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* [http://www.itk.org/ ITK] - Insight Segmentation and Registration Toolkit - software system to support the [http://www.nlm.nih.gov/research/visible/visible_human.html Visible Human Project] | * [http://www.itk.org/ ITK] - Insight Segmentation and Registration Toolkit - software system to support the [http://www.nlm.nih.gov/research/visible/visible_human.html Visible Human Project] | ||
* [http://www.sagemath.org SAGE] Mathematica-like open source mathematics software ([[SIGs/SciTech/SAGE| SAGE packaging discussion]] ) | * [http://www.sagemath.org SAGE] Mathematica-like open source mathematics software ([[SIGs/SciTech/SAGE| SAGE packaging discussion]] ) | ||
* [http://www.math.pitt.edu/~bard/xpp/xpp.html XPP] - A tool for solving differential equations - Jason Tibbitts has a working package, but the program has such a poor interface that it may not be worth adding to the distro | * [http://www.math.pitt.edu/~bard/xpp/xpp.html XPP] - A tool for solving differential equations - Jason Tibbitts has a working package, but the program has such a poor interface that it may not be worth adding to the distro | ||
* [http://www.neuron.yale.edu/neuron/ Neuron] - A simulator of neurons and networks, useful for computational biology. Packages are available upstream; shouldn't be terribly hard to package properly but requires a truly ancient user interface toolkit. | * [http://www.neuron.yale.edu/neuron/ Neuron] - A simulator of neurons and networks, useful for computational biology. Packages are available upstream; shouldn't be terribly hard to package properly but requires a truly ancient user interface toolkit. |
Revision as of 11:32, 8 March 2009
Fedora Science and Technology SIG
Mission
The purpose of the Fedora Science and Technology SIG is to improve the number and quality of packages available for scientific and technical users.
Packagers/Reviewers/People interested
- EdHill
- JasonTibbitts
- DejiAkingunola
- GerardMilmeister
- OrionPoplawski
- QuentinSpencer
- ChitleshGoorah
- Dominik Mierzejewski
- JoseMatos
- RexDieter
- PeterLemenkov
- PatriceDumas
- FabianAffolter
- SergioPascual
- Alex Lancaster
- MarekMahut
- StuartCampbell
- Kevin Kofler
- PierreYvesChibon
- ChristianIseli
- EricTanguy
- Jerry James
- NicolaSoranzo
- SantoshKumar
- Adam Huffman
- Michael Ughetto
- Jussi Lehtola
Documentation
- UsingMultipleMPIs - How to use lam and openmpi on the same system.
Packages awaiting review
- MPICH2: #171993
- PyQuante - Python Quantum Chemistry #468579
- ROOT - High energy physics data analysis package #451744
- Trilinos - Collection of packages that support parallel linear algebra computations, solution of linear, non-linear and eigen systems of equations and related capabilities. #453703
- latex2rtf - Tool to convert LaTeX documents into RTF #469569
- open64 - The Open64 compiler collection #470830
- pypar - Parallel programming with Python #487521
- Gri - GRI scientific plotting language #484386
- STXXL - STXXL extra large C++ Standard Template Library implementation #474787
- scilab - Scilab numerical computing and data processing environment #472639
Potential Packages
- Asana Math font
- GAP - Computer algebra system - JasonTibbitts has a working and up-to-date GAP package, but it needs significant cleanup before it has a chance of passing review.
- Ideas of packages for bioinformatics base on bio-linux.
- ITK - Insight Segmentation and Registration Toolkit - software system to support the Visible Human Project
- SAGE Mathematica-like open source mathematics software ( SAGE packaging discussion )
- XPP - A tool for solving differential equations - Jason Tibbitts has a working package, but the program has such a poor interface that it may not be worth adding to the distro
- Neuron - A simulator of neurons and networks, useful for computational biology. Packages are available upstream; shouldn't be terribly hard to package properly but requires a truly ancient user interface toolkit.
Bioinformatics WishList
Available Packages
List of applications we will NOT package
- Non-commercial clauses in applications licenses render them invalid for inclusion into Fedora Package Collection. Such apps are not Free and open source software and violates Clause 6 of the OSI definition. See an example of such clause:
This software may be copied and distributed for educational, research, and not for profit purposes provided that this copyright and statement are included in all such copies. Other copyrights may also apply.
Name | Description | Why it won't be packaged |
VMD | Molecular Visualization and Analysis Package | Non-Free license |
fasta2 and fasta3 | The FASTA programs find regions of local or global (new) similarity between Protein or DNA sequences | License contains non-commercial clause |
foo | bar app | patented |
Ideas/Proposals
- SAGE packaging discussion
- MPI work:
- Use environment-modules to improve the "MPI alternatives" situation -- please see the proposal at the bottom of EdHill
Pages in category "SciTech SIG"
The following 9 pages are in this category, out of 9 total.