[Bioclusters] recompiling redhat source rpms from .spec files to add large file support?

[Goran Ceric]

I had problems with tcsh under RedHat 7.2. It didn't work with large files.
Bash worked fine. I also had to recompile perl to include large files
support. I remember having some trouble with Reiserfs over NFS and large
files on Redhat's 2.4.9-10 kernel. Hope this helps a little.

Goran Ceric
System Administrator
Washington University, St. Louis
Department of Genetics, Eddy Lab
goran@genetics.wustl.edu
http://www.genetics.wustl.edu/eddy


-----Original Message-----
From: bioclusters-admin@bioinformatics.org
[mailto:bioclusters-admin@bioinformatics.org]On Behalf Of Chris
Dagdigian
Sent: Wednesday, May 08, 2002 12:44 PM
To: bioclusters
Subject: [Bioclusters] recompiling redhat source rpms from .spec files
to add large file support?



Hey folks,

Hopefully this is a trivial question for someone on this list..

Support for large files has been in modern kernels and filesystems for a
while now. What I constantly run into though are programs that bomb out
when faced with large files. Particularly when I'm trying to build large
blast databases :)

I'm seeing this right now with RedHat 7.2 -- the /bin/zcat program will
dump core if you try to get it to process the latest nonredundant 'nt.Z'
database from the NCBI. 'uncompress' and '/bin/cat' work just fine.

The easy solution is just to recompile the programs as you discover them
to enable large file support. I did this all the time back at the prior
job.

My problem is that despite a quick google search and trawl through my
own notes I can't remember the specific compiler arguments that you need
to pass through make to enable largefile support on RH linux systems. It
was something really simple like "-D64_BIT_OFFSET -DENABLE_LARGE_FILES"

Can anyone help jog my memory? I want to start collecting .spec files
for the various problematic utilities so I can roll my own RPMs whenever
I need them on a project.

Thanks!
-Chris


--
Chris Dagdigian, <dag@sonsorol.org>
Independent life science IT & research computing consulting
Office: 617-666-6454, Mobile: 617-877-5498, Fax: 425-699-0193
Work: http://BioTeam.net PGP KeyID: 83D4310E  Yahoo IM: craffi

_______________________________________________
Bioclusters maillist  -  Bioclusters@bioinformatics.org
http://bioinformatics.org/mailman/listinfo/bioclusters