/root2hdf5proj

ROOT to HDF5 using SciSoft tools

Primary LanguageC++

Note: these instructions are not "durable" in the sense that a lof of the package version numbers referenced are for SLF6 in the Autumn of 2017. But the principles should be invariant, etc.

Software configuration

We are using the SciSoft 'HEP HPC toolkit' to interface to HDF5. To build this code we first need to set up a UPS products area.

  • Go to SciSoft: https://scisoft.fnal.gov
  • Get the HEP HPC Toolkit
    • click on newest (was v00_05_00)
    • click on html
    • download the linked pullProducts script
    • move it to your products 'base' directory, e.g. /path/hep_hpc_products
    • go there and pull the software.
bash pullProducts `pwd` slf6 hep_hpc_toolkit-v00_05_00 e14 prof
  • Go up one level and setup:
source hep_hpc_products/setup
ups list -aK+                  # to see what's available
setup hep_hpc v0_05_00 -q e14:prof
ups active
  • We will additionally need ROOT (6) for this project along with some dependencies. 
bzip2 -d root-6.10.04d-slf6-x86_64-e14-prof.tar.bz2
tar -xvf root-6.10.04d-slf6-x86_64-e14-prof.tar
  • ROOT needs additional packages. Follow the same procedure used to get ROOT to get:
    • fftw-3.3.6.pl2-slf6-x86_64-prof.tar.bz2
    • xrootd-4.5.0c-slf6-x86_64-e14-prof.tar.bz2
    • libxml2-2.9.4b-slf6-x86_64-prof.tar.bz2
    • tbb-2017.7-slf6-x86_64-e14-prof.tar.bz2
    • protobuf-3.3.1-slf6-x86_64-e14.tar.bz2
    • tensorflow-1.3.0a-slf6-x86_64-e14-p2713d-prof.tar.bz2
  • copy to your products area, unpack, etc.
  • we should have:
$ . hep_hpc_products/setup
$ ups list -aK+
"catch" "v1_9_6" "NULL" "" ""
"cmake" "v3_7_1" "Linux64bit+2.6-2.12" "" ""
"fftw" "v3_3_6_pl2" "Linux64bit+2.6-2.12" "prof" ""
"gcc" "v6_3_0" "Linux64bit+2.6-2.12" "" ""
"h5py" "v2_7_0b" "Linux64bit+2.6-2.12" "e14:p2713d:prof" ""
"hdf5" "v1_10_1a" "Linux64bit+2.6-2.12" "e14" ""
"hep_hpc" "v0_05_00" "Linux64bit+2.6-2.12" "e14:prof" ""
"hep_hpc_toolkit" "v00_05_00" "Linux64bit+2.6-2.12" "e14:prof" ""
"lapack" "v3_7_0" "Linux64bit+2.6-2.12" "e14:prof" ""
"libxml2" "v2_9_4b" "Linux64bit+2.6-2.12" "prof" ""
"nose" "v1_3_7c" "NULL" "p2713d" ""
"numpy" "v1_12_1" "Linux64bit+2.6-2.12" "e14:p2713d:prof" ""
"protobuf" "v3_3_1" "Linux64bit+2.6-2.12" "e14" ""
"pybind11" "v2_1_1" "NULL" "" ""
"python" "v2_7_13d" "Linux64bit+2.6-2.12" "" ""
"root" "v6_10_04d" "Linux64bit+2.6-2.12" "e14:prof" ""
"six" "v1_10_0d" "NULL" "p2713d" ""
"sqlite" "v3_16_02_00a" "Linux64bit+2.6-2.12" "" ""
"tbb" "v2017_7" "Linux64bit+2.6-2.12" "e14:prof" ""
"tensorflow" "v1_3_0a" "Linux64bit+2.6-2.12" "e14:p2713d:prof" ""
"ups" "v5_2_0" "Linux64bit+2.6-2.12" "" "current"
"xrootd" "v4_5_0c" "Linux64bit+2.6-2.12" "e14:prof" ""

Note: gzstream is external code (see it's README and docs) copied here for convenience.

Scripts for setup

An alternative way to configure the software is to use the provided setup scripts. Copy the contents of your products area, e.g.

cp product_setup/* /path/to/products/area

Then run the install script.

bash install.sh | tee log_install.txt