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##############################################################################
# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | tmerrick1/spack | var/spack/repos/builtin/packages/r-genie3/package.py | Python | lgpl-2.1 | 1,694 | [
"Bioconductor"
] | 0c0cbb19fa4d2626e857f7de0634599241dcd5e991f4383aa38d62b4b76663ea |
# Copyright 2014 Roberto Brian Sarrionandia
#
# 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 t... | sarrionandia/tournatrack | trackpin.py | Python | apache-2.0 | 1,957 | [
"Brian"
] | 8bed831ac0b44c6c844e99f25867bd0b1cee50ca2d245c278f1247a2bee97aea |
#!/usr/bin/python
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2022 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of Psi4.
#
# Psi4 is free software; you can redistribute... | susilehtola/psi4 | doc/sphinxman/document_psifiles.py | Python | lgpl-3.0 | 3,196 | [
"Psi4"
] | a18578f8a8a969f41b75b2ae7af2fd9825412d83c44335a843547be0652ac944 |
# -*- coding: utf-8 -*-
from __future__ import print_function
"""
This file is part of GEOVAL and edited for use with ESMValTool
(c) 2016- Alexander Loew
For COPYING and LICENSE details, please refer to the LICENSE file
EDITS:
2015-12-17: - changed .data to .content to avoid Data.data.data to assess values
... | pygeo/geoval | geoval/core/data.py | Python | apache-2.0 | 163,462 | [
"NetCDF"
] | 59faa9f99ad12f36bd0f547dcfd06e6a60485504e57a571e7584e03e827f2cd5 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# .. _poisson-topology-example:
#
# .. py:currentmodule:: dolfin_adjoint
#
# Topology optimisation of heat conduction problems governed by the Poisson equation
# ==================================================================================
#
# .. sectionauthor:: Patri... | live-clones/dolfin-adjoint | examples/poisson-topology/poisson-topology.py | Python | lgpl-3.0 | 12,500 | [
"ParaView",
"VTK"
] | 3e817d0d27d8ad93b1127a25c406aaa9e8ab4564d53ea9cc4fdeaf68482b2f95 |
"""
This module contains the GromacsWriter class. It is used to apply
atom names from known topologies to the molecule by using a graph-based
representation of each molecule.
Author: Robin Betz
Copyright (C) 2019 Robin Betz
"""
# This program is free software; you can redistribute it and/or modify it under
# the ter... | Eigenstate/dabble | dabble/param/gromacs.py | Python | gpl-2.0 | 13,368 | [
"Amber",
"CHARMM",
"GROMOS",
"Gromacs",
"VMD"
] | 6200acad7c4bf026db0a8061d31db440db934ed076fdc75458b2847ec852b6e3 |
import codecs
import contextlib
import io
import locale
import sys
import unittest
import warnings
import encodings
from test import support
if sys.platform == 'win32':
VISTA_OR_LATER = (sys.getwindowsversion().major >= 6)
else:
VISTA_OR_LATER = False
try:
import ctypes
except ImportError:
ctypes = N... | jiangzhuo/kbengine | kbe/src/lib/python/Lib/test/test_codecs.py | Python | lgpl-3.0 | 111,483 | [
"FEFF"
] | 8ecad1575979a922ca09d8f094dd1432aa845a73a8cb6fbb2195603483a0ddda |
from __future__ import print_function
from __future__ import unicode_literals
from __future__ import absolute_import
from __future__ import division
from math import sqrt
from math import exp
from math import pi
from concept_formation.utils import c4
class ContinuousValue():
"""
This class is used to store t... | cmaclell/concept_formation | concept_formation/continuous_value.py | Python | mit | 7,374 | [
"Gaussian"
] | 56eabbedccf291eff68d6e107e86e8a55e51d389de39dde409a86a81d65037ca |
# Copyright 2012-2014 Brian May
#
# This file is part of python-tldap.
#
# python-tldap 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.... | brianmay/python-tldap-debian | tldap/modlist.py | Python | gpl-3.0 | 5,483 | [
"Brian"
] | 6f2705e32af095c011be6ab99488fa79ac47774684c1d795ccebb06c5af6d7fe |
import unittest
from django.urls import reverse
from django.test import TestCase, RequestFactory
from media_management_api.media_service.models import Course, Collection
from media_management_api.media_service.iiif.views import IiifManifestView
from media_management_api.media_service.iiif.objects import IIIFManifest
... | Harvard-ATG/media_management_api | media_management_api/media_service/tests/test_iiif.py | Python | bsd-3-clause | 5,676 | [
"Galaxy"
] | cd2549f2489c2d9b194e9bc815c7cad152f8fda048bc34f81a51239f880eb26f |
# Copyright (c) 2015, 2014 Computational Molecular Biology Group, Free University
# Berlin, 14195 Berlin, Germany.
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without modification,
# are permitted provided that the following conditions are met:
#
# * Redistributions of source c... | trendelkampschroer/PyEMMA | pyemma/coordinates/tests/test_save_trajs.py | Python | bsd-2-clause | 7,362 | [
"MDTraj"
] | c5598c9c54bc164533d5299bdaab2707dfadcaadd37dc0640e9c467af68099c5 |
import logging
log = logging.getLogger( __name__ )
from sqlalchemy import create_engine
from galaxy.model.orm import load_egg_for_url
def build_engine(url, engine_options, database_query_profiling_proxy=False, trace_logger=None):
load_egg_for_url( url )
# Should we use the logging proxy?
if database_que... | mikel-egana-aranguren/SADI-Galaxy-Docker | galaxy-dist/lib/galaxy/model/orm/engine_factory.py | Python | gpl-3.0 | 855 | [
"Galaxy"
] | bc45fda89a8a32368f8996f7a52d02035ddf7cd8ae5022fdb1c8d0d7e230bed8 |
from matplotlib import pyplot as plt
import numpy as np
def my_plot_convergence(*args, **kwargs):
"""Plot one or several convergence traces.
Parameters
----------
* `args[i]` [`OptimizeResult`, list of `OptimizeResult`, or tuple]:
The result(s) for which to plot the convergence trace.
... | pligor/predicting-future-product-prices | 02_preprocessing/gp_opt/plot_res_gp.py | Python | agpl-3.0 | 3,213 | [
"Gaussian"
] | 7341689d140852fdc6f0faf8246cc6844c39e5524dbbc956f69110747871c24d |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# This is a very simple way to culculate the famous number of Pi, which is very use in mathematics ans science. We can call this 'the magical number', because it appears naturally in a lot of formulas and scopes.
# With this program we calculate Pi with the Montecarlo's me... | xoancosmed/Calculate-Pi | Montecarlo/Montecarlo.py | Python | gpl-3.0 | 2,279 | [
"VisIt"
] | efcb3eb69ae77b5140de736dffbda414df1ffadcee3329570ff124299845bb29 |
"""
Play a trace of a PyCSP application
Usage:
python PlayTrace.py <trace file>
Requires:
Graphviz
wxPython 2.8+
PyCSP
Copyright (c) 2009 John Markus Bjoerndalen <jmb@cs.uit.no>,
Brian Vinter <vinter@nbi.dk>, Rune M. Friborg <rune.m.friborg@gmail.com>.
See LICENSE.txt for licensing details (MIT License... | runefriborg/pycsp | tools/PlayTrace.py | Python | mit | 35,826 | [
"Brian"
] | ae20b42fc026306b5b298cc6f3aa949a822651ac0856d014f9a9f77f386ae72b |
#!/usr/bin/env python
# -*- coding: UTF-8 -*-
"""
%prog -i query.fa -d database.fa [options]
run LASTZ similar to the BLAST interface, and generates -m8 tabular format
"""
import os
import sys
import math
import logging
logging.basicConfig(level=logging.DEBUG)
from subprocess import Popen, PIPE
from multiprocessing... | asherkhb/coge | bin/blastz_wrapper/blastz.py | Python | bsd-2-clause | 4,303 | [
"BLAST"
] | bd28c4fa3317c46688960648f7ccfbef83a43bc733110d3c5671c2c01bd0abd2 |
"""
====================================
Outlier detection on a real data set
====================================
This example illustrates the need for robust covariance estimation
on a real data set. It is useful both for outlier detection and for
a better understanding of the data structure.
We selected two sets o... | huzq/scikit-learn | examples/applications/plot_outlier_detection_wine.py | Python | bsd-3-clause | 5,809 | [
"Gaussian"
] | f96cb3c45692d89b66c74037a4add63ae5fbb69de08d1d14efa4aa8cce8f2558 |
# freeseer - vga/presentation capture software
#
# Copyright (C) 2011, 2013 Free and Open Source Software Learning Centre
# http://fosslc.org
#
# 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 Foundati... | Freeseer/freeseer | src/freeseer/plugins/videomixer/videopassthrough/__init__.py | Python | gpl-3.0 | 8,637 | [
"VisIt"
] | c908576c119633047dfe41433d1a2ea59ef7cfe9d69be9f2c056243b8e5b77a1 |
import numpy as np
from scipy import optimize
import time
import pprint
def bose_g(z, power=3./2., n_terms=5):
"""Evaluate the bose g function
g_n(z) = \sum{i}{z^i/n^i} for i = 1 to infinity
here n is the power
n_terms is the number of terms to use in the summation.
"""
if isinstance(z, floa... | shreyaspotnis/ipbec | ipbec/clt/fittools.py | Python | mit | 13,000 | [
"Gaussian"
] | 0f552cf764eae45ffc27ea9c64ae31eaf1a26562ceef2440e9406e8118794909 |
import sys
from math import erf,sqrt
from ..utils.autoconv import autoconv
class Mixture:
ID = "mixture"
def __init__(self, n_components, cutoff):
self.n_components = n_components
self.cutoff = cutoff
self.gmms = None
@staticmethod
def register(parser):
parser.add_a... | cpitclaudel/dBoost | dboost/models/mixture.py | Python | gpl-3.0 | 3,284 | [
"Gaussian"
] | 871711a634dca0485c95227da26cefa0f579cafcbd062974a4545254ed56da65 |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
import nmap
import datetime
import os
from nose.tools import assert_equals
from nose.tools import raises
from nose import with_setup
from multiprocessing import Value
"""
test_nmap.py - tests cases for python-nmap
Source code : https://bitbucket.org/xael/python-nmap
... | Haynie-Research-and-Development/jarvis | deps/lib/python3.4/site-packages/nmap/test_nmap.py | Python | gpl-2.0 | 12,722 | [
"Brian"
] | a9a412c97e8e7899fa0a4e57344c2056a6e35d5ea141a3d91672eb456f30e9b6 |
###############################################################################
# GaussianAmplitudeWrapperPotential.py: Wrapper to modulate the amplitude
# of a potential with a Gaussian
###############################################################################
import nump... | jobovy/galpy | galpy/potential/GaussianAmplitudeWrapperPotential.py | Python | bsd-3-clause | 1,914 | [
"Gaussian"
] | 9b247ef212d24bdad8ad40ec43f4b3fe6b4da46854ff4989722d4519f0655a7d |
#!/usr/bin/python
# Copyright 2014-2020 The PySCF Developers. 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
#
# Unles... | sunqm/pyscf | pyscf/pbc/gto/basis/split_GTH_BASIS_SETS.py | Python | apache-2.0 | 1,567 | [
"PySCF"
] | 28db80c45241a02a345c7c06a0f75ecbb13e169308389727db7910d7129e3720 |
"""
ConnectionField and associated classes.
This module defines some basic classes of objects used to create
simulations of cortical sheets that take input through connection
fields that project from other cortical sheets (or laterally from
themselves).
ConnectionField: Holds a single connection field within a
CFProj... | mjabri/topographica | topo/base/cf.py | Python | bsd-3-clause | 47,553 | [
"NEURON"
] | cc8eda88f1446ea8ae7f33438ba96a5c9ee51a07b007ce9130f8cfc9c28048e5 |
# coding: utf-8
# # Test out standardized ADCIRC, SELFE and FVCOM datasets with pyugrid, IRIS and Cartopy
# The datasets being accessed here are NetCDF files from ADCIRC, SELFE and FVCOM, with attributes added or modified virtually using NcML to meet the [UGRID conventions standard for unstructured grid models](htt... | rsignell-usgs/notebook | pyugrid/notebook_examples/pyugrid_cartopy_test.py | Python | mit | 3,029 | [
"NetCDF"
] | 3667c260ecd2bccfa993dd0e820364495b37b8c0edbb75306ab16ebc55504861 |
#!/usr/bin/env python
'''CREATED:2013-12-09 00:02:54 by Brian McFee <brm2132@columbia.edu>
Estimate the tuning (deviation from A440) of a recording.
Usage: ./tuning.py [-h] input_file
'''
from __future__ import print_function
import argparse
import sys
import librosa
def estimate_tuning(input_file):
'''Load an... | ebattenberg/librosa | examples/estimate_tuning.py | Python | isc | 1,274 | [
"Brian"
] | aab746aa6383a214aa948b70f6d66a86fb7a581c24d1fb5dbfe9cf371688d76a |
#
# Copyright (C) 2007, Mark Lee
#
#http://rl-glue-ext.googlecode.com/
#
# 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... | shiwalimohan/RLInfiniteMario | system/codecs/Python/src/rlglue/environment/Environment.py | Python | gpl-2.0 | 1,264 | [
"Brian"
] | 70370e09d8f0c6cd812765cb5f6ce12a2f6a0749b111d4c7f75ab90d165c556d |
#!/usr/bin/env python
# File created on 09 Feb 2010
from __future__ import division
__author__ = "Dan Knights"
__copyright__ = "Copyright 2011, The QIIME Project"
__credits__ = ["Dan Knights", "Luke Ursell"]
__license__ = "GPL"
__version__ = "1.9.1-dev"
__maintainer__ = "Dan Knights"
__email__ = "daniel.knights@colora... | josenavas/qiime | scripts/supervised_learning.py | Python | gpl-2.0 | 11,481 | [
"VisIt"
] | 646bcf8847f4de7b89d85013ff7ff3bba4e80e4a737e18094f6b594bdd7055d1 |
# -*- coding: utf-8 -*-
#
# Copyright (c) 2018, 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.
"""Test the Moments method in cclib"""
import unittest
from unittest import mock
import numpy as np
from numpy.testing i... | ATenderholt/cclib | test/method/testmoments.py | Python | bsd-3-clause | 4,745 | [
"cclib"
] | 0402e06588da8aaecbc7ab3c7b89825ff9908170df84e024376a8a41b23fa7ec |
# -*- coding: utf-8 -*-
import os
import time
from collections import OrderedDict
from translate.misc import wStringIO
from translate.storage import po, poheader, poxliff
def test_parseheaderstring():
""" test for the header parsing function"""
source = r'''item1: one
item2: two:two
this item must get ignor... | dwaynebailey/translate | translate/storage/test_poheader.py | Python | gpl-2.0 | 10,934 | [
"MOE"
] | d0d8f16c1af1d391c9211137f006d55c82942083fba68f1a278f3feedf14d4c3 |
# Orca
#
# Copyright 2005-2009 Sun Microsystems Inc.
# Copyright 2010 Joanmarie Diggs, Mesar Hameed
#
# 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, ... | pvagner/orca | src/orca/orca_state.py | Python | lgpl-2.1 | 2,115 | [
"ORCA"
] | a2ce420f548178896101e59c650831de1921d709d6d35c495b5108866052219f |
'''This example illustrates how to run a Markov Chain using pypmc'''
import numpy as np
import pypmc
# define a proposal
prop_dof = 1.
prop_sigma = np.array([[0.1 , 0. ]
,[0. , 0.02]])
prop = pypmc.density.student_t.LocalStudentT(prop_sigma, prop_dof)
# define the target; i.e., the function... | fredRos/pypmc | examples/markov_chain.py | Python | gpl-2.0 | 1,798 | [
"Gaussian"
] | 7139297dafc8b9178da181d65acd870664cab63e4f58a7a46114b092a948604e |
#!/usr/bin/env python
# Copyright 2014-2018 The PySCF Developers. 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
#
# U... | sunqm/pyscf | pyscf/scf/test/test_stability.py | Python | apache-2.0 | 9,774 | [
"PySCF"
] | 182d0a7b476329def985f5a4444a8f588b1e71872de3a9246e91e567e0df55f3 |
#!/usr/bin/python
#
# Flickr API implementation
#
# Inspired largely by Michele Campeotto's flickrclient and Aaron Swartz'
# xmltramp... but I wanted to get a better idea of how python worked in
# those regards, so I mostly worked those components out for myself.
#
# http://micampe.it/things/flickrclient
# htt... | Oh233/Flicrawler | query_imgs/flickrapi2.py | Python | mit | 17,925 | [
"Brian",
"VisIt"
] | b699397af369c37b1da07f11d8fb9a88b35f9362c29eed86a5c8d87f439a8ff6 |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
#
# MDAnalysis --- http://www.mdanalysis.org
# Copyright (c) 2006-2016 The MDAnalysis Development Team and contributors
# (see the file AUTHORS for the full list of names)
#
# Released under t... | alejob/mdanalysis | package/MDAnalysis/tests/__init__.py | Python | gpl-2.0 | 4,220 | [
"CHARMM",
"Gromacs",
"MDAnalysis"
] | eb80c756ed2e875096371a32d202ab50de1a3e304cf69a30d784114c2f61a5f3 |
"""Script to plot the fano factor graph for a given simulation
stored as a trajectory to an HDF5 file.
"""
__author__ = 'Robert Meyer'
import os
import matplotlib.pyplot as plt
from pypet import Trajectory, Environment
from pypet.brian.parameter import BrianMonitorResult, BrianParameter
def main():
filename... | nigroup/pypet | examples/example_11_large_scale_brian_simulation/plotff.py | Python | bsd-3-clause | 1,583 | [
"Brian"
] | db664c13533cb588d3e7d5f94a8100fbe972c80a443a7292b494887e5d11b4d4 |
"""Code for the B{0store} command-line interface."""
# Copyright (C) 2009, Thomas Leonard
# See the README file for details, or visit http://0install.net.
from __future__ import print_function
from zeroinstall import _
import sys, os, errno
from zeroinstall.zerostore.manifest import verify, get_algorithm, copy_tree_... | dabrahams/zeroinstall | zeroinstall/zerostore/cli.py | Python | lgpl-2.1 | 7,406 | [
"VisIt"
] | 50061b0cf41fd974d72d04f2d7723794c06ce1ba4f13ac8ac6901a1bc314e873 |
from vtk.util import vtkMethodParser
class Tester:
def __init__(self, debug=0):
self.setDebug(debug)
self.parser = vtkMethodParser.VtkDirMethodParser()
self.obj = None
def setDebug(self, val):
"""Sets debug value of the vtkMethodParser. 1 is verbose and
0 is not. 0 i... | keithroe/vtkoptix | Wrapping/Python/vtk/test/BlackBox.py | Python | bsd-3-clause | 2,957 | [
"VTK"
] | 25cc4f0a004f1506df3473d6235e8cfdc331c246908d2e58e78c6b0c12aedf6d |
#* 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 subp... | harterj/moose | python/TestHarness/tests/test_Recover.py | Python | lgpl-2.1 | 1,321 | [
"MOOSE"
] | 2a97c20ef38d586b044d961ef0d2874664017367a21090e1ae946ca98429efa5 |
# demo: generate the noninteracting DOS from the Hamiltonian produced by DFT+MLWF
import sys
# directory for the main code
sys.path.append('..')
from int_donly_tilted_3bands import calc_Gavg
from numpy import *
from functions import *
from share_fun import grule
import init
N_LAYERS = 4
FLAVORS = 3
SPINS = 1
mu = ... | hungdt/scf_dmft | examples/calculate_dos_dft_mlwf.py | Python | mit | 1,918 | [
"Gaussian"
] | 325d22c5df1027268580d23f973349d45348cf45fbd9e4255947e5c901ff59e0 |
# ROC curve/AOC calculator using MOE database input file (in .txt format)
# Active compoounds must be placed first (lowest mseq values)
# Usage : MOE_db_ROC_analysis.py [filename.txt] ([NB_COMPOUNDS] [NB_POSITIVE_COMPOUNDS])
# If not given, NB_COMPOUND = 100 and NB_POSITIVE_COMPOUNDS = 10
# For more information, contac... | RubenStaub/ROC-calculator-for-MOE-docking | MOE_db_ROC_analysis.py | Python | gpl-3.0 | 3,516 | [
"MOE"
] | 4b28b7adc313467a02e8bf068702cc4c37affcd8977defece860712d825ca780 |
# vim: tabstop=4 shiftwidth=4 softtabstop=4
# Copyright 2011 Rackspace
# Copyright (c) 2011 X.commerce, a business unit of eBay Inc.
# 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 t... | fajoy/nova | nova/tests/network/test_manager.py | Python | apache-2.0 | 95,224 | [
"FEFF"
] | 513a264bb4786aac6b49e1b2cf98af99f38509659ca22977fe03c3b5d8dba21e |
#!/usr/bin/env python
"""
simple plot of Chapman profile
Michael Hirsch
"""
from numpy import arange
from matplotlib.pyplot import subplots, show
import seaborn as sns
sns.set_context("talk")
#
from histfeas.arcclass import ChapmanArc
def plotchapman(Wkm, H, X0, Z0):
x = arange(-5, 5, 0.05)
z = arange(60, 30... | scienceopen/histfeas | Plots/PlotChapmanProfile.py | Python | gpl-3.0 | 968 | [
"Gaussian"
] | ad354fac5f55df1a3658c4751476b6e2507f1aed0f90802794c967b2e29a6ea7 |
#!/usr/bin/env python
""" Remove the outputs produced by a transformation
"""
from __future__ import print_function
import sys
from DIRAC.Core.Base.Script import parseCommandLine
parseCommandLine()
if len( sys.argv ) < 2:
print('Usage: dirac-transformation-remove-output transID [transID] [transID]')
sys.exit()
e... | chaen/DIRAC | TransformationSystem/scripts/dirac-transformation-remove-output.py | Python | gpl-3.0 | 945 | [
"DIRAC"
] | da43b452a66abce2a3650c1cc1c73866126cbac6748a007dd6eb4ce88d0abbf7 |
# Copyright (C) 2010-2019 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... | espressomd/espresso | testsuite/python/observable_profileLB.py | Python | gpl-3.0 | 8,479 | [
"ESPResSo"
] | 5819294bfd98e541a85baa703a1d24c5850b89da5f29db83516526c9b9616863 |
# -*- coding: utf-8 -*-
# Copyright 2014 splinter authors. All rights reserved.
# Use of this source code is governed by a BSD-style
# license that can be found in the LICENSE file.
import os
import unittest
from splinter import Browser
from .base import BaseBrowserTests
from .fake_webapp import app, EXAMPLE_APP
c... | gjvis/splinter | tests/test_flaskclient.py | Python | bsd-3-clause | 4,421 | [
"VisIt"
] | c1767510266a3b4c174fe736a82adf17a0e77715583a1e9cb257285c461470bf |
# -*- coding: utf-8 -*-
# Copyright (C) 2004-2019 by
# Aric Hagberg <hagberg@lanl.gov>
# Dan Schult <dschult@colgate.edu>
# Pieter Swart <swart@lanl.gov>
# William Schwartz <wkschwartz@gmail.com>
# All rights reserved.
# BSD license.
#
# Authors: Aric Hagberg (hagberg@lanl.gov)
# Dan Schul... | sserrot/champion_relationships | venv/Lib/site-packages/networkx/algorithms/distance_measures.py | Python | mit | 18,963 | [
"Brian"
] | 991021e0198d10ea580f1d999b2a0e293e7b5c4ba7245514657b879610f014f7 |
# Copyright 2004-2008 by Sebastian Bassi.
# Copyright 2013 by Markus Piotrowski.
# All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
"""Calculate the melting temperature of nucleot... | updownlife/multipleK | dependencies/biopython-1.65/build/lib.linux-x86_64-2.7/Bio/SeqUtils/MeltingTemp.py | Python | gpl-2.0 | 43,014 | [
"Biopython"
] | 70b7a056c5c2d2e2e03fe35fb786cf826509a52d62e16635ec072b94f2343dbf |
#!/usr/bin/env python3
# This script generates pvd files for time series in paraview
import vtktools as vtk
import glob
import re
import sys
def generate_pvd(pvdfilename, list_vtu_filenames, list_time):
""" This function writes a simple xml pvd file that can be
loaded in paraview to display time series c... | FluidityStokes/fluidity | tools/genpvd.py | Python | lgpl-2.1 | 3,968 | [
"ParaView",
"VTK"
] | c5cf12cb058e61d5fa03ead526cd1190ef2300629ddf900f0470dbf01bd7d2f7 |
import argparse
import os
from os.path import join as pjoin
import theano
from models.neural_net.layers import HiddenLayer, ResidualHiddenLayer
from models.neural_net.activation_fns import ReLU, Sigmoid, Identity
from train_scripts.train_gauss_VAE import train_and_eval_gaussian_vae
from utils.utils import mkdirs
def ... | enalisnick/stick-breaking_dgms | run_gauss_VAE_experiments.py | Python | mit | 5,463 | [
"Gaussian"
] | 481fc778bb90e51eb2dfecaed25a9bb061f415121a6b499c8e9428caca6f362f |
# Copyright (c) 2015-2020 Claudiu Popa <pcmanticore@gmail.com>
# Copyright (c) 2015-2016 Ceridwen <ceridwenv@gmail.com>
# Copyright (c) 2016 Jakub Wilk <jwilk@jwilk.net>
# Copyright (c) 2017 Łukasz Rogalski <rogalski.91@gmail.com>
# Copyright (c) 2018 Nick Drozd <nicholasdrozd@gmail.com>
# Copyright (c) 2019 Ashley Whe... | PyCQA/astroid | tests/unittest_protocols.py | Python | lgpl-2.1 | 12,935 | [
"VisIt"
] | 88ff4a11fd7175a78700c3223049bdabe2f36543e8104bc7d899fc9275675b82 |
"""
@name: Modules/CXore/Drivers/USB/usb_open.py
@author: D. Brian Kimmel
@contact: D.BrianKimmel@gmail.com
@copyright: (c) 2011-2020 by D. Brian Kimmel
@license: MIT License
@note: Created on Mar 27, 2011
@summary: This module is for communicating with USB devices.
This will interface various PyHo... | DBrianKimmel/PyHouse | Project/src/Modules/Core/Drivers/Usb/Usb_open.py | Python | mit | 6,996 | [
"Brian"
] | 7c80e9bba37a7bcc472b85b915d57fd36ebfcbbfa3b69a6a9a1e3a7cdae8e91d |
"""
Unit tests for each of the recognised CDL constant types.
"""
import os
import tempfile
import unittest
import cdlparser
import numpy as np
#---------------------------------------------------------------------------------------------------
class TestConstants(unittest.TestCase) :
#--------------------------------... | ocehugo/cdlparser | test/test_constants.py | Python | bsd-3-clause | 5,869 | [
"NetCDF"
] | 2249315b937aee4ef68f8b69e0b717f0fae735b150d996ed465e971787942476 |
# coding: utf-8
# 😬
from django.utils.translation import ugettext_lazy as _
# This file is a place to store static, translatable strings
SECTORS = (
# (value, human-readable label)
("Public Administration", _("Public Administration")),
("Arts, Entertainment, and Recreation", _("Arts, Entertainment, and R... | onaio/kpi | kobo/static_lists.py | Python | agpl-3.0 | 16,731 | [
"BWA"
] | 3d861621a6a63293d8f435ba6c2211d1db509c763e2be2daf197d0d8f8256871 |
#!/usr/bin/env python
# Credit: Chris Gulvik with modification by Joe Healey
from argparse import ArgumentParser
def parseArgs():
parser = ArgumentParser(description='Filters BLAST output format 6 '
'(tab-delimited) for best hit based on bitscore. '
'Handles additional data following bitscore (column 12).',
... | MicroInfect/bioinfx | blastfilterer.py | Python | gpl-3.0 | 2,012 | [
"BLAST"
] | 6df572863ad4a3f4e61896f08da436f3ff5353a2fef534f7f6f0de21ec0b7884 |
import pandas as pd
# 1.1 Understanding the dataset
# ===================================================================================
# - Import the dataset into a pandas dataframe using the read_table method.
# Because this is a tab separated dataset we will be using '\t' as the value
# for the 'sep' argument whi... | aktse/udacity-mlnd | projects/naive_bayes/spam_model.py | Python | mit | 19,886 | [
"Gaussian"
] | 455593ee653522871b25e0bb3d89d45788f182c36eae18ab453b6795c305c64d |
#!/usr/bin/python
"""
Copyright (C) 2015 Albrecht Kleinfeld and Oskar Maier
This program comes with ABSOLUTELY NO WARRANTY; This is free software,
and you are welcome to redistribute it under certain conditions; see
the LICENSE file or <http://www.gnu.org/licenses/> for details.
"""
# build-in modules
import argpars... | kleinfeld/medpy | bin/medpy_occlusion.py | Python | gpl-3.0 | 7,046 | [
"Gaussian"
] | c15788455639809b77fe6aafe976fae0f8a98e7aab62f6bbc4de89ad15c761b3 |
import RPi.GPIO as GPIO
import sys
import time
import logging
<<<<<<< HEAD
from math import *
from gps_threaded import GpsPoller
=======
from math import radians
from gps_threaded import Point, GpsPoller
>>>>>>> e8f7b34679a54b190cce189c46f1fef55d19994c
from sqlalchemy import create_engine
from sqlalchemy.orm import ses... | kashifpk/droneos | RPi_code/navigator.py | Python | gpl-2.0 | 13,329 | [
"Amber"
] | 4c4af4d03ad740fa2328835296c120db928ea8e8bec9ccdf5107f3ea0ca84842 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# --- BEGIN_HEADER ---
#
# vgridadmin - manage vgrids
# Copyright (C) 2003-2015 The MiG Project lead by Brian Vinter
#
# This file is part of MiG.
#
# MiG is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as publis... | heromod/migrid | mig/shared/functionality/vgridadmin.py | Python | gpl-2.0 | 24,434 | [
"Brian"
] | 1ff298f4771fdd9ba5a849108e70231f37fec430c1b0b20995049e1f00bc2f33 |
# Copyright 2018 Open Source Robotics Foundation, 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.org/licenses/LICENSE-2.0
#
# Unless required by applicable law... | ros2/launch | launch/launch/launch_description.py | Python | apache-2.0 | 8,414 | [
"VisIt"
] | 360702c76f4d567f2508f70f2932007fcb3cb07fdbbedb08447910b13f4caa68 |
"""
Gaussian Mixture Models.
This implementation corresponds to frequentist (non-Bayesian) formulation
of Gaussian Mixture Models.
"""
# Author: Ron Weiss <ronweiss@gmail.com>
# Fabian Pedregosa <fabian.pedregosa@inria.fr>
# Bertrand Thirion <bertrand.thirion@inria.fr>
import warnings
import numpy as... | jchodera/bhmm | bhmm/_external/sklearn/mixture/gmm.py | Python | lgpl-3.0 | 27,825 | [
"Gaussian"
] | deb968773f72e47ab02fc2009171e706cb8b96b935d4c6cea0ec4e103988a0cc |
'''apport package hook for update-manager
(c) 2011 Canonical Ltd.
Author: Brian Murray <brian@ubuntu.com>
'''
from apport.hookutils import *
def add_info(report, ui):
attach_gconf(report, 'update-manager')
response = ui.yesno("Is the issue you are reporting one you encountered when upgrading Ubuntu from on... | Alberto-Beralix/Beralix | i386-squashfs-root/usr/share/apport/package-hooks/source_update-manager.py | Python | gpl-3.0 | 1,524 | [
"Brian"
] | 904bea51cf440edeb4d0269ac7d060b97c714407f5065a7d5c4ec426f1ad2467 |
"""
The Grid module contains several utilities for grid operations
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
import six
import os
import re
from DIRAC.Core.Utilities.Os import sourceEnv
from DIRAC.FrameworkSystem.Client.ProxyManagerClient import g... | yujikato/DIRAC | src/DIRAC/Core/Utilities/Grid.py | Python | gpl-3.0 | 4,227 | [
"DIRAC"
] | a07dd5c5477541a42633ec99b6d1070b1bfc7d4797a29e513d58c3bfca5a8569 |
from txtalert.core.models import Patient, ClinicNameMapping, MSISDN, Visit
from django.conf import settings
from django.contrib.auth.models import User
from django.db import transaction
from datetime import datetime, timedelta
from dateutil.parser import parse as date_util_parse
from txtalert.apps.general.settings.mode... | praekelt/txtalert | txtalert/core/wrhi_automation.py | Python | gpl-3.0 | 16,809 | [
"VisIt"
] | 68b20d8ef0729253f93e1de1ccd57f34bec68f9fc6dcb5c1994e34fc5d1e6d79 |
from node_visitor import NodeVisitor
from scoped_symbol_table import ScopedSymbolTable
from built_in_symbol import BuiltInSymbol
from variable_symbol import VariableSymbol
from function_symbol import FunctionSymbol
class SemanticAnalyzer(NodeVisitor):
def __init__(self):
self.current_scope = None
def ... | doubledherin/my_compiler | semantic_analyzer.py | Python | mit | 3,538 | [
"VisIt"
] | 191037004ebf5fc97c93cc41c5a66c43a30889061c5c0c25142591c05e9718ec |
import os.path, xml.dom.minidom, shutil, StringIO
import xmlstore.xmlstore
import xmlplot.common, xmlplot.data
import common, scenario
class ResultProperties(xmlstore.xmlstore.TypedStore):
"""Class for result properties, based on xmlstore.TypedStore.
Currently this does nothing specific except automatica... | BoldingBruggeman/gotm | gui.py/core/result.py | Python | gpl-2.0 | 9,161 | [
"NetCDF"
] | 90fffa6940e5e254581699cc9d0364b6fc8444cd063ca283815a0b1097eea848 |
# Copyright (C) 2010, Jesper Friis
# (see accompanying license files for details).
"""Definition of the Spacegroup class.
This module only depends on NumPy and the space group database.
"""
import os
import warnings
import numpy as np
__all__ = ['Spacegroup']
class SpacegroupError(Exception):
"""Base excepti... | chrisjsewell/ipymd | ipymd/data_input/spacegroup/spacegroup.py | Python | gpl-3.0 | 25,815 | [
"ASE",
"CRYSTAL"
] | ff96314930aa6628b6492de5691d086f147900cbb34d0d0b7d4fa2b82b104c15 |
# This file is part of cclib (http://cclib.github.io), a library for parsing
# and interpreting the results of computational chemistry packages.
#
# Copyright (C) 2007-2014, the cclib development team
#
# The library is free software, distributed under the terms of
# the GNU Lesser General Public version 2.1 or later. ... | Clyde-fare/cclib | test/__init__.py | Python | lgpl-2.1 | 572 | [
"cclib"
] | 25e46266f0d986e5335bf6bd3fe5647fd40916c2dbebbc40192450fe996c9a8d |
#!/usr/bin/env python
import os
import sys
import math
import time
import importlib
import sysconfig
import subprocess
import collections
if sys.version_info <= (3, 0):
print('Much of this script needs py3')
sys.exit()
# good
#import numpy as np
#import psi4
# bad
import psi4
import numpy as np
def test_t... | CDSherrill/psi4 | psi4/share/psi4/scripts/test_threading.py | Python | lgpl-3.0 | 10,708 | [
"Psi4"
] | 05eac7b58a07b6da6d5b58a89dbd51776341930b3c84a951922684de2e2a8399 |
#!/usr/bin/python
# Copyright 2014-2020 The PySCF Developers. 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
#
# Unles... | sunqm/pyscf | pyscf/pbc/gto/basis/split_HFX_BASIS.py | Python | apache-2.0 | 1,626 | [
"PySCF"
] | f1db6469e8ee771fcc5b3b402acd7f0064154c2ef064a5c1c92f3cdaaa215d14 |
# ----------------------------------------------------------------------------
# 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.
# --------------------------------------------... | Achuth17/scikit-bio | skbio/sequence/tests/test_sequence.py | Python | bsd-3-clause | 102,057 | [
"scikit-bio"
] | 0840194f6edc985be2ff1e50b5a0e23a9c41c41efd7d5c6280be3f5fa246de70 |
import random
HANGMANPICS = ['''
+---+
| |
|
|
|
|
========''','''
+---+
| |
O |
|
|
|
========''','''
+---+
| |
O |
| |
|
|
========''','''
+---+
| |
O |
/| |
|
|
========''','''
+---+
| |
O |
/... | liulyn/python_game | sourceCode/hangman.py | Python | gpl-3.0 | 3,464 | [
"MOOSE"
] | c285e5e350ee1a909acd3e2bbc8c8950cf79a785775dd44d7339fc53ea90965a |
# -*- coding: utf-8 -*-
#
# multimeter_file.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... | stinebuu/nest-simulator | pynest/examples/multimeter_file.py | Python | gpl-2.0 | 6,029 | [
"NEURON"
] | d122673f264048edeb2cdfb4b3b1e17848842390dff87740657f1615364b835f |
from setuptools import setup
setup(
name = 'rformat',
version = '0.2.0',
author = 'brian wickman',
author_email = 'wickman@gmail.com',
license = 'MIT',
description = 'rformat is a recursive version of str.format',
zip_safe = True,
py_modules = ['rformat'],
)
| wickman/rformat | setup.py | Python | mit | 276 | [
"Brian"
] | 83b2e238676216de1bc3a2850c070fc609e7e0f239d4e25742f5836dba4f7ef4 |
from diraccfg import CFG
from DIRAC import S_OK, S_ERROR
from DIRAC.Core.Utilities import List
from DIRAC.ConfigurationSystem.Client.Helpers.Operations import Operations
from DIRAC.Core.Utilities.JDL import loadJDLAsCFG, dumpCFGAsJDL
class JobManifest:
def __init__(self, manifest=""):
self.__manifest = C... | DIRACGrid/DIRAC | src/DIRAC/WorkloadManagementSystem/Client/JobState/JobManifest.py | Python | gpl-3.0 | 9,064 | [
"DIRAC"
] | f367e0742d7c4330b7cd075a60fe7a9afe5ce4e7b7b81a7185245bacbfad6c62 |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2017 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of Psi4.
#
# Psi4 is free software; you can redistribute it and/or modify
#... | rmcgibbo/psi4public | psi4/driver/qcdb/basislistdunning.py | Python | lgpl-3.0 | 33,095 | [
"Psi4"
] | 88c73b9ea2e989f92396f11ce0ca7c16127d7acb7418211d02c4ca1f7b459a10 |
"""
Tests for discussion pages
"""
import datetime
from pytz import UTC
from uuid import uuid4
from nose.plugins.attrib import attr
from ..helpers import UniqueCourseTest
from ...pages.lms.auto_auth import AutoAuthPage
from ...pages.lms.courseware import CoursewarePage
from ...pages.lms.discussion import (
Discus... | UQ-UQx/edx-platform_lti | common/test/acceptance/tests/discussion/test_discussion.py | Python | agpl-3.0 | 34,277 | [
"VisIt"
] | f9fe5837812dfa6af902c35acab89db95e834db24a7297c9d8c4ebed70b47504 |
'''
FieldElements.
>>> import moose
on node 0, numNodes = 1, numCores = 8
Info: Time to define moose classes:0
Info: Time to initialize module:0.05
>>> a = moose.IntFire('a')
Created 123 path=a numData=1 isGlobal=0 baseType=IntFire
>>> b = moose.Synapse('a/b')
Created 125 path=a/b numData=1 isGlobal=0 baseType=Synapse... | BhallaLab/moose-examples | snippets/fieldelement.py | Python | gpl-2.0 | 5,710 | [
"MOOSE"
] | 99c0652fbff16986b06bff690fd52bd410eb27a0020a0676200c25d47cc26987 |
# Authors: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Mathieu Blondel <mathieu@mblondel.org>
# Olivier Grisel <olivier.grisel@ensta.org>
# Andreas Mueller <amueller@ais.uni-bonn.de>
# Eric Martin <eric@ericmart.in>
# Giorgio Patrini <giorgio.patrini@anu.edu.au>
# ... | huzq/scikit-learn | sklearn/preprocessing/_data.py | Python | bsd-3-clause | 115,805 | [
"Gaussian"
] | ec4074ab9c8593b92cedce7b5884fbff364d9893598506d257f4245b37dd8b85 |
###########################################################################
#
# This program is part of Zenoss Core, an open source monitoring platform.
# Copyright (C) 2011, Zenoss Inc.
#
# This program is free software; you can redistribute it and/or modify it
# under the terms of the GNU General Public License versi... | zenoss/ZenPacks.zenoss.PostgreSQL | setup.py | Python | gpl-2.0 | 3,323 | [
"VisIt"
] | e65c0f360c74c66b0ab0a0ec3b931b2a2ad3e72c4de9975d64ecf92e87468102 |
# -*- coding: utf-8 -*-
import json
from catmaid.control.annotation import _annotate_entities
from catmaid.models import ClassInstance, Log
from .common import CatmaidApiTestCase
class NeuronsApiTests(CatmaidApiTestCase):
def test_rename_neuron(self):
self.fake_authentication()
neuron_id = 233
... | catmaid/CATMAID | django/applications/catmaid/tests/apis/test_neurons.py | Python | gpl-3.0 | 3,467 | [
"NEURON"
] | c2204dc3f3e3816eb5d2d9fa29b75e29378c91f96644a0db14176f39fc52b731 |
from datetime import datetime
import os
from matplotlib.mlab import normpdf
from matplotlib.patches import Rectangle
import numpy as np
import pandas as pd
import statsmodels.api as sm
from scipy.stats import wilcoxon, norm, mannwhitneyu
from sklearn.linear_model import LinearRegression
import matplotlib.pyplot as plt
... | jbonaiuto/perceptual-choice-hysteresis | src/python/perceptchoice/experiment/analysis.py | Python | gpl-3.0 | 52,031 | [
"Gaussian"
] | 22994f230fb900765215a8110db064435486e099f327f74cfa5cbfc056c78052 |
#
# Copyright (C) 2001-2005 Ichiro Fujinaga, Michael Droettboom, Karl MacMillan
# 2014 Fabian Schmitt
# 2009-2014 Christoph Dalitz
#
# 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 S... | playingaround2017/test123 | gamera/plugins/listutilities.py | Python | gpl-2.0 | 6,383 | [
"Gaussian"
] | 04915e5367d2932d902b738790e28ef6e2867a24b2d7bf249a1b66293f90142a |
from nose.tools import eq_
import mkt.site.tests
from mkt.feed.models import FeedItem
from mkt.feed.fakedata import app_item, brand, collection, shelf
from mkt.site.fixtures import fixture
from mkt.webapps.models import Webapp
class TestFeedGeneration(mkt.site.tests.TestCase):
fixtures = fixture('webapp_337141'... | mudithkr/zamboni | mkt/feed/tests/test_fakedata.py | Python | bsd-3-clause | 2,143 | [
"Amber"
] | 5f82821e01c95f37a1ff2c6abadc83c8bf9794cbb499e7a780fd28df0718fc19 |
#
# @BEGIN LICENSE
#
# QCDB: quantum chemistry common driver and databases
#
# Copyright (c) 2011-2017 The QCDB Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of QCDB.
#
# QCDB is free software; you can redistribute it and/or modify
# it ... | loriab/qcdb | qcdb/dbwrap.py | Python | lgpl-3.0 | 176,081 | [
"Gaussian",
"Psi4",
"PyMOL"
] | a854bfddce76bba3656da6efe2d1daf8d0be5f511c5f4f990fb24c0792ecc766 |
##############################################################################
# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | tmerrick1/spack | var/spack/repos/builtin/packages/quantum-espresso/package.py | Python | lgpl-2.1 | 6,095 | [
"ESPResSo"
] | 564a2dfb0737fc15b0047373866d6031e98cd1b0064acfd1270c6e84364e7859 |
# -*- coding: utf-8 -*-
# vim: autoindent shiftwidth=4 expandtab textwidth=120 tabstop=4 softtabstop=4
###############################################################################
# OpenLP - Open Source Lyrics Projection #
# ------------------------------------------------------... | marmyshev/item_title | openlp/core/lib/plugin.py | Python | gpl-2.0 | 14,886 | [
"Brian"
] | b2ffc931ce036f81393d4e33dc074576145739af5a66c2eb041762c8887f8dca |
r"""
Spurious PAC with spikes
------------------------
This example demonstrates how a spike train can generate a significant amount
of phase-amplitude coupling (PAC), even though there is no nested oscillations.
This phenomenon is usually referred as spurious PAC.
References
==========
Dupre la Tour et al. (2017). N... | pactools/pactools | examples/plot_spurious_pac.py | Python | bsd-3-clause | 4,284 | [
"Gaussian"
] | 74cf836a58021c42d51debb2445eb9e5f4553582d6f0609ecd1cbee0d8b7c533 |
import os
import dalton
from dalton import FileWrapper
here = os.path.abspath(os.path.dirname(__file__))
| bbangert/Dalton | dalton/tests/test_recordings/empty_play_test/__init__.py | Python | mit | 106 | [
"Dalton"
] | 22e26439e76613c0a67ceb609f39837b71b070f52ce392403e23a39d8f1d751d |
# coding=utf-8
from ladybug.wea import Wea
from ladybug.location import Location
from ladybug.analysisperiod import AnalysisPeriod
from ladybug.epw import EPW
from ladybug.datacollection import HourlyContinuousCollection, HourlyDiscontinuousCollection
from ladybug.dt import DateTime
import pytest
import os
def test_... | ladybug-analysis-tools/ladybug-core | tests/wea_test.py | Python | gpl-3.0 | 16,811 | [
"EPW"
] | e7a89bb36a9b32e57b1dc82fce2e811dd6c1cc62e124e666bc92ea8ff2600887 |
import numpy as np
from numpy import zeros, ones, empty, r_, c_, sqrt, dot
from numpy.linalg import norm
import skimage.io as imio
from skimage.filters import gaussian
from skimage.segmentation import active_contour
from skimage.color import rgb2grey
from skimage.feature import canny
import os
import glob
from tools... | kitizz/edge3d-paper | src/Contours.py | Python | gpl-3.0 | 12,522 | [
"Gaussian"
] | cd9a4a73e8cb22c57ffa44875a25b323322b691752b687207915ee907a758e1c |
# the Scientific Python netCDF 3 interface
# http://dirac.cnrs-orleans.fr/ScientificPython/
from Scientific.IO.NetCDF import NetCDFFile as Dataset
# the 'classic' version of the netCDF4 python interface
# http://code.google.com/p/netcdf4-python/
#from netCDF4_classic import Dataset
from numpy import arange, dtype # arr... | CopyChat/Plotting | Python/simple_xy.py | Python | gpl-3.0 | 1,724 | [
"DIRAC",
"NetCDF"
] | 67790baaa0b14346b80d2fa60a277998096b313714d58387cb44e55198128351 |
# $Id: ShowFeats.py 537 2007-08-20 14:54:35Z landrgr1 $
#
# Created by Greg Landrum Aug 2006
#
#
from __future__ import print_function
# # --- ---- --- ---- --- ---- --- ---- --- ---- --- ----
import sys, os, getopt
from rdkit import RDConfig
from rdkit import Chem
from rdkit.Chem import AllChem
_version = "0.3.2... | InformaticsMatters/pipelines | src/python/pipelines/rdkit/show_feats.py | Python | apache-2.0 | 8,263 | [
"PyMOL",
"RDKit"
] | 5fc29fa48fbaba680df9d86b606551ddc5071d3204db60db2f2facb1127d0c1c |
# Lint as: python3
# Copyright 2020 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 ... | annarev/tensorflow | tensorflow/python/eager/gradient_input_output_exclusions.py | Python | apache-2.0 | 12,732 | [
"VisIt"
] | 10d9651cf428e6f9d8f770258222c17a6f7496ec5141bf4288a352911b257942 |
# -*- coding: utf-8 -*-
"""
py-iCSD toolbox!
Translation of the core functionality of the CSDplotter MATLAB package
to python.
The methods were originally developed by Klas H. Pettersen, as described in:
Klas H. Pettersen, Anna Devor, Istvan Ulbert, Anders M. Dale, Gaute T. Einevoll,
Current-source density estimation ... | INM-6/elephant | elephant/current_source_density_src/icsd.py | Python | bsd-3-clause | 35,190 | [
"Gaussian"
] | afface963046f0df8ffc184e766c1d633fc8bf789ffacd4ff97b4fe772e9a9e1 |
"""
Plots elevation time series
"""
import h5py
from netCDF4 import Dataset
from thetis.timezone import *
import numpy as np
import matplotlib.pyplot as plt
from collections import OrderedDict
timezone = FixedTimeZone(-8, 'PST')
init_date = datetime.datetime(2006, 5, 10, tzinfo=timezone)
epoch = datetime.datetime(19... | tkarna/cofs | examples/columbia_plume/plot_elevation_ts.py | Python | mit | 3,162 | [
"NetCDF"
] | 4777040385380589cc6041dacf4becf844cebb5059be06d0be335cf1d0f7703e |
import unittest
from neural_network_with_connections import Neuron, Layer
from unittest import TestCase
class NeuralNetworkTests(TestCase):
def test_connection_adds_to_incoming_and_outgoing_arrays(self):
neuron = Neuron(input=0)
neuron_2 = Neuron()
neuron.connect_child(neuron_2, weight=... | dev-coop/neural-net-hacking-examples | python/Part 4/neural_network_with_connections_tests.py | Python | mit | 1,740 | [
"NEURON"
] | 466592b3664847c0fc4f766a96b00b3e2f2d404fea7eb3f8ec813c4bc06a8fd0 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
from ConfigParser import ConfigParser
import time
from PyQt4.QtGui import QApplication
from scipy import exp, sqrt, log10, log
from scipy.optimize import fsolve, leastsq
from numpy.linalg import solve
from numpy import array
import unidades
from physics import R_atml, R_Btu
... | edusegzy/pychemqt | lib/petro.py | Python | gpl-3.0 | 186,146 | [
"Elk"
] | da54ee18abc43eb9e089b50d19f594017222cc819481221434fb95c087112396 |
"""
This is the sqlalchemy class for communicating with the visits table
"""
from sqlalchemy import Column, Integer, DateTime, ForeignKey
import models.base as base
from utils.utils import *
class VolunteerVisit(base.Base):
"""Sqlalchemy deals model"""
__tablename__ = "volunteervisits"
id = Column(Int... | jlutz777/FreeStore | models/volunteervisit.py | Python | mit | 963 | [
"VisIt"
] | 28bcd9d66347c3d968947909e1dafb6d6b17cbd68169706de6ef0a63bd299109 |
#
# Copyright (C) 2013-2019 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... | fweik/espresso | samples/gibbs_ensemble_client.py | Python | gpl-3.0 | 6,432 | [
"ESPResSo"
] | 4867c83e482f4b2580a3778ff88cc1d1d3b21b05609fde7f7c7553f2e3a4627a |
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