Updated facilities

1 files changed, 34 insertions, 28 deletions

diff --git a/general/help/facilities.md b/general/help/facilities.md
index 89771f7..2647696 100644
--- a/general/help/facilities.md
+++ b/general/help/facilities.md
@@ -2,28 +2,33 @@
 
 The core GeneNetwork team maintains modern Linux servers and storage
 systems for genetic, genomic, and phenome analyses. Machines are
-located in the main UTHSC machine room of the Lamar Alexander
-Building in at UTHSC (Memphis campus). The whole team has access to this space for
-upgrades and hardware maintenance. Issues and work packages are
+located in the main UTHSC machine room of the Lamar Alexander Building
+at UTHSC (Memphis campus). The whole team has access to this space
+for upgrades and hardware maintenance. Issues and work packages are
 tracked through a Trello board and we use git repositories for
 documentation (all available on request).
 
 This computing facility has four computer racks dedicated to
 GeneNetwork-related work. Each rack has a mix of Dell PowerEdge
-servers (from a few low-end R610s, high performance Dell R6515, and two R7425
-64-core systems - tux01 and tux02 - running the GeneNetwork web
-services). We also support several more experimental systems, including a 40-core system with 196 GB RAM and 2x NVIDIA V100 GPU (tux03), and one Penguin Computing Relion 2600GT systems (Penguin2) with a NVIDIA Tesla K40
-GPU used for software development and to serve outside-facing
-less secure R/shiny and Python  services that run in isolated
-containers. Effectively, we have three  outward facing servers
-that are fully used by  GeneNetwork teams with a
-total of 64+64+40+28 = 196 real cores. In late 2020 we set up a small
-HPC cluster (Octopus), consisting of 11 PowerEdge R6515 AMD EPYC
-7402P 24-core CPUs (264 cores). Most of these machines
-are equipped with 128 GB RAM, but two  nodes have 1 TB of memory. 
-All Octopus nodes run Debian and GNU Guix and use Slurm for
-batch submission. All racks have dedicated high-speed Cisco switches
-and firewalls that are maintained by UTHSC IT staff.
+servers (from a few low-end R610s, R6515, and two R7425 AMD Epyc
+64-core 256GB RAM systems - tux01 and tux02 - running the GeneNetwork
+web services). We also support several more experimental systems,
+including a 40-core R7425 system with 196 GB RAM and 2x NVIDIA V100
+GPU (tux03), and one Penguin Computing Relion 2600GT systems
+(Penguin2) with NVIDIA Tesla K80 GPU used for software development and
+to serve outside-facing less secure R/shiny and Python services that
+run in isolated containers. Effectively, we have three outward facing
+servers that are fully used by the GeneNetwork team with a total of
+64+64+40+28 = 196 real cores. Late 2020 we added a small HPC cluster
+(Octopus), consisting of 11 PowerEdge R6515 AMD EPYC 7402P 24-core
+CPUs (264 real cores). Nine of these machines are equipped with 128 GB
+RAM and two nodes have 1 TB of memory.  Octopus is designed for
+Mouse/Rat pangenome work without HIPAA restrictions. All Octopus nodes
+run Debian and GNU Guix and use Slurm for batch submission. We are
+adding support for distributed network file storage and running the
+common workflow language (CWL) and Docker containers. The racks have
+dedicated high-speed Cisco switches and firewalls that are maintained
+by UTHSC IT staff.
 
 We also run some 'specials' including an ARM-based NVIDIA Jetson and a
 RISC-V [PolarFire
@@ -33,17 +38,18 @@ have also ordered two RISC-V
 computers.
 
 In addition to above hardware we have batch submission access to the
-cluster computing resource at the ISAAX computing facility operated
-by the UT Joint Institute for Computational Sciences in a secure setup
-at the DOE Oak Ridge National Laboratory and on the UT Knoxville campus. We have a 10 Gbit connection
-from the machine room at UTHSC to data transfer nodes at ISAAC. 
-ISAAC has been upgraded in the past year (see [ISAAC system
+cluster computing resource at the ISAAX computing facility operated by
+the UT Joint Institute for Computational Sciences in a secure setup at
+the DOE Oak Ridge National Laboratory (ORNL) and on the UT Knoxville
+campus. We have a 10 Gbit connection from the machine room at UTHSC to
+data transfer nodes at ISAAC.  ISAAC has been upgraded in the past
+year (see [ISAAC system
 overview](http://www.nics.utk.edu/computing-resources/acf/acf-system-overview)
 and now has over 3 PB of high-performance Lustre DDN storage and
 contains over 8000 cores with some large RAM nodes and several GPU
-nodes. Drs. Prins and other team members have used ISAAC systems to
-analyze genomic and genetic data sets. Note that we can
-not yet use ISAAC and storage facilities for public-facing web
-services because of stringent security requirements.  ISAAC
-however, will be highly useful for "precomputing" genomics and genetics
- results using standardized pipelines.
+nodes. Drs. Prins, Chen, Ashbrook and other team members use ISAAC
+systems to analyze genomic and genetic data sets. Note that we can not
+use ISAAC and storage facilities for public-facing web services
+because of stringent security requirements.  ISAAC however, can be
+highly useful for precomputed genomics and genetics results using
+standardized pipelines.