From e16f799d6f7218b414acc6cccfa788bf03838cb7 Mon Sep 17 00:00:00 2001
From: dkazanc <dkazanc@hotmail.com>
Date: Mon, 4 Mar 2019 13:26:56 +0000
Subject: [PATCH] savu2.3.2_install

---
 install/2_3_2_install/__init__.py             |  22 +
 .../2_3_2_install/conda-recipes/__init__.py   |  22 +
 .../conda-recipes/astra/astra.pth             |   2 +
 .../conda-recipes/astra/build.sh              |  22 +
 .../conda-recipes/astra/meta.yaml             |  25 +
 .../2_3_2_install/conda-recipes/h5py/build.sh |  24 +
 .../conda-recipes/h5py/meta.yaml              |  25 +
 .../2_3_2_install/conda-recipes/hdf5/build.sh |  17 +
 .../conda-recipes/hdf5/meta.yaml              |  20 +
 .../conda-recipes/xdesign/build.sh            |   4 +
 .../conda-recipes/xdesign/meta.yaml           |  24 +
 .../conda-recipes/xraylib/build.sh            |   7 +
 .../conda-recipes/xraylib/meta.yaml           |  26 +
 .../2_3_2_install/savu_v2.3.2/environment.yml |  30 ++
 .../2_3_2_install/savu_v2.3.2/savu/build.sh   |   4 +
 .../2_3_2_install/savu_v2.3.2/savu/meta.yaml  |  23 +
 .../savu_v2.3.2/savu_installer.sh             | 448 ++++++++++++++++++
 .../savu_v2.3.2/savu_master/build.sh          |   4 +
 .../savu_v2.3.2/savu_master/meta.yaml         |  24 +
 install/2_3_2_install/savu_v2.3.2/version.txt |   2 +
 .../savu_v2.3.2/versions_file.txt             |   7 +
 .../2_3_2_install/tests/local_mpi_cpu_test.sh |  41 ++
 .../2_3_2_install/tests/local_mpi_gpu_test.sh |  41 ++
 install/2_3_2_install/tests/mpi_cpu_test.sh   |  24 +
 install/2_3_2_install/tests/mpi_gpu_test.sh   |  24 +
 install/2_3_2_install/tests/test_setup.sh     |   7 +
 26 files changed, 919 insertions(+)
 create mode 100644 install/2_3_2_install/__init__.py
 create mode 100644 install/2_3_2_install/conda-recipes/__init__.py
 create mode 100644 install/2_3_2_install/conda-recipes/astra/astra.pth
 create mode 100644 install/2_3_2_install/conda-recipes/astra/build.sh
 create mode 100644 install/2_3_2_install/conda-recipes/astra/meta.yaml
 create mode 100644 install/2_3_2_install/conda-recipes/h5py/build.sh
 create mode 100644 install/2_3_2_install/conda-recipes/h5py/meta.yaml
 create mode 100644 install/2_3_2_install/conda-recipes/hdf5/build.sh
 create mode 100644 install/2_3_2_install/conda-recipes/hdf5/meta.yaml
 create mode 100644 install/2_3_2_install/conda-recipes/xdesign/build.sh
 create mode 100644 install/2_3_2_install/conda-recipes/xdesign/meta.yaml
 create mode 100644 install/2_3_2_install/conda-recipes/xraylib/build.sh
 create mode 100644 install/2_3_2_install/conda-recipes/xraylib/meta.yaml
 create mode 100644 install/2_3_2_install/savu_v2.3.2/environment.yml
 create mode 100644 install/2_3_2_install/savu_v2.3.2/savu/build.sh
 create mode 100644 install/2_3_2_install/savu_v2.3.2/savu/meta.yaml
 create mode 100644 install/2_3_2_install/savu_v2.3.2/savu_installer.sh
 create mode 100644 install/2_3_2_install/savu_v2.3.2/savu_master/build.sh
 create mode 100644 install/2_3_2_install/savu_v2.3.2/savu_master/meta.yaml
 create mode 100644 install/2_3_2_install/savu_v2.3.2/version.txt
 create mode 100644 install/2_3_2_install/savu_v2.3.2/versions_file.txt
 create mode 100644 install/2_3_2_install/tests/local_mpi_cpu_test.sh
 create mode 100644 install/2_3_2_install/tests/local_mpi_gpu_test.sh
 create mode 100644 install/2_3_2_install/tests/mpi_cpu_test.sh
 create mode 100644 install/2_3_2_install/tests/mpi_gpu_test.sh
 create mode 100644 install/2_3_2_install/tests/test_setup.sh

diff --git a/install/2_3_2_install/__init__.py b/install/2_3_2_install/__init__.py
new file mode 100644
index 000000000..05ec9bfd3
--- /dev/null
+++ b/install/2_3_2_install/__init__.py
@@ -0,0 +1,22 @@
+# Copyright 2014 Diamond Light Source Ltd.
+#
+# Licensed under the Apache License, Version 2.0 (the "License");
+# you may not use this file except in compliance with the License.
+# You may obtain a copy of the License at
+#
+#     http://www.apache.org/licenses/LICENSE-2.0
+#
+# Unless required by applicable law or agreed to in writing, software
+# distributed under the License is distributed on an "AS IS" BASIS,
+# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+# See the License for the specific language governing permissions and
+# limitations under the License.
+
+"""
+All the plugin architecture for Savu is contained here
+
+
+.. moduleauthor:: Mark Basham <scientificsoftware@diamond.ac.uk>
+
+"""
+
diff --git a/install/2_3_2_install/conda-recipes/__init__.py b/install/2_3_2_install/conda-recipes/__init__.py
new file mode 100644
index 000000000..05ec9bfd3
--- /dev/null
+++ b/install/2_3_2_install/conda-recipes/__init__.py
@@ -0,0 +1,22 @@
+# Copyright 2014 Diamond Light Source Ltd.
+#
+# Licensed under the Apache License, Version 2.0 (the "License");
+# you may not use this file except in compliance with the License.
+# You may obtain a copy of the License at
+#
+#     http://www.apache.org/licenses/LICENSE-2.0
+#
+# Unless required by applicable law or agreed to in writing, software
+# distributed under the License is distributed on an "AS IS" BASIS,
+# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+# See the License for the specific language governing permissions and
+# limitations under the License.
+
+"""
+All the plugin architecture for Savu is contained here
+
+
+.. moduleauthor:: Mark Basham <scientificsoftware@diamond.ac.uk>
+
+"""
+
diff --git a/install/2_3_2_install/conda-recipes/astra/astra.pth b/install/2_3_2_install/conda-recipes/astra/astra.pth
new file mode 100644
index 000000000..45c4c6127
--- /dev/null
+++ b/install/2_3_2_install/conda-recipes/astra/astra.pth
@@ -0,0 +1,2 @@
+./astra/python
+
diff --git a/install/2_3_2_install/conda-recipes/astra/build.sh b/install/2_3_2_install/conda-recipes/astra/build.sh
new file mode 100644
index 000000000..acd72a6d6
--- /dev/null
+++ b/install/2_3_2_install/conda-recipes/astra/build.sh
@@ -0,0 +1,22 @@
+#!/bin/bash
+
+nvcc=`command -v nvcc`
+cuda=${nvcc%/bin/nvcc}
+
+savu_path=`command -v savu`
+ana_path=${savu_path%/savu}
+prefix=${ana_path%/bin}/lib/python2.7/site-packages/astra
+export PATH=$ana_path:$PATH
+
+cd build/linux
+
+if [ "$cuda" ]; then
+    ./configure --with-cuda=$cuda --with-python --prefix=$prefix
+else
+    echo "cuda has not been found."
+    ./configure --with-python --prefix=$prefix
+fi
+
+make -j 4
+make install
+
diff --git a/install/2_3_2_install/conda-recipes/astra/meta.yaml b/install/2_3_2_install/conda-recipes/astra/meta.yaml
new file mode 100644
index 000000000..4a04c0bc4
--- /dev/null
+++ b/install/2_3_2_install/conda-recipes/astra/meta.yaml
@@ -0,0 +1,25 @@
+{% set version = "1.8" %}
+
+package:
+  name: astra-toolbox
+  version: 1.8
+
+source:
+  fn: astra-{{ version }}.tar.bz2
+  url: http://www.astra-toolbox.com/files/astra-{{ version }}/astra-{{ version }}.tar.bz2
+  sha256: 44602e0eb0789a557622eae959fc0a067d81396bcb79ec315cb39b59d52322e7
+
+requirements:
+  build:
+    - python
+    - numpy
+    - cython
+
+build:
+  number: 2
+
+about:
+  home: http://www.astra-toolbox.com
+  license: GPLv3
+  summary: 'The ASTRA Toolbox is a Python toolbox of high-performance GPU primitives for 2D and 3D tomography.'
+
diff --git a/install/2_3_2_install/conda-recipes/h5py/build.sh b/install/2_3_2_install/conda-recipes/h5py/build.sh
new file mode 100644
index 000000000..055293a33
--- /dev/null
+++ b/install/2_3_2_install/conda-recipes/h5py/build.sh
@@ -0,0 +1,24 @@
+#!/bin/bash
+
+# set compiler wrapper
+mpicc=$(command -v mpicc)
+mpi=`dirname $mpicc`
+
+# set anaconda distribution
+ana_path=$(command -v savu)
+ana_path=${ana_path%/bin/savu}
+hdf5_version=1.10.1
+hdf5_build_no=1
+
+export LD_LIBRARY_PATH=$mpi/lib:$mpi/include:$ana_path/lib:$LD_LIBRARY_PATH
+export LD_RUN_PATH=$LD_LIBRARY_PATH
+export PYTHONPATH=$PYTHONPATH:$ana_path/lib/python2.7/site-packages
+export PATH=$PATH:$ana_path/bin/
+export CC=$mpicc
+
+$PYTHON setup.py configure --hdf5=$ana_path
+$PYTHON setup.py configure --hdf5-version=$hdf5_version
+$PYTHON setup.py configure --mpi
+$PYTHON setup.py build
+$PYTHON setup.py install
+
diff --git a/install/2_3_2_install/conda-recipes/h5py/meta.yaml b/install/2_3_2_install/conda-recipes/h5py/meta.yaml
new file mode 100644
index 000000000..0778446ae
--- /dev/null
+++ b/install/2_3_2_install/conda-recipes/h5py/meta.yaml
@@ -0,0 +1,25 @@
+{% set version = "2.7.1" %} # change this
+
+package:
+  name: h5py
+  version: {{ version }}
+
+source:
+  fn: h5py-{{ version }}.tar.gz
+  url: https://github.com/h5py/h5py/archive/{{ version }}.tar.gz
+requirements:
+  build:
+    - python
+    - numpy
+    - hdf5
+    - cython
+    - pkgconfig
+    - six
+
+build:
+  number: 1
+
+about:
+  home: http://www.h5py.org/
+  license: New BSD (http://opensource.org/licenses/bsd-license.php)
+
diff --git a/install/2_3_2_install/conda-recipes/hdf5/build.sh b/install/2_3_2_install/conda-recipes/hdf5/build.sh
new file mode 100644
index 000000000..add607820
--- /dev/null
+++ b/install/2_3_2_install/conda-recipes/hdf5/build.sh
@@ -0,0 +1,17 @@
+#!/bin/bash
+
+# set compiler wrapper
+mpicc=$(command -v mpicc)
+mpi=${mpicc%/bin/mpicc}
+export LD_LIBRARY_PATH=$mpi:$mpi/lib:$mpi/include:$LD_LIBRARY_PATH
+export LD_RUN_PATH=$LD_LIBRARY_PATH
+
+# check anaconda distribution
+ana_path=$(command -v savu)
+
+CC=$mpicc ./configure --with-zlib --enable-parallel --enable-shared --prefix=$PREFIX
+make
+make install
+
+rm -rf $PREFIX/share/hdf5_examples
+
diff --git a/install/2_3_2_install/conda-recipes/hdf5/meta.yaml b/install/2_3_2_install/conda-recipes/hdf5/meta.yaml
new file mode 100644
index 000000000..a12ea27a8
--- /dev/null
+++ b/install/2_3_2_install/conda-recipes/hdf5/meta.yaml
@@ -0,0 +1,20 @@
+{% set version = "1.10.1" %}
+{% set release = "hdf5-1.10" %}
+{% set patch = "hdf5-1.10.1" %}
+
+package:
+  name: hdf5
+  version: {{ version }}
+
+source:
+  fn: {{ patch }}.tar.bz2
+  url: https://www.hdfgroup.org/ftp/HDF5/releases/{{ release }}/{{ patch }}/src/{{ patch }}.tar.bz2
+  md5: d89893c05ee7ea8611b51bb39450d64e
+
+build:
+  number: 1
+
+about:
+  home: http://www.hdfgroup.org/HDF5/
+  license: BSD-style (http://www.hdfgroup.org/ftp/HDF5/current/src/unpacked/COPYING)
+
diff --git a/install/2_3_2_install/conda-recipes/xdesign/build.sh b/install/2_3_2_install/conda-recipes/xdesign/build.sh
new file mode 100644
index 000000000..b161f631b
--- /dev/null
+++ b/install/2_3_2_install/conda-recipes/xdesign/build.sh
@@ -0,0 +1,4 @@
+#!/bin/bash
+
+$PYTHON setup.py install
+
diff --git a/install/2_3_2_install/conda-recipes/xdesign/meta.yaml b/install/2_3_2_install/conda-recipes/xdesign/meta.yaml
new file mode 100644
index 000000000..68693b427
--- /dev/null
+++ b/install/2_3_2_install/conda-recipes/xdesign/meta.yaml
@@ -0,0 +1,24 @@
+package:
+  name: xdesign
+  version: '0.3.0'
+
+source:
+  git_url: https://github.com/tomography/xdesign.git
+
+build:
+  number: 0
+
+requirements:
+  build:
+    - python
+    - setuptools
+
+about:
+  home: http://xdesign.readthedocs.io
+  license: BSD-3
+  summary: 'Benchmarking and optimization tools for tomography.'
+
+# See
+# http://docs.continuum.io/conda/build.html for
+# more information about meta.yaml
+
diff --git a/install/2_3_2_install/conda-recipes/xraylib/build.sh b/install/2_3_2_install/conda-recipes/xraylib/build.sh
new file mode 100644
index 000000000..8f0acd316
--- /dev/null
+++ b/install/2_3_2_install/conda-recipes/xraylib/build.sh
@@ -0,0 +1,7 @@
+
+./configure --enable-python --disable-perl --disable-java \
+	    --disable-fortran2003 --disable-lua --prefix=$PREFIX
+make
+make check
+make install
+
diff --git a/install/2_3_2_install/conda-recipes/xraylib/meta.yaml b/install/2_3_2_install/conda-recipes/xraylib/meta.yaml
new file mode 100644
index 000000000..f924056e2
--- /dev/null
+++ b/install/2_3_2_install/conda-recipes/xraylib/meta.yaml
@@ -0,0 +1,26 @@
+{% set version = "3.3.0" %}
+
+package:
+  name: xraylib
+  version: {{ version }}
+
+source:
+  fn: xraylib-{{ version }}.tar.gz
+  url: https://xraylib.tomschoonjans.eu/xraylib-{{ version }}.tar.gz
+  sha256: a22a73b8d90eb752b034bab1a4cf6abdd81b8c7dc5020bcb22132d2ee7aacd42
+
+build:
+  number: 0
+
+requirements:
+  build:
+    - python
+    - setuptools
+    - numpy
+    - scipy >=0.7.0
+    - cython
+    - swig
+    - autoconf
+    - libtool
+    - automake
+
diff --git a/install/2_3_2_install/savu_v2.3.2/environment.yml b/install/2_3_2_install/savu_v2.3.2/environment.yml
new file mode 100644
index 000000000..79d658ca9
--- /dev/null
+++ b/install/2_3_2_install/savu_v2.3.2/environment.yml
@@ -0,0 +1,30 @@
+name: root
+channels:
+- defaults
+dependencies:
+- scipy==1.1.0
+- colorama==0.3.9
+- setuptools==39.2.0
+- jinja2==2.10
+- numpy==1.14.5
+- pandas==0.23.3
+- mock==2.0.0
+- PyWavelets==0.5.2
+- scikit-image==0.14.0
+- scikit-learn==0.19.1
+- pytest==3.6.2
+- spyder==3.3.0
+- ipython==5.7.0
+- cython==0.28.3
+- boost==1.67.0
+- pip:
+  - fabio==0.4.0
+  - pyfftw==0.10.4
+  - nvidia-ml-py==7.352.0
+  - PeakUtils==1.1.1
+  - pymca==5.3.1
+  - tifffile==0.4.0
+  - pyreadline==2.1
+  - gnureadline==6.3.8
+  - sphinx_rtd_theme==0.4.1
+
diff --git a/install/2_3_2_install/savu_v2.3.2/savu/build.sh b/install/2_3_2_install/savu_v2.3.2/savu/build.sh
new file mode 100644
index 000000000..b6fbaff2b
--- /dev/null
+++ b/install/2_3_2_install/savu_v2.3.2/savu/build.sh
@@ -0,0 +1,4 @@
+#!/bin/bash
+
+$PYTHON setup.py install --facility $FACILITY   # Python command to install the script.
+
diff --git a/install/2_3_2_install/savu_v2.3.2/savu/meta.yaml b/install/2_3_2_install/savu_v2.3.2/savu/meta.yaml
new file mode 100644
index 000000000..7fa123735
--- /dev/null
+++ b/install/2_3_2_install/savu_v2.3.2/savu/meta.yaml
@@ -0,0 +1,23 @@
+{% set version = "2.3.2" %}
+
+package:
+  name: savu
+  version: {{ version }}
+
+source:
+  url: https://github.com/DiamondLightSource/Savu/archive/v{{ version }}.tar.gz
+
+requirements:
+  build:
+    - python
+
+build:
+  preserve_egg_dir: True
+  script_env:
+    - FACILITY
+
+about:
+  home: https://github.com/diamondlightsource/Savu
+  license: Apache V2 and GPL V3
+  license_file: LICENCE.txt
+
diff --git a/install/2_3_2_install/savu_v2.3.2/savu_installer.sh b/install/2_3_2_install/savu_v2.3.2/savu_installer.sh
new file mode 100644
index 000000000..e7e6ecf9d
--- /dev/null
+++ b/install/2_3_2_install/savu_v2.3.2/savu_installer.sh
@@ -0,0 +1,448 @@
+#!/bin/bash -ex
+
+# change to 'latest' for the latest version
+DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
+versions_file=$DIR/versions_file.txt
+
+# error log to screen and file
+log_temp=`mktemp -d`
+error_log=$log_temp/savu_error_log.txt
+exec 2> >(tee -ia $error_log)
+
+oldprompt=$PS1
+newprompt=">>> "
+export PS1=$newprompt
+
+for sig in INT TERM EXIT; do
+    trap "export PS1=$oldprompt; [[ $sig == EXIT ]] || kill -$sig $$" $sig
+done
+
+PREFIX="${PREFIX:-$HOME}"
+
+DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
+savu_version=`cat $DIR/version.txt`
+
+# function for parsing optional arguments
+function arg_parse ()
+{
+  flag=$1
+  return=$2
+  while [[ $# -gt 2 ]] ; do
+    if [ $3 == $flag ] ; then
+      eval "$return"=$4
+    fi
+    shift
+  done
+}
+
+# function for parsing flags without arguments
+function flag_parse ()
+{
+  flag=$1
+  return=$2
+  while [[ $# -gt 2 ]] ; do
+    if [ $3 == $flag ] ; then
+      eval "$return"=true
+    fi
+    shift
+  done
+}
+
+# Set the install PREFIX
+flag_parse "--PREFIX" prefix "$@"
+if [ $prefix ] ; then
+  PREFIX=true
+fi
+
+# Set the test flag to true if test only
+flag_parse "--tests_only" test_flag "$@"
+if [ $test_flag ] ; then
+  test_flag=true
+fi
+
+# Set the prompts flag to false if no prompts are required
+flag_parse "--no_prompts" prompts "$@"
+if [ $prompts ] ; then
+  prompts=false
+else
+  prompts=true
+fi
+
+# set the intermediate folder
+arg_parse "-f" facility "$@"
+if [ ! $facility ] ; then
+  facility=dls # change this default?
+fi
+
+export FACILITY=$facility
+
+# set the intermediate folder
+arg_parse "-c" conda_folder "$@"
+if [ ! $conda_folder ] ; then
+  conda_folder=Savu_$savu_version
+fi
+
+# set the intermediate folder
+arg_parse "-s" savu_recipe "$@"
+if [ ! $savu_recipe ] ; then
+  savu_recipe=savu
+elif [ $savu_recipe = 'master' ] ; then
+  savu_recipe=savu_master
+else
+  echo "Unknown Savu installation version."
+fi
+
+#=========================library checking==============================
+
+if [ $test_flag ] ; then
+  echo -e "\n============================================================="
+  echo -e "    ......Thank you for running the Savu tests......\n"
+  echo -e "Performing a library check..."
+else
+  echo -e "\n============================================================="
+  echo -e "    ......Thank you for running the Savu installer......\n"
+  echo -e "Performing a library check..."
+  echo -e "\nNB: An MPI implementation is required to build Savu."
+  echo -e "fftw is required to build Savu."
+  echo -e "Cuda is desirable for a full range of plugins."
+  echo -e "\n============================================================="
+fi
+
+# set compiler wrapper
+MPICC=$(command -v mpicc)
+if ! [ "$MPICC" ]; then
+    echo "ERROR: I require mpicc but I can't find it.  Check /path/to/mpi_implementation/bin is in your PATH"
+    exit 1
+else
+    echo "Using mpicc:   " $MPICC
+fi
+
+# check for fftw
+CFLAGS=""
+LDFLAGS=""
+# If no FFTWHOME provided search LD_LIBRARY_PATH for the static library
+if [ -z ${FFTWHOME+x} ]; then
+  IFS=:
+  file_base=libfftw?.so
+  for p in ${LD_LIBRARY_PATH}; do
+    file_path=${p}/$file_base
+    if [ "x$p" != "x" -a -e $file_path ]; then
+      FFTWHOME=${file_path%/lib/libfftw?.so}
+      break
+    fi
+  done
+fi
+# If a valid FFTWHOME was found or provided then use it
+if [ ${FFTWHOME} ]; then
+  CFLAGS="$FFTWHOME/include"
+  LDFLAGS="$FFTWHOME/lib"
+fi
+
+if [ "$CFLAGS" ]; then
+    echo "Using fftw:    " $FFTWHOME
+else
+    echo "fftw has not been found."
+fi
+
+# check for cuda
+nvcc=`command -v nvcc`
+CUDAHOME=${nvcc%/bin/nvcc}
+if [ "$CUDAHOME" ]; then
+    echo "Using cuda:    " $CUDAHOME
+else
+    echo "cuda has not been found."
+fi
+
+if [ $test_flag ] && [ $prompts = true ] ; then
+
+  PYTHONHOME=`command -v conda`
+  PYTHONHOME=${PYTHONHOME%conda}
+  if [ ! $PYTHONHOME ] ; then
+    echo -e "No conda environment found in PATH. Try:"
+    echo -e "   >>> source <path_to_savu_installation>/savu_setup.sh"
+    echo -e "Aborting the tests."
+    exit 1
+  fi
+
+  echo -e "=============================================================\n"
+  while true ; do
+    read  -n 1 -p "Are you happy to proceed with the tests? (y/n): " input
+    if [ "$input" = "y" ]; then
+      echo -e "\nProceeding with the tests."
+      break
+    elif [ "$input" = "n" ]; then
+      echo -e "\nAborting the tests."
+      exit 0
+    else
+      echo -e "\nYour input was unknown.\n"
+    fi 
+  done
+elif [ $prompts = true ] ; then
+  echo -e "=============================================================\n"
+  while true ; do
+    read  -n 1 -p "Are you happy to proceed with the installation? (y/n): " input
+    if [ "$input" = "y" ]; then
+      echo -e "\nYour input was yes"
+      break
+    elif [ "$input" = "n" ]; then
+      echo -e "\nInstallation process terminated."
+      exit 0
+    else
+      echo -e "\nYour input was unknown.\n"
+    fi
+  done
+
+#=====================installing other packages==========================
+
+  echo -e "\nInstalling Savu in" $PREFIX
+  read  -p ">>> Press ENTER to continue or input a different path: " input
+
+  if [ "$input" != "" ]; then
+    PREFIX=$input
+  fi
+
+  while true; do
+    if [ -d "$PREFIX" ]; then
+      PREFIX=$PREFIX/$conda_folder/
+      break
+    fi
+    echo "The path" $PREFIX "is not recognised"
+    read  -p ">>> Please input a different installation path: " input
+    PREFIX=$input
+  done
+
+  if [ -d "$PREFIX" ]; then
+    echo
+    while true ; do
+      read -n 1 -p "The folder $PREFIX already exists. Continue? [y/n]" input
+      if [ "$input" = "y" ]; then
+        echo -e "\nStarting the installation........"
+        break
+      elif [ "$input" = "n" ]; then
+        echo -e "\nInstallation process terminated."
+        exit 0
+      else
+        echo -e "\nYour input was unknown.\n\n"
+      fi
+    done
+  else
+    # create the folder
+    mkdir -p $PREFIX
+  fi
+else
+  if [ ! -d "$PREFIX" ] ; then
+    mkdir -p $PREFIX
+  fi
+fi
+
+if [ ! $test_flag ] ; then
+
+  echo -e "\nThank you!  Installing Savu into" $PREFIX"\n"
+
+  unset IFS
+  string=`awk '/^miniconda/' $versions_file`
+  miniconda_version=`echo $string | cut -d " " -f 2`
+  wget https://repo.continuum.io/miniconda/Miniconda2-$miniconda_version-Linux-x86_64.sh -O $PREFIX/miniconda.sh;
+  bash $PREFIX/miniconda.sh -b -p $PREFIX/miniconda
+  PYTHONHOME=$PREFIX/miniconda/bin
+  export PATH="$PYTHONHOME:$PATH"
+
+  conda install -y -q conda-build conda-env
+  conda install -y -q conda-verify
+  conda env update -n root -f $DIR/environment.yml
+
+  echo "Building Savu..."
+  conda build $DIR/$savu_recipe
+  savubuild=`conda build $DIR/$savu_recipe --output`
+  echo "Installing Savu..."
+  conda install -y -q --use-local $savubuild
+
+  path=$(python -c "import savu; import os; print os.path.abspath(savu.__file__)")
+  savu_path=${path%/savu/__init__.pyc}
+
+  # get the savu version
+  install_path=$(python -c "import savu; import savu.version as sv; print sv.__install__")
+  recipes=$savu_path/$install_path/conda-recipes
+
+  launcher_path=`command -v savu_launcher.sh`
+  launcher_path=${launcher_path%/savu_launcher.sh}
+  if [ "$facility" ]; then
+      cp $savu_path/system_files/$facility/mpi/savu_launcher.sh $launcher_path
+      cp $savu_path/system_files/$facility/mpi/savu_mpijob.sh $launcher_path
+  fi
+
+
+
+  #-----------------------------------------------------------------
+#  echo "Building astra toolbox..."
+#  conda build $recipes/astra
+# astrabuild=`conda build $recipes/astra --output`
+
+  echo "Installing astra toolbox..."
+#  conda install -y -q --use-local $astrabuild
+
+#  site_path=$(python -c "import site; print site.getsitepackages()[0]")
+#  cp $recipes/astra/astra.pth $site_path
+#  astra_lib_path=$site_path/astra/lib
+  
+  conda install -y -q -c astra-toolbox/label/dev astra-toolbox
+  #-----------------------------------------------------------------
+
+  #-----------------------------------------------------------------
+  echo "Building xraylib..."
+  conda build $recipes/xraylib
+  xraylibbuild=`conda build $recipes/xraylib --output`
+
+  echo "Installing xraylib..."
+  conda install -y -q --use-local $xraylibbuild --no-deps
+  #-----------------------------------------------------------------
+
+  #-----------------------------------------------------------------
+  echo "Installing tomopy..."
+  # these packages were missing in copied environment
+  string=`awk '/^tomopy/' $versions_file`
+  tomopy_version=`echo $string | cut -d " " -f 2`
+  string=`awk '/^dxchange/' $versions_file`
+  dxchange_version=`echo $string | cut -d " " -f 2`
+  conda install -y -q -c dgursoy tomopy==$tomopy_version --no-deps
+  conda install -y -q -c dgursoy dxchange==$dxchange_version --no-deps
+  #-----------------------------------------------------------------
+
+  #-----------------------------------------------------------------
+  echo "Installing ccpi-reconstruction"
+  string=`awk '/^ccpi/' $versions_file`
+  ccpi_version=`echo $string | cut -d " " -f 2`
+  conda install -y -q -c ccpi ccpi-reconstruction==$ccpi_version -c conda-forge --no-deps
+  conda install -y -q -c ccpi cil_reconstruction==$ccpi_version -c conda-forge --no-deps
+  #-----------------------------------------------------------------
+
+  #-----------------------------------------------------------------
+  echo "Installing pyfai"
+  string=`awk '/^pyfai/' $versions_file`
+  pyfai_version=`echo $string | cut -d " " -f 2`
+  conda install -y -q -c conda-forge pyfai==$pyfai_version --no-deps
+  #-----------------------------------------------------------------
+
+  #-----------------------------------------------------------------
+  echo "Installing mpi4py..."
+  pip uninstall -y -q mpi4py || true
+  string=`awk '/^mpi4py/' $versions_file`
+  mpi4py_version=`echo $string | cut -d " " -f 2`
+  env MPICC=$MPICC pip install mpi4py==$mpi4py_version
+  #-----------------------------------------------------------------
+
+  #-----------------------------------------------------------------
+  echo "Building hdf5..."
+  conda uninstall -y -q hdf5 || true
+  conda build $recipes/hdf5
+  hdf5build=`conda build $recipes/hdf5 --output`
+
+  echo "Installing hdf5..."
+  conda install -y -q --use-local $hdf5build
+  #-----------------------------------------------------------------
+
+  #-----------------------------------------------------------------
+  echo "Building h5py..."
+  conda uninstall -y -q h5py || true
+  conda build $recipes/h5py --no-test
+  h5pybuild=`conda build $recipes/h5py --output`
+
+  echo "Installing h5py..."
+  conda install -y -q --use-local $h5pybuild
+  #-----------------------------------------------------------------
+
+
+  echo -e "\n\t***************************************************"
+  echo -e "\t          Package installation complete"
+  echo -e "\t  Check $error_log for errors"
+  echo -e "\t***************************************************\n"
+
+fi
+
+if [ ! $test_flag ] ; then
+  if [ $prompts = true ] ; then
+    while true; do
+      read  -n 1 -p "Would you like to run the tests? (y/n): " input
+      if [ "$input" = "y" ]; then
+        echo -e "\nYour input was yes"
+        test_flag=true
+        break
+      elif [ "$input" = "n" ]; then
+        echo -e "Aborting test run..."
+        echo -e "To run the tests later type: "
+        echo -e "   >>> bash savu_v2.1/savu_installer.sh --tests_only"
+        exit 0
+      else
+        echo -e "\nYour input was unknown.\n"
+      fi
+    done
+  fi
+
+  setup_script=$PREFIX/'savu_setup.sh'
+  echo -e "\nCreating a Savu setup script" $setup_script
+  ( [ -e "$setup_script" ] || touch "$setup_script" ) && [ ! -w "$setup_script" ] && echo cannot write to $setup_script && exit 1
+  MPIHOME="$(dirname "$(dirname $MPICC)")"
+  echo '#!bin/bash' > $setup_script
+  echo ""export PATH=$MPIHOME/bin:'$PATH'"" >> $setup_script
+  echo ""export LD_LIBRARY_PATH=$MPIHOME/lib:'$LD_LIBRARY_PATH'"" >> $setup_script
+  echo ""export PYTHONUSERSITE True"" >> $setup_script
+  echo ""export PATH=$PYTHONHOME:'$PATH'"" >> $setup_script
+  echo ""export LD_LIBRARY_PATH=$PYTHONHOME/lib:'$LD_LIBRARY_PATH'"" >> $setup_script
+  echo ""export LD_LIBRARY_PATH=$astra_lib_path:'$LD_LIBRARY_PATH'"" >> $setup_script
+  if [ "$CUDAHOME" ]; then
+    echo ""export PATH=$CUDAHOME/bin:'$PATH'"" >> $setup_script
+    echo ""export LD_LIBRARY_PATH=$CUDAHOME/lib64:'$LD_LIBRARY_PATH'"" >> $setup_script
+  fi
+  if [ "$FFTWHOME" ]; then    
+    echo ""export FFTWDIR=$FFTWHOME"" >> $setup_script
+    echo ""export LD_LIBRARY_PATH=$FFTWHOME/lib:'$LD_LIBRARY_PATH'"" >> $setup_script
+  fi
+
+  source $setup_script
+fi
+
+if [ $test_flag ] ; then
+
+  nGPUs=$(nvidia-smi -L | wc -l)
+
+  echo -e "\n***** Testing Savu setup *****\n"
+  savu_quick_tests
+
+  echo -e "\n*****Running Savu single-threaded local tests *****\n"
+  savu_full_tests
+
+  echo -e "\n************** Single-threaded local tests complete ******************\n"
+
+  test_dir=`mktemp -d`
+  tmp_dir=`mktemp -d`
+  tmpfile=$tmp_dir/temp_output.txt
+  touch $tmpfile
+
+fi
+
+if [ ! $test_flag ] ; then
+
+  launcher_path=`command -v savu_launcher.sh`
+  mpijob_path=`command -v savu_mpijob.sh`
+  echo -e "\n\n===============================IMPORTANT NOTICES================================"
+  echo -e "If you are installing Savu for cluster use, you will need to update the savu "
+  echo -e "launcher scripts:"
+  echo -e "\n$launcher_path"
+  echo -e "$mpijob_path\n"
+  echo -e "\n\nTo run Savu type 'source $savu_setup' to set relevant paths every time you"
+  echo -e "open a new terminal.  Alternatively, if you are using the Modules system, see"
+  echo -e "$DIR/module_template for an example module file."
+  echo -e "================================================================================\n" 
+
+  echo -e "*************** SAVU INSTALLATION COMPLETE! ******************\n"
+  echo -e "    ......Thank you for running the Savu installer......\n"
+  echo -e "=============================================================\n"
+else
+  echo -e "\n\n*************** SAVU TESTS COMPLETE! ******************\n"
+  echo -e "    ......Thank you for running the Savu tests......\n"
+  echo -e " Please check $tmpfile for errors\n"
+  echo -e "=======================================================\n"
+fi
+
+exit 0
+
diff --git a/install/2_3_2_install/savu_v2.3.2/savu_master/build.sh b/install/2_3_2_install/savu_v2.3.2/savu_master/build.sh
new file mode 100644
index 000000000..b6fbaff2b
--- /dev/null
+++ b/install/2_3_2_install/savu_v2.3.2/savu_master/build.sh
@@ -0,0 +1,4 @@
+#!/bin/bash
+
+$PYTHON setup.py install --facility $FACILITY   # Python command to install the script.
+
diff --git a/install/2_3_2_install/savu_v2.3.2/savu_master/meta.yaml b/install/2_3_2_install/savu_v2.3.2/savu_master/meta.yaml
new file mode 100644
index 000000000..8f2bca48f
--- /dev/null
+++ b/install/2_3_2_install/savu_v2.3.2/savu_master/meta.yaml
@@ -0,0 +1,24 @@
+{% set repo = "master" %}
+
+package:
+  name: savu
+  version: "master"
+
+source:
+  url: https://github.com/DiamondLightSource/Savu/archive/v2.3.2.tar.gz
+
+requirements:
+  build:
+    - python
+
+build:
+  preserve_egg_dir: True
+  number: 0
+  script_env:
+    - FACILITY
+
+about:
+  home: https://github.com/diamondlightsource/Savu
+  license: Apache V2 and GPL V3
+  license_file: LICENCE.txt
+
diff --git a/install/2_3_2_install/savu_v2.3.2/version.txt b/install/2_3_2_install/savu_v2.3.2/version.txt
new file mode 100644
index 000000000..abb84c2c7
--- /dev/null
+++ b/install/2_3_2_install/savu_v2.3.2/version.txt
@@ -0,0 +1,2 @@
+2.3.2
+
diff --git a/install/2_3_2_install/savu_v2.3.2/versions_file.txt b/install/2_3_2_install/savu_v2.3.2/versions_file.txt
new file mode 100644
index 000000000..116a12c1a
--- /dev/null
+++ b/install/2_3_2_install/savu_v2.3.2/versions_file.txt
@@ -0,0 +1,7 @@
+miniconda   4.5.4  # change this to 'latest' for latest version
+mpi4py      3.0.0
+tomopy      1.0.1
+dxchange    0.1.1
+ccpi        0.10.0
+pyfai       0.15.0
+
diff --git a/install/2_3_2_install/tests/local_mpi_cpu_test.sh b/install/2_3_2_install/tests/local_mpi_cpu_test.sh
new file mode 100644
index 000000000..586af6a0b
--- /dev/null
+++ b/install/2_3_2_install/tests/local_mpi_cpu_test.sh
@@ -0,0 +1,41 @@
+#!/bin/bash
+
+# function for parsing optional arguments
+function arg_parse ()
+{
+  flag=$1
+  return=$2
+  while [[ $# -gt 1 ]] ; do
+    if [ $1 == $flag ] ; then
+      eval "$return"=$2
+    fi
+    shift
+  done
+}
+
+output=$1
+if ! [ "$output" ]; then
+    echo "Please pass the path to the output folder."
+    exit 1
+fi
+
+# set the TESTDATA environment variable
+. test_setup.sh
+
+echo "Running the mpi cpu test..."
+
+
+arg_parse "-r" redirect "$@"
+if [ $redirect ] ; then
+  exec 4<&2
+  exec 5<&1
+  exec &> $redirect
+fi
+
+savu_mpijob_local.sh $TESTDATA/data/24737.nxs $TESTDATA/test_process_lists/mpi_cpu_test.nxs $output
+
+if [ $redirect ] ; then
+ exec 2<&4
+ exec 1<&5
+fi
+
diff --git a/install/2_3_2_install/tests/local_mpi_gpu_test.sh b/install/2_3_2_install/tests/local_mpi_gpu_test.sh
new file mode 100644
index 000000000..44cf9bbfd
--- /dev/null
+++ b/install/2_3_2_install/tests/local_mpi_gpu_test.sh
@@ -0,0 +1,41 @@
+#!/bin/bash
+
+# function for parsing optional arguments
+function arg_parse ()
+{
+  flag=$1
+  return=$2
+  while [[ $# -gt 1 ]] ; do
+    if [ $1 == $flag ] ; then
+      eval "$return"=$2
+    fi
+    shift
+  done
+}
+
+output=$1
+if ! [ "$output" ]; then
+    echo "Please pass the path to the output folder."
+    exit 1
+fi
+
+# set the TESTDATA environment variable
+. test_setup.sh
+
+echo "Running the mpi gpu test..."
+
+
+arg_parse "-r" redirect "$@"
+if [ $redirect ] ; then
+  exec 4<&2
+  exec 5<&1
+  exec &> $redirect
+fi
+
+savu_mpijob_local.sh $TESTDATA/data/24737.nxs $TESTDATA/test_process_lists/mpi_gpu_test.nxs $output
+
+if [ $redirect ] ; then
+ exec 2<&4
+ exec 1<&5
+fi
+
diff --git a/install/2_3_2_install/tests/mpi_cpu_test.sh b/install/2_3_2_install/tests/mpi_cpu_test.sh
new file mode 100644
index 000000000..105afebcd
--- /dev/null
+++ b/install/2_3_2_install/tests/mpi_cpu_test.sh
@@ -0,0 +1,24 @@
+#!/bin/bash
+
+output=$1
+if ! [ "$output" ]; then
+    echo "Please pass the path to the output folder."
+    exit 1
+fi
+
+# get the loaded module version of savu
+IN=$LOADEDMODULES
+while IFS=':' read -ra ADDR; do
+    for i in "${ADDR[@]}"; do
+        if [[ $i == *"savu"* ]]; then
+            version=`echo "$i" | awk -F/ '{print $NF}'`
+        fi
+    done
+done <<< "$IN"
+
+# set the TESTDATA environment variable
+. test_setup.sh
+
+echo "Running the mpi cpu test..."
+savu_launcher.sh $version $TESTDATA/data/24737.nxs $TESTDATA/test_process_lists/mpi_cpu_test.nxs $output
+
diff --git a/install/2_3_2_install/tests/mpi_gpu_test.sh b/install/2_3_2_install/tests/mpi_gpu_test.sh
new file mode 100644
index 000000000..fa07b4653
--- /dev/null
+++ b/install/2_3_2_install/tests/mpi_gpu_test.sh
@@ -0,0 +1,24 @@
+#!/bin/bash
+
+output=$1
+if ! [ "$output" ]; then
+    echo "Please pass the path to the output folder."
+    exit 1
+fi
+
+# get the loaded module version of savu
+IN=$LOADEDMODULES
+while IFS=':' read -ra ADDR; do
+    for i in "${ADDR[@]}"; do
+        if [[ $i == *"savu"* ]]; then
+            version=`echo "$i" | awk -F/ '{print $NF}'`
+        fi
+    done
+done <<< "$IN"
+
+# set the TESTDATA environment variable
+. test_setup.sh
+
+echo "Running the mpi gpu test..."
+savu_launcher.sh $version $TESTDATA/data/24737.nxs $TESTDATA/test_process_lists/mpi_gpu_test.nxs $output
+
diff --git a/install/2_3_2_install/tests/test_setup.sh b/install/2_3_2_install/tests/test_setup.sh
new file mode 100644
index 000000000..90a35b203
--- /dev/null
+++ b/install/2_3_2_install/tests/test_setup.sh
@@ -0,0 +1,7 @@
+#!/bin/bash
+
+savu_path=$(python -c "import savu; import os; print os.path.abspath(os.path.dirname(savu.__file__))")
+test_path=$savu_path'/../test_data'
+export TESTDATA=$test_path
+echo '$TESTDATA points to the Savu test data folder at' $TESTDATA
+