[FLASH-USERS] problem with plugin for VisIt

[Kunal Rao]

Hi Shravan,

Thank you very much !! I had not done that while launching visit..

Now, I am able to open the output files. Thanks a lot !!

Regards,
Kunal

On Mon, Jun 28, 2010 at 2:33 PM, Shravan Kumar
<shravang at flash.uchicago.edu>wrote:

>
> Hi Kunal,
>
> Did you try using -assume_format FLASH while launching visit.
>
> visit -assume_format FLASH
>
> Regards,
> Shravan
>
>
> On Mon, 28 Jun 2010, Kunal Rao wrote:
>
>  I provided the read permissions to the output file. Now, I get the
>> following
>> message when opening:
>>
>> --------------------------------------------------------
>>
>> VisIt could not read from the file
>> "/home/kunalgrao/Desktop/downloads/FLASH3.2/object/sedov_hdf5_chk_*
>> database".
>>
>> The generated error message was:
>>
>> There was an error opening
>> /home/kunalgrao/Desktop/downloads/FLASH3.2/object/sedov_hdf5_chk_*
>> database.
>> It may be an invalid file. VisIt tried using the following file format
>> readers to open the file: Silo
>>
>> -----------------------------------------------------------
>>
>> Thanks & Regards,
>> Kunal
>>
>> On Mon, Jun 28, 2010 at 1:12 PM, Kunal Rao <kunalgrao at gmail.com> wrote:
>>
>>  Hi Alex,
>>>
>>> Thanks for your reply.
>>>
>>> My output files from FLASH3.2 simulations are as follows:
>>> sedov.dat
>>> sedov.log
>>> sedov_hdf5_chk_0000
>>> sedov_hdf5_chk_0001
>>> sedov_hdf5_chk_0002
>>> sedov_hdf5_chk_0003
>>> sedov_hdf5_chk_0004
>>> sedov_hdf5_chk_0005
>>> sedov_hdf5_plt_cnt_0000
>>> sedov_forced_hdf5_plt_cnt_0000
>>>
>>> I have installed visit 2.0.0 and am able to open the visit gui. When I
>>> open
>>> one of the above mentioned output files, I get the following message:
>>>
>>> -------------------------------------------------------------------------
>>>
>>> VisIt could not read from the file
>>> "/home/kunalgrao/Desktop/downloads/FLASH3.2/object/sedov_hdf5_chk_*
>>> database".
>>>
>>> The generated error message was:
>>>
>>> There was an error opening
>>> /home/kunalgrao/Desktop/downloads/FLASH3.2/object/sedov_hdf5_chk_*
>>> database.
>>> It may be an invalid file. VisIt tried using the following file format
>>> readers to open the file: <No suitable plugins were identified>
>>>
>>> The file format reader issued the following error message, which may (or
>>> may not) be indicative of the problem:
>>>
>>> No read permissions for
>>> /home/kunalgrao/Desktop/downloads/FLASH3.2/object/sedov_hdf5_chk_0000.
>>>
>>>
>>>
>>> -------------------------------------------------------------------------------------
>>>
>>> Can you please tell me how it works without having to manually build any
>>> plugin?
>>>
>>> Thanks & Regards,
>>> Kunal
>>>
>>>
>>>
>>> On Mon, Jun 28, 2010 at 12:07 PM, Alexander Wagner <
>>> alexander.y.wagner at googlemail.com> wrote:
>>>
>>>  Hi Kunal,
>>>>
>>>> I was always under the impression that the plugins were already shipped
>>>> in
>>>> VisIt. At least for me, VisIt works with FLASH3.2 data files without
>>>> having
>>>> to manually build the plugins.
>>>>
>>>> Best wishes,
>>>> Alex
>>>>
>>>>
>>>>
>>>> On 06/29/2010 01:30 AM, Kunal Rao wrote:
>>>>
>>>>  Hi
>>>>>
>>>>> I am trying to get the VisIt tool working on Ubuntu 9.10 for FLASH. I
>>>>> have the visit tool installed and am trying to add the 1st plugin (out
>>>>> of 2
>>>>> as mentioned on http://flash.uchicago.edu/website/codesupport/visit/ )
>>>>> so as to view the output files produced by FLASH.
>>>>>
>>>>> There are 3 steps involved in adding the 1st plugin. I did the first 2
>>>>> i.e.
>>>>> xml2info -clobber FLASH.xml
>>>>> xml2makefile -clobber FLASH.xml
>>>>>
>>>>> but the third one i.e. make is giving me an error. This is what I get
>>>>> when I do the make:
>>>>>
>>>>>
>>>>>
>>>>> -----------------------------------------------------------------------------------------------------------------
>>>>>
>>>>> root at kunalgrao-laptop:~/Desktop/installs/FLASH# make
>>>>> HDF5_INCLUDE=-I/home/kunalgrao/Desktop/installs/hdf5/include
>>>>> HDF5_LIB=-L/home/kunalgrao/Desktop/installs/hdf5/libs/libhdf5.a |tee
>>>>> make.log
>>>>>
>>>>>
>>>>>
>>>>> ****************************************************************************
>>>>> *** Building FLASH Database Plugin
>>>>>
>>>>>
>>>>> ****************************************************************************
>>>>> source='avtFLASHFileFormat.C' object='avtFLASHFileFormat.o' libtool=no
>>>>>     \
>>>>>   depfile='./avtFLASHFileFormat.d'
>>>>>  tmpdepfile='./avtFLASHFileFormat.tmp_d' \
>>>>>   depmode=gcc3 /usr/local/visit/1.11.2/linux-intel/bin/depcomp
>>>>>  \
>>>>>   g++ -D_LARGEFILE64_SOURCE -Wno-deprecated -O2
>>>>> -I/home/kunalgrao/Desktop/installs/hdf5/include
>>>>> -I/misc/gapps/mpich/1.2.4/Linux/serial/64/debug/include
>>>>>  -I/usr/local/visit/1.11.2/linux-intel/include/cognomen
>>>>> -I/usr/local/visit/1.11.2/linux-intel/include/vtk
>>>>> -I/usr/local/visit/1.11.2/linux-intel/include/vtk/Common
>>>>> -I/usr/local/visit/1.11.2/linux-intel/include/vtk/Filtering
>>>>> -I/usr/local/visit/1.11.2/linux-intel/include/vtk/Graphics
>>>>> -I/usr/local/visit/1.11.2/linux-intel/include/vtk/Hybrid
>>>>> -I/usr/local/visit/1.11.2/linux-intel/include/vtk/IO
>>>>> -I/usr/local/visit/1.11.2/linux-intel/include/vtk/Imaging
>>>>> -I/usr/local/visit/1.11.2/linux-intel/include/vtk/Rendering
>>>>> -I/usr/local/visit/1.11.2/linux-intel/include/vtk/Utilities -I.
>>>>> -I/home/kunalgrao/Desktop/installs/mpich/include
>>>>> -I/usr/local/visit/1.11.2/linux-intel/include
>>>>> -I/usr/local/visit/1.11.2/linux-intel/include/visit
>>>>> -I/usr/local/visit/1.11.2/linux-intel/include/python -c
>>>>> avtFLASHFileFormat.C
>>>>> -o avtFLASHFileFormat.o
>>>>> avtFLASHFileFormat.C: In member function ‘vtkPolyData*
>>>>> avtFLASHFileFormat::GetMortonCurveSubset(int)’:
>>>>> avtFLASHFileFormat.C:1058: error: no matching function for call to
>>>>> ‘find(__gnu_cxx::__normal_iterator<int*, std::vector<int,
>>>>> std::allocator<int> > >, __gnu_cxx::__normal_iterator<int*,
>>>>> std::vector<int,
>>>>> std::allocator<int> > >, int&)’
>>>>> make: *** [avtFLASHFileFormat.o] Error 1
>>>>>
>>>>>
>>>>> --------------------------------------------------------------------------------------------------------------
>>>>>
>>>>> I am also attaching the Makefile for your reference. Kindly let me know
>>>>> how to get it right.
>>>>>
>>>>> Thanks & Regards,
>>>>> Kunal
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> ----------------------------------------------------------------------------------------------------
>>>>>
>>>>>
>>>>>
>>>
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