Version 2 of the library includes SHACL support as well as various internal refactoring. Ontospy is an open source Python library and command line tool for working with vocabularies encoded in the RDF family of languages.
A couple of weeks ago I went to the excellent Move Or Perish—Scientific Trajectories, Inclusion, And Inequality, And Their Consequences For Transformative Science workshop in Vienna. While getting ready for it, I found myself asking some familiar questions. Who are the speakers? What is their background? How to best contextualise the topics being discussed?
Lately I've been spending more time creating Jupyter notebooks that demonstrate how to use the Dimensions API for research analytics. In this post I'll talk a little bit about two cool Python libraries I've recenlty discovered for working with graph data: pyvis and networkx.
Ever felt like softwares like Mendeley or Papers are great, but somehow slow you down? Ever felt like none of the many reference manager softwares out there will ever cut it for you, cause you need something R E A L L Y SIMPLE? I did. Many times. So I've finally crossed the line and tried out building a simple commmand-line PDF manager. PyPapers, is called.
For the last couple of months I've been working on a new open source Python project. This is called DimCli and it's a command-line library aimed at making it simpler to work with the Dimensions Analytics API.
blog Ontospy 1.9.8 released.
Ontospy version 1.9.8 has been just released and it contains tons of improvements and new features. Ontospy is a lightweight open-source Python library and command line tool for working with vocabularies encoded in the RDF family of languages.
blog Ontospy v. 1.6.7.
A new and improved version of OntoSpy (1.6.7) is available online. OntoSpy is a lightweight Python library and command line tool for inspecting and visualizing vocabularies encoded in the RDF family of languages.
A little script that allows to access the OS X Dictionary app using Python.
A little python script that allows to pass an article DOI in order to obtain all the metadata related to that article.
The Online Python Tutor is a Web-based program visualization for CS education, developed in collaboration with Google. It provides an easy-to-use online environment for writing code and testing it interactively. A great resource for teaching computer science concepts!
Recently I've been a little disappointed with Flickr, the popular online photo-sharing service. Photos gone missing, entire albums disappeared. Not really what you'd like to happen to your photo collection, especially when it's very large and therefore it's difficult to be always on top of what's there and what's not.. Time to change strategy: use flickr for sharing and my local HD for backup!
The Resource Description Framework (RDF) is a data model and language which is quickly gaining momentum in the open-data and data-integration worlds. In this post I'm reporting on a recent survey I made in the context of a Linked Data project I'm working on, SAILS. In SAILS we're developing a prototype for RDF-data manipulation and querying, but since the final application will be written in Python and Django, in what follows I tried to gather information about all the existing libraries and frameworks for doing RDF-programming using python.
The popular Python Imaging Library (PIL) adds image processing capabilities to your Python interpreter. This library supports many file formats and provides powerful image processing and graphics capabilities. I normally use Bitnami Djangostack for most of my Django development, which doesn't come with PIL installed by default so in this post I'm summing up what steps I've taken to get that up and running.
This post contains just a collection of various interesting things I ran into in the last couple of weeks... they're organized into three categories: pythonic links, events and conferences, and new online tools. Hope you'll find something of interest!
Django's admin framework includes the basic functionalities for logging in and out of the admin site, but if you're building a so-called 'social' application and want people to be able to sign-up, log in and thus benefit from additional site functionalities then you need to use a more generic 'registration' application. The good news is: most of the work has already been done, so it's just a matter of putting things together correctly.
I've never realized that among the many things Textmate does well there's also python debugging. Well, to be precise Textmate doesn't do much as it just relies on python's default debugger, called PDB. Ok, probably PDB isn't the cutting edge debugger you're looking for, but it's worth a try imho.
I'll be working in Osaka for three months on ontologizing a couple of datasets with the help of Riichiro Mizoguchi. This means that I'll have enough time to revise various notions about ontology engineering during this period. Here's a first and fundamental one, regarding the difference between ontologies and data models:
UPDATE 30/03/1: Just realized that unfortunately pyglet doesn't play well with the latest 64bit architecture of oSX. A real shame, as this obviously breaks Pyglet's famed run-anywhere feature. There are reasons to think that the next version will fix this problem (check out this thread for more info).. but for the moment, I guess that the only alternative is falling back to PyOpenGl. UPDATE 14/12/09: pyProcessing is a project building on pyglet that that creates an environment for graphics applications that closely resembles that of the Processing system. Quite neat uh?
Yolk is a Python tool for obtaining information about packages installed by distutils, setuptools and easy_install and querying packages on PyPI (Python Package Index a.k.a. The Cheese Shop).
PyGraphviz is a Python interface to the Graphviz graph layout and visualization package. With PyGraphviz you can create, edit, read, write, and draw graphs using Python to access the Graphviz graph data structure and layout algorithms.
UPDATE 30/12/09 : Snow Leopard and most recent versions of MySQL-python have broken the recipe below: you'd better check this blog post for an updated version (it worked for me). In a nutshell, the new method involves using the Macports installation if you're on Leopard, or specifying your 64-bit architecture during the compile process if you're on Snow Leopard... but if you're still getting errors, there's nothing else to do than invoking the almighty google for help . .
While continuing the interminable search for the ideal python editor, I run into three really useful libraries for scraping information off webpages:
Sometimes you end up testing out things a lot using the handy django shell, but every time you've got to repeat the same commands to load all the necessary models, utils etc. etc.
I have a long and nested lists of parameters to throw out with a django template, but the visualization routine in the template processes them better if the parameters are ordered two by two. So I was trying to put together a simple function for reordering the original list accordingly. This is what I came up with:
blog Installing RDFlib on osX.
RDFlib is a Python library for working with RDF, a simple yet powerful language for representing information.
blog Offline django docs.
An offline copy of the django docs can be quite helpful if you find yourself doing development work without an internet connection. Obviously, django comes with its docs that you can generate (provided you have Sphinx and build tools). However sometimes a pdf is the handiest solution... here're some useful links I found: Docs in CHM and PDF formats: http://charupload.wordpress.com/2007/12/02/django-documentation-chm/
blog GAE SQL Designer.
GAE SQL designer is a simple app that allows you to Draw E-R designs, Edit tables and rows, Manage keys, Create relations (FK constraints), Save & Load designs and Import DB schemas. Finally - it's online and it's free!
Some people have legitimate reasons for wanting to install IDLE on Leopard. E.g., even though Leopard's Xcode 3.0 (and later) supports Python development, it does so in a heavyweight, support-all-of-Cocoa fashion. And educators teaching Python who wish to do so in a platform-agnostic way may also be best served by IDLE.
One of the reasons that kept me away (sigh) from TextMate is the lack of autocompletion support.. especially in Python. Seems like those days have ended - I just downloaded and installed Pysmell, and it works great!!!
Finding the perfect IDE for a programming language is always an ongoing process - even more if your language is python - i've been happily using eclipse/pydev for a while now, but recently i run into KomodoEdit and I liked it. Mostly, cause it's lightweight and it's built with a 'snippet-oriented' philosophy (something like textmate).
Easy Install is a python module bundled with setuptools that lets you automatically download, build, install, and manage Python packages. That is to say - super easy installation of a long list of Python modules.
blog Python's phenotype.
Phenotype: any observable characteristic or trait of an organism: such as its morphology, development, biochemical or physiological properties, or behavior.