nextflow-24.10.5-0.build.sh

#! /bin/bash

set -eu
umask 022

PKG=nextflow
VERSION=24.10.5
BUILD=0

PREFIX=/pkg/$PKG-$VERSION-$BUILD

TESTING=${TESTING:-}
if [ -n "$TESTING" ]; then PREFIX=/scratch/local2/$PKG-$VERSION-$BUILD ; fi

mkdir -p $PREFIX
cat >$PREFIX/profile <<-EOF
	PATH=$PREFIX/bin:\$PATH
	if [ -d $PREFIX/.compatlibs ]; then export LD_LIBRARY_PATH=$PREFIX/.compatlibs\${LD_LIBRARY_PATH:+:}\$LD_LIBRARY_PATH ; fi
EOF
. $PREFIX/profile

BUILD_TMPDIR=/scratch/local2/$PKG-$VERSION-$BUILD-$USER.build.tmp
test -d $BUILD_TMPDIR && rm -r $BUILD_TMPDIR
export TMPDIR=$BUILD_TMPDIR
export HOME=$BUILD_TMPDIR/home
mkdir -p $HOME

cd $PREFIX
rm -fr bin
mkdir bin
cd bin

# the '-dist' file is a zip/jar with a 511 line bash stub ...
# orig: https://github.com/nextflow-io/nextflow/releases/download/v24.10.5/nextflow-24.10.5-dist
BEEHIVE=https://beehive.molgen.mpg.de/9255e04a1787ccd8bcbe6db4e456dc7e/nextflow-24.10.5-dist
test -e nextflow-$VERSION-dist || wget -nv $BEEHIVE

# ... and do not always check for updates, please
sed -i -e '509 s/check_latest/# skip_check/' nextflow-$VERSION-dist

chmod -c 0755 nextflow-$VERSION-dist

cat <<- LAUNCHER > nextflow
	#! /usr/bin/bash

	NXF_PLUGINS_MODE=\${NXF_PLUGINS_MODE:-prod}
	export NXF_PLUGINS_MODE

	NXF_PLUGINS_DIR=\${NXF_PLUGINS_DIR:-\$HOME/.nextflow/plugins}
	mkdir -vp "\$NXF_PLUGINS_DIR"
	export NXF_PLUGINS_DIR

	NXF_TEMP=\${NXF_TEMP:-/scratch/local2/\$USER/nextflow_tmp}
	mkdir -vp "\$NXF_TEMP"
	export NXF_TEMP

	exec \\
	  nextflow-$VERSION-dist \\
	  "\${@+\$@}"

LAUNCHER

chmod -c +x nextflow

exit