[BioC] Installation memory demands (GO, humanLLMappings)

[Robert Gentleman]

Hi,
   The meta-data packages were just rebuilt (and with every rebuild they  
just keep getting bigger). I think that something odd (unintended odd)  
is going on at install time but have not had a chance to check on just  
what it is. In principle there is no reason for this to be a huge  
problem, but in practice it does seem to be some times.

  Hopefully we can find a reasonable solution, soon.

  Robert

On Jan 20, 2005, at 9:57 AM, Marion Hakanson wrote:

>>     * does the installation generally require this much memory, or
>>       is this a quirk of that particular notebook (e.g. a buggy  
>> library
>>       version with an unfortunate memory leak or the like)?
>
> It happens here, too (SPARC/Solaris-9, Sun Studio 8 compilers,  
> 64-bit).  It's
> most noticeable on building the metadata packages -- I've seen the R  
> virtual
> memory size grow to ~1GB when building *CHRLOC and *LLMappings  
> packages.
> Fortunately, my "build" machine has 2GB of RAM.
>
>
>>     * what do you think about my "cross-installation" fix, is that
>>       reasonable here? With the same version of R and a reasonably
>>       similar platform, it seemed worth a try and there are no
>>       obvious problems, but I haven't been able to test this
>>       thoroughly until now.
>
> I routinely build/test on one machine and deploy on others.  However we
> are pretty careful to make sure identical OS, compilers, and shared  
> libraries
> are installed on all our systems.  The shared libraries are probably  
> the most
> critical, as far as R/BioC are concerned.
>
> Regards,
>
> Marion
>
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>
>
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| Robert Gentleman              phone: (206) 667-7700                    
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| Head, Program in Computational Biology   fax:  (206) 667-1319   |
| Division of Public Health Sciences       office: M2-B865               
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| Fred Hutchinson Cancer Research Center                                 
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| email: rgentlem at fhcrc.org                                              
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