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This version was saved 18 years, 7 months ago View current version     Page history
Saved by PBworks
on August 20, 2005 at 2:17:25 pm
 

The password is mpiblast

 

Feel free to edit this page by asking more questions, adding new insight, or restructuring what is here.

If you want to contact the admin, email cariaso at yahoo. Password change requests will be denied.

 

 

RestrictiveFirewallsAndSourceForge

Even users behind firewalls that block port 2401 can use sourceforge's cvs. Just use the machine cvs-pserver

 

cvs -d:pserver:anonymous@cvs-pserver.sourceforge.net:80/cvsroot/mpiblast login

CVS password: press Enter

cvs -z3 -d:pserver:anonymous@cvs-pserver.sourceforge.net:80/cvsroot/mpiblast co -P mpiblast

 

 

 

BuildMPIBlastFromSource

Here is the procedure I used to build mpiblast from source

 

 

wget http://mpiblast.sf.net/mpiblast-latest.tar.gz

wget ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools/ncbi.tar.gz

 

 

tar zxvf mpiblast-latest.tar.gz

tar zxvf ncbi.tar.gz

patch -p0 < mpiblast/ncbi_Oct2004_evalue.patch

 

 

 

|for electric fence debugging

|apt-get install electric-fence

|export LD_PRELOAD=libefence.so.0.0

 

ncbi/make/makedis.csh

 

apt-get install automake1.9

cd mpiblast

aclocal

autoheader

automake -a

autoconf

 

./configure --with-ncbi=/full/path/to/ncbi

make

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

Error due to efence

gcc -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -g -o blastcl3 -O3 -mcpu=pentium4 -I../include -L../lib -DBLAST_CS_API blastall.c -lnetblast -lncbitool -lnetcli -lncbiobj -lncbi -lm

 

Electric Fence 2.1 Copyright (C) 1987-1998 Bruce Perens.

Electric Fence 2.1 Copyright (C) 1987-1998 Bruce Perens.

Electric Fence 2.1 Copyright (C) 1987-1998 Bruce Perens.

{standard input}: Assembler messages:

{standard input}:0: Warning: end of file not at end of a line; newline inserted

{standard input}:173: Error: unknown pseudo-op: `.lon'

gcc: Internal error: Segmentation fault (program cc1)

Please submit a full bug report.

See for instructions.

For Debian GNU/Linux specific bug reporting instructions,

see .

 

make: *** blastcl3 Error 1

FAILURE primary make status = 0, demo = 0, threaded_demo = 0, net = 2

 

Electric Fence 2.1 Copyright (C) 1987-1998 Bruce Perens.

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