Search-ON2: Revitalization of HPC infrastructure of UMinho

Over the last 3 months was held the installation of new equipment under the project “Search-ON2: Revitalization of HPC infrastructure of UMinho” (NORTE-07-0162-FEDER-000086), co-funded by the North Portugal Regional Operational Programme (ON.2 – O Novo Norte), under the National Strategic Reference Framework (NSRF), through the European Regional Development Fund (ERDF).” This operation took place in 3 phases: first phase corresponded to the installation of 20 compute nodes, each with two Xeon processors 2650V2 (8 cores, 2.6GHz), 64GB RAM and 120GB SSD. In the second phase were installed 6 nodes to explore emerging technologies, which includes four nodes with two Xeon processors E5-2695V2 (12 cores 2.40GHz), 64GB RAM, 120GB SSD and two accelerators Xeon Phi 7120X and two more nodes with two Xeon processors E5-2695V2, 64GB RAM, 120GB SSD and with 2 GPUs NVidia Tesla K40M. The third phase consisted of installing a storage system composed by a SAN with 48TB of raw capacity for user’s homes and four storage nodes, each with two Xeon processors 2650V2 (8 cores, 2.6GHz), 64GB RAM and with 12TB of storage space, dedicated to the treatment of large volumes of data (scratch and bigdata).

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CEB contributes with two nodes

CEB - Centre of Biological of Engineering - contributed with two nodes to the cluster. Each node consists of two Intel Sandy Bridge CPU octa-core (8 cores and 16 threads), 64GB of memory and a Myrinet network card of 10Gbps.

These nodes were installed in SeARCH6 and, currently, are only available to researchers of CEB.

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New Rocks version

Was begun the installation of Rocks version 6 - cluster management software - based on CentOS 6. This process corresponds to the installation of a new frontend, with new versions of software, and a new storage node.

Later, will be made  the migration for this new plataform of the users and nodes that integrate the current cluster. The new cluster has the designation of SeARCH6.

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New accelerators: NVIDIA Tesla 20KM and Intel Xeon Phi 5110P

Were installed two new accelerators: NVIDIA Tesla 20KM and Intel Xeon Phi 5110P. These accelerators reside on compute-node 711-1 and currently are only available for application development in context of MSc dissertations.

Later, they will be available for other users of the cluster.

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I3N contributes with two nodes

I3N-Institute for Polymers and Composites of School of Engineering of University of Minho contributed with two nodes to the cluster. These nodes will support research of “Modelling and Optimization” group.

Each node consists of two Intel Nehalem CPU hexa-core (6 cores and 12 threads), 48GB of memory and a Myrinet network card of 10Gbps.

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Physics Centre contributes with four nodes

The Physics Centre of Science School of University of Minho contributed with four more nodes to the cluster. These nodes were funded by the project: PTDC/FIS/113199/2009, Theory and Modelling of Energy Transfer Processes in Functional Structures Based on Semiconductor Nanocrystals (Quantum Dots).

Each node consists of two Intel Nehalem CPU hexa-core (6 cores/12 threads), 48GB of memory and a Myrinet network card of 10Gbps.

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New nodes HP ProLiant SL

Are available six new nodes, each with two Intel Nehalem CPU Hex-Core (corresponding to 12 cores and 24 threads).
All nodes will soon be connected to Myrinet network, this depends on the supply of installation
kits for the network cards.
Also soon, two nodes will be equipped with Tesla Fermi GPU.
Four nodes have 12GB of memory and have designation “compute-601-X”.
Two nodes, those who will have GPU, have 48GB of memory and are named “compute-611-X”.
All these nodes are in the queue “tcurtos” except the node “compute-611-1″ which is in the queue “tmedios”.

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Reinforcement of electricity infrastructure

On February 17 was carried out, in collaboration with the LIP-Minho, the reinforcement of the electrical infrastructure, consisting of the increased capacity of the electrical circuit and installation of another UPS with 10KVA.
This improvement ensures capacity for the installation of over a rack of computing equipment.

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Nodes with CPU Xeon Nehalem

Are now available to all users 4 nodes with Intel Xeon processor E5520 Nehalem, whose name on the cluster is compute-401-X. Each node has 8GB of memory and two Xeon, corresponding to 8 cores and 16 threads.
Until then these nodes were reserved for researchers of CFUM.

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New software packages

Were recently installed the following software packages:

- CUDA 4.0, and respective CUDA Toolkit and SDK;
- Gromacs 4.0.7 and 4.5.5, both versions compiled with FFTW (GNU) and OpenMPI;
- Lammps 14Nov2011 in two versions: compilation with FFTW (GNU) and Intel MKL;
- FFTW 3.3 in two versions: compilation with GNU and Intel;
- Boost 1.47: compilation with GNU.

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Roll Documentation

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