Rivanna Software Updates: March 11, 2020

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The following software modules have been removed from Rivanna during the maintenance period. Please use the suggested newer versions:

  • gcc/5.4.0 & toolchains -> 7.1.0
    • All modules that depend on gcc/5.4.0 are now available under gcc/7.1.0.
    • The only exception is cushaw3/3.0.3. Please contact us if you need to use it.
  • pgi/19.7 & toolchains -> 19.10
    • All modules that depend on pgi/19.7 are now available under pgi/19.10.
  • anaconda/5.2.0-py2.7 -> 2019.10-py2.7
    • All modules that depend on anaconda/5.2.0-py2.7 are now available under anaconda/2019.10-py2.7.
  • tensorflow/1.6.0-py27, -py36 -> 1.12.0, 2.0.0, or 2.1.0
    • If you must use version 1.6.0, please pull the image from our repository on Singularity Library.
  • singularity/3.1.1 -> 3.5.2
  • boost/1.66.0 -> 1.68.0
  • julia/1.0.2, 1.0.3 -> 1.3.1
  • cushaw3/3.0.3 - no replacement

The following upgrades have taken place during the maintenance period:

  • JupyterLab v1.2.6
  • Python 3.7 Jupyter kernel - based on anaconda/2019.10-py3.7
    • The previous “Python 3” kernel (based on anaconda/5.2.0-py3.6) has been renamed as “Python 3.6”.
  • anaconda/2019.10-py2.7, -py3.7
  • gcc/9.2.0 & toolchains - gcc/7.1.0 remains the default
  • singularity/3.5.2 - now default version
  • gurobi/9.0.1
  • tensorflow/2.1.0-py37 - Singularity container module & Jupyter kernel
  • julia/1.3.1 - module & Jupyter kernel
  • ansys/2020r1
  • samtools/1.10
  • rust/1.41.0
  • cmake/1.16.5

New tools:

  • LibreOffice - through FastX Web desktop environment
  • pytorch/1.4.0 - Singularity container module & Jupyter kernel
  • openfoam 7 (version 1909) - open-source CFD software
  • goolfc/6.5.0_3.1.4_10.1.168 - GOOLF toolchain (GCC + OpenMPI + OpenBLAS + ScaLAPACK + FFTW) with CUDA support
  • atom/1.43.0 - Atom text editor
  • rclone/1.51.0 - Rclone for cloud file syncing (supports Google Drive)
  • nodejs/12.14.1 - Node.js JavaScript runtime environment
  • ninja/1.10.0-py3.6 - Ninja build system
  • meson/0.53.1-py3.6 - Meson build system
  • gtk+/3.24.14 - GTK+ 3 libraries for GUI applications
  • fribidi/1.0.8 - Free Implementation of the Unicode Bidirectional Algorithm
  • atk/2.28.1 - Accessibility Toolkit
  • tree/1.8.0 - Tree structure of file system
  • gnupg/2.2.19 - GnuPG encrypt and sign data