[Bioclusters] Problems with gridEngine on OS X

[Rayson Ho]

--- Chris Dagdigian <dag at sonsorol.org> wrote:
> First off I should tell you that the Grid Engine GUI tool is next to 
> useless. I can't think of any serious SGE admin or end user(s) who
> find it useful (the interface is too inflexible and dated). It badly
> needs to be updated.

Chris: I've heard that the PBS GUI is even worst :)

Randy: You can take a look at the mail archive for host name resolution
issues:
http://gridengine.sunsource.net

Rayson






> 
> You can manage and use SGE faster via the commandline tools than you
> can 
> via the GUI.
> 
> The *only* benefit the qmon X11 interface has is that sometimes it 
> allows you to quickly change relatively obscure queue or policy 
> configuration parameters that can sometimes be a pain to find and
> edit 
> via the commandline methods. The gui has "plain english" explanations
> of 
> settings while the config file has parameter names that may not be as
> 
> familiar
> 
> So my first advice to you is to forget about qmon entirely unless you
> 
> have an actual desire/need for it! No need to stress over what is
> really 
> not that great of an admin or user interface.
> 
> I routinly build Grid Engine from source on Mac OS X and Mac OS X
> server 
> (we built on Tiger last week just for the heck of it...) and I also
> use 
> the binaries from the Grid Engine site. I've never had the odd Motif 
> related issues that you mention and I've never had to edit or even
> think 
> about resource files.
> 
> The biggest thing back in the day was realizing the following:
> 
> o you need Apple X11 installed (well of course...)
> o you ALSO need the Apple X11 SDK .pkg installed
> o motif can come from anywhere really
> 
> Both of these can be found on the Apple DevTools CDROM -- the biggie
> is 
> the "X11 SDK" package -- that is what made everything click for me.
> You 
> can only find the X11 SDK on the devTools CDROM.
> 
> If you tell me what platform you are using I can try sending you a 
> precompiled qmon binary -- maybe that would work.
> 
> Your qconf errors on SGE 6 have nothing to do with qmon. SGE in
> general 
> is extremely sensitive to issues of hostnames and forward/reverse
> DNS. 
> There was not enough info in your last email for me to guess what is 
> actually happening though.
> 
> 
> Regards,
> Chris
> 
> 
> 
> 
> 
> 
> 
> 
> 
> zauhar wrote:
> 
> > 
> > 
> > Hi Folks,
> > 
> > I am spending way too much time trying to get gridEngine up and
> running 
> > on our OS X boxes. I started with version 5.3 (because I thought it
> 
> > would be more "stable") and was able to get things working via
> command 
> > line. However, despite a lot of effort I could not get qmon to
> work, and 
> > given the complexity of the commands I really wanted it to work. My
> aim 
> > is to make it available to everyone in our group, including
> students.
> > 
> > I tried to google every relevant piece of information I could
> (including 
> > messages on this list). The error message I cannot eradicate is
> > 
> > Warning: Cannot find callback list in XtAddCallBack
> > 
> > (appearing dozens of times) which precedes the creation of a
> mangled 
> > GUI. I cannot determine if this is an issue of the Qmon resource
> file 
> > not being located (I copied it to every bloody place I could
> imagine, 
> > followed by endless tinkering with the various path environment 
> > variables that motif uses). My only minuscule success was to set
> the 
> > environment variable XBMLANGPATH to point at the PIXMAPS directory
> under 
> > $SGE_ROOT/qmon , which produced a reasonable-looking GUI but did
> not 
> > eliminate the XtAddCallBack messages; and said GUI did not work. I
> am no 
> > expert on motif (I have learned more than I ever expected to know
> at 
> > this point) and cannot go much further.
> > 
> > SO, I decided to move up to version 6.0! I installed it remotely on
> our 
> > network server (named "galapagos"). All seemed to go well. I added
> my 
> > office machine ("cabriolet") as an admin host, and then tried again
> to 
> > run qmon. It didn't work (in fact just terminated abruptly). When I
> 
> > tried to run qconf on my office machine, I got this message:
> > 
> > [cabriolet-usip-edu:/var/db/netinfo] zauhar# qconf -sh
> > error: commlib error: access denied (client IP resolved to host
> name 
> > "cabriolet.usip.edu". This is not identical to clients host name
> "ca)
> > ERROR: unable to contact qmaster using port 9902 on host 
> > "galapagos.usip.edu"
> > 
> > Huh? The business about the host name resolution looks incredibly
> peculiar.
> > 
> > Sorry for the clueless character of this message, but think how
> superior 
> > you will feel if you can show me what an ass I am. :-)
> > 
> > Thanks in advance,
> > 
> > Randy
> > 
> > 
> > 
> > Randy J. Zauhar, PhD
> > Assoc. Prof. of Biochemistry
> > Director, Graduate Program in Bioinformatics
> > Dept. of Chemistry & Biochemistry
> > University of the Sciences in Philadelphia
> > 600 S. 43rd Street
> > Philadelphia, PA 19104
> > 
> > Phone: (215)596-8691
> > FAX: (215)596-8543
> > E-mail: r.zauhar at usip.edu
> > Web: http://tonga.usip.edu/zauhar
> > 
> > 
> > Discussion after watching Disney's "Lilo & Stitch":
> > 
> > DAD: "But why did the space aliens speak English, as opposed to
> French, 
> > or Swahili? And why did the one alien speak English with an Eastern
> 
> > European accent? I don't get it."
> > 
> > CATHERINE (age 7): "That's 'cause you don't have a good cartoon
> brain."
> > 
> > 
> > 
> >
>
------------------------------------------------------------------------
> > 
> > _______________________________________________
> > Bioclusters maillist  -  Bioclusters at bioinformatics.org
> > https://bioinformatics.org/mailman/listinfo/bioclusters
> 
> -- 
> Chris Dagdigian, <dag at sonsorol.org>
> BioTeam  - Independent life science IT & informatics consulting
> Office: 617-665-6088, Mobile: 617-877-5498, Fax: 425-699-0193
> PGP KeyID: 83D4310E iChat/AIM: bioteamdag  Web: http://bioteam.net
> _______________________________________________
> Bioclusters maillist  -  Bioclusters at bioinformatics.org
> https://bioinformatics.org/mailman/listinfo/bioclusters
> 


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