction
>>>> tutorial but I don't think I have the relevant Python scripts.  The
>>>> tutorial says the files are in the vmtkApps folder, but I couldn't find
>>>> anything like that.  Are they usually included in the installation?  Where
>>>> could I find these scripts (and possibly other vmtkApps)?
>>>> >
>>>> > Thank you,
>>>> > Evan Kao
>>>> >
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>>
>>
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