Rivanna was down for maintenance on Tuesday, September 17. The items below summarize the changes that may impact the users of Rivanna.
I. Changes to scratch
System engineers have installed a new /scratch file system, and have transferred to the new system any files/data that were less than 90 days old on the former scratch system.
II. Updates to software modules
New and updated modules:
The following software modules either replace older versions or are new to Rivanna:
- pgi/19.7
- openmpi/3.1.4 (for all GCC and PGI compilers)
- cuda/10.1.168
For openmpi, be sure to remove any reference to 2.1.5 in your scripts.
Removed modules:
The following software modules were removed from Rivanna during the maintenance period:
- cellranger/2.1.1 (replaced with cellranger/3.1.0)
- exonerate/2.2.0 (replaced with exonerate/2.4.0)
- fenics/20180
- fluent/18.2 (is now part of the ansys/18.2 module)
- fiji/1.51
- miniconda/4.3.21-py3.6 (replaced with anaconda/5.2.0-py3.6
- openmpi/2.1.5 (replaced with openmpi/3.1.4)
- pgi/17.5 & pgi/18.10 (replaced with pgi/19.7)
- povray/3.7.0.7
- rstudio/0.98.1103
III. Other important changes
The loading of some software modules now requires preloading of a dependency, such as a compiler or version of mpi.
Run the command module spider <YOUR_MODULE> to view module load instructions for a particular application module.
For example, module spider abinit/8.2.2 states that
You will need to load all module(s) on any one of the lines below before the "abinit/8.2.2" module is available to load.
intel/18.0 intelmpi/18.0
This statement tells you that both intel and intelmpi must be loaded in order to load abinit.
Recompiling & Reinstalling
The operating system was updated, and (as usual) users who compile their own code may need to recompile.
This also applies to anyone who installed R packages which are dependent on openMPI. Those packages will need to be reinstalled.
Libraries and applications built with the Intel 18.0 compiler and IntelMPI libraries have been re-compiled to enable execution on compute nodes with Knights Landing Many-Core processors in the knl queue.
If you have any questions or concerns about these changes, please contact our user support team.
