text stringlengths 12 1.05M | repo_name stringlengths 5 86 | path stringlengths 4 191 | language stringclasses 1
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values | size int32 12 1.05M | keyword listlengths 1 23 | text_hash stringlengths 64 64 |
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"""
General helper functions that don't fit neatly under any given category.
They provide some useful string and conversion methods that might
be of use when designing your own game.
"""
import os
import sys
import imp
import types
import math
import re
import textwrap
import datetime
import random
import traceback
... | GhostshipSoftware/avaloria | src/utils/utils.py | Python | bsd-3-clause | 37,662 | [
"VisIt"
] | 5a20bdc5149cb305b3a5b85d63db803402b770a8a50ad489b690ea856a10d289 |
#!/usr/bin/python
# -*- coding: utf8 -*-
#
# electrode: numeric tools for Paul traps
#
# Copyright (C) 2011-2012 Robert Jordens <jordens@phys.ethz.ch>
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Soft... | nist-ionstorage/electrode | setup.py | Python | gpl-3.0 | 3,968 | [
"Mayavi"
] | 62c3cc3334fa957f095008eaa3d1714daccb0bf73c56029714c6382f502fe942 |
# encoding: utf-8
"""
System command aliases.
Authors:
* Fernando Perez
* Brian Granger
"""
#-----------------------------------------------------------------------------
# Copyright (C) 2008-2011 The IPython Development Team
#
# Distributed under the terms of the BSD License.
#
# The full license is in the file... | vicky2135/lucious | oscar/lib/python2.7/site-packages/IPython/core/alias.py | Python | bsd-3-clause | 9,981 | [
"Brian"
] | feebc0eb2103f3a795eec296ad72300aa1bcb7c4ace6e2af8adbd32524281caf |
"""Tests for options manager for :class:`Poly` and public API functions. """
from sympy.polys.polyoptions import (
Options, Expand, Gens, Wrt, Sort, Order, Field, Greedy, Domain,
Split, Gaussian, Extension, Modulus, Symmetric, Strict, Auto,
Frac, Formal, Polys, Include, All, Gen, Symbols, Method)
from sym... | wolfram74/numerical_methods_iserles_notes | venv/lib/python2.7/site-packages/sympy/polys/tests/test_polyoptions.py | Python | mit | 11,998 | [
"Gaussian"
] | 5f92584b5fdf70b2952306199b6c3db7675d60a5ed17e06284af280b852a2f20 |
import os
import re
import errno
def colorText(string, color, **kwargs):
"""
A function for coloring text.
Args:
string[str]: The string to color.
color[str]: The color to use (see color_codes variable).
Kwargs:
html[bool]: If true html colored text is returned.
colored[bool]: When fa... | katyhuff/moose | python/utils/utils.py | Python | lgpl-2.1 | 4,158 | [
"MOOSE"
] | 0d6529ed1c23838064d76882a324b3f2d596c0d63a27045ce9cee9fdfc0d8790 |
# Copyright 2008-2015 Nokia Solutions and Networks
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable l... | caio2k/RIDE | src/robotide/lib/robot/reporting/resultwriter.py | Python | apache-2.0 | 5,933 | [
"VisIt"
] | 5a181d7fe502cae1ab597c232172ebbfda8ac611aad97b3633d758ab2400dc32 |
"""
Processes for Weather Classification
Author: Nils Hempelmann (nils.hempelmann@lsce.ipsl.fr)
"""
from flyingpigeon.datafetch import _PRESSUREDATA_
from flyingpigeon.weatherregimes import _TIMEREGIONS_
from pywps.Process import WPSProcess
from flyingpigeon.log import init_process_logger
# from datetime import dat... | KatiRG/flyingpigeon | flyingpigeon/processes/wps_weatherregimes_reanalyse.py | Python | apache-2.0 | 12,405 | [
"NetCDF"
] | b5b840926c4e249c3fed51187df76dc162bf1892b633525551ad3b47f668a46f |
#!/usr/bin/env python
##
## @file echo_sedml.py
## @brief Echos (and prints) a NuML data.
## @author Joseph O. Dada
##
## <!--------------------------------------------------------------------------
## This file is part of libNUML. Please visit http://numl.org for more
## information about NUML, and the latest... | TheCoSMoCompany/biopredyn | Prototype/src/libnuml-1.0.1/examples/python/echoNUML.py | Python | bsd-3-clause | 874 | [
"VisIt"
] | e553c37ca79dc5ba8fe4d687eb55a6327bcefb6486b1306a6e8c593f0b5d6e28 |
# -*- coding: utf-8 -*-
#
# Copyright (c) 2017, the cclib development team
#
# This file is part of cclib (http://cclib.github.io) and is distributed under
# the terms of the BSD 3-Clause License.
"""Tools for skipping data tests in cclib."""
def skipForParser(parser, msg):
"""Return a decorator that skips the t... | gaursagar/cclib | test/data/skip.py | Python | bsd-3-clause | 1,034 | [
"cclib"
] | b1fda3e3871a1be7335d049324a9bfeafa9c09bad1f5d5b5b1c63faf7ca989ba |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2002-2007 Donald N. Allingham
# Copyright (C) 2007-2008 Brian G. Matherly
# Copyright (C) 2011 Tim G L Lyons
# Copyright (C) 2011 Doug Blank <doug.blank@gmail.com>
#
# This program is free software; you can redistribute it and/or modify
... | beernarrd/gramps | gramps/gen/filters/rules/person/__init__.py | Python | gpl-2.0 | 6,905 | [
"Brian"
] | 9e23472b3c89267f070488949ebeaab20c7026ad9f40d7885c16ba637e7a65fa |
'''
dsift.py: this function implements some basic functions that
does dense sift feature extraction.
The descriptors are defined in a similar way to the one used in
Svetlana Lazebnik's Matlab implementation, which could be found
at:
http://www.cs.unc.edu/~lazebnik/
Yangqing Jia, jiayq@eecs.berkeley.edu
'''
import num... | eokeeffe/uav_photogrammetry-toolkit | feature_detection/SIFT/DenseSIFT/dsift.py | Python | gpl-2.0 | 7,766 | [
"Gaussian"
] | ffb167c3964e9587ec5ccd1f4ba5f0ed0cf254cd80142f0f6ce7efb3d64fd19e |
#-*- coding:utf-8 -*-
#
# graph_connectivity.py
#
# This file is part of the NNGT project to generate and analyze
# neuronal networks and their activity.
# Copyright (C) 2015-2019 Tanguy Fardet
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public Licen... | Silmathoron/NNGT | nngt/generation/graph_connectivity.py | Python | gpl-3.0 | 43,043 | [
"Gaussian",
"NEURON"
] | 5f803820d046d166b257ae5636d51e78416c33d6613ba0b22ea598e79ba6e4ff |
import numpy as np
try:
from simtk.openmm import app
from simtk import openmm as mm
from simtk import unit
except ModuleNotFoundError:
print("OpenMM is not installed!")
from pysisyphus.constants import BOHR2ANG
from pysisyphus.calculators.Calculator import Calculator
class OpenMM(Calculator):
de... | eljost/pysisyphus | pysisyphus/calculators/OpenMM.py | Python | gpl-3.0 | 3,169 | [
"OpenMM"
] | 589bcc23d13f31ac1b309a9249592d13280aa67d268eb1baaf1129bac34f1e4e |
'''
This module performs a few early syntax check on the input AST.
It checks the conformance of the input code to Pythran specific
constraints.
'''
from pythran.tables import MODULES
from pythran.intrinsic import Class
from pythran.typing import Tuple, List, Set, Dict
from pythran.utils import isstr
import beniget
i... | serge-sans-paille/pythran | pythran/syntax.py | Python | bsd-3-clause | 10,966 | [
"VisIt"
] | 2ccb4bb4146e812311f305cdb99a35cbb3fb11c0f3e77db106c333a29cbef4c8 |
# Copyright 2018 TVB-HPC contributors
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicab... | the-virtual-brain/tvb-hpc | tvb_hpc/compiler.py | Python | apache-2.0 | 8,183 | [
"VisIt"
] | 50ffccc83ec3a902fc85fca27f7c3406f234f8c92d20b2336005bf07369884d5 |
import numpy as np
import scipy.spatial.distance as dist
from matplotlib.backends.backend_pdf import PdfPages
import matplotlib.pyplot as plt
import matplotlib.lines as mplines
import scipy.cluster.hierarchy as clust
import os
def kabsch(coord, ref,app):
C = np.dot(np.transpose(coord), ref)
V, S, W = np.linalg.svd(C... | jEschweiler/Urease | urease_software/cluster.py | Python | gpl-3.0 | 5,877 | [
"PyMOL"
] | 3cce1e5ee3211b46fdfc2b3ef9c827342db3ee3c1283f16521082c7665bb3f82 |
"""
GenBank format (:mod:`skbio.io.format.genbank`)
===============================================
.. currentmodule:: skbio.io.format.genbank
GenBank format (GenBank Flat File Format) stores sequence and its annotation
together. The start of the annotation section is marked by a line beginning
with the word "LOCUS".... | anderspitman/scikit-bio | skbio/io/format/genbank.py | Python | bsd-3-clause | 28,337 | [
"scikit-bio"
] | f95f1ea9a7c794435bae7b90540e3c750a87f4586b37ade0bc58da58f746fdae |
# Licensed under a 3-clause BSD style license - see LICENSE.rst
"""
Tests that relate to evaluating models with quantity parameters
"""
from __future__ import (absolute_import, unicode_literals, division,
print_function)
import numpy as np
from numpy.testing import assert_allclose
from ..co... | kelle/astropy | astropy/modeling/tests/test_quantities_evaluation.py | Python | bsd-3-clause | 6,719 | [
"Gaussian"
] | 562d78b81ecc4863a3a8a88291abdc05ade2eb18cb3414a5a3748f77fc66ed16 |
# ----------------------------------------------------------------------------
# Copyright (c) 2013--, scikit-bio development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file COPYING.txt, distributed with this software.
# --------------------------------------------... | anderspitman/scikit-bio | skbio/io/format/tests/test_ordination.py | Python | bsd-3-clause | 11,706 | [
"scikit-bio"
] | 5043e3b1b1544d6f5a3068a625cfb4e5e0397bf62adac3825faac3fab8d4a3a6 |
#!/usr/bin/env python
#pylint: disable=missing-docstring
#################################################################
# DO NOT MODIFY THIS HEADER #
# MOOSE - Multiphysics Object Oriented Simulation Environment #
# #... | liuwenf/moose | python/chigger/tests/contours/block_elem.py | Python | lgpl-2.1 | 1,435 | [
"MOOSE",
"VTK"
] | 6ce4ba26274acc8b6dccd798c2fe50d552cc33c41e2025bf2f1339f4f41c0200 |
# License: BSD 3 clause
import numpy as np
def std_mad(x):
"""Robust estimation of the standard deviation, based on the Corrected Median
Absolute Deviation (MAD) of x.
This computes the MAD of x, and applies the Gaussian distribution
correction, making it a consistent estimator of the standard-deviat... | X-DataInitiative/tick | tick/robust/robust.py | Python | bsd-3-clause | 1,329 | [
"Gaussian"
] | 7b26da661d90c732093ab2d06c21e7fb8f535e2782854bc6d4d3bf55725979cf |
# -*- coding: utf-8 -*-
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2003-2007 Donald N. Allingham
# Copyright (C) 2008 Brian G. Matherly
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Fr... | arunkgupta/gramps | gramps/plugins/rel/rel_sk.py | Python | gpl-2.0 | 24,755 | [
"Brian"
] | f81df0783a26bf4777ffbb2684322cfea0080027a000a2dd35a55eb6528bab09 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import unicode_literals
import unittest
import os
import numpy as np
from pymatgen import Structure
from pymatgen.io.feff.inputs import Atoms, Header, Tags, Potential, Paths
from pymatgen.io... | matk86/pymatgen | pymatgen/io/feff/tests/test_inputs.py | Python | mit | 13,286 | [
"FEFF",
"pymatgen"
] | 3a88a9c93284581353ef575588ac219fa8598fcd327a3bdf0342bcdbff0746e2 |
# -*- coding: utf-8 -*-
"""
ambari_jinja2.visitor
~~~~~~~~~~~~~~
This module implements a visitor for the nodes.
:copyright: (c) 2010 by the Jinja Team.
:license: BSD.
"""
from ambari_jinja2.nodes import Node
class NodeVisitor(object):
"""Walks the abstract syntax tree and call visitor funct... | arenadata/ambari | ambari-common/src/main/python/ambari_jinja2/ambari_jinja2/visitor.py | Python | apache-2.0 | 3,330 | [
"VisIt"
] | c6beffbc387ae785373ef09c68ff273a9483ec3aeed32c66b2c14c69ad51067a |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2007 Donald N. Allingham
# Copyright (C) 2009 Brian G. Matherly
# Copyright (C) 2009 Gary Burton
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as publis... | prculley/gramps | gramps/gui/dbman.py | Python | gpl-2.0 | 45,685 | [
"Brian"
] | 878b673b0c8ff4a217d9bf461671223bbd5506ba905eed47f5f8bb3bccecc3de |
"""
RMSMonitoring type is used to monitor behaviour pattern of requests executed by RequestManagementSystem
inside DataManagementSystem/Agent/RequestOperations.
Understanding the key fields:
'objectType': This field describes the type of object which can be Request, Operation, or File.
'operationType': This field cont... | ic-hep/DIRAC | src/DIRAC/MonitoringSystem/Client/Types/RMSMonitoring.py | Python | gpl-3.0 | 2,063 | [
"DIRAC"
] | aeb1c8a5813e6e2e74e8a7cb0d4756ae6596e79dd9b176c9d930fc06cc38dc1f |
__author__ = 'Thomas Rueckstiess, ruecksti@in.tum.de; Christian Osendorfer, osendorf@in.tum.de'
from scipy import r_, exp, zeros, eye, array, asarray, random, ravel, diag, sqrt, sin, cos, sort, mgrid, dot, floor
from scipy import c_ #@UnusedImport
from scipy.linalg import solve, inv
from pybrain.datasets import Super... | daanwierstra/pybrain | pybrain/auxiliary/gaussprocess.py | Python | bsd-3-clause | 9,397 | [
"Gaussian"
] | ca709ace24b5d963722e3ff39e53cb5809adc870edccf506e75623054907ee7b |
from django.db import models
class Visit(models.Model):
when = models.DateTimeField(auto_now_add=True, db_index=True)
project = models.CharField(max_length=255, db_index=True)
slug = models.CharField(max_length=255, db_index=True)
retval = models.TextField(null=True, blank=True)
| yetizzz/zzz | src/analytics/models.py | Python | bsd-2-clause | 298 | [
"VisIt"
] | d3cf3d9e86462021e97c46b94f714e625152939e4c890821cf381cb5c394da13 |
import cPickle
import os
import gzip
import matplotlib.pyplot as plt
import pylab
import numpy as np
#### Libraries
# Standard library
import gzip
import pylab
# Third-party libraries
import numpy as np
weights=[]
biases=[]
outs=[]
costs=[]
def mvectorized_result(j,classifications):
"""Return a classifications-... | ak4778/neural-network | test_neural_network.py | Python | bsd-3-clause | 13,434 | [
"Gaussian",
"NEURON"
] | c66762754325024238cb32cec6f5d9f6d26326b7540559d0e4a8a8b99cd696dd |
import pytest
from stellar_sdk import Keypair, StrKey
from stellar_sdk.exceptions import (
AttributeError,
BadSignatureError,
Ed25519PublicKeyInvalidError,
Ed25519SecretSeedInvalidError,
MissingEd25519SecretSeedError,
)
from stellar_sdk.sep.mnemonic import Language
class TestKeypair:
def test... | StellarCN/py-stellar-base | tests/test_keypair.py | Python | apache-2.0 | 23,819 | [
"BLAST"
] | d2517f76dcd45d4dbb4b84b3d4dbdcd97dc621c3583adff26e7bfdb8e535dd52 |
"""
Pyicoteo is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY... | RegulatoryGenomicsUPF/pyicoteo | pyicoteolib/enrichment.py | Python | gpl-3.0 | 40,209 | [
"Galaxy"
] | cea9f6b3448b2e20cc5a3eba43ea65653afd1cd0492a2b3bd277b6b66fc53fea |
#
# AUTHORS:
# Hakan Ozadam
#
# Moore Laboratory
# UMASS Medical School / HHMI
# RNA Therapeutics Institute
# Albert Sherman Center, ASC4-1009
# 368 Plantation Street
# Worcester, MA 01605
# USA
#
#################################################################
... | hakanozadam/bal | bal/core/find_mismatch_positions.py | Python | gpl-2.0 | 10,336 | [
"pysam"
] | babf4d19dbe97fe903b7fca07010e0343e685bc04a502244a3224a2d315da45c |
# -*- coding: utf-8 -*-
# python-holidays
# ---------------
# A fast, efficient Python library for generating country, province and state
# specific sets of holidays on the fly. It aims to make determining whether a
# specific date is a holiday as fast and flexible as possible.
#
# Author: ryanss <ryanssdev@icl... | linuxsoftware/python-holidays | holidays.py | Python | mit | 85,487 | [
"COLUMBUS"
] | 2c63afd56df6c7c86f89589a711ffb80d1d37013a73ed5c1df076912bd983d6e |
"""K-means clustering"""
# Authors: Gael Varoquaux <gael.varoquaux@normalesup.org>
# Thomas Rueckstiess <ruecksti@in.tum.de>
# James Bergstra <james.bergstra@umontreal.ca>
# Jan Schlueter <scikit-learn@jan-schlueter.de>
# Nelle Varoquaux
# Peter Prettenhofer <peter.prettenh... | thilbern/scikit-learn | sklearn/cluster/k_means_.py | Python | bsd-3-clause | 54,077 | [
"Gaussian"
] | 4e910b147215a88ed4bf77712da660b4b1c9f26e4c1ec0b100b06be4a7eebca8 |
#!/usr/bin/env python
# test_cursor.py - unit test for cursor attributes
#
# Copyright (C) 2010-2011 Daniele Varrazzo <daniele.varrazzo@gmail.com>
#
# psycopg2 is free software: you can redistribute it and/or modify it
# under the terms of the GNU Lesser General Public License as published
# by the Free Software Foun... | zzeleznick/zDjango | venv/lib/python2.7/site-packages/psycopg2/tests/test_cursor.py | Python | mit | 15,878 | [
"GULP"
] | 6c4d33f906030c2d6be1b71a7ee1bcad1ad229bde0cb7fd98154ef073b92ba8d |
import h5py
import matplotlib
matplotlib.use('GTKAgg') # Change this as desired.
import gobject
from pylab import *
### from enthought.mayavi import mlab # Uncomment for Linux
### from enthought.mayavi.sources.array_source import ArraySource # Uncomment for Linux
from mayavi import mlab # For OSX
# if len(sys.argv) ... | xancandal/hdf5-heat | heat.h5-3D.py | Python | gpl-3.0 | 1,593 | [
"Mayavi"
] | 49d0d617a67a1cf6328a4a7ada4340e336c3f301ec7368dc5fc9b229582bd94c |
from ase.optimize import BFGS
from ase.io import read, write
from ase.calculators.emt import EMT
from ase.ga.relax_attaches import VariansBreak
from ase.ga.atoms_attach import enable_raw_score_methods
import sys
fname = sys.argv[1]
print('Now relaxing {}'.format(fname))
a = read(fname)
a.set_calculator(EMT())
dyn =... | askhl/ase | doc/tutorials/ga/ga_basic_calc.py | Python | gpl-2.0 | 576 | [
"ASE"
] | cce62fce5bc01d41f60de841872e5a29ee07c250285c53ad6fc74e2b4fa89796 |
"""
BaseFormatter
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
__RCSID__ = "$Id$"
import logging
import sys
class BaseFormatter(logging.Formatter):
"""
BaseFormatter is used to format log record to create a string representing a DIRAC log m... | ic-hep/DIRAC | src/DIRAC/FrameworkSystem/private/standardLogging/Formatter/BaseFormatter.py | Python | gpl-3.0 | 2,732 | [
"DIRAC"
] | e9f06b4ddb6517d5b180a0572421bb84918f6ea21c10bec660d636e135cf716e |
# Copyright 2015 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | anilmuthineni/tensorflow | tensorflow/tools/common/public_api.py | Python | apache-2.0 | 2,990 | [
"VisIt"
] | f59e0052093091464abe016cf5d7dcddf331293e41af2d5f30c6678c03bb6358 |
import numpy as np
def hessian(im_input, sigma):
"""
Calculates hessian of image I convolved with a gaussian kernel with
covariance C = [Sigma^2 0; 0 Sigma^2].
Parameters
----------
im_input : array_like
M x N grayscale image.
sigma : double
standard deviation of gaussian ... | DigitalSlideArchive/HistomicsTK | histomicstk/utils/hessian.py | Python | apache-2.0 | 1,287 | [
"Gaussian"
] | a3e8c242f75f8c0df8d9d711714a574997ba794f15d538d0c4ce3b70438a64b5 |
"""
Sqlalchemy models for magma result database
"""
import json
from sqlalchemy import Column
from sqlalchemy import Integer
from sqlalchemy import String
from sqlalchemy import Float
from sqlalchemy import Boolean
from sqlalchemy import ForeignKey
from sqlalchemy import TypeDecorator
from sqlalchemy.ext.declarative i... | NLeSC/MAGMa | web/magmaweb/models.py | Python | apache-2.0 | 10,663 | [
"Dalton"
] | 13b0406f0c61882424862688375331772d71cb51bd2536ea76517395a212762e |
from __future__ import print_function
import pyspeckit
import numpy as np
# Grab a .fits spectrum with a legitimate header
sp = pyspeckit.Spectrum('G031.947+00.076_nh3_11_Tastar.fits')
""" HEADER:
SIMPLE = T / Written by IDL: Tue Aug 31 18:17:01 2010
BITPIX = -64
NAXIS = 1 / ... | allisony/pyspeckit | examples/ammonia_fit_example.py | Python | mit | 3,535 | [
"Gaussian"
] | 5e3e9b4958f5b9eae19c52b06466e627dcabf30c093f0db7eab5836dd509f5ec |
#!/usr/bin/python
from os import environ as env
import os
import subprocess
from sys import argv
model_to_file = {
"KrakowSFO": "krakow.ini",
"BlastWave": "blastwave.ini",
"BWAVT": "bwa.ini",
"BWAVTDelay": "bwa.ini",
"BWAVLinear": "bwa.ini",
"BWAVLinearDelay": "bwa.ini",
"BWAVLinearFormati... | victor-gonzalez/AliPhysics | PWG/MCLEGO/Therminator2/apply_custom_config.py | Python | bsd-3-clause | 3,526 | [
"BWA"
] | 2a40bc1f8dadec9b5a108ff41050d76357c8de4572477c9aea248f3565a1da67 |
"""
Target Setup GUI
The Target Setup GUI is used to interact with the GPS algorithm before training.
It contains the below four functionalities:
Action Panel contains buttons for:
- switching target numbers,
- switching actuator types
... | alexlee-gk/visual_dynamics | visual_dynamics/gui/target_setup_gui.py | Python | mit | 16,392 | [
"VisIt"
] | f06cccae5e8ff300cf791681472181055408619b3425b1414017ca4b02d9bad4 |
#Mike Aubry (w/ true credit going to Sebastian Morales and Brian Ekins)
#Description - This Fusion 360 Script allows you to create a construction point where the center of mass is for
# the top level component. This is especially useful for balancing applications.
import adsk.core, adsk.fusion, adsk.cam, traceback
ap... | MichaelAubry/Fusion360 | CenterOfMassPoint.py | Python | mit | 3,750 | [
"Brian"
] | eb304da007326713a4cb36035bd268d422225645687eb28fbd8dd7d19240d98d |
from django.conf import settings
from django.contrib.contenttypes import generic
from django.contrib.contenttypes.models import ContentType
from django.core.urlresolvers import reverse
from django.db import models
from django.db.models.base import ModelBase
from django_facebook import model_managers, settings as ... | fogcitymarathoner/djfb | facebook_example/django_facebook/models.py | Python | bsd-3-clause | 18,518 | [
"VisIt"
] | cd214d33596b0c38dd24651ed5b528b85fce587aef503b390f7317519118f0b8 |
"""Example creating minimal model.
This demonstrates just the very core SBML functionality.
"""
from pathlib import Path
from sbmlutils import EXAMPLES_DIR
from sbmlutils.cytoscape import visualize_sbml
from sbmlutils.factory import *
model_minimal = Model(
sid="minimal_model",
packages=["fbc"],
compart... | matthiaskoenig/sbmlutils | src/sbmlutils/examples/minimal_model.py | Python | lgpl-3.0 | 1,071 | [
"Cytoscape"
] | ad2df111b6b24bf3c6c60b01871eb19b1fea5d9b7bcda98d5ef3e58c77e25f7a |
''' Accounting Type for Pilot Submission
'''
from DIRAC.AccountingSystem.Client.Types.BaseAccountingType import BaseAccountingType
__RCSID__ = "$Id$"
class PilotSubmission(BaseAccountingType):
''' Accounting Type class for Pilot Submission
'''
def __init__(self):
BaseAccountingType.__init__(self)
se... | andresailer/DIRAC | AccountingSystem/Client/Types/PilotSubmission.py | Python | gpl-3.0 | 1,244 | [
"DIRAC"
] | 59ad5c9702aefe9b75cc2217af36b0e3bfd3724eed031649dc55c28c1888e146 |
#!/usr/bin/env python
import vtk
from vtk.test import Testing
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
# A script to test the island removal filter.
# first the image is thresholded, then small islands are removed.
# Image pipeline
reader = vtk.vtkPNGReader()
reader.SetFileNa... | hlzz/dotfiles | graphics/VTK-7.0.0/Imaging/Core/Testing/Python/TestIslandRemoval2D.py | Python | bsd-3-clause | 974 | [
"VTK"
] | 148a11d52c859de1e119f49568dfd027cb9cc8b6c1e906133dfbe51c0b257c0c |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
A module for NMR analysis
"""
from collections import namedtuple
import numpy as np
from pymatgen.core.periodic_table import Species
from pymatgen.core.structure import Site
from pymatgen.core.tensors im... | gmatteo/pymatgen | pymatgen/analysis/nmr.py | Python | mit | 8,593 | [
"pymatgen"
] | 5031217a7775a64eb560c092ba20c4a7ffbf66df7d18ca247ec4bf4027f8d6cc |
#
# Copyright 2016 The BigDL Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in ... | intel-analytics/BigDL | python/chronos/src/bigdl/chronos/forecaster/nbeats_forecaster.py | Python | apache-2.0 | 6,592 | [
"NEURON",
"ORCA"
] | c091bce1860d24d0d529dda1559f7f46aefc79a8ba29feacb27b2276e33ee22d |
#!/usr/bin/env python
#encoding:utf-8
#author:dbr/Ben
#project:tvdb_api
#repository:http://github.com/dbr/tvdb_api
#license:unlicense (http://unlicense.org/)
"""Unittests for tvdb_api
"""
import os
import sys
import datetime
import unittest
# Force parent directory onto path
sys.path.insert(0, os.path.dirname(os.pat... | cstan11/Sick-Beard | lib/tvdb_api/tests/test_tvdb_api.py | Python | gpl-3.0 | 17,701 | [
"Firefly"
] | cc4b05c962d124de0444761af05dbc57c18ff158ab2e2a3cf5e71612ce9e39b8 |
# amu = 1/12 mass of an atom of carbon-12
from nucleus import *
from units import *
#6.022 * pow(10,23) <- avogadro's number/chem constant
avogadro_const = 6.022 * pow(10,23)
#it's also number of atoms in 12 grams of carbon-12
def to_Moles(name='',relative_atomic_mass=0.0):
#when we get relative_atomic_mass from peri... | defm03/chemistry-cc | src/stechiometry.py | Python | gpl-3.0 | 573 | [
"Avogadro"
] | 8314b00e98610aead3c05bd73fb6be9d158d5c9fb2ee70815714bcd264b194d8 |
"""pypyr dynamic modules, namespaces and path discovery.
Load modules dynamically, find things on file-system.
Attributes:
working_dir (WorkingDir): Global shared current working dir.
"""
import ast
import builtins
from collections import ChainMap
import importlib
import logging
from pathlib import Path
import sy... | pypyr/pypyr-cli | pypyr/moduleloader.py | Python | apache-2.0 | 10,109 | [
"VisIt"
] | 14b80f80f66154b1df0d3cda501014c2de9c048d3d74d62a63b6bb175db9b816 |
# proxy module
from __future__ import absolute_import
from mayavi.filters.vorticity import *
| enthought/etsproxy | enthought/mayavi/filters/vorticity.py | Python | bsd-3-clause | 93 | [
"Mayavi"
] | f185e0472f58de63108345f7b23bb38e16873d7b90888f385c8c4652b036fcdf |
"""HTML character entity references.
Backported for python-future from Python 3.3
"""
from __future__ import (absolute_import, division,
print_function, unicode_literals)
from future.builtins import *
# maps the HTML entity name to the Unicode codepoint
name2codepoint = {
'AElig': 0x0... | noam09/deluge-telegramer | telegramer/include/future/backports/html/entities.py | Python | gpl-3.0 | 75,428 | [
"Bowtie"
] | 933a119d0c8693fdc3828b9c1cb84be502f5a6094af67be6c613c81991434e77 |
import unittest
from spglib import (get_symmetry_dataset, find_primitive,
get_spacegroup_type, standardize_cell)
from vasp import read_vasp
import os
data_dir = os.path.dirname(os.path.abspath(__file__))
dirnames = ('cubic',
'hexagonal',
'monoclinic',
'orthorhom... | jochym/spglib | python/test/test_spglib.py | Python | bsd-3-clause | 7,768 | [
"VASP"
] | ba1afb2cc58c8feb82394881ce591a016289e9bd25167310d92dc3269f3c031b |
'''
This file contains the definitions of:
node_tr => transitions class
node_em => emission class
node_em_gmm => gaussian mixture model emission class (derived class of node_em)
State => state class which contains
one pointer to a node_tr object
one pointer to a node_em object
Extending the... | arthurfait/HMM-3 | hmm/State.py | Python | gpl-3.0 | 20,970 | [
"Gaussian"
] | e2854d1f3bd5be6898f941d1d570e403f52b3d01c13c516cc3d495ea649587bf |
"""
Convenience routines for performing common operations.
@since: 0.28
"""
# Copyright (C) 2009, Thomas Leonard
# See the README file for details, or visit http://0install.net.
from __future__ import print_function
import os, sys
from zeroinstall import support, SafeException, logger
from zeroinstall.support import... | dabrahams/0install | zeroinstall/helpers.py | Python | lgpl-2.1 | 7,198 | [
"VisIt"
] | de9f60f6aa8fdaacdfb7d7e40f9c408b56cfb6bdae13b152c16b4dedbc70ae71 |
# Orca
#
# Copyright 2010 Joanmarie Diggs.
#
# This library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free Software Foundation; either
# version 2.1 of the License, or (at your option) any later version.
#
# This library i... | Alberto-Beralix/Beralix | i386-squashfs-root/usr/share/pyshared/orca/scripts/toolkits/J2SE-access-bridge/script_utilities.py | Python | gpl-3.0 | 5,966 | [
"ORCA"
] | 26054659e38fe8362affcceb56b95a4bbe51cb0ccabcb3e0d294c361e5680912 |
'''
Created on 14 Jun 2019
@author: Alex Ip
'''
import numpy as np
import math
from geophys_utils import get_spatial_ref_from_wkt, get_wkt_from_spatial_ref, transform_coords
from netCDF4 import Dataset
from scipy.interpolate import griddata
from geophys_utils import CSWUtils
from geophys_utils import NetCDFPointUtils
... | alex-ip/geophys_utils | examples/tile_gridder.py | Python | apache-2.0 | 29,132 | [
"NetCDF"
] | 7e8b0e311810bab17535db24966e7729adae4d3da53d598e7db543f2ca1d80cd |
#!/usr/bin/env python
import os.path
from datetime import date
from cogue import symmetry as get_symmetry
from cogue.interface.vasp_io import read_poscar_yaml
from cogue.crystal.utility import get_Z
tmpl_index = """Materials id {midstart} - {midend}
====================================================
.. toctree::
... | atztogo/phonondb | phonondb/sphinx/make_rst.py | Python | bsd-3-clause | 7,513 | [
"CRYSTAL"
] | 2db6cb74e938586267d87f8f5c5b2c365ecbd6bb1407c90facf9d95f1afca1d0 |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
#
# Crystal Ball documentation build configuration file, created by
# sphinx-quickstart on Sat Sep 5 17:56:25 2015.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this... | Almad/crystal-ball | docs/conf.py | Python | mit | 9,227 | [
"CRYSTAL"
] | 58e518c4b65fac42598892e2b5c17db425b57966b6974339167727e286993730 |
#!/usr/bin/env python2
'''
description: Convert directory with downloaded zipped KNMI ascii files to
netCDF format. Station information is obtained from a csv file.
Creation of the csv file and downloading of the KNMI data is
performed in another script (knmi_getdata.py).
aut... | rvanharen/ERA_URBAN | scripts/knmi2netcdf/knmi2netcdf.py | Python | apache-2.0 | 6,897 | [
"NetCDF"
] | d980aaa07a6cc607f2e3ab8b848fa3569c1900d2b75919cce233152ef406e4c0 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import logging
import multiprocessing
import os
import unittest
import warnings
import pytest
import numpy as np
from monty.serialization import loadfn, dumpfn
from monty.tempfile import ScratchDir
from pyma... | gmatteo/pymatgen | pymatgen/analysis/tests/test_pourbaix_diagram.py | Python | mit | 12,770 | [
"pymatgen"
] | 47b8f7a23c5709ac9cc8248056427aeadc090cccb2ea64378c1d8b6d1342f19e |
import sys
sys.path.insert(1,"../../")
import h2o
from tests import pyunit_utils
# The purpose of this test is to detect a change in the _metric_json of MetricsBase objects. Many of the metric
# accessors require _metric_json to have a particular form.
from h2o.estimators.glm import H2OGeneralizedLinearEstimator
from h... | YzPaul3/h2o-3 | h2o-py/tests/testdir_misc/pyunit_metric_json_check.py | Python | apache-2.0 | 11,095 | [
"Gaussian"
] | 163f26b137155fce074fc8af560321ef56674def4b143330867b7e95c73fdf55 |
# ----------------------------------------------------------------------------
# Copyright 2015 Nervana Systems Inc.
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.o... | nhynes/neon | tests/test_optimizer.py | Python | apache-2.0 | 6,823 | [
"Gaussian"
] | e29922d0a3f3b087787625e320b7fbb06c09f989f6f82a694707922cca158a30 |
# -*- coding: utf-8 -*-
#!/usr/bin/env python
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2007 Donald N. Allingham
# Copyright (C) 2007 Johan Gonqvist <johan.gronqvist@gmail.com>
# Copyright (C) 2007-2009 Gary Burton <gary.burton@zen.co.uk>
# Copyright (C) 2007-2009 Stephane Charet... | jralls/gramps | gramps/plugins/webreport/citation.py | Python | gpl-2.0 | 2,796 | [
"Brian"
] | d2f91e7453e122e1433e1cfbfef08e03ca2e6e7be9c2c194c5551673ef9b0c46 |
try: paraview.simple
except: from paraview.simple import *
paraview.simple._DisableFirstRenderCameraReset()
ImageRFFT()
| jeromevelut/Peavip | Testing/ImageRFFT.py | Python | gpl-3.0 | 122 | [
"ParaView"
] | 291483f4a9b2adcf66ab6a39196ce3e144676aecfe9d2bbb8e44b51282edc66b |
#! /usr/bin/env python
# Copyright 2004, Magnus Hagdorn
#
# This file is part of GLIMMER.
#
# GLIMMER is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at your option) a... | glimmer-cism/PyCF | progs/plotRSL.py | Python | gpl-2.0 | 4,478 | [
"NetCDF"
] | 9b30429b7eec886d322643bc7403db9df4312a8a507653fbfea81bdf700d7846 |
import datetime
import StringIO
import os
def load_movie_fixtures():
from camelot.model.fixture import Fixture
from camelot.model.party import Person
from camelot_example.model import Movie, VisitorReport
from camelot.core.files.storage import Storage, StoredImage
from camelot.core.resou... | jeroendierckx/Camelot | camelot_example/fixtures.py | Python | gpl-2.0 | 10,163 | [
"Brian",
"CASINO",
"COLUMBUS"
] | bb7d33e186083285b5bb7b9041fcd2cfeaad2f018f9bdf413bfac7a1d739edea |
#* This file is part of the MOOSE framework
#* https://www.mooseframework.org
#*
#* All rights reserved, see COPYRIGHT for full restrictions
#* https://github.com/idaholab/moose/blob/master/COPYRIGHT
#*
#* Licensed under LGPL 2.1, please see LICENSE for details
#* https://www.gnu.org/licenses/lgpl-2.1.html
import sys
... | nuclear-wizard/moose | python/peacock/ExodusViewer/plugins/VTKWindowPlugin.py | Python | lgpl-2.1 | 19,179 | [
"MOOSE",
"VTK"
] | 196fb189512409531649e71b35270b50f875f8972cfa39a73355e0b7da9caf19 |
#! /usr/bin/env python3
# -*- coding: utf-8 -*-
# Copyright 2022 Google LLC
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless requi... | googleapis/python-cloud-common | scripts/fixup_common_keywords.py | Python | apache-2.0 | 5,898 | [
"VisIt"
] | 536ae63b3169ce47a6312fee2dc40c54ec69f3828a75ef1f5bd465501fe0c080 |
import numpy as np
import pandas as pd
from bs4 import BeautifulSoup
import requests
import json
import urllib
class VineScraper(object):
"""
Main class for scraping data from Vine
Potential target URLs for scraping:
https://vine.co/tags/snowboarding
https://vine.co/api/timelines/tags/snowboarding... | pdxcycling/carv.io | data_mining/code/vine_scraper.py | Python | mit | 2,777 | [
"VisIt"
] | 9de0d2b34a4872f8c30cff45d81559fa8196ef494097dd1d38a08d6c74d364bf |
"""
bct v0.01
Bitcoin Trade Simulatorf
Copyright 2011 Brian Monkaba
This file is part of ga-bitbot.
ga-bitbot is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
... | enikesha/ga-bitbot | bct_alt.py | Python | gpl-3.0 | 38,578 | [
"Brian"
] | 92f4ab62d5b3e1cf39cb370b76b3f57d40bbc3dede2f16df79e8d50f00218696 |
"""Test the function that parses Wannier90 *.mmn files."""
# pylint: disable=protected-access
import pytest
import numpy as np
import z2pack
def test_read(compare_data, sample):
compare_data(
lambda x, y: np.equal(x, y).all(),
z2pack.fp._read_mmn.get_m(sample('mmn/bi.mmn'))
)
def test_fals... | Z2PackDev/Z2Pack | tests/test_read_mmn.py | Python | gpl-3.0 | 413 | [
"Wannier90"
] | a6027b429016b24f48a98b70c6f8d0db717681816cf6988592d5c32c818d5074 |
# Licensed to the Apache Software Foundation (ASF) under one
# or more contributor license agreements. See the NOTICE file
# distributed with this work for additional information
# regarding copyright ownership. The ASF licenses this file
# to you under the Apache License, Version 2.0 (the
# "License"); you may not u... | huikyole/climate | examples/podaac_integration_example.py | Python | apache-2.0 | 3,291 | [
"NetCDF"
] | 518a1e5b9563b82129622fb3ff67a51ddc81d84d98646ddee5f10eee11937e9c |
"""
Test for regime detection
-------------------------
Collection of tests for the regime detection module functions.
"""
import numpy as np
import pandas as pd
from ..Regime_detection.aux_functions import sum_conservative_detectors
from ..Regime_detection.regime_detection import compute_threshold,\
compute_uni... | tgquintela/TimeSeriesTools | TimeSeriesTools/tests/test_regimedetection.py | Python | mit | 4,347 | [
"NEURON"
] | 8eecc583e6f54e3ff9d7bad46c5ae41aa4ae686ee47f41563c5cd4c16f471eef |
"""
===============================
Plot classification probability
===============================
Plot the classification probability for different classifiers. We use a 3
class dataset, and we classify it with a Support Vector classifier, L1
and L2 penalized logistic regression with either a One-Vs-Rest or multinom... | RPGOne/Skynet | scikit-learn-0.18.1/examples/classification/plot_classification_probability.py | Python | bsd-3-clause | 2,871 | [
"Gaussian"
] | 9d65680937823dee9edf2784c605d0f10d27a104e6f7f176e6e231f01cbe9fab |
# -*- coding: utf-8 -*-
"""Tests for OAuth2 permission delegation."""
from __future__ import absolute_import
from six.moves.urllib.parse import parse_qsl, urlparse # pylint: disable=import-error
from common.test.acceptance.pages.common.auto_auth import AutoAuthPage
from common.test.acceptance.pages.lms.oauth2_confir... | jolyonb/edx-platform | common/test/acceptance/tests/lms/test_oauth2.py | Python | agpl-3.0 | 3,999 | [
"VisIt"
] | 5c127111d1e41a80e9f5fa57e246e202f7793c88ae371e80018bb9dc0203e87a |
# coding: utf-8
"""
PyKrige
=======
Code by Benjamin S. Murphy and the PyKrige Developers
bscott.murphy@gmail.com
Summary
-------
Contains class OrdinaryKriging, which provides easy access to
2D Ordinary Kriging.
References
----------
.. [1] P.K. Kitanidis, Introduction to Geostatistcs: Applications i... | bsmurphy/PyKrige | pykrige/ok.py | Python | bsd-3-clause | 42,986 | [
"Gaussian"
] | 1562f6c371a2650415b27faae2af54e3f2aac0b0a352aa4ac426a27e3bf9250e |
from __future__ import absolute_import, division, print_function
from operator import add
from itertools import chain
def inc(x):
return x + 1
def ishashable(x):
""" Is x hashable?
Examples
--------
>>> ishashable(1)
True
>>> ishashable([1])
False
"""
try:
hash(x)
... | pombredanne/dask | dask/core.py | Python | bsd-3-clause | 11,458 | [
"VisIt"
] | 9db114f7ff6252c3e2028145ffddaf44f8eb1ec800fd01b65ea7e102a48c5a2f |
#!/usr/bin/env python
"""
PySCeS - Python Simulator for Cellular Systems (http://pysces.sourceforge.net)
Copyright (C) 2004-2020 B.G. Olivier, J.M. Rohwer, J.-H.S Hofmeyr all rights reserved,
Brett G. Olivier (bgoli@users.sourceforge.net)
Triple-J Group for Molecular Cell Physiology
Stellenbosch University, South Af... | bgoli/pysces | setupegg.py | Python | bsd-3-clause | 830 | [
"PySCeS"
] | c2fb71afdc259539991d00eb8751528aaf67bf02fe235a6af76410fd324c430f |
# ***********************************************************************************
# * Copyright 2010 Paulo A. Herrera. All rights reserved. *
# * *
# * Redistribution and use in source and binary forms, with o... | jungla/ICOM-fluidity-toolbox | hl.py | Python | gpl-2.0 | 9,870 | [
"VTK"
] | 308778e040435e2e582ce896ff4f65281e26d86be66499a3d90e3b5fa0ccc844 |
# ----------------------------------------------------------------------------
# Copyright (c) 2013--, scikit-bio development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file COPYING.txt, distributed with this software.
# --------------------------------------------... | Kleptobismol/scikit-bio | skbio/alignment/tests/test_alignment.py | Python | bsd-3-clause | 47,367 | [
"scikit-bio"
] | 62fd9703bfda29b6daa2a87a58f6a94050e057e7e055c35bbda4b8708f954cd2 |
# -*- coding: utf-8 -*-
#
# voltage_trace.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the License, ... | synergetics/nest | pynest/nest/voltage_trace.py | Python | gpl-2.0 | 6,711 | [
"NEURON"
] | 6760c276b250f2deff53e6d0ee8bd76b4465e7ee2163d953f457e40f9f9f3a63 |
#!/usr/bin/env python
"""
Example of using a UQ method with matlab
Usage: switch_dynamics.py [-v]
"""
from puq import *
def run():
# Gaussian parameters
gap = Parameter('gap', 'Gap Size (microns)', mean=3.49, dev=0.22)
th = Parameter('th', 'Thickness (microns)', mean=4.0, dev=0.35)
E = Parameter('e', ... | c-PRIMED/puq | examples/matlab/switch_dynamics.py | Python | mit | 980 | [
"Gaussian"
] | bee84e6d1d5cd407471122a6f6987df453e9d9fbf66317707f2576f4f1b07ab9 |
import numpy as np
import pandas as pd
# from matplotlib.pyplot import plot,show,draw
import scipy.io
from functions import *
from pylab import *
from sklearn.decomposition import PCA
import _pickle as cPickle
import time
import os, sys
import ipyparallel
import matplotlib.cm as cm
from scipy.optimize import curve_fi... | gviejo/ThalamusPhysio | python/main_pop_corr_fig.py | Python | gpl-3.0 | 9,516 | [
"Gaussian"
] | c6919f7251265ecb9507590708e48e72bbcc2155c17834a6b1c0d4cf23bdd447 |
# Copyright (C) 2010-2018 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later v... | mkuron/espresso | src/python/espressomd/cluster_analysis.py | Python | gpl-3.0 | 5,257 | [
"ESPResSo"
] | 58be376c0a7435eb902cb28c513d140763ac985e8d827f3944872ef62eb607b2 |
#!/usr/bin/env python
'''
Setup.py script (uses setuptools) for building, testing, and installing simple_simulation.
'''
_VERSION="0.0.1"
from setuptools import setup
setup(name = 'simple_simulation',
version = _VERSION,
description = 'Simple genetic simulator',
author = 'Gerald A McCollam',
author_e... | atallah-lab/simple_simulation | setup.py | Python | mit | 742 | [
"Biopython"
] | 432371faa2e777afb760eadc92fb68977c729ed2217738105a18d41656d9a9f6 |
# supaxoaxonic.py ---
#
# Filename: supaxoaxonic.py
# Description: Superficial Layer 2/3 axoaxonic cells
# Author: subhasis ray
# Maintainer:
# Created: Tue Oct 6 16:52:28 2009 (+0530)
# Version:
# Last-Updated: Fri Oct 21 17:06:19 2011 (+0530)
# By: Subhasis Ray
# Update #: 29
# URL:
# Keywords:
#... | BhallaLab/moose-thalamocortical | DEMOS/pymoose/traub2005/py/supaxoaxonic.py | Python | lgpl-2.1 | 4,383 | [
"MOOSE",
"NEURON"
] | e93e947fc3ca5d089f468133c5b867c679e5dbfcf9e536b15e138decb0a7fa4c |
'''
This __init__ file is for a PySCeS "eXtension module" (pysx), the following variables should be set for each module
'''
pysx_name = 'VisualiseSBML'
pysx_oscompat = ['posix','nt']
pysx_base_class = 'CONTRIB_visualise'
pysx_author = 'Collin Gillespie'
pysx_email = ''
pysx_affiliation = ''
pysx_web = 'http://www.basi... | asttra/pysces | pysces/contrib/visualise/__init__.py | Python | bsd-3-clause | 388 | [
"PySCeS"
] | c04cc59b32117907f6aa9d202bbc96e3c9c4650e610f75ea30c01a7d29525eaa |
#!/usr/bin/env python
import os
import re
import sys
import glob
import json
import time
import shutil
import base64
import inspect
import requests
couch_host = "http://localhost:5984"
clustered_host = "http://localhost:15984"
single_node_host = "http://localhost:15986"
parent_auth = ()
DEBUG = True
final_rev = 12... | chewbranca/test_couch_file_migrations | test_couch_files.py | Python | apache-2.0 | 18,114 | [
"exciting"
] | e7d37725df9d106dd6021094310cdfb1dca2c1816e883de7aa02079ccd8358a9 |
# coding: utf-8
# Copyright (c) Henniggroup.
# Distributed under the terms of the MIT License.
from __future__ import division, print_function, unicode_literals, \
absolute_import
"""
reads in KPOINTS(with labels) and vasprun.xml files and
plots band diagram and density of states
from http://gvallver.perso.univ-... | henniggroup/MPInterfaces | examples/bands_dos.py | Python | mit | 7,987 | [
"VASP",
"pymatgen"
] | 97a9e016df279663aaf1104e951d31b291a9c22365903955dea115fd3207ee50 |
#Author : Lewis Mervin lhm30@cam.ac.uk
#Supervisor : Dr. A. Bender
#All rights reserved 2014
#Protein Target Prediction Tool trained on SARs from PubChem (Mined 08/04/14) and ChEMBL18
#Molecular Descriptors : 2048bit Morgan Binary Fingerprints (Rdkit) - ECFP4
#Dependencies : rdkit, sklearn, numpy
#libraries
from rdkit... | lhm30/PIDGIN | predict_ranked.py | Python | mit | 3,264 | [
"RDKit"
] | 5c5d2562084fbea5705c1958bed395eb00b6c4044b116c723284bfce852c194c |
# -*- coding: utf-8 -*-
"""
Test for matlab problems
"""
import time
from textwrap import dedent
from flaky import flaky
from common.test.acceptance.fixtures.course import XBlockFixtureDesc
from common.test.acceptance.fixtures.xqueue import XQueueResponseFixture
from common.test.acceptance.pages.lms.matlab_problem im... | fintech-circle/edx-platform | common/test/acceptance/tests/lms/test_lms_matlab_problem.py | Python | agpl-3.0 | 3,665 | [
"VisIt"
] | 5340857297b26b55b600928435aa1ee42ed549f598ff54d042bcb6cd0e6c709f |
#!/usr/bin/env python
"""
run_parallel_blast.py
[--log_file PATH]
[--quiet]
"""
################################################################################
#
# run_parallel_blast
#
#
# Copyright (c) 4/21/2010 Leo Goodstadt
#
# Permission is hereby granted, free of charge, to any person ... | NIASC/VirusMeta | blast_module/run_parallel_blast.py | Python | gpl-3.0 | 13,744 | [
"BLAST"
] | 428d74c07b6f02864fa4e6ae41f3bf7d738ae55dcdad7cbd87d222ad62705e01 |
"""
Created on Wed Nov 19 00:18:55 2014
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 2 of the License, or
(at your option) any later version.
This program is distributed in the ho... | SamWitte/Codds_DarkMatter | src/Data/CDMS_Snolab_SiHV.py | Python | gpl-2.0 | 2,201 | [
"DIRAC"
] | 55f6e3e3044fd905c7f494aa5b19d0af902259f2a947e1e6944c7de6160342f2 |
import numpy as np
import pandas as pd
import vtk
from vtky.BaseArray import BaseArray
class Points(object):
def __init__(self, array, array_name='Points'):
if isinstance(array, list):
array = np.array(array)
elif isinstance(array, pd.DataFrame):
array = array.as_matrix()... | marcelotrevisani/vtky | vtky/Points.py | Python | mit | 5,975 | [
"VTK"
] | e9886efcbf7f4c0af5f959a23bee6d47d3c60e268b43ee49cf0ce915b820f964 |
import os, sys
import vtktools
import numpy as np
import matplotlib as mpl
mpl.use('ps')
import matplotlib.pyplot as plt
import matplotlib.tri as tri
from paraview.simple import *
## READ archive (too many points... somehow)
label = sys.argv[1]
dayi = int(sys.argv[2])
dayf = int(sys.argv[3])
days = int(sys.argv[... | jungla/ICOM-fluidity-toolbox | 2D/U/plot_T_hs.py | Python | gpl-2.0 | 3,621 | [
"ParaView"
] | d808b5fff5294f3516c0ed75631f5768b24fa93b48f19dce5e66dfe5261fd234 |
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