[Bioclusters] Problems with gridEngine on OS X

[Randy Zauhar]

Chris thanks for the reply. You wrote:
On Apr 21, 2005, at 7:14 PM, Chris Dagdigian 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.

Fair enough! (After banging my head against the wall all day that  
provided a much needed laugh. )

>
> 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

I have all of the above in place. But WHY should having the X11 SDK  
make a difference? Does it change anything with regard to installed  
libraries, etc?

>
> If you tell me what platform you are using I can try sending you a  
> precompiled qmon binary -- maybe that would work.

We are using Panther (at or near latest update). I should have stated  
that I downloaded the binaries from Sun. Could that be the issue?

In any event, I would appreciate trying your executable.

>
> Your qconf errors on SGE 6 have nothing to do with qmon.

I didn't think so, but the error did provoke a sense of "My God, what  
now?"

>  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.

Hum. Nothing changed on my server between moving from 5.3 to 6.0. I  
thought I did the installation essentially the same both times. The  
hostnames should be picked up from my netinfo database, but maybe there  
are multiple definitions (like in /etc/hosts?) I will take a closer  
look.

Thanks very much for your response!

Randy


>
>
> Regards,
> Chris
>
>
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>
>
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>
>
> 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
>
>

Randy J. Zauhar, PhD
Assoc. Prof. of Biochemistry
Director, Graduate Program in Bioinformatics
University of the Sciences in Philadelphia
Dept. of Chemistry & Biochemistry
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