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From BCCD 3.0
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* [[Debugging the ASRock Boards - round 1]] | * [[Debugging the ASRock Boards - round 1]] | ||
* [[Pragma-based accelerator support]] | * [[Pragma-based accelerator support]] | ||
| + | * [[Tinkering with the ASUS Tinker Boards]] | ||
= Configuring and Customizing = | = Configuring and Customizing = | ||
Revision as of 13:51, 21 July 2017
Workshop/Tutorial Resources
Getting Started
Basic Information
- Install Instructions
- User Instructions
- Tutorials
- Use USB to get files off BCCD
- Benchmarking
- Frequently Asked Questions (FAQ)
- Submitting bug reports
- Submitting feature requests
- Using Bluetooth devices
- Using hardware sensors
- Creating User Accounts (liberated only)
- Mailing list links
- Security information
Curriculum Modules
The BCCD comes with a number of parallel and distributed computing modules built-in, these are located in ~bccd. New modules are currently under development by LittleFe owners as part of the effort described here: http://littlefe.net/curriculum
| Module name | Author | Pointer | In the BCCD? |
| Area under a curve | Aaron Weeden | http://www.shodor.org/petascale/materials/UPModules/AreaUnderCurve/ | Yes |
| GalaxSee | David Joiner | http://shodor.org/petascale/materials/UPModules/NBody/ | Yes |
| GalaxSee-v2 | David Joiner | http://bccd.net/wiki/index.php/GalaxSee-v2 | Yes |
| Hello World | 2 | Yes | |
| Life | David Joiner | http://bccd.net/wiki/index.php/Game_of_Life | Yes |
| Molecular Dynamics | Charlie Peck | http://bccd.net/wiki/index.php/Molecular-dynamics | Yes |
| Pandemic | Aaron Weeden | http://www.shodor.org/petascale/materials/UPModules/infectiousDisease/ | Yes |
| Parameter Space | David Joiner | http://bccd.net/wiki/index.php/Parameter_Space | Yes |
| StatKit | Sam Leeman-Munk | http://bccd.net/wiki/index.php/StatKit | Yes |
| LittleFe CPU Load Monitor | Zach Goodwyn | http://cluster.earlham.edu/svn/bccd-ng/trunk/trees/etc/skel/Community-Modules/UMW/cpumon/README | Yes |
| Numerical Quadrature MPI | David John and Stan Thomas | http://csweb.cs.wfu.edu/bigiron/LittleFE-MPI-TrapezoidalRule/_build/html/index.html | Yes |
| Numerical Quadrature CUDA | David John and Stan Thomas | http://csweb.cs.wfu.edu/bigiron/LittleFE-CUDA-TrapezoidalRule/build/html/index.html | Yes |
| Parallel Sort by Regular Sampling | David John and Stan Thomas | http://csweb.cs.wfu.edu/bigiron/LittleFE-PSRS/build/html/index.html | Yes |
| Operating Systems Labs | David Monismith | http://monismith.info/cs550/hw.html | Yes |
| mpiBLAST | National Computational Biology Institute | http://www.bccd.net/wiki/index.php/Running_mpiBLAST | No |
| Simpson Rule | Andrew Fitz Gibbon | http://bccd.net/wiki/index.php/Simpson_Rule_MPI_Example | No |
| Computer Essentials and Quiz | Liviu Popa-Simil | http://littlefe.net/files/CEQ.zip | No |
| Dominating Set with GPUs | Christian Trefftz | http://www.cis.gvsu.edu/~trefftzc/dominatingSetWithGPUs/VersionOne/intro.html | No |
| Biofilms | Angela B. Shiflet, George W. Shiflet, Shay M. Ellison | http://shodor.org/petascale/materials/UPModules/biofilms/ | No |
| Getting the edge of the next Flue epidemic | Angela B. Shiflet, George W. Shiflet | http://shodor.org/petascale/materials/UPModules | No |
| Multithreading and Multiprocessing | Henry Neeman | http://shodor.org/petascale/materials/UPModules/sipeMultithreadingMultiprocessModule2/ | No |
| Techniques and Technologies | Henry Neeman | http://www.shodor.org/petascale/materials/UPModules/sipeTechniquesAndTechnologiesModule3/ | No |
| A Beginner's Guide to High-Performance Computing | Henry Neeman | http://www.shodor.org/petascale/materials/UPModules/beginnersGuideHPC/ | No |
| Order from Chaos:A sampling of Stochastic Optimization Algorithms | David A. Joiner | http://shodor.org/petascale/materials/UPModules/StochOpt/ | No |
| Living Links:Applications of Matrix Operations to Population Studies | Rubin H. Landau | http://shodor.org/petascale/materials/UPModules/populationMatrices/ | No |
| Time after Time:age and stage structured models | Angela B. Shiflet, George W. Shiflet and Jesse A. Hanley | http://www.shodor.org/petascale/materials/modules/?sr=0 | No |
| Conway's Game of Life | Aaron Weeden | http://www.shodor.org/petascale/materials/UPModules/GameOfLife/ | No |
| Modeling an "Able" Invader:the "Cane" toad | Angela B. Shiflet, George W. Shiflet and Whitney Sanders | http://www.shodor.org/petascale/materials/UPModules/ableInvader/ | No |
| Dynamic Programming with CUDA Pt 1 | Robert Hochberg | http://www.shodor.org/petascale/materials/UPModules/dynamicProgrammingPartI/ | No |
| Dynamic Programming with CUDA Pt 2 | Robert Hochberg | http://www.shodor.org/petascale/materials/UPModules/dynamicProgrammingCUDAPtII/ | No |
| How Many People Does It Take To....A parallel Approach to the Party Problem | David Toth | http://www.shodor.org/petascale/materials/UPModules/howManyPeople/ | No |
| Matrix Multiplication with CUDA | Robert Hochberg | http://www.shodor.org/petascale/materials/UPModules/matrixMultiplication/ | No |
| BLAST-ing in Parallel:Enabling an Essential Computational Tool to Keep PEace with the Explosive Growth in Biological Sequence Data | Jeffrey D. Krause,Michael Ly | http://www.shodor.org/petascale/materials/UPModules/BLAST/ | No |
| Sieve of Eratosthenes | Aaron Weeden | http://www.shodor.org/petascale/materials/UPModules/sieveOfEratosthenes/ | Yes |
| Scaling in nature and in the machine | Russell Manson | http://shodor.org/petascale/materials/UPModules/scalingInNature/ | No |
| Binary Tree Traversal | Aaron Weeden and Patrick Royal | www.shodor.org/petascale/materials/UPModules/Binary_Tree_Traversal/ | Yes |
| Suffix Trees:How to do Google search in bioinformatics? | Ananth Kalyanaraman | http://www.shodor.org/petascale/materials/UPModules/suffixTrees/ | No |
| Probable Cause:Modeling with Markov Chains | Angela B. Shiflet, George W. Shiflet and Whitney Sanders | http://www.shodor.org/petascale/materials/modules/?sr=20 | No |
| Parallel Spectral Numerical Methods | Gong Chen, Brandon Cloutier, Ning Li, Benson Muite and Paul Rigge | http://shodor.org/petascale/materials/UPModules/Parallel_Spectral_Methods/ | No |
| Scientific Visualisation with CUDA | Robert Hochberg and John Riselvato | http://shodor.org/petascale/materials/UPModules/scientificVisualizationCUDA/ | No |
| Introduction to GPU Programming using CUDA | Paul Gray | http://www.shodor.org/petascale/materials/UPModules/IntroGPU/ | No |
| Learning Automated Performance Analysis using PetaKit and the BCCD | Ivan Babic, Mobeen Ludin, and Charlie Peck | http://www.shodor.org/petascale/materials/UPModules/PetaKit_BCCD/ | Yes |
| Multi-Threaded Programming Introduction using the Sum3 Problem | Mark McKenney and Igor Crk | http://www.cs.siue.edu/~marmcke/docs/introToParallelism/index.html | No |
| Image Processing using PETSc (work in progress) | John Chrispell | https://bitbucket.org/jchrispe/imagepropetsc/ | No |
| Heat Diffusion in MPI (work in progress) | Louie Elliot | No | |
| Heat Diffusion in OpenCL (work in progress) | Amalan Iyengar | https://github.com/scrblnrd3/GPGPU-Diffusion | No |
| GalaxSee OpenCL (work in progress) | Amalan Iyengar | https://github.com/scrblnrd3/GalaxCL | No |
| OnRamp Interactive Learning Portal (work in progress) | Samantha S. Foley | https://github.com/ssfoley/onramp | No |
| Parallel Suffix Arrays (work in progress) | Ana Carmen Gonzalez | No | |
| Visualizing LAMMPS (work in progress) | Steve Harnish | No | |
| Parallel Matlab for Aerospace Engineering (work in progress) | M. Javed Khan and Bruce Heath | No | |
| Random numbers, C++, and Erlang (work in progress) | David Naugler | No | |
| Work-sharing TSP (work in progress) | David Valentine | No |
Developer Information
- Setting-up a BCCD development environment
- Development FAQ
- Testing the BCCD
- BCCD ISO Testing - Logs
- VirtualBox Test Environment
- Work Log
- Meeting Notes
- Software Build Notes
- Release Engineering
- PBS/Torque (job scheduler/resource manager)
- Automated Testing
- Jenkins
- Debugging the ASRock Boards - round 1
- Pragma-based accelerator support
- Tinkering with the ASUS Tinker Boards
Configuring and Customizing
- BCCD Bootup Modes
- Network Environment
- DNS Configuration
- Saving Stuff
- Customization Tips and Tricks
- Installing LAMMPS
- Capturing X11 Output
Tools and Clustering
- Compiling and Running MPI
- Debugging Tools
- Cluster Command Control (C3) tools
- High Performance Linpack (HPL) Benchmark
- CPU Monitor
Articles
- Referencing current, BCCDv3:
- Referencing classic, BCCDv2:
Feedback
Note: This is beta software, and should not even be interpreted as production-quality.
Miscellania
Licensing
The free stuff
BCCDv3, defined as the build, automation, and testing framework and other software contributed by the BCCD developers, is licensed under the GNU General Public License, version 3.
The core of BCCDv3 is based off Debian. All software packaged by Debian must meet the Debian Free Software Guidelines, which include licenses found here.
Some of the stacking filesystem support and hardware autodetection is based off KNOPPIX, which is licensed under the GNU General Public license, version 2.
The stacking filesystem the BCCD uses is AUFS, which is licensed under the GNU General Public license, version 2.
The non-free stuff
The basic software you need to use the BCCD is all freely available. Some of the software (all found in /bccd/software) is licensed solely for use inside the BCCD environment. The software in this category includes but is not limited to:
- intelcc (until v3.4.0)
- dreamm
- mcell
- PSC_DX
The authors of these software packages generously provide free licensing to the BCCD project to further our educational mission, so please be respectful and don't copy this software outside the BCCD.
Explanation
What does all this license legalese mean? In short, the BCCD is free and open-source for all, with the notable exceptions above. You may use it, modify, and redistribute yourself as long as all the license terms remain intact.
