[FLASH-USERS] ask for some help
Ludmila María Rechiman
ludmilarechiman at gmail.com
Thu Mar 3 10:02:27 EST 2016
Thank you Jason I try your suggestion, thanks in advance
On Thu, Mar 3, 2016 at 11:56 AM, Jason Galyardt <jason.galyardt at gmail.com>
wrote:
> 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
>>>
>>
>>
>
--
ludmila
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