Hi Simone,
As you noticed the CVS source doesn't have the configure scripts. These
can be generated from configure.in and Makefile.am using GNU autotools
software. You need to execute a series of commands like:
|aclocal|
|autoheader|
|automake -a|
|autoconf
There's more info about compiling from CVS here:
http://mpiblast.lanl.gov/Docs.FAQ.html#cvs
-Aaron
|
Simone Scalabrin wrote:
Dear all,
I am trying to use mpiBLAST but I have some problems to download/compile it.
The problem I have was reported on the mailing list:
http://sourceforge.net/mailarchive/forum.php?thread_id=9506946&forum_id=43689
Adding --skip-reorder didn't help. I still have the illegal characters for the
nt database.
It was also suggested to dowload the CVS version which probably fixed the bug.
Unfortunately the CVS version does not contain the configure files (there is
just configure.in) and so I cannot compile it. I also tried to use the
configuration files from the "standard" mpiBLAST-1.4.0 archive but it doesn't
compile (configuration works fine while compilation aborts):
if mpicc -DHAVE_CONFIG_H -I. -I. -I. -I../include/
-I/usr/src/mpiBlast/ncbi-tools6-6.1.20041020//include/
-I/usr/src/mpiBlast/ncbi-tools6-6.1.20041020/include/
-DINSTALL_PREFIX="\"/usr/local/bin/mpiblast-cvs\"" -g -O2 -MT
mpiblast_formatdb.o -MD -MP -MF ".deps/mpiblast_formatdb.Tpo" -c -o
mpiblast_formatdb.o mpiblast_formatdb.c; \
then mv -f ".deps/mpiblast_formatdb.Tpo" ".deps/mpiblast_formatdb.Po"; else rm
-f ".deps/mpiblast_formatdb.Tpo"; exit 1; fi
mpiblast_formatdb.c: In function `Nlm_Main':
mpiblast_formatdb.c:1079: error: too many arguments to function
`FDBGetDefAsnFromBioseq'
make[2]: *** [mpiblast_formatdb.o] Error 1
make[2]: Leaving directory `/usr/src/mpiBlast/mpiblast-1.4.0/src'
make[1]: *** [all] Error 2
make[1]: Leaving directory `/usr/src/mpiBlast/mpiblast-1.4.0/src'
make: *** [all-recursive] Error 1
I hope someone can help either sending me the proper configuration files or
telling me how to fix the bug.
Thanks,
Simone
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