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"""this is python equivalent of ./Wrapping/Tcl/vtktesting/backdrop.tcl
This script is used while running python tests translated from Tcl."""
import vtk
basePlane = None
baseMapper = None
base = None
backPlane = None
backMapper = None
back = None
leftPlane = None
leftMapper = None
left = None
def BuildBackdrop (mi... | cjh1/vtkmodular | Utilities/vtkTclTest2Py/backdrop.py | Python | bsd-3-clause | 1,927 | [
"VTK"
] | 51b2d29d9f00c0302f17a3d0243ff28fabd13e4588ba0088fd3c1cb16d1d26b0 |
# Copyright (C) 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 versio... | espressomd/espresso | testsuite/scripts/samples/test_ekboundaries.py | Python | gpl-3.0 | 1,413 | [
"ESPResSo",
"VTK"
] | caf9d404bd088dc0f2bc77bb02292dbfabd9842ecf3e8cfb961b06b63109e038 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
import math
import pytest
import psi4
import forte
def test_spinorbital_mp2():
import forte
import forte.utils
from math import isclose
import numpy as np
geom = """0 1
H
F 1 1.0
symmetry c1
"""
basis = '6-31g'
Escf, wfn = fo... | evangelistalab/forte | tests/pytest/helpers/test_spinorbital.py | Python | lgpl-3.0 | 1,809 | [
"Psi4"
] | 709df33ca405dfc9a00b7d876cc1c36eb916efc2d045960dec31f5384b4b6437 |
#!/usr/bin/env python
##################################################
## DEPENDENCIES
import sys
import os
import os.path
try:
import builtins as builtin
except ImportError:
import __builtin__ as builtin
from os.path import getmtime, exists
import time
import types
from Cheetah.Version import MinCompatib... | MOA-2011/enigma2-plugin-extensions-openwebif | plugin/controllers/views/ajax/bouquets.py | Python | gpl-2.0 | 6,693 | [
"VisIt"
] | 9be85ed11b8023d7a84ff9700fd90b43a39d475fa66bd7825cd964e4401a817b |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Test Utilities Trapped Services
-------------------------------
"""
import unittest
from bacpypes.debugging import bacpypes_debugging, ModuleLogger
from bacpypes.comm import ServiceAccessPoint, ApplicationServiceElement, bind
from ..trapped_classes import TrappedSer... | JoelBender/bacpypes | tests/test_utilities/test_service_access_point.py | Python | mit | 3,492 | [
"ASE"
] | f4dc15f5aafc77c06cf2138eacb861a2cc8bf680bd7cfff074be368a0e28b2f5 |
import cStringIO
import numpy as np
import theano.tensor as T
from theano.tests import disturb_mem
from theano.tests.record import Record, RecordMode
import warnings
from pylearn2.costs.cost import Cost, SumOfCosts, DefaultDataSpecsMixin
from pylearn2.datasets.dense_design_matrix import DenseDesignMatrix
from pylearn... | kastnerkyle/pylearn2 | pylearn2/training_algorithms/tests/test_sgd.py | Python | bsd-3-clause | 48,393 | [
"VisIt"
] | 9739c7a2e9153bbee54fdc2cebefc9b798d5838b188313e8888faa0595ca20f8 |
# -*- coding: utf-8 -*-
# These tests don't work at the moment, due to the security_groups multi select not working
# in selenium (the group is selected then immediately reset)
import fauxfactory
import pytest
from riggerlib import recursive_update
from textwrap import dedent
from widgetastic.utils import partial_matc... | akarol/cfme_tests | cfme/tests/cloud/test_provisioning.py | Python | gpl-2.0 | 27,785 | [
"VisIt"
] | 6b2e8e4f18f97b5b6da2ced4418ec7917ad4673df9063c8ebf0a14ac093ed578 |
# sybase/base.py
# Copyright (C) 2010-2015 the SQLAlchemy authors and contributors
# <see AUTHORS file>
# get_select_precolumns(), limit_clause() implementation
# copyright (C) 2007 Fisch Asset Management
# AG http://www.fam.ch, with coding by Alexander Houben
# alexander.houben@thor-solutions.ch
#
# This module is par... | bdh1011/cupeye | venv/lib/python2.7/site-packages/sqlalchemy/dialects/sybase/base.py | Python | bsd-3-clause | 28,812 | [
"ASE"
] | 6096c8dde9a2062f5379ba15a27c704359e7071b93d99e22f4d715a89aa74aba |
# Copyright (c) 2014 OpenStack Foundation.
#
# 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 ... | julianwang/cinder | cinder/hacking/checks.py | Python | apache-2.0 | 12,426 | [
"VisIt"
] | 4618cfd94478b6ebbc3cb34218eb8ee8bc425395158e226a6c1d7db77732d7c4 |
#!/usr/bin/env python
# emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
# vi: set ft=python sts=4 ts=4 sw=4 et:
"""
======================================
fMRI: surface smooth - FreeSurfer, SPM
======================================
This tutorial illustrates how to perform surface-based smoothi... | FCP-INDI/nipype | examples/fmri_freesurfer_smooth.py | Python | bsd-3-clause | 22,931 | [
"Gaussian"
] | f7b83213cd936985e3ddf6e27dd203a9f08af7061105cda731df69aad00e90a4 |
#!/usr/bin/env python
#
# Robin Shields-Cutler
# August 2016
# takes standard blast output TSV (outfmt 6-- *.b6 or *.txt, etc) and stores entries in dictionary,
# then writes to dataframe and exports as CSV
usage = 'blastp_to_matrix.py -i BLASTOUT.b6 -s SCORE_METHOD -t THRESHOLD -o OUTFILE.csv'
import argparse
import... | RRShieldsCutler/clusterpluck | clusterpluck/scripts/blastp_to_matrix.py | Python | mit | 6,813 | [
"BLAST"
] | 73200aa65e0f0f7225b4bb2937262fbc54a4d54cdf53f016f769693fbfaa8046 |
# -*- coding: utf-8 -*-
##
## This file is part of Invenio.
## Copyright (C) 2011, 2012 CERN.
##
## Invenio 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 opt... | kaplun/ops | modules/bibauthorid/lib/bibauthorid_webapi.py | Python | gpl-2.0 | 111,884 | [
"VisIt"
] | 8665d2a71498e2a169709127f3307d69d6bb1e9ede0698d0ac00421261982244 |
# -*- encoding: utf-8
from sqlalchemy import Column
from sqlalchemy import engine_from_config
from sqlalchemy import event
from sqlalchemy import exc
from sqlalchemy import Integer
from sqlalchemy import String
from sqlalchemy import Table
from sqlalchemy import testing
from sqlalchemy.dialects.mssql import adodbapi
fr... | graingert/sqlalchemy | test/dialect/mssql/test_engine.py | Python | mit | 16,955 | [
"ASE"
] | 8e88e252b1658a8c0e2b1f4717625fa2451bc0152944655d68790275c1faf243 |
# (c) 2017, Brian Coca
# (c) 2017 Ansible Project
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
# Make coding more python3-ish
from __future__ import (absolute_import, division, print_function)
__metaclass__ = type
DOCUMENTATION = '''
cache: pickle
short_descript... | alxgu/ansible | lib/ansible/plugins/cache/pickle.py | Python | gpl-3.0 | 1,997 | [
"Brian"
] | dde13d46f249b7bdbc8e34e1eaceebb9d095c16906c4e09b08ac39a2b7668363 |
#!/usr/bin/env python
import radical.utils as ru
#import radical.analytics as ra
import radical.entk as re
from radical.entk import Pipeline, Stage, Task, AppManager
import os
import tarfile
import writeInputs
import time
import git
#os.environ['RADICAL_SAGA_VERBOSE'] = 'INFO'
os.environ['RADICAL_ENTK_VERBO... | radical-cybertools/radical.repex | old/examples/experimental_async.py | Python | mit | 8,631 | [
"Amber"
] | 4422d70c52fdfcb4971f9da4677eafd3d22775ac720ee22387aecda99b28b1c4 |
# 460. LFU Cache
# Design and implement a data structure for Least Frequently Used (LFU) cache. It should support the following operations: get and put.
#
# get(key) - Get the value (will always be positive) of the key if the key exists in the cache, otherwise return -1.
# put(key, value) - Set or insert the value if ... | gengwg/leetcode | 460_lfu_cache.py | Python | apache-2.0 | 3,669 | [
"VisIt"
] | 8fa0e0f94afd8b5adaf3e7d9ceca217c06672ed772b8a89defc31e782ff273f8 |
#
# Copyright 2015 The AMP HTML 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 applic... | ampproject/amppackager | vendor/github.com/ampproject/amphtml/validator/validator_gen_js.py | Python | apache-2.0 | 37,258 | [
"VisIt"
] | cf925bc9772b04de218b0cc06307556fdfa4c113c0aa93d6a4e738e72f371855 |
##############################################################################
# MDTraj: A Python Library for Loading, Saving, and Manipulating
# Molecular Dynamics Trajectories.
# Copyright 2012-2014 Stanford University and the Authors
#
# Authors: Kyle A. Beauchamp
# Contributors: Robert McGibbon
#
# MDTraj i... | kyleabeauchamp/mdtraj | mdtraj/nmr/shift_wrappers.py | Python | lgpl-2.1 | 12,264 | [
"MDTraj"
] | f7412dc25e2c7d426b69ff74009864e6ee6bfbb458d57550fc7ebf8a732416cc |
# -*- coding: utf-8 -*-
"""
"""
from __future__ import absolute_import
from ._utils import _cd
from ..unitquantity import UnitConstant
N_A = L = Avogadro_constant = UnitConstant(
'Avogadro_constant',
_cd('Avogadro constant'),
symbol='N_A'
)
n_0 = Loschmidt_constant = UnitConstant(
'Loschmidt_constant... | AdaptiveApplications/carnegie | tarc_bus_locator_client/quantities-0.10.1/quantities/constants/statisticalmechanics.py | Python | mit | 1,648 | [
"Avogadro"
] | f2df8b6e65a3aab739ec39295f5815b614b0b4c2f68bd5226a573aa81fbb03b8 |
import matplotlib.pyplot as plt
import matplotlib.gridspec as gridspec
from os.path import join
from . import mp_cent_dens
from . import add_version_plot
from . import prep_plots
from . prep_plots import grid_x, grid_y, figsize_x, figsize_y
def main(npd, cld_i, pd, clp):
"""
Make A2 block plots.
"""
... | asteca/ASteCA | packages/out/make_A2_plot.py | Python | gpl-3.0 | 2,412 | [
"Gaussian"
] | 145c12c57aceee5b1e6386ab816e7e2f4a2ef0cad37812c2be6a6e6d60bd54d4 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#This module calculates statistics and saves it to a file
import numpy as np
import stat_functions as stat
from scipy import stats as scstats
import functions as fu
import loglikelihood as logl
from tkinter import font as tkfont
import tkinter as tk
STANDARD_LENGTH=8
c... | espensirnes/paneltime | build/lib.win-amd64-3.7/paneltime/stat_object.py | Python | gpl-3.0 | 5,294 | [
"ADF"
] | db93ded9862e796782301579c88d67a1651423ecffe400bdbe9b1f3d5fdbb30e |
#
# A number of functions which can be used to generate different types of noise,
# which can then be added to model output to simulate experimental data.
#
# This file is part of PINTS (https://github.com/pints-team/pints/) which is
# released under the BSD 3-clause license. See accompanying LICENSE.md for
# copyright... | martinjrobins/hobo | pints/noise.py | Python | bsd-3-clause | 9,614 | [
"Gaussian"
] | c2d87aa104a0897771d1b1e5508b99ec52e550397e55f3741f6624ff8181b63d |
import fileinput
import math
import collections
import time
import numpy as np
from pylab import *
from matplotlib import pyplot as plt
import matplotlib.mlab as mlab
#file_path = '/media/ABB4-4F3A/DATALOG.TXT'
file_path = 'DATALOG.TXT'
def split_in_blocks(txt_file, pattern):
'''
Find the last appears of the text t... | gmartinvela/OpenRocket | generate_statistics_from_SD.py | Python | mit | 7,682 | [
"Gaussian"
] | cc6c40a69c1b27edce41269b3e96addafa07b803055dcc8addfa3ca70b466128 |
"""
BigchainDB: A Scalable Blockchain Database
For full docs visit https://bigchaindb.readthedocs.org
"""
from setuptools import setup, find_packages
tests_require = [
'pytest',
'coverage',
'pep8',
'pyflakes',
'pylint',
'pytest',
'pytest-cov',
'pytest-xdist',
'pytest-flask',
]
de... | bigchaindb/bigchaindb-examples | setup.py | Python | apache-2.0 | 2,007 | [
"VisIt"
] | f6729395bb52362ec14fec492655f15b2f37a11f2c923f9689d45b181d71bbc5 |
"""
This object is a small tool to allow user to quickly
determine the variance in q from the
instrumental parameters.
"""
import sys
from math import pi, sqrt
import math
import logging
import numpy as np
from .instrument import Sample
from .instrument import Detector
from .instrument import TOF as Neutron
from .in... | SasView/sasview | src/sas/sascalc/calculator/resolution_calculator.py | Python | bsd-3-clause | 39,431 | [
"Gaussian"
] | a5f2c46d9d565457e9f084ac1c5fa8a7f363102b283dca0b8c1969dd16c4fc7d |
"""Protocol and threaded interface for data acquisition."""
import time
import numpy
from PyQt5 import QtCore
from axopy.messaging import Transmitter
from axopy.gui.main import get_qtapp, qt_key_map
from axopy.pipeline import Filter
class DaqStream(QtCore.QThread):
"""Asynchronous interface to an input device.
... | ucdrascal/axopy | axopy/daq.py | Python | mit | 11,328 | [
"Gaussian"
] | c9f9727b5784d3f8e41b529307be74355a0e69a6686e66db0e2316821ba5a855 |
# -*- 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 required by applicable law or... | googleapis/python-compute | tests/unit/gapic/compute_v1/test_region_disks.py | Python | apache-2.0 | 183,067 | [
"Octopus"
] | 40a79702f2b10b056300b5f13b0e3f40ecf046b23e2a354e4879d643afe286c4 |
# class generated by DeVIDE::createDeVIDEModuleFromVTKObject
from module_kits.vtk_kit.mixins import SimpleVTKClassModuleBase
import vtk
class vtkImageBlend(SimpleVTKClassModuleBase):
def __init__(self, module_manager):
SimpleVTKClassModuleBase.__init__(
self, module_manager,
vtk.vtk... | chrisidefix/devide | modules/vtk_basic/vtkImageBlend.py | Python | bsd-3-clause | 505 | [
"VTK"
] | 44533d6fa5f9b151d00323fe593e6841bc96377531ae7a72273445b3cb357b48 |
import numpy as np
from numpy.linalg import inv
import vtk
#import vtk.util.numpy_support as converter
from vtk.io import vtkPLYReader
import h5py
from pipeline_config import COLOR_OCTOMAP_H5_FILE,\
GPS_FILE, EXPORT_START, EXPORT_STEP, EXPORT_NUM,\
OCTOMAP_H5_FILE, STATIC_VTK_FILE, DYNAMIC_VTK_FILE, MAP... | sameeptandon/sail-car-log | mapping/viz/blockworld.py | Python | bsd-2-clause | 10,247 | [
"VTK"
] | 082d8c2db3df584602b023a28fca0088593fde271b5283dce41f225cde28afcc |
# -*- coding: utf-8 -*-
#
#
# TheVirtualBrain-Scientific Package. This package holds all simulators, and
# analysers necessary to run brain-simulations. You can use it stand alone or
# in conjunction with TheVirtualBrain-Framework Package. See content of the
# documentation-folder for more details. See also http://ww... | echohenry2006/tvb-library | tvb/simulator/demos/region_deterministic_stimulus.py | Python | gpl-2.0 | 4,737 | [
"Gaussian"
] | b2941f07ec9b9e1d3c7d90f65f911edad40517c9bc2df4cbb900bc57b58a37fd |
#!/usr/bin/env python
import ROOT
import numpy as numpy
import array
import io, os, sys
import optparse
import commands
from UserCode.HGCanalysis.PlotUtils import *
from UserCode.HGCanalysis.HGCTree2Workspace import *
INTEGMIPEM=None
WEIGHTINGSCHEME=None
"""
Starts weighting scheme
"""
def initWeightingScheme(opt) :... | lgray/HGCanalysis | test/analysis/runPionCalibration.py | Python | gpl-3.0 | 74,020 | [
"Gaussian"
] | 47ec75f64731eecb2f2e26ca74771e201a8aa96c5d7b762023c96e13bb71d202 |
from __future__ import division, print_function, absolute_import
import networkx as nx
import numpy as np
from matplotlib import pyplot as plt
from scipy.spatial.distance import cdist
from .utilities import DifferenceKernel
from .SafeMDP_class import (reachable_set, returnable_set, SafeMDP,
... | befelix/SafeMDP | safemdp/grid_world.py | Python | mit | 25,021 | [
"Gaussian"
] | 9685f44f862f354f2adde8883f6d22d193ab46bad946123d623c05d1d15f3598 |
#!/usr/bin/env python
########################################################################
# File : dirac-jobexec
# Author : Stuart Paterson
########################################################################
""" The dirac-jobexec script is equipped to execute workflows that
are specified via their XML... | ic-hep/DIRAC | src/DIRAC/WorkloadManagementSystem/scripts/dirac_jobexec.py | Python | gpl-3.0 | 4,315 | [
"DIRAC"
] | 362205e8069b1689a2fe489e01ce4f23f551aeec7f442d528ddd6078cfbac148 |
##
# Copyright 2009-2016 Ghent University
#
# This file is part of EasyBuild,
# originally created by the HPC team of Ghent University (http://ugent.be/hpc/en),
# with support of Ghent University (http://ugent.be/hpc),
# the Flemish Supercomputer Centre (VSC) (https://www.vscentrum.be),
# Flemish Research Foundation (F... | ocaisa/easybuild-easyblocks | easybuild/easyblocks/o/openfoam.py | Python | gpl-2.0 | 19,042 | [
"ParaView"
] | 1070fe13f5617aaa0d82518d74c5269b8b39533a880930902a166f4d2ddba3bf |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
#
# Orca documentation build configuration file, created by
# sphinx-quickstart on Tue Apr 7 16:19:37 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
# autog... | UDST/orca | docs/source/conf.py | Python | bsd-3-clause | 8,328 | [
"ORCA"
] | c5ab5182a56d4fc6a8abfec81dffffa3ab6229e108b04e54c6be9672b3c88b22 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# Copyright (C) 2013 Radim Rehurek <me@radimrehurek.com>
# Licensed under the GNU LGPL v2.1 - http://www.gnu.org/licenses/lgpl.html
"""
Deep learning via word2vec's "skip-gram and CBOW models", using either
hierarchical softmax or negative sampling [1]_ [2]_.
The train... | wtgme/labeldoc2vec | build/lib.linux-x86_64-2.7/gensim/models/word2vec.py | Python | lgpl-2.1 | 92,365 | [
"VisIt"
] | ed070889c72e224773d97d0227c785e1f552302d568ca6c74a7331a7fea90145 |
"""A meta-component that allows a component to be optionally enabled
or disabled. This component is mostly for illustration and is not
used anywhere. This is because it is usually much easier to simply
add a trait in the module to enable/disable a particular component.
"""
# Author: Prabhu Ramachandran <prabhu_r@use... | dmsurti/mayavi | mayavi/components/optional.py | Python | bsd-3-clause | 4,594 | [
"Mayavi"
] | fb943d6bed6685e3ff83aa2831194933a38f995a58356c800fa8953731213cdd |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
'''
cc_plugin_ncei/ncei_timeseries_profile.py
'''
from compliance_checker.base import BaseCheck
from cc_plugin_ncei.ncei_base import TestCtx, NCEI1_1Check, NCEI2_0Check
from cc_plugin_ncei import util
from isodate import parse_duration
class NCEITimeSeriesProfileOrthogon... | ioos/cc-plugin-ncei | cc_plugin_ncei/ncei_timeseries_profile.py | Python | apache-2.0 | 32,990 | [
"NetCDF"
] | b3cd526f2e2ecf21df1f548cc02e0c459893618c7e4861042bf6b42347d96fa0 |
"""
EvMenu
This implements a full menu system for Evennia. It is considerably
more flexible than the older contrib/menusystem.py and also uses
menu plugin modules.
To start the menu, just import the EvMenu class from this module.
Example usage:
```python
from evennia.utils.evmenu import EvMenu
EvMenu(calle... | titeuf87/evennia | evennia/utils/evmenu.py | Python | bsd-3-clause | 39,605 | [
"VisIt"
] | 45cb217936ef02c734b14ca541a36c8e2ddbe755eb29c5d07a23dc7f3d3fe31a |
'''
hw4_2.py
A single cell driven by synaptic inputs.
Written by Sungho Hong, Computational Neuroscience Unit, OIST, 2017
'''
from neuron import h, gui
h.load_file("stdrun.hoc")
h.load_file("CNSutils.hoc") # CNSsaveVectors
# The simulation will run for 100 ms.
h.tstop = 300
# Global sampling period will be 0.1 ms ... | shhong/a310_cns_2017 | Assignment_4/hw4_2.py | Python | gpl-3.0 | 2,504 | [
"NEURON"
] | b2f755c75c2fb82ea050accd3d2f585babf91f9565a9084628ab572f8b494887 |
"""
=============================================
Integration and ODEs (:mod:`scipy.integrate`)
=============================================
.. currentmodule:: scipy.integrate
Integrating functions, given function object
============================================
.. autosummary::
:toctree: generated/
quad ... | teoliphant/scipy | scipy/integrate/__init__.py | Python | bsd-3-clause | 1,850 | [
"Gaussian"
] | be24f8b451d8b7d2002ef186d66697988e0abb72d88091019a17d2538ed64ce6 |
"""
KeepNote
General rich text editor that saves to HTML
"""
#
# KeepNote
# Copyright (c) 2008-2009 Matt Rasmussen
# Author: Matt Rasmussen <rasmus@mit.edu>
#
# 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... | reshadh/Keepnote-LaTeX | keepnote/gui/richtext/__init__.py | Python | gpl-2.0 | 46,902 | [
"VisIt"
] | 46055e730cdb2dfa406687b90cf63d721b7f8828a638aff9152b5a54fbe934ac |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
'''
=========================================================================
Program: Visualization Toolkit
Module: TestNamedColorsIntegration.py
Copyright (c) Ken Martin, Will Schroeder, Bill Lorensen
All rights reserved.
See Copyright.txt or http://www.... | HopeFOAM/HopeFOAM | ThirdParty-0.1/ParaView-5.0.1/VTK/Imaging/Core/Testing/Python/TestAllMaskBits.py | Python | gpl-3.0 | 3,568 | [
"VTK"
] | a6c0e881c9c7c73e76490ae6b697c9cbfcc375d03285b05797571998f4692ac4 |
import ssl
from sleekxmpp import ClientXMPP
from ShadowLogger import ShadowLogger
from Constants import Constants
class LoLChat(ClientXMPP):
users = []
def __init__(self, shadow, loldb, jid, password):
self.shadow = shadow
self.loldb = loldb
self.INTERCONTINENT = self.loldb.GetSetting("LoLRedbackID")
#Crea... | RedbackThomson/LoLShadow | LoLChat.py | Python | mit | 5,800 | [
"VisIt"
] | fb05c4d267c4c212478e6a95e0e46ada065e3a1af2ba8b83f125abc7df2e3059 |
# Copyright 2010 United States Government as represented by the
# Administrator of the National Aeronautics and Space Administration.
# Copyright 2012 Hewlett-Packard Development Company, L.P.
#
# Licensed under the Apache License, Version 2.0 (the "License"); you may
# not use this file except in compliance with the L... | scripnichenko/nova | nova/tests/unit/matchers.py | Python | apache-2.0 | 18,988 | [
"VisIt"
] | 0e2c6f32d21553062b257d9dc966a323d511cbf17380661f9e69384cccc69417 |
import os
import cPickle
from sys import argv
ATOMS = ["H", "C", "N", "O", "S", "P"]
def read_charges(filename):
""" Reads NPA charges from an outputfile containing NPA/NBO output
"""
f = open(filename, "r")
lines = f.readlines()
f.close()
start_line = 0
end_line = 0
for i, line in ... | andersx/dftbfit | scripts/parse_orca.py | Python | bsd-2-clause | 1,786 | [
"Gaussian"
] | 00271c4cbacc9f65069a1931125d637a13855228b98872649988038ebd56c297 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
'''
Modified parameters file for the Hybrid LFP scheme, applying the methodology with
the model of:
Potjans, T. and Diesmann, M. "The Cell-Type Specific Cortical Microcircuit:
Relating Structure and Activity in a Full-Scale Spiking Network Model".
Cereb. Cortex (2014) 24 (... | espenhgn/hybridLFPy | examples/Hagen_et_al_2016_cercor/cellsim16popsParams_default.py | Python | gpl-3.0 | 39,405 | [
"Gaussian",
"NEURON"
] | a0159324ea7e2bcf223a2a03874ca9c7a4cec52c44a0bd6f7b734d0206548df7 |
import numpy as np
from matplotlib import pyplot
import rft1d
eps = np.finfo(float).eps #smallest float
#(0) Set parameters:
np.random.seed(0)
nResponses = 2000
nNodes = 101
FWHM = 10.0
interp = True
wrap = True
heights = [2.2, 2.4, 2.6, 2.8]
### generate data:
y ... | 0todd0000/rft1d | rft1d/examples/val_upx_0_gauss_cluster.py | Python | gpl-3.0 | 1,372 | [
"Gaussian"
] | e084ff2721f39f08a28ff53e3bb83f2a799476ad7e6664500d23e9b898826b09 |
import struct, zlib, sys, re, os, gzip, random
import Bio.Align
#import Bio.Format.BamIndex as BamIndex
from Bio.Sequence import rc
from cStringIO import StringIO
from string import maketrans
from Bio.Range import GenomicRange
from subprocess import Popen, PIPE
_bam_ops = maketrans('012345678','MIDNSHP=X')
_bam_char = ... | jason-weirather/Au-public | iron/pythonlib/Bio/Format/Sam.py | Python | apache-2.0 | 29,728 | [
"Biopython"
] | 280839cea3b1c48f639db57149fcc354f1155e6e75e8b36db05b44a954c5598c |
# - Coding UTF8 -
#
# Networked Decision Making
# Development Sites (source code):
# http://code.google.com/p/global-decision-making-system/
# http://github.com/NewGlobalStrategy/NetDecisionMaking
#
# Demo Sites (Google App Engine)
# http://netdecisionmaking.appspot.com
# http://globaldecisionmaking.appspot.co... | NewGlobalStrategy/NetDecisionMaking | controllers/event.py | Python | mit | 21,172 | [
"VisIt"
] | 344ae084912904dee568726ba9fe4f719c38573e60a03acaaac67645645080c9 |
# ==============================================================================
# Copyright 2015 The Paragon 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
#
... | Klaminite1337/Paragon | WindowsBoot.py | Python | mit | 25,298 | [
"Gaussian"
] | 30c3863ec1796fc688e68739caff31c6ba4ddb059f2d481a1cb63a2808637ab4 |
#!/usr/bin/python
# Code to read in years of hourly high resolution ERA5 t, td and land_sea_mask data
# Converts to q, RH, e, tw and DPD
# Aggregates to daily average
# Regrids to 1by1 degree and shifts to -179.5 ot 179.5 and 180 lats from 89.5 to -89.5 (was 181 lats!!!)
# Outputs as netCDF
# Later code will read in ... | Kate-Willett/Climate_Explorer | PYTHON/get_era5.py | Python | cc0-1.0 | 21,719 | [
"NetCDF"
] | d714684b152e01bd7850ecf52a83730cf4b73bf3c19c89524097f3cf1253bab0 |
import sys, string
import export
import math
import random
import copy
import os
import os.path
import unique
R_present=True
try:
### If file is present use this location
loc = unique.filepath('Config/R_location.txt')
s = open(loc,'r')
useStaticLocation=s.read()
#print useStaticLocation
#print ... | wuxue/altanalyze | R_interface.py | Python | apache-2.0 | 52,813 | [
"Bioconductor"
] | bd17639fb37642be3e554259acb58c0bde169feb488a6450b7bdd83df218f929 |
#!/usr/bin/env python
import vtk
# arrow.py adapted from the C++ vtk examples and translated to python.
def main():
colors = vtk.vtkNamedColors()
arrowSource = vtk.vtkArrowSource()
# arrowSource.SetShaftRadius(0.01)
# arrowSource.SetTipLength(.9)
# Create a mapper and actor
mapper = vtk.vt... | lorensen/VTKExamples | src/Python/GeometricObjects/Arrow.py | Python | apache-2.0 | 934 | [
"VTK"
] | 7dc22f8acb834110373427db46aec19416eeab361c0f4e0e86ab527a635b3c09 |
# Copyright (C) 2012 Mathias Brodala
#
# 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, or (at your option)
# any later version.
#
# This program is distributed in the hope that... | eri-trabiccolo/exaile | plugins/osd/__init__.py | Python | gpl-2.0 | 12,493 | [
"FLEUR"
] | b6be84be918145dede23ff25988addfe06e12f0127e84e53370abac07ebc4b19 |
# test_efield.py ---
#
# Filename: test_efield.py
# Description:
# Author: Subhasis Ray
# Maintainer:
# Created: Wed Sep 28 12:31:43 2011 (+0530)
# Version:
# Last-Updated: Wed Sep 28 16:10:11 2011 (+0530)
# By: Subhasis Ray
# Update #: 118
# URL:
# Keywords:
# Compatibility:
#
#
# Commentary: ... | BhallaLab/moose-thalamocortical | TESTS/pymoose/test_efield.py | Python | lgpl-2.1 | 4,572 | [
"MOOSE"
] | 565ea0db78a678b0ab7fef3ed844ca77b06db10d36848710d0393e423ca813b9 |
"""
=======================================
Signal processing (:mod:`scipy.signal`)
=======================================
Convolution
===========
.. autosummary::
:toctree: generated/
convolve -- N-dimensional convolution.
correlate -- N-dimensional correlation.
fftconvolve --... | bkendzior/scipy | scipy/signal/__init__.py | Python | bsd-3-clause | 12,650 | [
"Gaussian"
] | 030a40a7e98de0d6a9b04202e62895c096b766d65f7b96eabd2305bcc8b95ba6 |
#!/usr/bin/env python
#
# Author: Qiming Sun <osirpt.sun@gmail.com>
#
'''
The force from QM region acting on the background MM particles.
'''
from functools import reduce
import numpy
from pyscf import gto, scf, mp, qmmm
mol = gto.M(atom='''
C 1.1879 -0.3829 0.0000
C 0.0000 0.5526 0.0000
O -1.18... | sunqm/pyscf | examples/qmmm/30-force_on_mm_particles.py | Python | apache-2.0 | 6,522 | [
"PySCF"
] | f8009fe5a86e259e088efde319ec262d284dbdcc5cce5123139509a567f53eb1 |
from rest_framework import viewsets, permissions, mixins
from rest_framework.exceptions import PermissionDenied
from timetable.models import WorkingHour
from users.models import Doctor, Patient, User
from .models import Visit
from .serializers import VisitSerializer
class VisitViewSet(viewsets.GenericViewSet,
... | vechnoe/clinic | src/apps/reception_office/views.py | Python | mit | 1,116 | [
"VisIt"
] | 75453aaf228a21d7264f56f933dfc3d3b78d27001958d0d415f625618a4d2491 |
import pytest
from ceph_deploy.cli import get_parser
COMP_FLAGS = [
'mon', 'mds', 'rgw', 'osd', 'common', 'all'
]
class TestParserInstall(object):
def setup(self):
self.parser = get_parser()
def test_install_help(self, capsys):
with pytest.raises(SystemExit):
self.parser.pa... | SUSE/ceph-deploy-to-be-deleted | ceph_deploy/tests/parser/test_install.py | Python | mit | 6,476 | [
"Firefly"
] | bfb67847a2924ff1a29523598fab4924e6ebc1e77cb9b58175c909adeda1b6a7 |
#!/usr/local/bin/python -i
# preceeding line should have path for Python on your machine
# simple.py
# Purpose: mimic operation of couple/simple/simple.cpp via Python
# Syntax: simple.py in.lammps
# in.lammps = LAMMPS input script
import sys
# parse command line
argv = sys.argv
if len(argv) != 2:
print ... | jcarlson23/lammps | python/examples/simple.py | Python | gpl-2.0 | 1,043 | [
"LAMMPS"
] | 78d5a6ad27180ee89d51fa45f37ea5ffc4583cc7a88e0b7d73bcbfb69ad07a9b |
# Copyright 2012, 2013 The GalSim developers:
# https://github.com/GalSim-developers
#
# This file is part of GalSim: The modular galaxy image simulation toolkit.
#
# GalSim 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... | mardom/GalSim | galsim/config/value.py | Python | gpl-3.0 | 38,704 | [
"Galaxy",
"Gaussian"
] | cd0f46bbc9cbb8f63c0a24d4c48e14c522f21a26c901e60cc7c4b55f9084117d |
#pylint: disable=missing-docstring
#################################################################
# DO NOT MODIFY THIS HEADER #
# MOOSE - Multiphysics Object Oriented Simulation Environment #
# #
# (c) 2010... | backmari/moose | python/chigger/utils/AxisOptions.py | Python | lgpl-2.1 | 4,689 | [
"MOOSE",
"VTK"
] | 81833a0caaf94ac2822ecb7c106c57d96db39a88213c339bd47d35756e279ab5 |
"""
dmath v0.9.1
Python math module for Decimal numbers. All functions should return Decimal
numbers. Probably only works with real numbers.
pi, exp, cos, sin from Decimal recipes:
http://docs.python.org/lib/decimal-recipes.html
float_to_decimal from Decimal FAQ:
http://docs.python.org/lib/decimal-faq.html... | twright/C1000-Intelligent-Calculator | dmath.py | Python | gpl-3.0 | 15,548 | [
"Brian"
] | a7b7ee8be038b998a6aaaf6dcdcf2e9a1521bf6781810a72c31596e9f0ce2c1e |
"""
------------
PyMine 1.0.1
------------
PyMine lets you integrate and visualize biological data used for drug discovery using PyMOL.
------------
REQUIREMENTS
------------
1) Ubuntu 11.04 or above OR Mac OS X 10.7 or above
2) Pymol 1.7 or above
3) PyMine 1.0.1
------------
INSTALLATION
------------
1) Download an... | rrchaudhari/PyMine | pymine.py | Python | mit | 46,677 | [
"PyMOL"
] | a895ab1e73e3dd63b011a4222a188605dcf0b78d471951073964845dcd66f265 |
from ase.ga.startgenerator import StartGenerator
from ase.ga.utilities import closest_distances_generator
from ase.ga.standardmutations import RattleMutation, PermutationMutation
import numpy as np
from ase.lattice.surface import fcc111
from ase.constraints import FixAtoms
# first create two random starting candidates... | askhl/ase | ase/test/ga/mutations.py | Python | gpl-2.0 | 2,235 | [
"ASE"
] | 0c758b708a382c49f6b380e6f8051d2b2e5c64ffd3227aa9752937819ed5a311 |
#!/usr/bin/env python
""" toggle between two images by pressing "t"
The basic idea is to load two images (they can be different shapes) and plot
them to the same axes with hold "on". Then, toggle the visible property of
them using keypress event handling
If you want two images with different shapes to be plotted wit... | lthurlow/Network-Grapher | proj/external/matplotlib-1.2.1/lib/mpl_examples/pylab_examples/toggle_images.py | Python | mit | 1,277 | [
"exciting"
] | b8c20b4b89dabf322952a0e8c6ec30efa5aa78c4fb5c1ce68c01a98ea9a5f063 |
# Filtering BLAST table file (arg1) by coverage & identity (arg2 & arg3)
import sys
inFile = open(sys.argv[1])
thCov = float(sys.argv[2])
thId = float(sys.argv[3])
for line in inFile:
tabs = line.rstrip('\n').split('\t')
cov = 100*(float(tabs[5])-float(tabs[4])) / float(tabs[2])
hid = float(tabs[8])
if hid > t... | HaseloffLab/MarpoDB | scripts/filterBlastByCl.py | Python | mit | 434 | [
"BLAST"
] | 43e387ea0a1097e8bc5559f855904166bdc71a40ad5c7944a29b0dee00501596 |
from paraview.simple import *
from paraview import coprocessing
#--------------------------------------------------------------
# Code generated from cpstate.py to create the CoProcessor.
# ParaView 4.2.0-15-g46ac001 64 bits
# ----------------------- CoProcessor definition -----------------------
def CreateCoProce... | HopeFOAM/HopeFOAM | ThirdParty-0.1/ParaView-5.0.1/CoProcessing/Adaptors/CamAdaptor/se_coprocess.py | Python | gpl-3.0 | 3,813 | [
"ParaView"
] | 99b3875f0bc019818a66cc8f8a6ee3751638cfb79de5b5cd27957e88668e68c3 |
"""
Flask-Tus
-------------
Implements the tus.io server-side file-upload protocol
visit http://tus.io for more information
"""
from setuptools import setup
setup(
name='Flask-Tus',
version='0.6.1',
url='http://github.com/matthoskins1980/Flask-Tus/',
license='MIT',
author='Matt Hoskins',
aut... | matthoskins1980/Flask-Tus | setup.py | Python | mit | 920 | [
"VisIt"
] | 5d2fd86aff6101def5097f9cb9e01c0c5ebbab83adae5dcd3b95d510440a0d32 |
# Copyright (c) 2014 Google Inc. All rights reserved.
# Use of this source code is governed by a BSD-style license that can be
# found in the LICENSE file.
"""
This script is intended for use as a GYP_GENERATOR. It takes as input (by way of
the generator flag config_path) the path of a json file that dictates th... | mikemcdaid/getonupband | sites/all/themes/getonupband/node_modules/node-gyp/gyp/pylib/gyp/generator/analyzer.py | Python | gpl-2.0 | 31,308 | [
"VisIt"
] | ee54264cf37483fe8d47a0fe515e507837097aecbf8eb0e5bf33b92687744f94 |
__author__ = 'Rob'
def atom_pair_energy(atom1, atom2):
energy = 0
import math
sep = math.sqrt((atom1[0] - atom2[0]) ** 2 + (atom1[1] - atom2[1]) ** 2 + (atom1[2] - atom2[2]) ** 2)
if sep != 0: # avoid divide by zero for an atom being paired with itself
energy = (atom1[3] * atom2[3]) / sep
... | rpt26/coulomb_energy | coulomb_utils.py | Python | mit | 2,557 | [
"CRYSTAL"
] | d343322e7a690633129a9023894a1788c77f90502bc2703efaa8b18c29f5a8e2 |
# class generated by DeVIDE::createDeVIDEModuleFromVTKObject
from module_kits.vtk_kit.mixins import SimpleVTKClassModuleBase
import vtk
class vtkExtractSelectedFrustum(SimpleVTKClassModuleBase):
def __init__(self, module_manager):
SimpleVTKClassModuleBase.__init__(
self, module_manager,
... | chrisidefix/devide | modules/vtk_basic/vtkExtractSelectedFrustum.py | Python | bsd-3-clause | 518 | [
"VTK"
] | 4344d9ae0c8e62de6ab0f3356d10a6df7e97e602e7994556be98709c2e5aad88 |
"""
===============================================
Compute all-to-all connectivity in sensor space
===============================================
Computes the Phase Lag Index (PLI) between all gradiometers and shows the
connectivity in 3D using the helmet geometry. The left visual stimulation data
are used which pro... | MadsJensen/malthe_alpha_project | connectivity_analysis.py | Python | mit | 3,720 | [
"Mayavi"
] | 4a5f1fd391bfba736c1da34d5b8143b53165469173636c8ac53652f708e92df1 |
#!/usr/bin/env python
"""
This example shows how to create an unstructured grid.
"""
import vtk
def main():
colors = vtk.vtkNamedColors()
x = [[0, 0, 0], [1, 0, 0], [2, 0, 0], [0, 1, 0], [1, 1, 0], [2, 1, 0], [0, 0, 1], [1, 0, 1], [2, 0, 1], [0, 1, 1],
[1, 1, 1], [2, 1, 1], [0, 1, 2], [1, 1, 2], [... | lorensen/VTKExamples | src/Python/UnstructuredGrid/UGrid.py | Python | apache-2.0 | 2,790 | [
"VTK"
] | 1fa10bf8111eb6fd7694c1103b12bafc7194c57548045c7cd68a3505a8225c2d |
# Copyright 2014 Mark Chilenski
# This program is distributed under the terms of the GNU General Purpose License (GPL).
# Refer to http://www.gnu.org/licenses/gpl.txt
#
# 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... | markchil/profiletools | profiletools/core.py | Python | gpl-3.0 | 88,014 | [
"Gaussian",
"NetCDF"
] | d4793fb80bfcc4dc7a1220604003012e28705581964d6f579a6ca3539bb050b8 |
#!/usr/bin/env python
#
# Copyright (C) 2009-2011 University of Edinburgh
#
# This file is part of IMUSim.
#
# IMUSim 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 y... | spaghetti-/imusim | setup.py | Python | gpl-3.0 | 2,664 | [
"Mayavi"
] | e24250be2b6c3feabeff13374c82a7960ea71a244d4b7a3a30044e39e4381e35 |
"""
Sigma_MonteCarlo
"""
import numpy as np
from scipy import interpolate
import halomodel as hm
import matplotlib.pyplot as plt
from matplotlib import rc, rcParams
rc('text', usetex=True)
rcParams['text.latex.preamble']=[r"\usepackage{amsmath}"]
CosPar={'Omega_M':0.3, 'Omega_L':0.7, 'Omega_b':0.045, 'Omega_nu':1e-5,... | guangtunbenzhu/BGT-Cosmology | Examples/LRG-MgII/Sigma_MonteCarlo_saturated.py | Python | mit | 47,529 | [
"Galaxy"
] | f0f4008b90bdff4913fcc3afdf2e81b589411cd727e5ee07c245c7544d55a4ec |
import copy
import datetime
import functools
import logging
import random
from typing import (
Callable,
Dict,
List,
Mapping,
MutableMapping,
MutableSequence,
Optional,
cast,
)
from uuid import UUID
from ruamel.yaml.comments import CommentedMap
from schema_salad.exceptions import Valida... | common-workflow-language/cwltool | cwltool/workflow.py | Python | apache-2.0 | 18,689 | [
"VisIt"
] | e2eaa6f8ab3d84cf502ac7b0a6bfbd257ec0ba126341612c8e4730b39e2de149 |
# -*- coding: utf-8 -*-
##############################################################################
#
# OpenERP, Open Source Management Solution
# Copyright (c) 2012 Cubic ERP - Teradata SAC. (http://cubicerp.com).
#
# This program is free software: you can redistribute it and/or modify
# it under th... | jmesteve/openerp | openerp/addons/delivery_routes/delivery.py | Python | agpl-3.0 | 33,481 | [
"VisIt"
] | 9b6ae73f4f557488d7c543e8aaf569654502c7fbeb43d98bd7282c7368889e30 |
"""
Fits binary source model using EMCEE sampler.
The code simulates binary source light curve and fits the model twice:
with source flux ratio found via linear regression and
with source flux ratio as a chain parameter.
"""
import os
import sys
import numpy as np
import matplotlib.pyplot as plt
try:
import emcee
... | rpoleski/MulensModel | examples/example_11_binary_source.py | Python | mit | 5,751 | [
"exciting"
] | 2bbdbeb8c3b08d14216898a8e150d3007ee14586a22e900d680d77c27ce079dc |
#!/usr/bin/env python
from ase.visualize import view
from ase.lattice.surface import fcc111, add_adsorbate
from gpaw import GPAW
from gpaw.mixer import MixerSum
from gpaw import dscf
filename='homo'
#-------------------------------------------
c_mol = GPAW(nbands=9, h=0.2, xc='RPBE', kpts=(8,6,1),
spin... | qsnake/gpaw | doc/documentation/dscf/homo.py | Python | gpl-3.0 | 1,793 | [
"ASE",
"GPAW"
] | 3ededd1ef7903059f795d85a272dd68fb291587bbbbdc7ea88791503959ee9f3 |
#!/usr/bin/env python
# Written by Daniel Barshis, June 2011
import sys
#sys.argv[1] Input file is a list of contig names in a single column with ContigName as the column header
#sys.argv[2] Output file name
#sys.argv[3:] Any number of files to add columns from
#makes a dictionary of a file where the first column i... | cuttlefishh/papers | vibrio-fischeri-transcriptomics/code/python/ParseExpression2BigTable_counts.py | Python | mit | 2,760 | [
"BLAST"
] | b307d3daa3522d0fe8d3a9c87dc9a886296f1478bf70ad348b65f0b8a72dbcd7 |
import numpy as np
import os
try:
import netCDF4 as netCDF
except:
import netCDF3 as netCDF
import matplotlib.pyplot as plt
import time
from datetime import datetime
from matplotlib.dates import date2num, num2date
import pyroms
import pyroms_toolbox
import _remapping
class nctime(object):
pass
def remap_bio_... | kshedstrom/pyroms | examples/cobalt-preproc/Initial_bio/remap_bio_glodap.py | Python | bsd-3-clause | 4,385 | [
"NetCDF"
] | 0f4daa6e85c51a2006e255ae7436c6c8b10e3bc695686da9a07829de44eecae7 |
# 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 writing, software
# d... | julianwang/cinder | cinder/flow_utils.py | Python | apache-2.0 | 2,961 | [
"VisIt"
] | f11d3000ad593398460a0d707afcb7dd94bbc34227892d5ea2fa6f6415ceb899 |
import os
import sys
import time
import config
import numpy as np
from scipy import integrate
from scipy import special
from scipy.interpolate import interp1d, InterpolatedUnivariateSpline
import pylab as pl
from numba import jit
import timeit
#import fastcorr
from CosmologyFunctions import CosmologyFunctions
from mass... | vvinuv/HaloModel | halowlsz/halomodel_cl_WL_tSZ_z.py | Python | gpl-3.0 | 19,200 | [
"TINKER"
] | ac227e509bd03084e25ea17699dd8ee0d89c62f522e2bdde3067897ea7c90caf |
#!/usr/bin/env python2
#
# Copyright 2001 - 2016 Ludek Smid [http://www.ospace.net/]
#
# This file is part of Outer Space.
#
# Outer Space 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... | dahaic/outerspace | outerspace.py | Python | gpl-2.0 | 7,215 | [
"Galaxy"
] | 15bd8ae88630af0c43e002e048e4e8014742851553b49ada403aee1831e726c7 |
from __future__ import print_function
#
# Copied from VTK/Common/Testing/Python/PythonSmoke.py
#
import qt
try:
import vtk
except:
print("Cannot import vtk")
qt.QApplication.exit(1)
try:
print(dir(vtk))
except:
print("Cannot print dir(vtk)")
qt.QApplication.exit(1)
try:
try:
try:
o = vtk.vt... | SINTEFMedtek/CTK | Applications/ctkSimplePythonShell/Testing/Python/vtkPythonSmoke.py | Python | apache-2.0 | 896 | [
"VTK"
] | 1f50091a0c3b27b1cadfac3d5ed7a0f1466abd0e85aa01342e6cd05cfefe997f |
# -----------------------------------------------------------------------------
# Copyright (c) 2014--, The Qiita Development Team.
#
# Distributed under the terms of the BSD 3-clause License.
#
# The full license is in the file LICENSE, distributed with this software.
# ------------------------------------------------... | ElDeveloper/qiita | qiita_db/software.py | Python | bsd-3-clause | 70,632 | [
"VisIt"
] | 4f0b6fad9e4b654aba76e03ff754244dddac44141577730a65b03895fe36821d |
"""
-----------
Setup stage
-----------
*** Identify residues in the molecule - playground/rotamer/identify_residue.py
*** Find dihedrals and store atom identities. - playground/rotamer/find_dihedrals.py
* Choose backbone-dependent, local environment etc. to determine what sort of library data to generate.
* Read in r... | khs26/rotamer_library | rotamer/rotamer_move.py | Python | mit | 924 | [
"Amber"
] | 2303992b5c5ba41f084e8290b2b92c0f75a70b6abd64988bff417ef3b10c8e67 |
# Hop --- a framework to analyze solvation dynamics from MD simulations
# Copyright (c) 2007-2010 Oliver Beckstein <orbeckst@gmail.com>
#
# 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 v... | Becksteinlab/hop | hop/density.py | Python | gpl-3.0 | 30,548 | [
"CRYSTAL",
"Gaussian",
"MDAnalysis",
"VMD"
] | 34cd57610e0c1a14acd5f7d901cf94a7aba1de39c468c2439917948696fc03b5 |
##
# Copyright 2013 Ghent University
#
# This file is part of EasyBuild,
# originally created by the HPC team of Ghent University (http://ugent.be/hpc/en),
# with support of Ghent University (http://ugent.be/hpc),
# the Flemish Supercomputer Centre (VSC) (https://www.vscentrum.be),
# Flemish Research Foundation (FWO) (... | bartoldeman/easybuild-easyblocks | easybuild/easyblocks/q/qt.py | Python | gpl-2.0 | 5,353 | [
"VisIt"
] | 31e324b1203b05927f2a614fde0e48327eae1bca4f4b49637a9956a0fc33bee9 |
# Lint as: python3
# Copyright 2018 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 ... | tensorflow/lingvo | lingvo/core/py_utils.py | Python | apache-2.0 | 235,298 | [
"Gaussian"
] | 76e4301473db9965712e30c37e8e4bd9775fd17c44f1861add66620459fbe01c |
#!/usr/bin/env python
# -*- coding:utf-8 -*-
import sys
from antlr4 import *
from antlr4.InputStream import InputStream
from antlr4.error.ErrorStrategy import DefaultErrorStrategy
from UnitXLexer import UnitXLexer
from UnitXParser import UnitXParser
from eval_visitor import EvalVisitor
from eval_error_strategy import ... | 0ED/UnitX | unitx/example.py | Python | mit | 6,946 | [
"VisIt"
] | 38f47bf213d215d864cf031a9e65c2ca2b51f529a32df955b5e3a87478d71224 |
#!/usr/bin/env python
# -*- coding: utf8 -*-
# *****************************************************************
# ** PTS -- Python Toolkit for working with SKIRT **
# ** © Astronomical Observatory, Ghent University **
# *****************************************************************
##... | Stargrazer82301/CAAPR | CAAPR/CAAPR_AstroMagic/PTS/pts/magic/core/kernel.py | Python | mit | 13,284 | [
"Gaussian"
] | b65766b5496e3019247fc382896bd6293e1ccb7962f8f1a51b504ffc636b1167 |
#!/usr/bin/env python3
# This script assumes the ASTE binaries and python scripts are in $PATH
# Furthermore, execute in ./contrib/timestep-demo or copy precice.xml from there to $PWD
import os, subprocess
def run(cmd):
print("+ " + cmd)
subprocess.run(cmd, shell = True, check = True)
# Get bunny and red blo... | precice/aste | contrib/timestep-demo/demo.py | Python | gpl-3.0 | 1,334 | [
"VTK"
] | 661908582d8076892e99b698367ceccea585cf93056492ad87d81b0a20b0d270 |
import requests
import numpy as np
import h5py
baseUrl = 'http://www.illustris-project.org/api/'
headers = {"api-key":"cc4ff6392e79c9e08c158e5ae5493718"}
# Routine to pull data from online
def get(path, params=None, fName='temp'): # gets data from url, saves to file
# make HTTP GET request to path
r = req... | zpenoyre/illustris | illustrisAPI/data.py | Python | mit | 5,130 | [
"Galaxy"
] | 124b3e425ccd6de6d58bca8806cf41e66296ac3ecb197b6095543a24caeafb35 |
#!/usr/bin/python
import matplotlib.pyplot as plt
import numpy
from scipy.special import erfc
import math
import glob
import re
def setAxLinesBW(ax):
"""
Take each Line2D in the axes, ax, and convert the line style to be
suitable for black and white viewing.
"""
MARKERSIZE = 3
COLORMAP = {
... | martinjrobins/RD_3D | scripts/plot.py | Python | lgpl-3.0 | 12,174 | [
"Smoldyn"
] | 81ffd7b4cc9bde770361b51164971bbad8124b5454eabd8382fc0231225574d2 |
#!/usr/bin/env python
# PythonJS to C++ Translator
# by Brett Hartshorn - copyright 2014
# License: "New BSD"
import os, sys
import ast
import pythonjs_to_rust
JVM_HEADER = '''
#include <jni.h>
JavaVM* __create_javavm__() {
JavaVM* jvm = new JavaVM();
JNIEnv* env;
JavaVMInitArgs args;
JavaVMOption options[2];
ar... | kustomzone/Rusthon | pythonjs/pythonjs_to_cpp.py | Python | bsd-3-clause | 9,155 | [
"VisIt"
] | 7f878dc45e62c77ea0e0f5571452ffc2662274232e69c6b91c5552d43dd7ec84 |
# Copyright 2018 Amazon.com, Inc. or its affiliates. All Rights Reserved.
# SPDX-License-Identifier: Apache-2.0
from typing import Tuple
import numpy as np
from ...quadrature.interfaces.base_gp import IBaseGaussianProcess
from .warped_bq_model import WarpedBayesianQuadratureModel
from .warpings import IdentityWarpi... | EmuKit/emukit | emukit/quadrature/methods/vanilla_bq.py | Python | apache-2.0 | 3,029 | [
"Gaussian"
] | c4766f9a5c032903358ba6e22364f48683df307d5ed19c4f5be2749e48cf0489 |
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