h5py.org

pyfr.org

PyFR

http://www.pyfr.org/user_guide.php

PyFR can be obtained here. PyFR 1.4.0 has a hard dependency on Python 3.3 and the following Python packages:. Note that due to a bug in numpy. PyFR is not compatible with 32-bit Python distributions. The CUDA backend targets NVIDIA GPUs with a compute capability of 2.0 or greater. The backend requires:. The MIC backend targets Intel Xeon Phi co-processors. The backend requires:. ICC = 14.0. Intel MKL = 11.1. Intel MPSS = 3.3. 07 (post commit 4d8a2da). GCC = 4.7. 33 (develop branch post commit e0faea6).

docs.geppetto.org

Recordings for dev — Geppetto 0.3.2 documentation

http://docs.geppetto.org/en/latest/recordingandreplaying.html

Looking at a recording. A recording stores all the raw data of your simulation run. In Geppetto, a recording is simply a file in the popular binary data format HDF5. Furthermore, we developed some handy tools to create Geppetto recordings from NEURON and Brian simulations. Just replay these in Geppetto, and couple your existing models with any other simulations that runs in Geppetto. Looking at a recording. A convenient way to look (as well as edit) a recording is HDFView. Is the base class to create a r...

github.com

ds/README.md at master · brnstz/ds · GitHub

https://github.com/brnstz/ds/blob/master/README.md

Cannot retrieve contributors at this time. 129 lines (92 sloc). Data Science final project. April 30, 2014. Http:/ cluster.brnstz.com/. Music recommendation services can be skewed to recommend songs in a similar genre or time period. Some listeners may want recommendations that span different genres. By analyzing common words in the lyrics of songs, we can find clusters of music that are orthogonal to genre, but may still fit the listener's mood or overall musical taste. To focus on creating a non-tradit...

vessokolev.blogspot.com

Vesselin Kolev's Tech Corner

https://vessokolev.blogspot.com/2016/08/speeding-up-your-scientific-python-code.html

Vesselin Kolev's Tech Corner. Tuesday, 2 August 2016. Speeding up your scientific Python code on CentOS and Scientific Linux by using Intel Compilers. 2 Installing the rpm packages needed during the compilation process. 3 Create an unprivileged user to run the compilation process. 4 Create folder for installing the compiled packages. 5 Settting the Intel Compilers environmental variables. 6 Compiling and installing SQLite library. 7 Compiling and installing Python 2.7. 10 Compiling and installing Cython.

naima.readthedocs.io

Installation — naima v0.8

http://naima.readthedocs.io/en/latest/installation.html

Naima requires Python 2.7, 3.4, or 3.5 and the following packages to be installed: Numpy. These will be installed automatically if you follow one of the installation methods below. All of the above packages are available in a typical scientific python installation (or in all-in-one Python installations such as the Anaconda Python Distribution. Or can be installed through. The Anaconda python distribution. Conda config - add channels astropy $ conda install naima. Conda update - all. That is not a problem...

alimanfoo.github.io

Introducing scikit-allel

http://alimanfoo.github.io/2015/09/15/introducing-scikit-allel.html

Sep 15, 2015. My work involves the analysis of genetic variation from next-generation sequencing experiments. After running the sequence data through some variant calling pipeline like GATK. I end up with a data set containing genotype calls for millions variants (SNPs, INDELS, etc.) on hundreds (soon to be thousands) of individuals. I study the malaria-carrying mosquito. But the principles are similar no matter what organism you’re working on. Second, you want to avoid context-switching. That means ...

alimanfoo.github.io

To HDF5 and beyond

http://alimanfoo.github.io/2016/04/14/to-hdf5-and-beyond.html

To HDF5 and beyond. Apr 14, 2016. This post contains some notes about three Python libraries for working with numerical data too large to fit into main memory: h5py. 2016-05-18: Updated to use the new 1.0.0 release of Zarr. When I first discovered the HDF5 file format. A few years ago it was pretty transformative. I’d been struggling to find efficient ways of exploring and analysing data coming from our research. A bit later on I discovered the Bcolz. Reading and writing data to a. Array([ 0, 1, 2, ....

holoviews.org

Introduction — HoloViews

http://holoviews.org/Tutorials/Introduction.html

This tutorial explains the basics of how to use HoloViews to explore your data. If this is your first contact with HoloViews, you may want to start by looking at our showcase. To get a good idea of what can be achieved with HoloViews. If this introduction does not cover the type of visualizations you need, you should check out our Elements. Components to see what else is available. HoloViews is also not primarily a mass storage or archival data format like HDF5. It will be displayed as an image with a co...