From 505aadc1de7a31bc2e941e37405b937ad268bc19 Mon Sep 17 00:00:00 2001
From: thomas <kreitler@molgen.mpg.de>
Date: Wed, 24 Oct 2018 17:50:05 +0200
Subject: [PATCH] CellProfiler: Add version 3.1.5

Installs w/o hassle.
---
 CellProfiler-3.1.5-0.build.sh | 116 ++++++++++++++++++++++++++++++++++
 1 file changed, 116 insertions(+)
 create mode 100755 CellProfiler-3.1.5-0.build.sh

diff --git a/CellProfiler-3.1.5-0.build.sh b/CellProfiler-3.1.5-0.build.sh
new file mode 100755
index 0000000..297069f
--- /dev/null
+++ b/CellProfiler-3.1.5-0.build.sh
@@ -0,0 +1,116 @@
+#! /bin/bash
+
+PKG=CellProfiler
+VERSION=3.1.5
+BUILD=0
+SRC=https://github.com/CellProfiler/CellProfiler/archive/v$VERSION.tar.gz
+
+PREFIX=/pkg/$PKG-$VERSION-$BUILD
+# PREFIX=/dev/shm/pkg/$PKG-$VERSION-$BUILD
+
+PATH=/bin:/usr/bin:/usr/sbin:/usr/local/package/bin:/usr/local/bin
+export PATH
+
+set -xe
+umask 022
+
+BUILD_TMPDIR=/dev/shm/$PKG-$VERSION-$BUILD.build.tmp
+test -d $BUILD_TMPDIR && rm -rf $BUILD_TMPDIR
+mkdir -p $BUILD_TMPDIR/home
+export TMPDIR=$BUILD_TMPDIR
+export HOME=$BUILD_TMPDIR/home
+
+exec </dev/null
+
+mkdir -p $PREFIX
+cat >$PREFIX/profile <<-EOF
+	PATH=$PREFIX/bin:\$PATH
+	PYTHONPATH=$PREFIX/lib/python2.7/site-packages
+	LD_LIBRARY_PATH=$PREFIX/lib\${LD_LIBRARY_PATH:+:\$LD_LIBRARY_PATH}
+	PKG_CONFIG_PATH=$PREFIX/lib/pkgconfig\${PKG_CONFIG_PATH:+:\$PKG_CONFIG_PATH}
+	export PKG_CONFIG_PATH LD_LIBRARY_PATH PYTHONPATH
+EOF
+. $PREFIX/profile
+
+BUILDDIR=$PREFIX/build
+
+mkdir -p $BUILDDIR
+cd $BUILDDIR
+
+function at_plaininstall() {
+  local dir=$1
+  local tar=$2
+  local url=$3
+  (
+    cd $BUILDDIR
+    test -e $tar || wget $url
+    test -n 'XWIPE' && rm -rf ./$dir
+    test -d $dir || tar xvf $tar
+    cd $dir
+    ./configure --prefix=$PREFIX
+    make -j $(nproc)
+    make install
+  )
+}
+
+function cm_plaininstall() {
+  local dir=$1
+  local tar=$2
+  local url=$3
+  local extra=$4
+  (
+    cd $BUILDDIR
+    test -e $tar || wget $url
+    test -n 'XWIPE' && rm -rf ./$dir
+    test -d $dir || tar xvf $tar
+    mkdir -p $dir/build
+    cd $dir/build
+    echo "# extra args: '$extra'"
+    cmake .. \
+      -DCMAKE_INSTALL_PREFIX=$PREFIX \
+      -DCMAKE_COLOR_MAKEFILE=OFF \
+      -DCMAKE_VERBOSE_MAKEFILE=ON \
+      $extra
+    make -j $(nproc)
+    make install
+  )
+}
+
+at_plaininstall \
+  zeromq-4.2.2 \
+  zeromq-4.2.2.tar.gz \
+  https://github.com/zeromq/libzmq/releases/download/v4.2.2/zeromq-4.2.2.tar.gz
+
+cm_plaininstall \
+  vigra-1.11.1 \
+  vigra-1.11.1-src.tar.gz \
+  https://github.com/ukoethe/vigra/releases/download/Version-1-11-1/vigra-1.11.1-src.tar.gz \
+  "-DVIGRANUMPY_INSTALL_DIR=$PYTHONPATH"
+
+at_plaininstall \
+  wxPython-src-3.0.2.0 \
+  wxPython-src-3.0.2.0.tar.bz2 \
+  https://sourceforge.net/projects/wxpython/files/wxPython/3.0.2.0/wxPython-src-3.0.2.0.tar.bz2
+
+(
+  cd $BUILDDIR/wxPython-src-3.0.2.0/wxPython
+  python2.7 setup.py build
+  python2.7 setup.py install --prefix $PREFIX
+  # build leaves 2gig rubbish
+  cd ..
+  make clean
+)
+
+# 'the' CellProfiler
+(
+  test -e v$VERSION.tar.gz || wget $SRC
+  test -n 'XWIPE' && rm -rf CellProfiler-$VERSION
+  test -d CellProfiler-$VERSION || tar -xf v$VERSION.tar.gz
+
+  cd CellProfiler-$VERSION
+  python2.7 setup.py build
+  python2.7 setup.py install --prefix $PREFIX
+)
+
+# exit 1 # don't close ...
+exit