On Apr 21, 2008, at 5:45 PM, Forster, Robert wrote:
ARB is running into a memory problem when large datasets are
processed using something called the pt_server. The pt_server
process hangs and doesn’t establish a running system. I’ve tested
this out with two different sized datasets, the small one works, the
large doesn’t.
In discussions with Elmar Pruesse, a developer with ARB, he
suggested this memory fix in one of the source files.
>>
arb_assert(usedmemsize != 0);
return usedmemsize;
#else
return 128*1024; /* 128 Mb default memory */
#endif
<<<<
You can try two things:
a) replace the line
"#if defined(SUN5) || defined(LINUX)"
with
"#if defined(SUN5) || defined(LINUX) || defined(DARWIN)"
I don't know whether that code will work on darwin, so this might not
compile at all. But it's worth a try, and will really fix your problem
for good.
If that doesn't work, you could work around the problem, by changing
the
default memory limit:
replace the line
"return 128*1024; /* 128 Mb default memory */"
with
"return 2*1024*1024; /* 2 GB default memory */"
<<
I made the first defined(DARWIN) change, repacked the file and put
it into the source directory. Now how do I get fink to see it? Do I
just remove the deb file or are there other things I need to do.
Does anyone in the know think this will work?
Thanks, Bob
Dr. Bob Forster
Bioproducts and Bioprocesses/Produits et procédés biologiques
Agriculture and Agri-Food Canada/Agriculture et Agroalimentaire Canada
Telephone/Téléphone: 403-317-2292
Facsimile/Télécopieur: 403-382-3156
Lethbridge Research Centre
PO Box 3000/5403 1st Ave. S.
Lethbridge, AB
T1J 4B1
[EMAIL PROTECTED]
The simplest way would be to do "fink rebuild arb" ; you'll have to
ignore the bad checksum error.
If that works the "right" way is to append it to /sw/fink/10.4/
unstable/main/finkinfo/sci/arb.patch and use the pristine source.-------------------------------------------------------------------------
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