[GE users] Re: [GE users] Error: Job rejected: no project assigned to job, Possible bug in qmake

reuti reuti at staff.uni-marburg.de
Wed Feb 11 17:30:23 GMT 2009


Hi,

Am 11.02.2009 um 17:36 schrieb Abhishek Pratap:

> Hi Reuti
>
> This is what I get as per your suggestion.
>
>  qmake -P general -cwd  -v PATH -pe make 1-10 -inherit --
> dynamic mode

I meant this inside the job script, which you submitted to a PE. I  
wondered about the --recursive.

-- Reuti


>
> job rejected: no project assigned to job
> qmake: *** [allmsg] Error 1
>
>
> Thanks,
> -Abhi
>
> On Tue, Feb 10, 2009 at 5:29 PM, reuti <reuti at staff.uni-marburg.de>  
> wrote:
> Hi,
>
> Am 10.02.2009 um 23:15 schrieb abhishekpratap:
>
> > Hi  All
> >
> >
> > Diving into some more details, this is what I find out. I believe
> > it to be a possible bug or some silly thing that I am not aware of.
> >
> > The problem lies with the script I am submitting via qsub as
> > described below. I think qmake is not able to pass the parameter -P
> > general to its implicit qrsh call. I have tried to explain it below.
> > ================
> >
> > > Submitting a job here:
> > >
> > > qsub -P general -S /bin/sh -q sequencing.q -cwd -v PATH -pe make
> > 1-10
> > > /home/apratap/dev/GRID/qsubmake
> >
> > > where qsubmake is a simple script like this:
> > >
> > >
> > > #!/bin/sh
> > >
> > > qmake -P general -cwd -v PATH -inherit --recursive
>
> the --recursive should go to the make - or to what command? Can you  
> try:
>
> qmake -P general -cwd -v PATH -inherit -- --recursive
>
> The -- will end the options to qmake.
>
> -- Reuti
>
>
> > >
> >
> > >
> >
> > >
> >
> > > ===============
> >
> >  I just tried fiddling with qmake running it directly on shell with/
> > without -P option. Here is -P is the project tag which is required
> > as per the policy set up by SGE admins here.
> >
> >  ____________________________________________________________
> >
> > 1. qmake -cwd -v PATH -pe make 1-10 --
> >
> >
> >
> > qmake: *** cannot determine architecture from environment variable
> > SGE_ARCH
> >
> >            no default architecture set
> >
> > job rejected: no project assigned to job
> >
> >
> >
> > NOW I tried with -P option .
> >
> > _________________________________________________________
> >
> > 2. qmake -P general -cwd -V -v PATH -pe make 1-10 --
> >
> >
> >
> > qmake: *** cannot determine architecture from environment variable
> > SGE_ARCH
> >
> >            no default architecture set
> >
> > Your "qrsh" request could not be scheduled, try again later.
> >
> > ______________________________________________________________
> >
> >
> >
> > I also tried qrsh with/without -P general
> >
> >
> >
> > qrsh
> >
> > job rejected: no project assigned to job
> >
> > qrsh -P general
> >
> > It works this time without any error.
> >
> >  Thanks,
> >
> > -Abhi
> >
> >
> >
> > -----Original Message-----
> >
> > From: Pratap, Abhishek
> > Sent: Tuesday, February 10, 2009 3:24 PM
> > To: 'users'
> > Subject: RE: job rejected: no project assigned to job (was Re: [GE
> > users] Parallelizing the GA pipeline at tile level)
> >
> >  Hi Chris
> >
> >  Thanks for your suggestion. I agree it sounds more generic now.
> > I am not the one who created this project. IT has done it here.
> >
> > Output of qconf -sprjl
> >
> >
> > qconf -sprjl
> > dacc
> > general
> > global
> > testing
> >
> >
> > Also I would like to know does qmake has a similar behavior as
> > qsub. I am not able to find much documentation on qmake and how it
> > can be used.
> >
> >
> > Thanks,
> > -Abhi
> >
> >
> >
> > -----Original Message-----
> >
> > From: craffi [mailto:dag at sonsorol.org]
> >
> > Sent: Tuesday, February 10, 2009 3:15 PM
> >
> > To: users at gridengine.sunsource.net
> >
> > Subject: job rejected: no project assigned to job (was Re: [GE
> > users] Parallelizing the GA pipeline at tile level)
> >
> >
> >
> > Abhi,
> >
> >
> >
> > This is a general mailing list for Grid Engine users, 99% of the
> > people here will have no idea what you are talking about when you
> > say "GA pipeline" (although there are a few Solexa/Illumina Genome
> > Analyzer pipeline users here), I'm replying mostly to change the
> > subject line of the thread to actually match the problem you are
> > having -- namely getting SGE to accept the fact that you have named
> > a project via "-P" ...
> >
> >
> >
> > It is clear that you are assigning a project, have you actually
> > created this project?
> >
> >
> >
> > What is the output of the command:
> >
> >
> >
> > $ qconf -sprjl
> >
> >
> >
> >
> >
> > -Chris
> >
> >
> >
> >
> >
> >
> >
> >
> >
> >
> >
> >
> >
> > On Feb 10, 2009, at 3:04 PM, abhishekpratap wrote:
> >
> >
> >
> > > Hi All
> >
> > >
> >
> > > I am trying to work on parallelizing the GA pipeline to the tile
> >
> > > level. Just wondering if any one has already worked or working on
> > the
> >
> > > same.
> >
> > >
> >
> > > Let me know if you have some notes to do the same. I am not  
> getting
> >
> > > much doc on how to use qmake for this.
> >
> > >
> >
> > > This is what I have done so far with some pointers from people
> > but not
> >
> > > with much success
> >
> > >
> >
> > > ================
> >
> > > Running this from the Bustard folder:
> >
> > >
> >
> > >
> >
> > > qsub -P general -S /bin/sh -q sequencing.q -cwd -v PATH -pe make
> > 1-10
> >
> > > /home/apratap/dev/GRID/qsubmake
> >
> > >
> >
> > >
> >
> > > where qsubmake is a simple script like this:
> >
> > >
> >
> > >
> >
> > > #!/bin/sh
> >
> > >
> >
> > > qmake -P general -cwd -v PATH -inherit --recursive
> >
> > >
> >
> > >
> >
> > >
> >
> > >
> >
> > > ===============
> >
> > >
> >
> > >
> >
> > > Executing this gives me this error  "job rejected: no project
> > assigned
> >
> > > to job"
> >
> > >
> >
> > > I have already associated a Project (-P general), not sure why  
> I am
> >
> > > getting this error.
> >
> > >
> >
> > >
> >
> > >
> >
> > >
> >
> > >
> >
> > >
> >
> > > Thanks,
> >
> > > -Abhi
> >
> >
> >
> > ------------------------------------------------------
> >
> > http://gridengine.sunsource.net/ds/viewMessage.do?
> > dsForumId=38&dsMessageId=103266
> >
> >
> >
> > To unsubscribe from this discussion, e-mail: [users-
> > unsubscribe at gridengine.sunsource.net].
> >
>
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