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Expand Element Python scripts

The Python Macromolecular Library

... mmCIF, and PDB files, a library of atomic elements and monomers, an object-oriented data structure describing biological ... acids. Also included is a extensive monomer library, element library, and specialized classes for performing unit cell calculations combined with a full space group library. ...
Python

Deeply applying str across a data structure

... weird way when applied against lists: on each element of the list, the repr() is appended. In contrast, this module provides a deep_str() that deeply applies str() across lists. This module also provides utilities to develop custom str() functions. ...
Python

Sparse

'sparse' is a matrix class based on a dictionary to store data using 2-element tuples (i,j) as keys (i is the row and j the column index). The common matrix operations such as 'dot' for the inner product, multiplication/division by a scalar, indexing/slicing, etc. are overloaded for convenience.When used in conjunction ...
Python

Helement

This script is a HTML-element tree declaration that emits nice HTML. This is a straight-forward, free and fast HTML generator. No validation is done, so you can generate any HTML code, but depends on the browser if it will be accepted. ...
Python

XML Lexing

... to change a bunch of entity references or element names. Also, sometimes you have slightly incorrect XML that a traditional parser will choke on. In that case you want an XML lexer or "shallow parser". This script is a Python implementation. ...
Python

Weighted choice

... of cumulative vector (1-D numpy array) c. Each element of array returned is an integer from 0 through n-1, where n is the length of c. ...
Python

Implementation of sets using sorted lists

... a dictionary based implementation. - Flexibility -- elements do not need to be hashable, only __cmp__ ... get united, intersected, or differenced with only log(N) element comparisons.Results are built using fast-slicing. - Algorithms ... N log(N) comparisons. - Membership testing and element addition use log(N) comparisons. Element addition uses list.insert() ...
Python

DOM2ET

... which converts a DOM node object of type element to an ElementTree Element. ...
Python

ElementTree Text Helper

... for prose-oriented XML. It recursively pulls text out of elements and their sub-elements and extracts text from DocBook, XMHTL, and other nested XML markup. ...
Python

Support for the in operator

... "in" operator to the attributes map of minidom elements. When you parse XML using minidom, you can get a map of attributes for any element. The problem is that using the "in" operator on this map will raise an exception and this script will fix it.  ...
Python

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