From 0cc073db30cfe22ab4ecc1a9a2e0842c12c4fcb8 Mon Sep 17 00:00:00 2001
From: tjc <tjc@ee4ac58c-ac51-4696-9907-e4b3aa274f04>
Date: Wed, 15 Jun 2005 19:12:04 +0000
Subject: [PATCH] use ssh
git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@2876 ee4ac58c-ac51-4696-9907-e4b3aa274f04
---
etc/run_blastp.sanger | 4 ++--
etc/run_fasta.sanger | 4 ++--
2 files changed, 4 insertions(+), 4 deletions(-)
diff --git a/etc/run_blastp.sanger b/etc/run_blastp.sanger
index 03cedc415..710edfca6 100755
--- a/etc/run_blastp.sanger
+++ b/etc/run_blastp.sanger
@@ -6,7 +6,7 @@
# to customise this script see the function called run_one_prog below
-RCS_HEADER="$Header: //tmp/pathsoft/artemis/etc/run_blastp.sanger,v 1.2 2005-06-09 13:06:56 tjc Exp $"
+RCS_HEADER="$Header: //tmp/pathsoft/artemis/etc/run_blastp.sanger,v 1.3 2005-06-15 19:12:04 tjc Exp $"
PROG=`echo $RCS_HEADER | sed 's/.*run_\(.*\),v.*/\1/'`
@@ -68,7 +68,7 @@ run_one_prog () {
# rsh babel "cd $WDIR; lsrun -R 'select[blast && mem > 500] rusage[r1m=1:mem=500]' -v \
# blastwrap.pl $EXEC -d $DATABASE -i $INPUT_FILE -p blastp \
# $EXTRA_ARGS >! $OUTPUT_FILE"
- rsh babel "bsub -q longblastq -o $OUTPUT_FILE -e ${PROG}_errors.new -I flexi_blast.pl -p $DATABASE $INPUT_FILE $EXTRA_ARGS"
+ ssh babel "bsub -q longblastq -o $OUTPUT_FILE -e ${PROG}_errors.new -I flexi_blast.pl -p $DATABASE $INPUT_FILE $EXTRA_ARGS"
else
# add/change the flags to suit your site:
# lsrun -R 'select[blast && mem > 500] rusage[r1m=1:mem=500]' -v \
diff --git a/etc/run_fasta.sanger b/etc/run_fasta.sanger
index 091365b72..7046cc51d 100755
--- a/etc/run_fasta.sanger
+++ b/etc/run_fasta.sanger
@@ -6,7 +6,7 @@
# to customise this script see the function called run_one_prog below
-RCS_HEADER="$Header: //tmp/pathsoft/artemis/etc/run_fasta.sanger,v 1.1 2005-02-21 11:51:10 tjc Exp $"
+RCS_HEADER="$Header: //tmp/pathsoft/artemis/etc/run_fasta.sanger,v 1.2 2005-06-15 19:08:48 tjc Exp $"
PROG=`echo $RCS_HEADER | sed 's/.*run_\(.*\),v.*/\1/'`
@@ -187,7 +187,7 @@ then
WDIR=`pwd`
export WDIR
CMD=`echo $PERL_PROG`
- rsh babel "cd $WDIR; perl -w -e '$CMD' \"$1\" \"$EXPANDED_DATABASE\" \"$PWD\""
+ ssh babel "cd $WDIR; perl -w -e '$CMD' \"$1\" \"$EXPANDED_DATABASE\" \"$PWD\""
else
perl -w -e "$PERL_PROG" "$1" "$EXPANDED_DATABASE" "$PWD"
fi
--
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