Siddheshwar Chopra
sidhusai@gmail.com
Please help Sir.
Regards,
On Sun Mar 23 '14 0:47am, Pavlo Solntsev wrote
----------------------------------------------
>Dear Siddheshwar.
>Could you please give EXACT command you used to start FF. Step-by-step. How you created running script and how you executed it. Also, i would be glad to see the script too. Make sure all private information is removed from the script.
>From the error file you sent, i found mistake in you path to the input and output files.
>+ /usr/bin/time mpirun -np 1 /home/schopra/ff801intel/firefly801 -ex /home/schopra/ff801intel -i /home/schopra//home/schopra/ff801intel/INPUT/Si26H26.inp -o /home/schopra//home/schopra/ff801intel/INPUT/Si26H26.out -t /home/schopra/ff801intel/tmp/13216/
>Once again, the script should be executed as :
>qff2 inputfilename
>Do not provide full path. For example, i have file H2.inp in some folder "dir1". I need:
>$ cd dir1
>$ qff2 h2.inp
>$ bash h2.sh
>or
>$ qsub h2.pbs
>Also, why do you use IntelMPI for one CPU? To debug IntelMPI, i would recommend you to use at least two CPUs.
>Do you use PBS?
>What exact file did you execute to get *.e and *.o files?
>Please, answer all my questions. As soon as i get all this information it will be easy to go forward.
>Sincerely,
>Pavlo.
>
>
>
>On Sat Mar 22 '14 10:53am, Siddheshwar Chopra wrote
>---------------------------------------------------
>>Dear Sir,
>>I followed the steps suggested by you regarding running the i/p file using qff2. Sir, I ran the job, and got the two files with extensions ".e" and ".o". Please find attached the ".e" file. I could not get any output file after running qff2 inputfile.inp. Please have a look at the file attached and let me know what is happening. As I understand it, it failed to create .out file.. Should I make it .log? Please elaborate the .e file Sir.
>>Could you confirm that it finally read the input file?? Let me know.
>>Regards,
>>On Thu Mar 20 '14 6:24pm, Pavlo Solntsev wrote
>>----------------------------------------------
>>>You don't need to run ~/.firefly.conf file. It is a configuration file but not a script.
>>>delete ~/.firelfy.conf (just in case) or use -s argument for qff2 (see qff2 --help)
>>>1) run "qff2 basename.inp". Where basename.inp is your input file.
>>>At this step, ~/.firefly.conf script will be created. Also, you will see file basename.sh or basename.pbs in your current folder. They are scripts. Only one file will be generated basename.sh or basename.pbs.
>>>2) run firelfy by typing "bash basename.sh" or "qsub basename.pbs"
>>>Next time just type qff2 inputfile. Since you already have ~/.firefly.conf script will not ask you for information to create it again. If you want to change some default parameters you don't need to regenerate ~/.firelfy.conf. Instead, you can edit ~/,firelfy.conf manually.
>>>
>>>
>>>see qff2 --help for more options.
>>>Best,
>>>Pavel.
>>>
>>>
>>>
>>>On Thu Mar 20 '14 3:04pm, Siddheshwar Chopra wrote
>>>--------------------------------------------------
>>>>Dear Pavel Sir,
>>>>I am thankful to you for providing the qff2 script. I have successfully generated a "firefly.conf" file. But what should I do next? I am running "qff2 firefly.conf" now, but it is again and again asking me the details which were already provided to create firefly.conf. What I have to do next Sir?
>>>>
>>>>
>>>>Regards,
>>>>On Wed Mar 19 '14 6:54pm, Pavlo Solntsev wrote
>>>>----------------------------------------------
>>>>>Dear Siddheshwar.
>>>>>I attached a script to configure FF. It will create a configuration file in your home folder ~/.firefly.conf with all default configurations.
>>>>>Place the script into a folder which is in PATH variable and make sure it is executable.
>>>>>Start using the script by typing
>>>>>qff2 inputfile
>>>>>If ~/.firefly.conf is not available script will create it by asking common questions. Before you start make sure you now MPI home directory. The directory with bin and lib directories (32-bit). NBO license information,f if you have it. If you want to use more then one CPU make sure appropriate MPI libraries is installed together with mpirun/mpiexec. In your case IntelMPI.
>>>>>Depends on your answer, you will get file >>>>>You can overwrite default parameters by providing appropriate parameters to the script. See qff2 --help. >>>>>Also, you can create new parameters in ~/.firefly.conf by executing qff2 -s or change parameters manually in ~/.firefly.conf by using any text editor. >>>>>Also, make sure you have Firefly linked with IntelMPI(!). >>>>>Let me know if you have any problem. >>>>>Pavel. >>>>>>1) I need to provide paths to bin and lib folders.. both for 32 bit Intel MPI.. >>>>>>2) There is a mention of Intel MPI-v3.x in the manual.. >>>>>>The Problem:: >>>>>>So I checked on my system and found that it has ONLY Intel MPI- v4.1.x (32 and 64 bit both) installed... SO I added the paths to 32-bit bin and lib folders.. which were inside ..../impi/4.1.0.024/ia32/. >>>>>>Please help. >>>>>>Regards, >>>>>>>Please, read "Linux MPI implementations" section from the manual. >>>>>>>Again, read very carefully the manual and use a search. There is also manual - how to setup FF with OpenMPI. Please, search on this forum. >>>>>>>Pavel. >>>>>>>>Please help me. >>>>>>>>On Sun Mar 16 '14 6:01am, Pavlo Solntsev wrote >>>>>>>>>Please, use the search tool-chain for this site. All you problems were discussed in this forum. >>>>>>>>>If you need a help with scripting i may help. >>>>>>>>>Pavlo. >>>>>>>>>>p4_error: semget failed for setnum: 0 >>>>>>>>>>Over the internet I came across "cleanipcs". Please help me..I am unable to progress with my work. This error is repeating everytime; not allowing the program to run. >>>>>>>>>>Regards, >>>>>>>>>>On Sat Mar 15 '14 7:27am, Siddheshwar Chopra wrote >>>>>>>>>>>Regards, >>>>>>>>>>>On Fri Mar 14 '14 10:06pm, Pavlo Solntsev wrote >>>>>>>>>>>>Did you consult the manual for Firefly's command line options? >>>>>>>>>>>>Pavel. >>>>>>>>>>>>>mpirun -np 2 ./firefly801 -r -f -p -i /path/INPUT/xyz.inp >>>>>>>>>>>>>FATAL ERROR INITIALIZING FIREFLY! CHECK YOUR COMMAND LINE OPTIONS! >>>>>>>>>>>>> ON MASTER NODE, ERROR CODE IS : 0x00000001 >>>>>>>>>>>>>Also please tell how to use -stdext -ex?? What is it used for?? >>>>>>>>>>>>>Regards,
>>>>>
>>>>>
>>>>>
>>>>>On Wed Mar 19 '14 12:28pm, Siddheshwar Chopra wrote
>>>>>---------------------------------------------------
>>>>>>Dear Pavel Sir,
>>>>>>Thanks for encouraging me to go elaborately trough the manual. The points I noted from it:
>>>>>>Did I do right?? But the problem persists giving error "Unable to open input file".. File permissions are also proper.
>>>>>>
>>>>>>
>>>>>>
>>>>>>On Tue Mar 18 '14 6:35pm, Pavlo Solntsev wrote
>>>>>>----------------------------------------------
>>>>>>>Short answer - no.
>>>>>>>In any case you need a 32-bit libmpi.so library available via $LD_LIBRARY_PATH.
>>>>>>>
>>>>>>>
>>>>>>>Check also "Installing Firefly on an InfiniBand network 64-bit Linux cluster
>>>>>>>with Intel MPI v. 3.x". You can skip configuration InfiniBand and go directly to IntelMPI setup.
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>On Tue Mar 18 '14 12:37pm, Siddheshwar Chopra wrote
>>>>>>>---------------------------------------------------
>>>>>>>>Dear Sir,
>>>>>>>>Please note the configuration of the system on which I have copied the FIREFLY-8.0.1 folder (for Intel MPI version)::
>>>>>>>>64 Bit Cent OS, and with Intel MPI-4.0.X
>>>>>>>>Are there Statically linked versions available for Intel MPI ones?
>>>>>>>>----------------------------------------------
>>>>>>>>>Dear Siddheshwar.
>>>>>>>>>1) Read the manual, specifically command line section (how to run FF)
>>>>>>>>>2) Manual also has example of script how to run FF exactly with IntelMPI. do search.
>>>>>>>>>3) If you can't find answer by using search and/or manual, put EXACT command line or script you use to tun FF.
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>On Sat Mar 15 '14 9:32am, Siddheshwar Chopra wrote
>>>>>>>>>--------------------------------------------------
>>>>>>>>>>Dear Sir,
>>>>>>>>>>I could manage to remove the "Unable to open input file" error by giving the absolute path to the i/p file.. But now I am struggling with the following persistent error::
>>>>>>>>>>--------------------------------------------------
>>>>>>>>>>>Dear Sir,
>>>>>>>>>>>Yes I have read the manual.. Could you please point out the mistake Sir. Perhaps it is a very silly mistake. I am new to Linux and need to stay with it for a while. Please help.
>>>>>>>>>>>-----------------------------------------------
>>>>>>>>>>>>Dear Siddheshwar.
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>On Fri Mar 14 '14 3:06pm, Siddheshwar Chopra wrote
>>>>>>>>>>>>--------------------------------------------------
>>>>>>>>>>>>>Dear Sir,
>>>>>>>>>>>>>I am running Firefly801 executable file from unzipped ff801 (relatively located) folder. The system has Intel MPI installed on it. I am running an i/p file xyz.inp located inside ff801/INPUT directory using ::
>>>>>>>>>>>>>But I am getting this error:::
>>>>>>>>>>>>> Unable to open input file This message contains the 2 kb attachment
[ files_3.zip ]
Mon Mar 24 '14 9:11am
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