[FLASH-USERS] ask for some help
Jason Galyardt
jason.galyardt at gmail.com
Thu Mar 3 09:56:01 EST 2016
Hi Ludmila,
Have you tried using one of the pre-built binary versions of VisIt? FLASH
support should be available in all of these, and watching how a pre-built
binary fails may give you a clue as to any missing libraries in your
environment.
Good luck!
Jason
----
Jason Galyardt
Department of Physics and Astronomy
University of Georgia
On Thu, Mar 3, 2016 at 9:49 AM, Scott Feister <sfeister at gmail.com> wrote:
> Alright, I reproduced your error (but didn't fix it). I normally run VisIt
> from my laptop, but I realized that when I installed to our local cluster,
> I see the same problem you have; it is not in the list. it did not install
> with FLASH support, apparently, because of not finding HDF5 libraries. This
> is seen in the log which was output into the same folder as your build
> script (in my case, it was called ""build_visit2_10_0_log"
>
> ...
> -- Checking database plugin dependencies.
> ...
> -- Checking FLASH plugin dependencies: HDF5
> -- NOT FOUND: HDF5
>
> Do you have that in your log, too? Let me know if you making sure you've
> pre-installed HDF5 libraries solves the issue.
>
> Scott
>
>
> Scott Feister
> Ph.D. Candidate, Physics
> The Ohio State University
> Research Scientist
> Air Force Research Laboratory
>
> On Thu, Mar 3, 2016 at 9:40 AM, Ludmila María Rechiman <
> ludmilarechiman at gmail.com> wrote:
>
>> Thank you Tomek for your help, I am doing what you suggest but the FLASH
>> is not on the list, do you know how to added? thank you very much for your
>> time
>>
>> On Thu, Mar 3, 2016 at 11:34 AM, Tomasz Plewa <tplewa at fsu.edu> wrote:
>>
>>> Dear Ludmila -
>>>
>>> From the top top of command window, select
>>>
>>> Options -> Plugin Manager -> Databases -> FLASH -> Add to preferred list
>>> -> Apply
>>>
>>> You may want to move FLASH to the top of the list and select Apply again.
>>>
>>> Then select
>>>
>>> Options -> Save Settings
>>>
>>> You may need to restart Visit for the above changes to take place.
>>>
>>> Hope this helps.
>>>
>>> Tomek
>>> --
>>>
>>> On 03/03/16 08:13, Ludmila María Rechiman wrote:
>>>
>>> Dear Scott and Jonathan,
>>> thank you for the answer,
>>> yes, I have tried what you suggest, the thing is that in the popup menu
>>> (filetype list) when I tried to open a FLASH file, it does not show the
>>> option FLASH.
>>> I do not understand, I followed the standard procedure but FLASH option
>>> is not on the list.
>>>
>>> thank you in advance
>>>
>>> On Wed, Mar 2, 2016 at 6:24 PM, Slavin, Jonathan <
>>> jslavin at cfa.harvard.edu> wrote:
>>>
>>>> Hi Ludmila,
>>>>
>>>> I have found that if I just start visit without any parameters and then
>>>> open my FLASH generated plot or checkpoint file without specifying the file
>>>> type, I get errors. However, if I select the file I want to open and then
>>>> choose FLASH from the filetype list (open file as type), it works. Have
>>>> you tried that?
>>>>
>>>> Regards,
>>>> Jon
>>>>
>>>> On Wed, Mar 2, 2016 at 4:02 PM, <flash-users-request at flash.uchicago.edu
>>>> > wrote:
>>>>
>>>>> From: "Ludmila María Rechiman" <ludmilarechiman at gmail.com>
>>>>> To: flash-users at flash.uchicago.edu
>>>>> Cc:
>>>>> Date: Wed, 2 Mar 2016 18:02:14 -0300
>>>>> Subject: [FLASH-USERS] ask for some help
>>>>> Dear community of flash users,
>>>>> i am new using FLASH. I
>>>>> have install all the requirements and I was able to run succesfully the
>>>>> Sedov problem and the WindTunnel problem in serial and in parallel and
>>>>> varying some parameters. The thing is that I also install visit 2.10, and
>>>>> it seems to work but the plugin dedicated to read the FLASH data it was not
>>>>> installed, then I can not visualize any data.
>>>>>
>>>>> I have made the following steps:
>>>>>
>>>>> 1) I have run the script build_visit.sh that I download from (
>>>>> http://portal.nersc.gov/project/visit/releases/2.10.0/build_visit2_10_0).
>>>>>
>>>>>
>>>>> 2)In the folder /home/ludmila/visit/visit2.10.0/src I have run : make
>>>>> all . I attach the log file
>>>>>
>>>>> 3) then in the folder I run :
>>>>> /home/ludmila/visit/visit2.10.0/src/bin/./visit -assume_format FLASH
>>>>>
>>>>> 4)The visit Gui interface open but when I open the results of my
>>>>> simulation I get the following error (I attach the .png of the screen):
>>>>>
>>>>> VisIt could not read from the file
>>>>> "/home/ludmila/FLASH4.3/object/sedov_hdf5_chk_* database".
>>>>>
>>>>>
>>>>> The generated error message was:
>>>>>
>>>>>
>>>>> There was an error opening
>>>>> /home/ludmila/FLASH4.3/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>
>>>>>
>>>>>
>>>>> 5) I thoght that if I run:
>>>>> /home/ludmila/visit/visit2.10.0/src/databases/cmake .
>>>>>
>>>>>
>>>>> it will compile all the plugins including the FLASH, but I get the
>>>>> following error:
>>>>>
>>>>>
>>>>> see the last .png
>>>>>
>>>>> I have been trying several ideas but no one seem to work. I would like
>>>>> to ask you if some have some idea of what am I doing wrong of if I am
>>>>> missing some thing.
>>>>>
>>>>> Thank you for your time
>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> ludmila
>>>>>
>>>>
>>>>
>>>>
>>>>
>>>> --
>>>> ________________________________________________________
>>>> Jonathan D. Slavin Harvard-Smithsonian CfA
>>>> jslavin at cfa.harvard.edu 60 Garden Street, MS 83
>>>> phone: (617) 496-7981 Cambridge, MA 02138-1516
>>>> cell: (781) 363-0035 USA
>>>> ________________________________________________________
>>>>
>>>>
>>>
>>>
>>> --
>>> ludmila
>>>
>>>
>>>
>>
>>
>> --
>> ludmila
>>
>
>
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