From 5e6f3cec616823e52393bbd8a63738f309637734 Mon Sep 17 00:00:00 2001
From: David Flitney <dave.flitney@ndcn.ox.ac.uk>
Date: Fri, 21 Apr 2006 13:39:29 +0000
Subject: [PATCH] Making the scripts more portable for FMRIB cayenne & jalapeno
clusters
---
bedpost | 10 +++++++++-
bedpostX | 12 ++++++++++--
bedpostX_single_slice.sh | 1 -
bedpost_single_slice.sh | 1 -
4 files changed, 19 insertions(+), 5 deletions(-)
diff --git a/bedpost b/bedpost
index af8fde3..6b02920 100755
--- a/bedpost
+++ b/bedpost
@@ -5,7 +5,15 @@
# SHCOPYRIGHT
if [ "x$SGE_ROOT" = "x" ] ; then
- . /usr/local/share/sge-6.0/default/common/settings.sh
+ if [ -f /usr/local/share/sge-6.0/default/common/settings.sh ] ; then
+ . /usr/local/share/sge-6.0/default/common/settings.sh
+ else if [ -f /usr/local/sge-6/default/common/settings.sh ] ; then
+ . /usr/local/sge-6/default/common/settings.sh
+ else
+ echo "bedpost: Couldn\'t locate SGE_ROOT\!"
+ exit 255
+ fi
+ fi
fi
Usage() {
diff --git a/bedpostX b/bedpostX
index 5b138c4..24cbc51 100755
--- a/bedpostX
+++ b/bedpostX
@@ -5,12 +5,20 @@
# SHCOPYRIGHT
if [ "x$SGE_ROOT" = "x" ] ; then
- . /usr/local/share/sge-6.0/default/common/settings.sh
+ if [ -f /usr/local/share/sge-6.0/default/common/settings.sh ] ; then
+ . /usr/local/share/sge-6.0/default/common/settings.sh
+ else if [ -f /usr/local/sge-6/default/common/settings.sh ] ; then
+ . /usr/local/sge-6/default/common/settings.sh
+ else
+ echo "bedpost: Couldn\'t locate SGE_ROOT\!"
+ exit 255
+ fi
+ fi
fi
Usage() {
echo ""
- echo "Usage: bedpost <subject directory> "
+ echo "Usage: bedpostX <subject directory> "
echo ""
echo "expects to find bvals and bvecs in subject directory"
echo "expects to find data nodif_brain_mask nodif in subject directory"
diff --git a/bedpostX_single_slice.sh b/bedpostX_single_slice.sh
index 8080f60..6a87b26 100755
--- a/bedpostX_single_slice.sh
+++ b/bedpostX_single_slice.sh
@@ -7,7 +7,6 @@ slicezp=`${FSLDIR}/bin/zeropad $slice 4`
#$ -cwd -q long.q
#$ -S /bin/sh
#$ -V -N bedpostX
-#$ -l arch=tru64
#$ -m a
${FSLDIR}/bin/xfibres\
diff --git a/bedpost_single_slice.sh b/bedpost_single_slice.sh
index 310575d..a9d27a1 100755
--- a/bedpost_single_slice.sh
+++ b/bedpost_single_slice.sh
@@ -7,7 +7,6 @@ slicezp=`${FSLDIR}/bin/zeropad $slice 4`
#$ -cwd -q long.q
#$ -S /bin/sh
#$ -V -N bedpost
-#$ -l arch=tru64
#$ -m a
${FSLDIR}/bin/diff_pvm\
--
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