1#!/bin/sh - 2 3# this script will run a search program on a sequence input file or on each 4# file in a file of filenames 5 6# to customise this script see the function called run_one_prog below 7 8 9RCS_HEADER="$Header: //tmp/pathsoft/artemis/etc/run_sigcleave,v 1.1 2004-06-09 10:03:11 tjc Exp $" 10 11PROG=`echo $RCS_HEADER | sed 's/.*run_\(.*\),v.*/\1/'` 12 13 14if [ $# = 4 -a x$1 = x-onefile ] 15then 16 shift 17 ONEFILE=t 18 MINWEIGHT=$3 19else 20 if [ $# = 2 ] 21 then 22 MINWEIGHT=$2 23 else 24 echo usage: $0 -onefile input_file output_file minimum_weight 1>&2 25 echo or: $0 file_of_filenames minimum_weight 1>&2 26 exit 1 27 fi 28fi 29 30PARAMETERS="-minweight $MINWEIGHT" 31 32### change this function to suit your site: 33 34run_one_prog () { 35 INPUT_FILE=$1 36 OUTPUT_FILE=$2 37 PARAMETERS="$3 $4 $5 $6 $7 $8 $9" 38 39 ### change these lines: 40 EXEC=sigcleave 41 42 COMMAND_LINE="$EXEC $INPUT_FILE -outfile $OUTPUT_FILE $PARAMETERS" 43 44 echo "about to start $EXEC with input from $INPUT_FILE and output to" 1>&2 45 echo "$OUTPUT_FILE using parameters: $PARAMETERS" 1>&2 46 echo "command line: $COMMAND_LINE" 1>&2 47 48 # add/change the flags to suit your site: 49 $COMMAND_LINE 2>&1 | tee ${PROG}_errors.new 1>&2 50 51 #### end of changes 52 53 54 if [ -s ${PROG}_errors.new ] 55 then 56 ( echo ERROR running $PROG: ; echo; 57 echo =================================================== 58 cat ${PROG}_errors.new ) >> $OUTPUT_FILE 59 cat ${PROG}_errors.new >> ${PROG}_errors 60 fi 61} 62 63(echo "#!/bin/sh -"; echo "kill $$") > $PROG.kill 64 65chmod a+x $PROG.kill 66 67if [ x$ONEFILE = x ] 68then 69 for i in `cat $1` 70 do 71 run_one_prog $i $i.out $PARAMETERS 72 done 73 74else 75 run_one_prog $1 $2 $PARAMETERS 76fi 77 78exit 0 79