#!/bin/tcsh

# usage:
#
#	hmmbench ARCH NCPU 
#

setenv BENCH_DIR 	/local/bench
#setenv EXE_DIR		/local/hmmer-$1
setenv EXE_DIR		/local/hmmer-2.3.2.bin.intel-linux
setenv BLASTDB 		$BENCH_DIR/db
setenv BLASTMAT		$BENCH_DIR/data
setenv HMMER_NCPU	$2
setenv HMMER_PATH	$EXE_DIR/bin

#
# start
#

echo -n "time stamp: hmmbuild start = "
date
rm -f globin.hmm
$HMMER_PATH/hmmbuild globin.hmm globins50.msf
echo -n "time stamp: hmmcalibrate start = "
date
$HMMER_PATH/hmmcalibrate globin.hmm
echo -n "time stamp: hmmsearch start = "
date
/usr/bin/time $HMMER_PATH/hmmsearch --cpu $2 globin.hmm nr
echo -n "time stamp: hmmsearch stop = "
date