[GE users] compile problem on NetBSD with SGE6u7

Bill Knebel billk at metrumrg.com
Wed Mar 15 20:38:22 GMT 2006


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Ron,

If the offer is still open, could you forward the binaries you created 
that you mention in the email below?

Thank you,

Bill

Ron Chen wrote:

>Hi,
>
>Want to try the binaries I compiled on the opensource compile
>farm? Let me know and I will attach the execd and qmaster
>binaries to you in a private mail.
>
> -Ron
>
>
>--- Bill Knebel <billk at metrumrg.com> wrote:
>  
>
>>Thought I would add some additional info.  I was able to
>>install and run 
>>SGE 5p3 from a precompiled binary for NetBSD3. I also ran
>>qping and 
>>searched for the sge daemons after getting the "daemonize"
>>error.  The 
>>output for "qping -info headnode.run 1025 qmasr ter 1" was:
>>
>>02/11/2006 13:17:12:
>>SIRM version:             0.1
>>SIRM message id:          1
>>start time:               02/11/2006 13:12:10 (1139681530)
>>run time [s]:             302
>>messages in read buffer:  0
>>messages in write buffer: 0
>>nr. of connected clients: 1
>>status:                   0
>>info:                     TET: R (2.31) | EDT: R (0.31) |
>>SIGT: R 
>>(301.76) | MT(1): R (6.85) | MT(2): R (6.85) | OK
>>Monitor:                  disabled
>>
>>and the output from ps -ax|grep sge was:
>>
>>13487 ?     Ia   0:00.08
>>/usr/pkg/sge6u7/bin/nbsd-i386/sge_qmaster
>>
>>Not sure if this helps but there it is.
>>
>>Bill
>>
>>Ron Chen wrote:
>>
>>    
>>
>>>Not sure whether it is good news or bad news :p
>>>
>>>I just borrowed an opensource compile farm account and tested
>>>SGE6u7_1 on NetBSD 3.0 on i386 (32-bit), it works for me.
>>>
>>>I compiled with "aimk -no-java -no-jni -no-secure
>>>      
>>>
>>-spool-classic
>>    
>>
>>>-no-qmon". Of course the account is non-root (that even that,
>>>SGE still daemonizes) , so I used ports over 1024.
>>>
>>>Can you try with ports over 1024?
>>>
>>>BTW, what hardware are you running on?
>>>
>>>-Ron
>>>
>>>
>>>--- Bill Knebel <billk at metrumrg.com> wrote:
>>> 
>>>
>>>      
>>>
>>>>Well, let me know what you find out.
>>>>
>>>>Bill
>>>>
>>>>Ron Chen wrote:
>>>>
>>>>   
>>>>
>>>>        
>>>>
>>>>>We've never tested SGE6 on NetBSD 3.0, and I will do it
>>>>>          
>>>>>
>>this
>>    
>>
>>>>>weekend.
>>>>>
>>>>>In fact, Dan McMahill and I talked about adding SGE6 to the
>>>>>NetBSD 3 distribution in Jan 06, but I was too busy at that
>>>>>time.
>>>>>
>>>>>-Ron
>>>>>
>>>>>
>>>>>
>>>>>--- Bill Knebel <billk at metrumrg.com> wrote:
>>>>>
>>>>>
>>>>>     
>>>>>
>>>>>          
>>>>>
>>>>>>Ron,
>>>>>>
>>>>>>Thanks. That fixed it.  However, now I am having problems
>>>>>>getting 
>>>>>>qmaster installed. When it gets to the point of starting
>>>>>>            
>>>>>>
>>the
>>    
>>
>>>>>>daemons, it 
>>>>>>exits with the following message:
>>>>>>daemonize error: child exited before sending daemonize
>>>>>>            
>>>>>>
>>state
>>    
>>
>>>>>>a "cat" of /tmp/sge_messages yields
>>>>>>02/09/2006 19:10:19|qmaster|headnode|E|communication error
>>>>>>       
>>>>>>
>>>>>>            
>>>>>>
>>>>for
>>>>   
>>>>
>>>>        
>>>>
>>>>>>"headnode.run/qmaster/1" running on port 536: "can't bind
>>>>>>socket"
>>>>>>02/09/2006 19:10:20|qmaster|headnode|E|commlib error:
>>>>>>            
>>>>>>
>>can't
>>    
>>
>>>>>>bind socket 
>>>>>>(no additional information available)
>>>>>>02/09/2006 19:10:49|qmaster|headnode|C|abort qmaster
>>>>>>            
>>>>>>
>>startup
>>    
>>
>>>>>>due to 
>>>>>>communication errors
>>>>>>
>>>>>>and of /tmp/schedd_messages yields
>>>>>>02/09/2006 19:10:21|schedd|headnode|W|daemonize error:
>>>>>>            
>>>>>>
>>child
>>    
>>
>>>>>>exited 
>>>>>>before sending daemonize state
>>>>>>
>>>>>>Any suggestions anyone?  I saw this on the user mailing
>>>>>>archive but no 
>>>>>>responses I saw were helpful.  The two ports in
>>>>>>       
>>>>>>
>>>>>>            
>>>>>>
>>>>/etc/services
>>>>   
>>>>
>>>>        
>>>>
>>>>>>are not 
>>>>>>being used by anything else and this occurs if I try this
>>>>>>            
>>>>>>
>>as
>>    
>>
>>>>>>root or as 
>>>>>>sgeadmin.
>>>>>>
>>>>>>Bill
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>Ron Chen wrote:
>>>>>>
>>>>>>  
>>>>>>
>>>>>>       
>>>>>>
>>>>>>            
>>>>>>
>>>>>>>Looks like you are compiling on NetBSD 3.0:
>>>>>>>
>>>>>>>http://www.netbsd.org/Changes/changes-3.0.html
>>>>>>>
>>>>>>>* statvfs(2)
>>>>>>>Eliminate statfs(2) and friends, in preference for the 
>>>>>>>POSIX/XOpen compliant statvfs(2) family. [christos
>>>>>>>    
>>>>>>>
>>>>>>>         
>>>>>>>
>>>>>>>              
>>>>>>>
>>>>>>20040421] 
>>>>>>  
>>>>>>
>>>>>>       
>>>>>>
>>>>>>            
>>>>>>
>>>>>>>You will need to change 2 files:
>>>>>>>daemons/common/err_trace.c:966 and utilbin/fstype.c:67
>>>>>>>
>>>>>>>Remove "|| defined(NETBSD)" for those 2 places and the
>>>>>>>    
>>>>>>>
>>>>>>>         
>>>>>>>
>>>>>>>              
>>>>>>>
>>>>>>default
>>>>>>  
>>>>>>
>>>>>>       
>>>>>>
>>>>>>            
>>>>>>
>>>>>>>case uses the POSIX function that is available in NetBSD
>>>>>>>         
>>>>>>>
>>>>>>>              
>>>>>>>
>>>>3.0.
>>>>   
>>>>
>>>>        
>>>>
>>>>>>>-Ron
>>>>>>>
>>>>>>>
>>>>>>>Bill Knebel <billk at metrumrg.com> wrote:
>>>>>>>
>>>>>>>
>>>>>>>    
>>>>>>>
>>>>>>>         
>>>>>>>
>>>>>>>              
>>>>>>>
>>>>>>>>../daemons/common/err_trace.c: In function
>>>>>>>>                
>>>>>>>>
>>`nfs_mounted':
>>    
>>
>>>>>>>>../daemons/common/err_trace.c:967: error: storage size
>>>>>>>>                
>>>>>>>>
>>of
>>    
>>
>>>>>>>> 
>>>>>>>>
>>>>>>>>      
>>>>>>>>
>>>>>>>>           
>>>>>>>>
>>>>>>>>                
>>>>>>>>
>>>>>>>`buf'
>>>>>>>
>>>>>>>
>>>>>>>    
>>>>>>>
>>>>>>>         
>>>>>>>
>>>>>>>              
>>>>>>>
>>>>>>>>isn't known
>>>>>>>>                
>>>>>>>>
>=== message truncated ===
>
>
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>  
>

-- 
Bill Knebel, PharmD, Ph.D.
Principal Scientist
Metrum Research Group
2 Tunxis Road
Suite 112
Tariffville, CT 06081
email: billk at metrumrg.com
tel: (860) 930-1370

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