[BioBrew Users] Fwd: Do anyone know how to resolve this error?

[Glen Otero]

-np is set to 25, but you only have one node in the machines file 
(compute-0-0). That won't work. Did you put compute-0-0 in the 
machines.list file? And your command line looks incorrect. Where is 
/etc/machin?

On Mar 9, 2004, at 1:03 AM, shalini sharon wrote:

>
> Hi, Glen
>
> I did as u said but I still face the same error .
> Can u see and advise me on what might have gone wrong?
>
> Rgs,Sharon
>
> root at frontend-0 share]# dbreport machines
> compute-0-0
> [root at frontend-0 share]# /usr/local/mpich-vmi2/bin/mpirun -np 25 
> /etc/machin/opt/BioBrew/NCBI/6.1.0/bin/mpiblast 
> --config-file=/opt/BioBrew/NCBI/6.1.0/etc/mpiblast.conf -p blastn -d 
> /usr/local/share/db/ecoli.nt -i /root/test.txt -o ./blast_results.txt
> Warning: Command line arguments for program should be given
> after the program name.  Assuming that 
> --config-file=/opt/BioBrew/NCBI/6.1.0/etc/mpiblast.conf is a
> command line argument for the program.
> Warning: Command line arguments for program should be given
> after the program name.  Assuming that -p is a
> command line argument for the program.
> Warning: Command line arguments for program should be given
> after the program name.  Assuming that blastn is a
> command line argument for the program.
> Warning: Command line arguments for program should be given
> after the program name.  Assuming that -d is a
> command line argument for the program.
> Warning: Command line arguments for program should be given
> after the program name.  Assuming that /usr/local/share/db/ecoli.nt is 
> a
> command line argument for the program.
> Warning: Command line arguments for program should be given
> after the program name.  Assuming that -i is a
> command line argument for the program.
> Unrecognized argument /etc/machin/opt/BioBrew/NCBI/6.1.0/bin/mpiblast 
> ignored.
> Error: No machinefile specified.
> You must specify a valid machinefile or populate the default 
> machinefile:
> /usr/local/mpich-vmi2/bin/../share/machines.list
>
>
>
>
>
>> From: Glen Otero <gotero at linuxprophet.com>
>> Reply-To: BioBrew-Users at bioinformatics.org
>> To: BioBrew-Users at bioinformatics.org
>> Subject: [BioBrew Users] Fwd: Do anyone know how to resolve this 
>> error?
>> Date: Tue, 9 Mar 2004 00:08:19 -0800
>>
>>
>>
>> Begin forwarded message:
>>
>>> From: Glen Otero <gotero at linuxprophet.com>
>>> Date: March 9, 2004 12:03:32 AM PST
>>> To: "shalini sharon" <proclaim_jesus at hotmail.com>
>>> Subject: Re: Do anyone know how to resolve this error?
>>>
>>> You need to populate the default machine file (machines.list) with 
>>> the list of hostnames of the machines that you would like to run mpi 
>>> jobs on. For example:
>>>
>>> # Default machine list for mpirun.ch_vmi.  Newline delimited.
>>> compute-0-0
>>> compute-0-1
>>> ...
>>> compute-0-(N-1)
>>>
>>> Running this command:
>>>
>>> dbreport machines > /usr/local/mpich-vmi2/share/machines.list
>>>
>>> will populate the machines.list with all of your compute nodes.
>>>
>>> Glen
>>>
>>> On Mar 8, 2004, at 11:53 PM, shalini sharon wrote:
>>>
>>>>
>>>> Hi, Sharon here..
>>>>
>>>>  This is the ERROR I faced.
>>>>
>>>>  Error: No machilefile specified
>>>>  You must specify a valid machinefile or populate the defauly 
>>>> machinefile
>>>>  /usr/local/mpich-vmi2/bin/../share/machines.list
>>>>
>>>> _________________________________________________________________
>>>> Find gifts, buy online with MSN Shopping. 
>>>> http://shopping.msn.com.sg/
>>>>
>>>>
>>>>
>>> Glen Otero, Ph.D.
>>> Linux Prophet
>>> 619.917.1772
>>>
>>>
>> Glen Otero, Ph.D.
>> Linux Prophet
>> 619.917.1772
>>
>
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>
Glen Otero, Ph.D.
Linux Prophet
619.917.1772