[Midas] ParaView Web support for Midas

Wed Nov 6 13:00:46 EST 2013

Yes. I¹m using the packaged binary. I was having a difficult time getting
Paraview to compile on my machine.

Brian

On 11/6/13, 10:56 AM, "Zach Mullen" <zach.mullen at kitware.com> wrote:

>After looking into it, it looks like this is actually only the case
>with the packaged version of ParaView, not one built from source.
>Brian, are you using the downloaded paraview package or building from
>source?
>
>On Wed, Nov 6, 2013 at 7:10 AM, Zach Mullen <zach.mullen at kitware.com>
>wrote:
>> This is indeed the issue I discovered yesterday. Some files were moved
>> within ParaView and it broke compatibility with the Midas plugin. I
>>should
>> have a fix committed to next branch this morning.
>>
>> Thanks,
>>
>> Zach
>>
>>
>> On Tue, Nov 5, 2013 at 11:32 PM, Patrick Reynolds
>> <patrick.reynolds at kitware.com> wrote:
>>>
>>> Brian,
>>>
>>> This looks like it could be related to the symbolic link of the vtkweb
>>> javascript. This may be related to an issue that Zach is tracking.
>>>
>>> --
>>> Patrick Reynolds
>>> Technical Leader
>>> Kitware, Inc.
>>> 919 869 8848
>>>
>>> On Tuesday, October 29, 2013 at 5:15 PM, BRIAN E CHAPMAN wrote:
>>>
>>> Patrick,
>>>
>>> I've been toggling the dynamic help and looking at the logs (apache and
>>> midas/log/dev.log). Here is what I am getting without and with dynamic
>>>help
>>> turned on
>>>
>>> Dynamic help off:
>>>
>>> [Tue Oct 29 15:06:08.706120 2013] [:error] [pid 25319] [client
>>> 155.100.62.145:54950] PHP Warning:  Unknown: function 'NULL' not found
>>>or
>>> invalid function name in Unknown on line 0,
>>> referer:http://155.100.62.142/midas/pvw/paraview/volume?itemId=1
>>>
>>> 2013-10-29 17:06:08 WARN (4): URL:
>>> 
>>>http://155.100.62.142/midas/modules/pvw/public/import/lib/js/vtkweb-all.
>>>min.js
>>> Server IP: 155.100.62.142
>>> Client IP: 155.100.62.145
>>> User agent: Mozilla/5.0 (Macintosh; Intel Mac OS X 10_8_5)
>>> AppleWebKit/537.36 (KHTML, like Gecko) Chrome/30.0.1599.101
>>>Safari/537.36
>>> Server time: 2013-10-29 17:06:08
>>> RequestURI: /midas/modules/pvw/public/import/lib/js/vtkweb-all.min.js
>>> Referer: http://155.100.62.142/midas/pvw/paraview/volume?itemId=1
>>> <b>Message: Invalid controller specified (modules)</b>
>>>
>>> Trace:
>>> #0 /usr/local/src/Midas3/library/Zend/Controller/Front.php(954):
>>> 
>>>Zend_Controller_Dispatcher_Standard->dispatch(Object(Zend_Controller_Req
>>>uest_Http),
>>> Object(Zend_Controller_Response_Http))
>>> #1
>>> 
>>>/usr/local/src/Midas3/library/Zend/Application/Bootstrap/Bootstrap.php(9
>>>7):
>>> Zend_Controller_Front->dispatch()
>>> #2 /usr/local/src/Midas3/library/Zend/Application.php(366):
>>> Zend_Application_Bootstrap_Bootstrap->run()
>>> #3 /usr/local/src/Midas3/index.php(73): Zend_Application->run()
>>> #4 {main}
>>>
>>> Request data: array (
>>>   'controller' => 'modules',
>>>   'action' => 'pvw',
>>>   'public' => 'import',
>>>   'lib' => 'js',
>>>   'module' => 'default',
>>> )
>>>
>>> Session data:
>>> Dao: __PHP_Incomplete_Class::__set_state(array(
>>>    '__PHP_Incomplete_Class_Name' => 'UserDao',
>>>    '_model' => 'User',
>>>    'key' => NULL,
>>>    '_key' => 'user_id',
>>>    'saved' => true,
>>>    'user_id' => '1',
>>>    'firstname' => 'Brian',
>>>    'lastname' => 'Chapman',
>>>    'email' => 'brian.chapman at utah.edu',
>>>    'thumbnail' => NULL,
>>>    'company' => NULL,
>>>    'hash_alg' => 'sha256',
>>>    'salt' => 'uirWyLLLBDcN9udgEy2o0ZwZulN17z8s',
>>>    'creation' => '2013-10-24 14:09:40',
>>>    'folder_id' => '1',
>>>    'admin' => '1',
>>>    'privacy' => '0',
>>>    'view' => '0',
>>>    'uuid' => '52696264c0b08ca6ba63fc546fe5b950545d654ae59cc',
>>>    'city' => '',
>>>    'country' => '',
>>>    'website' => '',
>>>    'biography' => '',
>>>    'dynamichelp' => '1',
>>> ))
>>>
>>> Last database query: SELECT `setting`.* FROM `setting` WHERE (name =
>>> 'temp_directory') AND (module = 'core') LIMIT 1
>>>
>>>
>>> Dynamic Help ON:
>>>
>>> [Tue Oct 29 15:10:44.885671 2013] [:error] [pid 25321] [client
>>> 155.100.62.145:55013] PHP Warning:  Unknown: function 'NULL' not found
>>>or
>>> invalid function name in Unknown on line 0,
>>> referer:http://155.100.62.142/midas/pvw/paraview/volume?itemId=1
>>> [Tue Oct 29 15:10:44.894376 2013] [:error] [pid 25319] [client
>>> 155.100.62.145:55006] PHP Fatal error:
>>>AppController::isDynamicHelp(): The
>>> script tried to execute a method or access a property of an incomplete
>>> object. Please ensure that the class definition "UserDao" of
>>>the
>>> object you are trying to operate on was loaded _before_ unserialize()
>>>gets
>>> called or provide a __autoload() function to load the class definition
>>> in
>>> /usr/local/src/Midas3/core/AppController.php on line 424,
>>> referer:http://155.100.62.142/midas/pvw/paraview/volume?itemId=1
>>>
>>> 2013-10-29 17:10:44 CRIT (2): Fatal Error: Array
>>> (
>>>     [type] => 1
>>>     [message] => AppController::isDynamicHelp(): The script tried to
>>> execute a method or access a property of an incomplete object. Please
>>>ensure
>>> that the class definition "UserDao" of the object you are
>>>trying
>>> to operate on was loaded _before_ unserialize() gets called or provide
>>>a
>>> __autoload() function to load the class definition
>>>     [file] => /usr/local/src/Midas3/core/AppController.php
>>>     [line] => 424
>>>     [typeText] => E_ERROR
>>> )
>>>
>>>
>>> URL:
>>> 
>>>http://155.100.62.142/midas/modules/pvw/public/import/lib/js/vtkweb-all.
>>>min.js
>>>
>>> Server IP: 155.100.62.142
>>> User agent: Mozilla/5.0 (Macintosh; Intel Mac OS X 10_8_5)
>>> AppleWebKit/537.36 (KHTML, like Gecko) Chrome/30.0.1599.101
>>>Safari/537.36
>>> Server time: 2013-10-29 17:10:44
>>> Referer: http://155.100.62.142/midas/pvw/paraview/volume?itemId=1
>>> Parameters (post): Array
>>> (
>>> )
>>> Parameters (get): Array
>>> (
>>> )
>>>
>>>
>>> Brian E. Chapman, Ph.D.
>>> Associate Professor
>>> Department of Radiology
>>> University of Utah
>>>
>>>
>>> From: Patrick Reynolds <patrick.reynolds at kitware.com>
>>> Date: Tuesday, October 29, 2013 1:28 PM
>>> To: Brian Chapman <Brian.Chapman at utah.edu>
>>> Cc: "midas at public.kitware.com" <midas at public.kitware.com>
>>> Subject: Re: [Midas] ParaView Web support for Midas
>>>
>>> Brian,
>>>
>>> Are you able to get to the admin page and disable dynamic help?
>>>
>>> That should yield an improved error message.
>>>
>>> --
>>> Patrick Reynolds
>>> Technical Leader
>>> Kitware, Inc.
>>> 919 869 8848
>>>
>>> On Thursday, October 24, 2013 at 6:58 PM, BRIAN E CHAPMAN wrote:
>>>
>>> Hi Zach, et al.,
>>>
>>> I'm making progress here. I looked at Sebastien's suggestion of using
>>> VirtualGL but decided to go back and build a VM with X11 support. I've
>>>got
>>> Midas running and ParaView web configured as per the web site and
>>>Zach's
>>> instructions. When I got to view an object (a 3D CT stored in .mha
>>>format) I
>>> get a blank canvas with "Volume rendering: pe0017s4.mha" on the top
>>>and a
>>> bunch of control widgets on the right.
>>>
>>> When I look at the apache2 logs I see the following.
>>>
>>> acces.log: 111.222.33.444 - - [24/Oct/2013:16:38:02 -0600] "GET
>>> /midas/modules/pvw/public/import/lib/js/vtkweb-all.min.js HTTP/1.1"
>>>500 936
>>> "http://111.222.33.555/midas/pvw/paraview/volume?itemId=1" "Mozilla/5.0
>>> (X11; Ubuntu; Linux x86_64; rv:24.0) Gecko/20100101 Firefox/24.0"
>>>
>>> error.log [Thu Oct 24 16:38:02.468812 2013] [:error] [pid 7303] [client
>>> 111.222.33.444:34502] PHP Fatal error:
>>>AppController::isDynamicHelp(): The
>>> script tried to execute a method or access a property of an incomplete
>>> object. Please ensure that the class definition "UserDao" of
>>>the
>>> object you are trying to operate on was loaded _before_ unserialize()
>>>gets
>>> cal
>>>
>>> The midas log file is as follows:
>>>
>>> dev.log
>>> Referer: http://111.222.33.555/midas/pvw/paraview/volume?itemId=1
>>> Parameters (post): Array
>>> (
>>> )
>>> Parameters (get): Array
>>> (
>>> )
>>>
>>> Any ideas as to what is going wrong?
>>>
>>> Brian
>>>
>>> Brian E. Chapman, Ph.D.
>>> Associate Professor
>>> Department of Radiology
>>> University of Utah
>>>
>>>
>>> From: Zach Mullen <zach.mullen at kitware.com>
>>> Date: Thursday, October 17, 2013 11:54 AM
>>> To: Brian Chapman <Brian.Chapman at utah.edu>
>>> Cc: Patrick Reynolds <patrick.reynolds at kitware.com>,
>>> "midas at public.kitware.com" <midas at public.kitware.com>
>>> Subject: Re: [Midas] ParaView Web support for Midas
>>>
>>> Hi Brian,
>>>
>>> Answered your questions inline.
>>>
>>>
>>> On Thu, Oct 17, 2013 at 1:49 PM, BRIAN E CHAPMAN
>>><Brian.Chapman at utah.edu>
>>> wrote:
>>>
>>> Patrick,
>>>
>>> That saved a lot of time! A couple of dummy questions. In
>>> /var/www/midas/modules there is already a pvw directory. So where am I
>>> supposed to create the symbolic link to
>>>$PARAVIEW_ROOT/lib/paraview-4.0/www?
>>>
>>>
>>> You should create a symlink at
>>>/var/www/midas/modules/pvw/public/import,
>>> and it should point to the paraview-4.0/www dir.
>>>
>>>
>>> Also, just because I'm kind of dense, do I need to set the DISPLAY
>>> environment variable. The pop-up help says "If the DISPLAY env var
>>>should be
>>> setŠ" I don't know if it should be.
>>>
>>> It depends what environment you are running in. If you plan on running
>>> this headlessly as a server, you will probably need to set the
>>>environment
>>> variable. If you are running the server within an already existing X
>>> environment, you probably won't need to set it. If you open a terminal
>>>and
>>> type
>>>
>>> echo $DISPLAY
>>>
>>> It will show you the current value of your display ID.
>>>
>>>
>>> Finally, is there a tutorial or demo for the Midas/ParaView interface?
>>>
>>>
>>> We just finished transitioning the demo application to the latest
>>>version
>>> of ParaViewWeb. The demo of the old capabilities is here:
>>> http://50.58.123.185/external/midas/visualize/paraview/volume?itemId=44
>>>
>>> There isn't much currently in the way of developer-oriented
>>>documentation
>>> for the module; for that you might have to just consult us with your
>>> questions :)
>>>
>>> Thanks,
>>>
>>>
>>> Thanks for the help.
>>>
>>> Brian
>>>
>>>
>>> From: Patrick Reynolds <patrick.reynolds at kitware.com>
>>> Date: Thursday, October 17, 2013 11:12 AM
>>> To: Brian Chapman <Brian.Chapman at utah.edu>
>>> Cc: "midas at public.kitware.com" <midas at public.kitware.com>
>>> Subject: Re: [Midas] ParaView Web support for Midas
>>>
>>> Brian,
>>>
>>> You'll need to build Paraview Web from Source or download binaries. It
>>> comes with paraview, so you should be able to follow the instructions
>>> stemming from this wiki page:
>>>
>>> http://www.paraview.org/Wiki/ParaViewWeb
>>>
>>> HTH.
>>>
>>> --
>>> Patrick Reynolds
>>> Technical Leader
>>> Kitware, Inc.
>>> 919 869 8848
>>>
>>> On Thursday, October 17, 2013 at 12:56 PM, BRIAN E CHAPMAN wrote:
>>>
>>> Hello Midas World,
>>>
>>> I'm trying to build an instance of Midas with ParaviewWeb enabled. I'm
>>> working on an Ubuntu 12.04 instance. Midas built fine, but I'm having a
>>> difficult time getting Paraview to build. Just curious if the
>>> paraview-python package that is available in the ubuntu distribution is
>>> sufficient for this purpose? If it is, curious about the details of the
>>> configuration for the instructions: "Make sure to symlink the www
>>>directory
>>> of your ParView build directoryŠ"
>>>
>>> I'm suspicious of the package since when I try to run pvpython I get an
>>> error:
>>>
>>> "Error converting executable file "/usr/bin/../lib/paraview/pvpython"
>>>to
>>> real path: no such file or directory"
>>>
>>>
>>> Brian E. Chapman, Ph.D.
>>> Associate Professor
>>> Department of Radiology
>>> University of Utah
>>>
>>> _______________________________________________
>>> Midas mailing list
>>> Midas at public.kitware.com
>>> http://public.kitware.com/cgi-bin/mailman/listinfo/midas
>>>
>>>
>>>
>>> _______________________________________________
>>> Midas mailing list
>>> Midas at public.kitware.com
>>> http://public.kitware.com/cgi-bin/mailman/listinfo/midas
>>>
>>>
>>>
>>>
>>> --
>>> Zach Mullen
>>> R & D Engineer
>>> Kitware Inc.
>>> 919-869-8858
>>>
>>>
>>>
>>
>>
>>
>> --
>> Zach Mullen
>> R & D Engineer
>> Kitware Inc.
>> 919-869-8858
>
>
>
>-- 
>Zach Mullen
>R & D Engineer
>Kitware Inc.
>919-869-8858