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""" Agent to extend the number of tasks given the Transformation definition
The following options can be set for the MCExtensionAgent.
.. literalinclude:: ../ConfigTemplate.cfg
:start-after: ##BEGIN MCExtensionAgent
:end-before: ##END
:dedent: 2
:caption: MCExtensionAgent options
"""
from DIRAC import S_OK, g... | andresailer/DIRAC | TransformationSystem/Agent/MCExtensionAgent.py | Python | gpl-3.0 | 4,990 | [
"DIRAC"
] | 2ca06342bbe190e649a189d13415bd3063599a5fc3784c3ecf960f23b32e861d |
# -*- coding: utf-8 -*-
"""core -- core behaviors for Owyl.
Copyright 2008 David Eyk. All rights reserved.
$Author$\n
$Rev$\n
$Date$
"""
__author__ = "$Author$"[9:-2]
__revision__ = "$Rev$"[6:-2]
__date__ = "$Date$"[7:-2]
import logging
from collections import OrderedDict
from functools import wraps
try:
from ... | Gaboose/owyl | src/owyl/core.py | Python | bsd-3-clause | 12,547 | [
"VisIt"
] | be6813f7d7d53f5cdd6a1cd1109ba147d6de3b53ba1c2a6a1b6f780f09f88fc9 |
from nbodykit import CurrentMPIComm
from nbodykit.source.catalog import ArrayCatalog
from nbodykit.transform import SkyToUnitSphere
import numpy
import logging
class FiberCollisions(object):
"""
Run an angular FOF algorithm to determine fiber collision
groups from an input catalog, and then assign fibers ... | nickhand/nbodykit | nbodykit/algorithms/fibercollisions.py | Python | gpl-3.0 | 11,057 | [
"Galaxy"
] | 086f3cd171ba372da0976700f0cc40a2d7132c44d15ab1070c6015429acae919 |
#!/usr/bin/env python
import os
import sys
import subprocess as sp
import argparse
if sys.version_info.major == 3:
PY3 = True
from urllib.request import urlretrieve
else:
PY3 = True
from urllib import urlretrieve
usage = """
The easy way to test recipes is by using `circleci build`. However this doe... | saketkc/bioconda-recipes | bootstrap.py | Python | mit | 4,381 | [
"Bioconda"
] | 3cf20a50c831aa14b7111827c194e0d46f0048d0d425086b8ec6657123c6ddd8 |
from setuptools import setup, find_packages
from setuptools.command.test import test as TestCommand
from codecs import open
import os
from Cython.Build import cythonize
import numpy as np
from uga import __version__
import subprocess
with open(os.path.join(os.path.abspath(os.path.dirname(__file__)), 'README.rst')) as ... | rmkoesterer/uga | setup.py | Python | gpl-3.0 | 1,476 | [
"Biopython",
"pysam"
] | 63c4525389a726b1520f8c0a407e04e25ac45ed75f2397c4b158c66fd26635bd |
#!/usr/bin/env python
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import os
import sys
import glob
import shutil
import subprocess
from monty.serialization import loadfn, dumpfn
from pymatgen import SETTINGS_FILE
from urllib.request import urlretrieve
... | montoyjh/pymatgen | pymatgen/cli/pmg_config.py | Python | mit | 6,650 | [
"VASP",
"pymatgen"
] | c2d858d8f361f4124ddeb43dbf934b35faba7d61ab7f22b7bddaf3d05070a36d |
# Copyright (c) Facebook, Inc. and its affiliates.
#
# This software may be used and distributed according to the terms of the
# GNU General Public License version 2.
# context: context needed to annotate a file
from __future__ import absolute_import
import collections
import contextlib
import hashlib
import os
fro... | facebookexperimental/eden | eden/hg-server/edenscm/hgext/fastannotate/context.py | Python | gpl-2.0 | 31,499 | [
"VisIt"
] | faacdf904fed56fa6f0afb2a325e9227c2de23251a341877e5a5eb8029676e83 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
"""
Script to upload images to wikipedia.
Arguments:
-keep Keep the filename as is
-filename Target filename without the namespace prefix
-noverify Do not ask for verification of the upload description if one
is given
-abortonwarn: Abor... | smalyshev/pywikibot-core | scripts/upload.py | Python | mit | 25,163 | [
"VisIt"
] | c83b5c4434c7dd101498b42985070bfbcfd3260d83ef529000961a7369be387e |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# This scipt grabs a cell or point array from the first input dataset, which in our case would
# be an ATP map where the data is associated with cell centre vertices (cell data), or the points
# at those vertices (point data), and converts them to cell data associated wit... | BlueFern/DBiharMesher | util/EcCellCentreDataToSurface.py | Python | gpl-2.0 | 3,429 | [
"VTK"
] | 89905b1227f3096d04a8fada5059bf1930142c9633456badd2e5aad7ecf3315d |
tutorial_tests = """
Let's try a simple generator:
>>> def f():
... yield 1
... yield 2
>>> for i in f():
... print i
1
2
>>> g = f()
>>> g.next()
1
>>> g.next()
2
"Falling off the end" stops the generator:
>>> g.next()
Traceback (most recent call la... | trivoldus28/pulsarch-verilog | tools/local/bas-release/bas,3.9/lib/python/lib/python2.3/test/test_generators.py | Python | gpl-2.0 | 39,349 | [
"VisIt"
] | ea3fd0e4d458b0f3139fa950858d4712aafaf54f8fdd2462e209f5fb3c5a5486 |
"""MPF plugin which uses lights to represent Game functions. Typically in an
EM machine"""
# info_lights.py
# Mission Pinball Framework
# Written by Brian Madden & Gabe Knuth
# Released under the MIT License. (See license info at the end of this file.)
# Documentation and more info at http://missionpinball.com/mpf
im... | jabdoa2/mpf | mpf/plugins/info_lights.py | Python | mit | 5,219 | [
"Brian"
] | bd7d41df87b3953b1d1a0a2756fe0844a5cb164c38bbea233b2ca36871c90542 |
import os
import random
import time
import unittest
import numpy as np
from laserchicken import compute_neighbors, keys, load, utils
from laserchicken.feature_extractor.base_feature_extractor import FeatureExtractor
from laserchicken.feature_extractor.feature_extraction import compute_features
from laserchicken.test_... | eEcoLiDAR/eEcoLiDAR | laserchicken/feature_extractor/test_eigenvals_feature_extractor.py | Python | apache-2.0 | 11,643 | [
"Gaussian"
] | cabc428cc740ef919de0d64a60e83698425dc7f04deef62035dd38cfa6359ac2 |
import numpy as np
from math import sqrt
import time
from rpl.tools.geometry.surface_io import open_geom
from bsp_tree_poly import BSP_Tree
import logging
## Get rid of any existing handlers (e.g. if running interactively in ipython)
logging.getLogger().handlers = []
## Main logging goes to a file
logging.... | pombredanne/metamorphosys-desktop | metamorphosys/META/analysis_tools/PYTHON_RICARDO/rpl/tools/ray_tracing/test_bsp.py | Python | mit | 2,256 | [
"Mayavi"
] | ec9a16dbd57d193631a6f6cec534eb805492d895f0e9adf9d21eb87441172df7 |
# Copyright 2016 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | xuleiboy1234/autoTitle | tensorflow/tensorflow/contrib/factorization/python/ops/gmm.py | Python | mit | 7,114 | [
"Gaussian"
] | 8aa6e46274ffb4d64053d2e58b371a80e8281d1312135bed108dded52ab2192f |
# Licensed under a 3-clause BSD style license - see LICENSE.rst
"""
Bayesian Blocks for Time Series Analysis
========================================
Dynamic programming algorithm for solving a piecewise-constant model for
various datasets. This is based on the algorithm presented in Scargle
et al 2012 [1]_. This cod... | dhomeier/astropy | astropy/stats/bayesian_blocks.py | Python | bsd-3-clause | 17,968 | [
"Gaussian"
] | 720cd4428af15bcec7e42d753aa40c75e45aa994443c7130804dc53e67ec3052 |
# class generated by DeVIDE::createDeVIDEModuleFromVTKObject
from module_kits.vtk_kit.mixins import SimpleVTKClassModuleBase
import vtk
class vtkExtractVectorComponents(SimpleVTKClassModuleBase):
def __init__(self, module_manager):
SimpleVTKClassModuleBase.__init__(
self, module_manager,
... | chrisidefix/devide | modules/vtk_basic/vtkExtractVectorComponents.py | Python | bsd-3-clause | 532 | [
"VTK"
] | ae262a5257fcce70be754b5fd8b96ee91ba4f8ddedfc10c50d3a04105ac1ec60 |
# Hidden Markov Model Implementation
import pylab as pyl
import numpy as np
import matplotlib.pyplot as pp
#from enthought.mayavi import mlab
import scipy as scp
import scipy.ndimage as ni
import roslib; roslib.load_manifest('sandbox_tapo_darpa_m3')
import rospy
#import hrl_lib.mayavi2_util as mu
import hrl_lib.viz ... | tapomayukh/projects_in_python | classification/Classification_with_HMM/Single_Contact_Classification/force_codes/number_of_states/hmm_crossvalidation_force_30_states.py | Python | mit | 21,114 | [
"Gaussian",
"Mayavi"
] | 4928162dff8ba1b1808c17fcbe5d710f446dcb888e8161c49fd4d91463f3ddc7 |
#!/usr/bin/env python
# Created by John Travers, Robert Hetland, 2007
""" Test functions for rbf module """
import numpy as np
from numpy.testing import assert_array_almost_equal, assert_almost_equal
from numpy import linspace, sin, random, exp, log10, allclose
from scipy.interpolate.rbf import Rbf
FUNCTIONS = ('mult... | stefanv/scipy3 | scipy/interpolate/tests/test_rbf.py | Python | bsd-3-clause | 2,519 | [
"Gaussian"
] | 673edfa3ddb85d165b2c965d7fde17700084eb4a64a9007b310c91c4e42b2f21 |
#!/usr/bin/python
#
# Copyright 2007 Google Inc.
# Licensed to PSF under a Contributor Agreement.
#
# 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/LICE... | nouiz/fredericbastien-ipaddr-py-speed-up | ipaddr_test.py | Python | apache-2.0 | 50,407 | [
"FEFF"
] | dd7aef296899e2c753ce3052e49ad3ddbf64249209f93834e54d72c0fa8cd876 |
#!/usr/bin/env python
import sys, os
from numpy import *
def print_scores(scores, words):
for i in range(len(scores)):
print "[%d]: (%.03f) %s" % (i, scores[i], words[i])
def part_a(clf, num_to_word, verbose=True):
"""
Code for 1.1 part (a):
Hidden Layer, Center Word
clf: instance of Wi... | PDFangeltop1/cs224d | assignment2/assignment2/part11probing.py | Python | mit | 4,234 | [
"NEURON"
] | ba37ac31060e75af060a02f79170b91f75f2d7075e7d497243e8f3c59fb0510d |
""" This module contains functions and classes related to file input and output.
It primarily provides two high-level functions for reading and writing
external files:
* :py:func:`import_file`
* :py:func:`export_file`
In addition, it contains the :py:class:`FileSource` class, which is a data source object
th... | srinath-chakravarthy/ovito | src/plugins/pyscript/python/ovito/io/__init__.py | Python | gpl-3.0 | 15,931 | [
"CRYSTAL",
"FHI-aims",
"LAMMPS",
"OVITO",
"VASP"
] | 4329aad0dc2146481bd22f2633a13750324d6541e36b41da9177fa6c86118e1c |
# coding=utf-8
#*********************************************************************
# PROGRAM NAME: ToRun.py *
# *
#*********************************************************************
# AUTHOR: David Aleja... | davofis/Optical_Coherence_Wavelets | ToRun.py | Python | gpl-3.0 | 10,065 | [
"Gaussian"
] | 7b5a16ce7537fd68149e4db160f9cf52d640150f6441dd8f668ff5c09bece681 |
###################################################################
# ABOUT:
# This Python script gets data from the Pipeline-database and
# produces plots and can calculates correlations of selected
# variables.
# The purpose is to study how ALFOSC telescope focus is
# related to various variables e.g.... | sniemi/SamPy | sandbox/src2/src/al_focpyr_test.py | Python | bsd-2-clause | 15,805 | [
"Gaussian"
] | 87e60e9dc8e9edc183e639e5fe5c8ce43fb7de055fa745ac7aa89307c75af05d |
"""Examine callable regions following genome mapping of short reads.
Identifies callable analysis regions surrounded by larger regions lacking
aligned bases. This allows parallelization of smaller chromosome chunks
through post-processing and variant calling, with each sub-section
mapping handled separately.
Regions ... | mjafin/bcbio-nextgen | bcbio/bam/callable.py | Python | mit | 24,636 | [
"pysam"
] | 9cbde799c08004ef8b79702bc90cdfa2a9915fa623da8e370fddf36b9ad6e9c1 |
from vtk import *
graph = vtkMutableDirectedGraph()
a = graph.AddVertex()
b = graph.AddChild(a)
c = graph.AddChild(a)
d = graph.AddChild(b)
e = graph.AddChild(c)
f = graph.AddChild(c)
tree = vtkTree()
tree.CheckedShallowCopy(graph)
view = vtkGraphLayoutView()
view.AddRepresentationFromInput(tree)
view.GetRenderWind... | b3c/VTK-5.8 | Examples/Infovis/Python/create_tree.py | Python | bsd-3-clause | 407 | [
"VTK"
] | 92520d5f2073303ac7f22501cbffedfb7445664c3a3c7ec4495012f613be4e0b |
from __future__ import absolute_import, division, print_function
import inspect
import os
import numpy as np
import tensorflow as tf
from six import string_types
from tensorflow_probability.python.bijectors import FillScaleTriL
from tensorflow_probability.python.distributions import (Categorical,
... | imito/odin | odin/bay/distributions/mixture.py | Python | mit | 12,103 | [
"Gaussian"
] | b1bf63642e2194bdae70a9cea1be0be6988b82e1ebc5936075078b26317f23de |
"""
Linear exponential smoothing models
Author: Chad Fulton
License: BSD-3
"""
import numpy as np
import pandas as pd
from statsmodels.base.data import PandasData
from statsmodels.genmod.generalized_linear_model import GLM
from statsmodels.tools.validation import (array_like, bool_like, float_like,
... | jseabold/statsmodels | statsmodels/tsa/statespace/exponential_smoothing.py | Python | bsd-3-clause | 27,211 | [
"Gaussian"
] | 0da4bad14ec47921b0efdd3ddef2b37ee107b8c377e6311a17c082b3fbedfa89 |
# $Id: __init__.py 1212 2007-10-24 20:23:03Z oliver$
# vmd remote control --- client/server scripts to run VMD from python
# Copyright (c) 2007-2009 Oliver Beckstein <orbeckst@gmail.com>
# Released under the GNU Lesser Public License, version 3 or later.
# See COPYING and COPYING.LESSER.
"""
=============
VMD control
... | pslacerda/GromacsWrapper | vmd/__init__.py | Python | gpl-3.0 | 1,214 | [
"VMD"
] | 0a1765241f13efef2a3097668765d84ca423129907fc47b1ee78efa3c03f26a2 |
# -*- coding: utf-8 -*-
#
# This file is part of EventGhost.
# Copyright © 2005-2020 EventGhost Project <http://www.eventghost.net/>
#
# EventGhost 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 versio... | EventGhost/EventGhost | _build/Build.py | Python | gpl-2.0 | 5,538 | [
"VTK"
] | b3b7c2b7db33258ab0868ab844615d616474d3ee7260423be6fdc879bac024e1 |
# -*- coding: utf-8 -*-
"""This module wraps conversion between :class:`pybel.BELGraph` and the Cyberinfrastructure Exchange (CX) JSON.
CX is an aspect-oriented network interchange format encoded in JSON with a format inspired by the JSON-LD encoding of
Resource Description Framework (RDF). It is primarily used by th... | pybel/pybel | src/pybel/io/cx.py | Python | mit | 19,791 | [
"Cytoscape",
"Pybel"
] | d24e2f456eae20d14ff690fb2c972bcd0cb7d404c7b69fce078bc5b0a60c2e8f |
#!/usr/bin/python
"""
This code uses .strip formatting once to remove the \n and another time to remove the \t from the below lists.
For readability, the script uses a print("\n") to add a new line between the two lists
"""
island_list = ['Armstrong Island', 'Atchafalaya Island', 'Immokalee Island', 'Moultrie Island'... | sketchyfish/ypp-price-calculator | strip_automation.py | Python | gpl-2.0 | 5,368 | [
"Amber"
] | 40071ea84320ff5f12c437a9e4414e2760190b7880ad031608b9d5a731146b4c |
""" Contains the ShotGroup base class."""
# shot_group.py
# Mission Pinball Framework
# Written by Brian Madden & Gabe Knuth
# Released under the MIT License. (See license info at the end of this file.)
# Documentation and more info at http://missionpinball.com/mpf
from collections import deque
from mpf.system.devic... | spierepf/mpf | mpf/devices/shot_group.py | Python | mit | 15,842 | [
"Brian"
] | 88968d9fce6a09aa15115a1b7548a8194aa32ec022954d32e466997061ff7feb |
from __future__ import absolute_import, division, print_function
# ----------------------------------------------------------------------------
# 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 ... | Kleptobismol/scikit-bio | skbio/tree/tests/test_nj.py | Python | bsd-3-clause | 8,946 | [
"scikit-bio"
] | a1d6457ce22ad1f04583d200219f0007ce0bfd73ddcaeca41673991320cee86e |
##############################################################################
# Copyright (c) 2013-2017, 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... | skosukhin/spack | var/spack/repos/builtin/packages/hoomd-blue/package.py | Python | lgpl-2.1 | 4,857 | [
"HOOMD-blue"
] | 63ad267c8eda7640e260868641529a9c55c0c8e97aa83eb0c67227b8f9f0538f |
# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
class Bowtie2(MakefilePackage):
"""Bowtie 2 is an ultrafast and memory-efficient tool for aligning
sequencing ... | LLNL/spack | var/spack/repos/builtin/packages/bowtie2/package.py | Python | lgpl-2.1 | 3,479 | [
"Bowtie"
] | 430c491ffdf97c47d258b11fef97703e98ef448fe69cefa36591c2f953495d82 |
import numpy as np
import matplotlib.pyplot as plt
import os
from scipy.optimize import curve_fit
from scipy.ndimage.filters import gaussian_filter
import scipy.signal as signal
import sys
sys.path.append("/users/aman/desktop/PHYS211")
from PythonLibrary import *
try:
%pylab inline
except SyntaxError:
pass
... | bzcheeseman/phys211 | Rel_Electrons/data_processing.py | Python | lgpl-3.0 | 13,569 | [
"Gaussian"
] | db23c5c75d6169d88afab42464d3a6a202ca3520645055d27972dcad2b3145dc |
# Author: Travis Oliphant
# 1999 -- 2002
import types
import sigtools
from scipy import special, linalg
from scipy.fftpack import fft, ifft, ifftshift, fft2, ifft2, fftn, ifftn
from numpy import polyadd, polymul, polydiv, polysub, \
roots, poly, polyval, polyder, cast, asarray, isscalar, atleast_1d, \
ones, ... | huard/scipy-work | scipy/signal/signaltools.py | Python | bsd-3-clause | 48,348 | [
"Gaussian"
] | 866a814bbbcfaab477173a5165320b45e3297a6aa494b8102feb925382331f28 |
#!/usr/bin/python
#
# Copyright 2015 Google 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 the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by... | jtk54/spinnaker | pylib/spinnaker/spinnaker_runner.py | Python | apache-2.0 | 22,654 | [
"ORCA"
] | 19f830b866974fea26fdcebe3fbd7b19bb6f3677e4d6b4e567eb6f3d33c05466 |
##
## Biskit, a toolkit for the manipulation of macromolecular structures
## Copyright (C) 2004-2012 Raik Gruenberg & Johan Leckner
##
## 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... | ostrokach/biskit | Biskit/Dock/Intervor.py | Python | gpl-3.0 | 17,469 | [
"CRYSTAL",
"PyMOL"
] | 57754ef0a01f9d922b349710544b3799cb068ff56d996a047ae8a1ac5b449e71 |
# Import underlying basic modules
from kerr.basics import *
# import dill
'''
Method to load tabulated QNM data, interpolate and then output for input final spin
'''
def leaver( jf, # Dimensionless BH Spin
l, # Polar Index
m, # Azim... | llondon6/kerr_public | kerr/core.py | Python | mit | 113,382 | [
"Psi4"
] | 26cc26cfe1bf53c00d062066a473cf2f403cecc9751bff6acc781a8aedf6ef45 |
#!/usr/bin/env python3
import torch
from torch.distributions.kl import kl_divergence
from ..distributions import Delta, MultivariateNormal
from ..lazy import MatmulLazyTensor, SumLazyTensor
from ..utils.errors import CachingError
from ..utils.memoize import pop_from_cache_ignore_args
from .delta_variational_distribut... | jrg365/gpytorch | gpytorch/variational/batch_decoupled_variational_strategy.py | Python | mit | 11,612 | [
"Gaussian"
] | b68ea56642deec5c0d95c29ac304672a8e658ace55e5a51ab1727dfc14fe22eb |
# Task 分解变量
p = (4, 5)
num1, num2 = p
print(num1)
print(num2)
strTest = 'I am allen'
str1, *str2, str3 = strTest
print(str1)
print(str2)
print(str3)
records = [
('foo', '1', '2'),
('bar', 'hello'),
('foo', 4, 5),
]
def do_foo(x, y):
print('foo', x, y)
def do_bar(x):
print('bar', x)
for tag, ... | LittleBirdLiu/python_practice | Python_CookBook/Data_Structure.py | Python | mit | 8,570 | [
"Brian"
] | d343d05f4295a028e87775fa1d26e12016e7d1bf3b3b6d1acbbfd832979ae4b3 |
# 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 ... | trendelkampschroer/PyEMMA | pyemma/coordinates/tests/test_discretizer.py | Python | bsd-2-clause | 5,383 | [
"MDTraj"
] | d9bce56bf4033877cc012cf47a686110956ba213564a8213cb0c35cc528f1563 |
# -*- coding: utf-8 -*-
# Copyright 2007-2022 The HyperSpy developers
#
# This file is part of HyperSpy.
#
# HyperSpy 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... | jat255/hyperspy | hyperspy/io_plugins/__init__.py | Python | gpl-3.0 | 2,415 | [
"NetCDF"
] | 2dbcfd092f7a3989f76fa9283b58d942dcebe8bafb8d7cd2f0f5a0460d3fdd60 |
"""Tests for flattening module.
"""
import ast
import unittest
import astunparse
from sspam import pre_processing
from sspam.tools.asttools import Comparator
from sspam.tools.flattening import Flattening, Unflattening
class TestFlattening(unittest.TestCase):
"""
Test that flattening produce expected ast.
... | quarkslab/sspam | tests/test_flattening.py | Python | bsd-3-clause | 11,915 | [
"VisIt"
] | bfe646b918fef016646283502c35ecfda17b953de2f13adaa1c34aa85a6ca2e9 |
#
# 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 of the License, or
# (... | dahaic/outerspace | client/osci/dialog/MainGameDlg.py | Python | gpl-2.0 | 19,872 | [
"Galaxy"
] | 125b5cafe4b557dd9008f627521af3c46c912e11bb9852b877e58f4ce9c06232 |
#
# Copyright (C) 2013,2014 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 l... | mgusenbauer/espresso | samples/python/hello_parallel_world.py | Python | gpl-3.0 | 1,767 | [
"ESPResSo",
"VTK"
] | c22ce499f44c750e15f63a3bd48c97c50020bfebe93d65a86d4c2ca1ee0d1630 |
import os
from library.grab_bag import o
base_url = os.environ.get('FAXROBOT_URL')
email_support = os.environ.get('EMAIL_SUPPORT')
email_feedback = os.environ.get('EMAIL_FEEDBACK')
project = os.environ.get('PROJECT_NAME')
email_headers = {
"Authorization": os.environ.get('SPARKPOST_API_KEY'),
"Content... | lyonbros/faxrobot | library/mailer.py | Python | gpl-3.0 | 15,360 | [
"VisIt"
] | 3461d72a3f10530e814b2a5ac688961ff325731542e6f665fa6a95a112c73580 |
import os
import sys
import shutil
import tempfile
from contextlib import contextmanager
from rdkit.Chem import AllChem as Chem
from nose.tools import eq_
from .. import Calculator, __version__, descriptors
from ..__main__ import main as mordred
Nd2D = len(Calculator(descriptors, ignore_3D=True).descriptors)
Nd3D =... | mordred-descriptor/mordred | mordred/tests/test_mordred_main.py | Python | bsd-3-clause | 4,754 | [
"RDKit"
] | c42391cee8603e988793fc7437715444d2f53d44406f5f37d414d01ecbb3151d |
# -*- coding: utf-8 -*-
#
# Copyright (c) 2016, 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.
"""Unit tests for parser data module."""
import unittest
import numpy
import cclib
class ccDataTest(unittest.TestCase... | Schamnad/cclib | test/parser/testdata.py | Python | bsd-3-clause | 2,785 | [
"cclib"
] | 77b2721edb5489bc28ca57fe10f086584ad5c1757339d2e0ec883b9e402caf56 |
import os
import sys
import glob
import vtk
from PyQt5 import QtCore, QtWidgets
import peacock
from ExodusPlugin import ExodusPlugin
from peacock.ExodusViewer.plugins.ExodusFilterProxyModel import ExodusFilterProxyModel
class ExodusComboBox(QtWidgets.QComboBox):
"""
A ComboBox that disables filenames if they d... | backmari/moose | python/peacock/ExodusViewer/plugins/FilePlugin.py | Python | lgpl-2.1 | 6,543 | [
"VTK"
] | 6c84f81c6be03bcd0e378608da08ac77a7f8d6be04e54ca56ee45365aed8b963 |
from django.core.urlresolvers import reverse
from django.utils.translation import ugettext_lazy as _
from horizon import exceptions
from horizon import forms
from horizon import messages
from crystal_dashboard.api import metrics as api
from crystal_dashboard.dashboards.crystal import exceptions as sdsexception
class... | Crystal-SDS/dashboard | crystal_dashboard/dashboards/crystal/metrics/forms.py | Python | gpl-3.0 | 4,982 | [
"CRYSTAL"
] | f9e6a602fec59fa454fb14a5f812ab8762ddb253cd9e8d362675f02d435d9d44 |
r"""
:mod:`~matplotlib.mathtext` is a module for parsing a subset of the
TeX math syntax and drawing them to a matplotlib backend.
For a tutorial of its usage see :ref:`mathtext-tutorial`. This
document is primarily concerned with implementation details.
The module uses pyparsing_ to parse the TeX expression.
.. _p... | lthurlow/Network-Grapher | proj/external/matplotlib-1.2.1/lib/matplotlib/mathtext.py | Python | mit | 110,766 | [
"Bowtie"
] | 695e05a1eb98eacb7de251704530cddcaf89e323ca59dec31dd28ac574dd97aa |
# Natural Language Toolkit: Probability and Statistics
#
# Copyright (C) 2001-2006 University of Pennsylvania
# Author: Edward Loper <edloper@gradient.cis.upenn.edu>
# Steven Bird <sb@csse.unimelb.edu.au> (additions)
# Trevor Cohn <tacohn@cs.mu.oz.au> (additions)
# URL: <http://nltk.sf.net>
# For licens... | RensaProject/nodebox_linguistics_extended | nodebox_linguistics_extended/parser/nltk_lite/probability.py | Python | gpl-2.0 | 59,364 | [
"Gaussian"
] | 2711fdf7d3e361ec3377a0974b42cc17e7b85e71fcc255bdef8a4a17bd8db579 |
""" Tests if ReleaseData works.
When ReleaseData is set on an algorithm, its output
is supposed to be cleared by the consumer algorithm
once it is done processing it. The following test
verifies this.
"""
import vtk
from vtk.test import Testing
class TestReleaseData(Testing.vtkTest):
def test(self):
sphere... | HopeFOAM/HopeFOAM | ThirdParty-0.1/ParaView-5.0.1/VTK/Common/ExecutionModel/Testing/Python/TestReleaseData.py | Python | gpl-3.0 | 936 | [
"VTK"
] | afb72677639631186c8c6c042f5204354e5c66b6db907dc915a9d167122e81a0 |
"""
Constructs a data source for the ga4gh server by downloading data from
authoritative remote servers.
"""
# TODO
# - would be nice to have some kind of checkpoint functionality to resume
# process where it left off since getting a clean run is uncertain...
from __future__ import division
from __future__ import pri... | pansapiens/server | scripts/download_data.py | Python | apache-2.0 | 11,737 | [
"BWA",
"pysam"
] | 1218afabe5ca4a8df70383de40371d0a328761cffacc6ecb6f5413497b622e38 |
# GromacsWrapper plugin: cysaccessibility.py
# Copyright (c) 2009 Oliver Beckstein <orbeckst@gmail.com>
# Released under the GNU Public License 3 (or higher, your choice)
# See the file COPYING for details.
"""
CysAccessibility plugin
=======================
Cysteine accessibility is analyzed by histogramming the dis... | jandom/GromacsWrapper | gromacs/analysis/plugins/cysaccessibility.py | Python | gpl-3.0 | 9,048 | [
"Gromacs"
] | 268cdbfeb8c87f30feda01da8fdcaf10f2e240e4e323adf4f07342bd0eef60a2 |
"""
The Job Sanity Agent accepts all jobs from the Job
receiver and screens them for the following problems:
- Output data already exists
- Problematic JDL
- Jobs with too much input data e.g. > 100 files
- Jobs with input data incorrectly specified e.g. castor:/
- Input sandbox not correc... | andresailer/DIRAC | WorkloadManagementSystem/Executor/JobSanity.py | Python | gpl-3.0 | 5,257 | [
"DIRAC"
] | 9c39996d3df9a3816396016b49c8687a825fdf68d4f12dcb13064489eeda6f3a |
#!/usr/bin/env python
import os
import numpy as np
import pandas as pd
from itertools import product
def naive_cubic_grid(alat,grid_shape,func):
""" put 3D function 'func' on grid, one point at a time """
orb_grid = np.zeros(grid_shape)
dx,dy,dz = alat/grid_shape
for ix in range(grid_shape[0]):
for iy ... | Paul-St-Young/QMC | get_gaussian_h5.py | Python | mit | 3,889 | [
"Gaussian",
"PySCF",
"QMCPACK"
] | a34c9c077ef2fbc39bb7a79b09c7d18893b3f15461af8fa9dbe83f2f002f35d4 |
# Copyright (C) 2016 Collin Capano
# 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 3 of the License, or (at your
# option) any later version.
#
# This program is distributed in t... | hagabbar/pycbc_copy | pycbc/inference/likelihood.py | Python | gpl-3.0 | 38,090 | [
"Gaussian"
] | f1f9725a1492dfb131273a74046ae4058b8c74b19b76a84075ebcd9282342a58 |
# coding=utf-8
# Copyright 2022 The ML Fairness Gym Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicab... | google/ml-fairness-gym | environments/lending_params.py | Python | apache-2.0 | 10,396 | [
"Gaussian"
] | 0118dc6aeb1c2c92a356d461fff7940ce46898b152367d10d91a30d65e7542f2 |
from rdkit import RDConfig
import unittest
from rdkit import Chem
from rdkit.Chem import Draw, AllChem, rdDepictor
from rdkit.Chem.Draw import rdMolDraw2DQt
import sys
try:
from PyQt5.Qt import *
except ImportError:
# If we can't find Qt, there's nothing we can do
sip = None
else:
try:
# Prefer the PyQt5-b... | ptosco/rdkit | Code/GraphMol/MolDraw2D/Qt/Wrap/testMolDraw2DQt.py | Python | bsd-3-clause | 2,168 | [
"RDKit"
] | 422427197ea069fb081f7e59db37a2326451a4c36b8cc88029b2d04354ec70b3 |
# Created: Wed May 29 08:07:18 2002
# thomas@cbs.dtu.dk, Cecilia.Alsmark@ebc.uu.se
# Copyright 2001 by Thomas Sicheritz-Ponten and Cecilia Alsmark.
# 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 pa... | dbmi-pitt/DIKB-Micropublication | scripts/mp-scripts/Bio/SeqUtils/__init__.py | Python | apache-2.0 | 13,382 | [
"Biopython"
] | 28aaeeec2668a0fd2920a56cb0ee17abca1af09fc8603d73e1024cdc7fcbd239 |
"""This demo program solves an elastodynamics problem."""
# Copyright (C) 2010 Garth N. Wells
#
# This file is part of DOLFIN.
#
# DOLFIN 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 ... | MiroK/dolfin | demo/undocumented/elastodynamics/python/demo_elastodynamics.py | Python | gpl-3.0 | 4,816 | [
"VTK"
] | 9d392ccbe616c382c6756ca8b4cffb6f3614eb6e1a5676dd46a28dd46b133a82 |
# --------------------------------------------------------------------------------------------
# Copyright (c) Microsoft Corporation. All rights reserved.
# Licensed under the MIT License. See License.txt in the project root for license information.
# --------------------------------------------------------------------... | QingChenmsft/azure-cli | src/command_modules/azure-cli-appservice/azure/cli/command_modules/appservice/tests/test_webapp_commands_thru_mock.py | Python | mit | 14,741 | [
"ASE"
] | 8ab482f4cabd23d9481c306d8d339c97aab3a13da62998044e6aa7cfa51ccdce |
# Sample module in the public domain. Feel free to use this as a template
# for your modules (and you can remove this header and take complete credit
# and liability)
#
# Contact: Brian Carrier [carrier <at> sleuthkit [dot] org]
#
# This is free and unencumbered software released into the public domain.
#
# Anyone is f... | sleuthkit/autopsy | pythonExamples/Aug2015DataSourceTutorial/FindContactsDb.py | Python | apache-2.0 | 8,736 | [
"Brian"
] | 4c4b334ce51cffaceb6097476ba66e7040c23c9e4b6d384080f300879304ad60 |
# proxy module
from __future__ import absolute_import
from mayavi.components.optional import *
| enthought/etsproxy | enthought/mayavi/components/optional.py | Python | bsd-3-clause | 95 | [
"Mayavi"
] | 46d128bb05e72bcc7145eb562ce756fe40c62efa2e75e0094908279259d6eb3b |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# --- BEGIN_HEADER ---
#
# testzip - [insert a few words of module description on this line]
# Copyright (C) 2003-2009 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 t... | heromod/migrid | mig/unittest/testzip.py | Python | gpl-2.0 | 2,818 | [
"Brian"
] | 6f4615457252e90cc8d93694613555e7bcaa0b14e66fe4ae87f5cd83ca48241a |
#!/usr/bin/env python
"""This is to show a _raw_ way of traversing messages."""
import sys
sys.path.append('../../python')
import moose
connectionProbability = 0.5
net = moose.IntFire('/net1', 10)
syn = moose.SimpleSynHandler( '/net1/sh', 10 )
moose.connect( syn, 'activationOut', net, 'activation', 'OneToOne' )
synap... | dilawar/moose-full | moose-examples/snippets/showmsg.py | Python | gpl-2.0 | 818 | [
"MOOSE"
] | 2d88724c20b2e709045defc890afa5db1f26771fcfc3944af90e1187467b5270 |
"""
A script to generate the Mayavi logo: a Boy surface.
The boy surface is a mathematical parametric surface, see
http://en.wikipedia.org/wiki/Boy%27s_surface . We display it by sampling
the two parameters of the surface on a grid and using the mlab's mesh
function: :func:`mayavi.mlab.mesh`.
"""
# Author: Gael Varoq... | dmsurti/mayavi | examples/mayavi/mlab/boy.py | Python | bsd-3-clause | 1,075 | [
"Mayavi"
] | 5491c18fb3a31b143e5bfcfc343953346b6065f9e598d3c87be9947c3b10ffa3 |
#!/usr/bin/env python3
#* 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/lgp... | nuclear-wizard/moose | framework/scripts/mooseExamplesLateX/gen_tex.py | Python | lgpl-2.1 | 2,948 | [
"MOOSE"
] | 52d74f9880b048190db4d9ad054d493b596898a151c658834ee950b46b45b9ab |
# -----------------------------------------------------------------------------
# Milky Way - Turn based strategy game from Milky Way galaxy
#
# URL: https://github.com/FedericoRessi/milkyway/
# License: GPL3
#
# pylint: disable=protected-access,redefined-outer-name,invalid-name,
# pylint: disable=missing-doc... | FedericoRessi/milkyway | bin/tests/test_touched_files.py | Python | gpl-3.0 | 4,965 | [
"Galaxy"
] | 499a17d3fc4bafdcd6c1878350b0a461a79fd4cbbde0ca6b582dd0c64e4f69f5 |
from direct.directnotify import DirectNotifyGlobal
from direct.fsm import StateData
import CogHQLoader, MintInterior
from toontown.toonbase import ToontownGlobals
from direct.gui import DirectGui
from toontown.toonbase import TTLocalizer
from toontown.toon import Toon
from direct.fsm import State
import CashbotHQExteri... | ToonTownInfiniteRepo/ToontownInfinite | toontown/coghq/CashbotCogHQLoader.py | Python | mit | 3,395 | [
"VisIt"
] | 5c31144b24f4870d919a96da5d9c2c575f79ddae4af90dfd7c64f7425b5009c2 |
# ******************************************************************************
# Copyright 2017-2018 Intel Corporation
#
# 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.apa... | NervanaSystems/neon | examples/gan/network_gan.py | Python | apache-2.0 | 13,571 | [
"Gaussian"
] | bcec3b40393647e3fcada5260885efe75699f968742b512fb666e3b67aec3cc7 |
"""Test Vapix network API main class.
pytest --cov-report term-missing --cov=axis.vapix tests/test_vapix.py
"""
import pytest
import httpx
import respx
from axis.errors import MethodNotAllowed, PathNotFound, RequestError, Unauthorized
from axis.applications import APPLICATION_STATE_RUNNING, APPLICATION_STATE_STOPPE... | Kane610/axis | tests/test_vapix.py | Python | mit | 17,529 | [
"VMD"
] | d55b804f9fb221e049349c1d033e465fdb7dd5504d8f8c2db723f632cdbc73a6 |
# -*- coding: utf-8 -*-
# Copyright (C) 2008-2020 Samuele Carcagno <sam.carcagno@gmail.com>
# This file is part of pychoacoustics
# pychoacoustics 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, ... | sam81/pychoacoustics | pychoacoustics/PSI_method_est_guess.py | Python | gpl-3.0 | 12,368 | [
"Gaussian"
] | 98a3efbe6f691d3e248259757c02dd551d65bb6581175e0124d82e60d77a5cc2 |
"""Run IPython widget javascript tests
run with `gulp tests; python -m jstest`
"""
# Copyright (c) IPython Development Team.
# Distributed under the terms of the Modified BSD License.
import os
try:
from unittest.mock import patch
except ImportError:
from mock import patch # py2
from notebook import jstest... | ArcherSys/ArcherSys | Lib/site-packages/ipywidgets/jstest.py | Python | mit | 1,616 | [
"GULP"
] | 9282da6d96549f58671616743d58974a49b275ab575486b3ab0c71a0a10dc61d |
# coding: utf-8
# # Your first neural network
#
# In this project, you'll build your first neural network and use it to predict daily bike rental ridership. We've provided some of the code, but left the implementation of the neural network up to you (for the most part). After you've submitted this project, feel free... | tkurfurst/deep-learning | first-neural-network/dlnd-your-first-neural-network.py (old).py | Python | mit | 17,588 | [
"NEURON"
] | 55c290b365772ebd97b220730816fb70bdd27637c65c91a66b61ce644fda8140 |
#!/usr/bin/env python3
import random
def kill(con, sjBot, commands, trigger, host, channel, person, *weapon):
"""Kills a person with a random or specified weapon."""
weapons = ['a small lion.', 'a dictionary', 'an angry mountain.',
'the power of 3.', 'a honey badger.', 'a Hyper beam.',
... | ahkscript/sjBot | commands/!##monsterhunter/kill.py | Python | gpl-3.0 | 712 | [
"Bowtie"
] | ef164b8fe3b2669cbfa19379bd8942855ada3cd38e25770e08495e410a6439f3 |
from __future__ import absolute_import, division, print_function
import numpy as np
import pandas as pd
import gsd.hoomd
import sklearn
import scipy.optimize as opt
import os
import os.path
import pdb
from sklearn.neighbors import BallTree
from sklearn.neighbors import radius_neighbors_graph
from scipy.spatial.distanc... | ramansbach/cluster_analysis | clustering/scripts/old-scripts/clustering_temp.py | Python | mit | 73,255 | [
"Gromacs"
] | e783bf95ce3dfd29bbe9cac92ebabbcf939c41fa3792d0353acba732dd514f81 |
# $Id$
#
# Copyright (C) 2003 Rational Discovery LLC
# All Rights Reserved
#
import sys, types
from rdkit import Chem
from rdkit import six
from rdkit.VLib.Output import OutputNode as BaseOutputNode
class OutputNode(BaseOutputNode):
""" dumps smiles output
Assumptions:
- destination supports a write(... | jandom/rdkit | rdkit/VLib/NodeLib/SmilesOutput.py | Python | bsd-3-clause | 1,925 | [
"RDKit"
] | 03ea2a92f247dae19412fd37bfc05c9306cd5747f25edec7273976eb67a0a001 |
# Orca
#
# Copyright 2005-2009 Sun Microsystems Inc.
# Copyright 2010-2013 The Orca Team.
#
# This library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free Software Foundation; either
# version 2.1 of the License, or (at you... | chrys87/orca-beep | src/orca/scripts/apps/soffice/script.py | Python | lgpl-2.1 | 32,885 | [
"ORCA"
] | 0b53371469c7ca872b7296f0a1e9011bc7d7159f9e4048e487dc1474a0f252d6 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Abinit Post Process Application
author: Martin Alexandre
last edited: May 2013
"""
import sys,os
import string, math
from PyQt4 import Qt,QtGui,QtCore
from numpy import pi
class Conversion(QtGui.QWidget):
def __init__(self, parent = None):
self.i... | SamKChang/abinit-7.10.5_multipole | scripts/post_processing/appa/gui/conv.py | Python | gpl-3.0 | 9,987 | [
"ABINIT"
] | da1ca2911dcbf73a11462e4577b44ad8bdf5eb530ad94d91020c609659836def |
import numpy as np
from ase.lattice import bulk
from gpaw import GPAW, FermiDirac
from gpaw.wavefunctions.pw import PW
from gpaw.response.gw import GW
a = 5.431
atoms = bulk('Si', 'diamond', a=a)
for k in [3,5,7,9]:
kpts = (k,k,k)
for ecut in [50,100,150,200]:
calc = GPAW(
mode=... | robwarm/gpaw-symm | doc/tutorials/gw_tutorial/exx_convergence.py | Python | gpl-3.0 | 1,185 | [
"ASE",
"GPAW"
] | a106d01dd685f0689d9726f22b04d3c52cfad09f61c06c89ea5daa1ad3395b0f |
# -*- coding: utf-8 -*-
"""
A real simple app for using webapp2 with auth and session.
It just covers the basics. Creating a user, login, logout
and a decorator for protecting certain handlers.
Routes are setup in routes.py and added in main.py
"""
# standard library imports
import logging
import ran... | rchaber/moolatoo | boilerplate/handlers.py | Python | lgpl-3.0 | 65,137 | [
"VisIt"
] | b5f0fd58e95859b7ad3acd36e8bfd2481742ad5609549e0a6c0fa6dc19400175 |
# -*- coding: utf-8 -*-
# This file is part of Argos.
#
# Argos 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.
#
# Argos is distribut... | titusjan/argos | argos/repo/rtiplugins/exdir.py | Python | gpl-3.0 | 19,874 | [
"NetCDF"
] | f2fa3fa1a747bf64842e071e2a889638cbdddfc8b2b34bdb4cae6e44181fc75c |
from setuptools import setup
setup(
name='cat',
version='2.0',
packages=['cat', 'tools'],
python_requires='>=3.7.0',
install_requires=[
'pyfasta>=0.5.2',
'toil==5.0',
'luigi>=2.5',
'seaborn>=0.7',
'pandas==1.1.0',
'frozendict',
'configobj>=5.0... | ComparativeGenomicsToolkit/Comparative-Annotation-Toolkit | setup.py | Python | apache-2.0 | 1,238 | [
"Biopython",
"pysam"
] | e431bc4e37a0557f847d4341ab66799278c21f056eb4f532ffdc18d7b4ee40f2 |
#!/usr/bin/env python
#-*- coding: utf-8 -*-
## Import common moduli
import numpy as np
from scipy.constants import c, hbar, pi
import matplotlib, os, sys, argparse
import matplotlib.pyplot as plt
parser = argparse.ArgumentParser(description=__doc__, formatter_class=argparse.RawDescriptionHelpFormatter)
parser.add_arg... | FilipDominec/python-meep-utils | example_frequency-position_plot/fxplot.py | Python | gpl-2.0 | 10,440 | [
"Gaussian"
] | e72a7c7cfde2d24d76ddafc81c340a2037f5462ce443a90b81cbb626b5696fda |
# This file is part of the myhdl library, a Python package for using
# Python as a Hardware Description Language.
#
# Copyright (C) 2003-2015 Jan Decaluwe
#
# The myhdl 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 t... | jmgc/myhdl-numeric | myhdl/conversion/_toVHDL.py | Python | lgpl-2.1 | 162,113 | [
"VisIt"
] | 86124051479728eb04b3d210c19b48f63560a9a32b2c84307a0a00027af9b148 |
''' FTSStorageBanAction
'''
import json
import fts3.rest.client.easy as fts3
from DIRAC import S_ERROR, S_OK
from DIRAC.ResourceStatusSystem.PolicySystem.Actions.BaseAction import BaseAction
from DIRAC.Core.Security.ProxyInfo import ge... | vmendez/DIRAC | ResourceStatusSystem/PolicySystem/Actions/FTSStorageBanAction.py | Python | gpl-3.0 | 2,893 | [
"DIRAC"
] | 54859a0f6acca1c8cb8f3d6918f288c3c27b404f08a20468e65d086beaff1099 |
#!/usr/bin/env python
#
# Electrum - lightweight Bitcoin client
# Copyright (C) 2011 thomasv@gitorious
#
# Permission is hereby granted, free of charge, to any person
# obtaining a copy of this software and associated documentation files
# (the "Software"), to deal in the Software without restriction,
# including witho... | vialectrum/vialectrum | electrum_ltc/old_mnemonic.py | Python | mit | 17,857 | [
"CRYSTAL",
"VisIt"
] | c976be1a99a2eaa4c63630253eccdbe926f571512d3c0b2681531114ce52272f |
# -*- Mode:Python; indent-tabs-mode:nil; tab-width:4 -*-
#
# Copyright (C) 2015-2018 Canonical Ltd
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License version 3 as
# published by the Free Software Foundation.
#
# This program is distributed in ... | ubuntu-core/snapcraft | tests/integration/plugins_nodejs/test_gulp_plugin.py | Python | gpl-3.0 | 1,105 | [
"GULP"
] | 6053421be386de6face9b8f4256180e19c8db253a199760cbe38af3586ed9d44 |
#!/usr/bin/env python
# \author Hans J. Johnson
# The following python script was used to make the ITK code consistent.
# This program is designed to replace the use of "class" with
# the more expressive "typename" keyword for defining template
# parameters
# Usage: python ReplaceClassWithTypenameKeyword.py *.hxx *.h... | richardbeare/ITK | Utilities/ITKv5Preparation/replaceClassWithTypename.py | Python | apache-2.0 | 2,289 | [
"VTK"
] | d2bd2c26d5760d052e386964847109492eff49667a2988e949466607eca32484 |
# Copyright (c) 2009-2021 The Regents of the University of Michigan
# This file is part of the HOOMD-blue project, released under the BSD 3-Clause
# License.
"""Access simulation state data directly."""
from abc import ABC, abstractmethod
from hoomd import Box
from hoomd import _hoomd
class _LocalAccess(ABC):
_... | joaander/hoomd-blue | hoomd/data/local_access.py | Python | bsd-3-clause | 16,793 | [
"HOOMD-blue"
] | 6fea6702ae248db855e0aae8e489dfbb246dde1cf7dadcd02a26405efafaffb8 |
from distutils.core import setup, Extension
import numpy as np
setup(name='mockgallib',
version='0.0.1',
description='Mock galaxy library',
author='Jun Koda',
url='https://github.com/junkoda/mockgallib',
py_modules=['mockgallib.power', 'mockgallib.const', 'mockgallib.sigma',
... | junkoda/mockgallib | py/setup.py | Python | gpl-3.0 | 2,034 | [
"Galaxy"
] | ee1b8405c495972aa22855e06b8c81dd1a1e8e968bfb94d713c17e865172299e |
# coding: utf-8
# create_word_lists.py written by Duncan Murray 3/2/2014
# creates a simple list of verbs, nouns and adjectives for
# simple 'bag of words' parsing.
# First implementation uses the following dataset:
# WordNet 3.1 Copyright 2011 by Princeton University.
import os
import sys
from xml.dom.minidom ... | acutesoftware/AIKIF | aikif/.z_prototype/create_word_lists.py | Python | gpl-3.0 | 5,833 | [
"VisIt"
] | 2c5bc070cfaf70578d2243cb49486370c9756133fd5f69089dd00fb38c1323fd |
import json
import os
import sys
from collections import defaultdict
import copy
import logging
import traceback
from twisted.internet import threads
import numpy as np
import webbrowser
from PyQt5 import QtCore
from PyQt5 import QtGui
from PyQt5 import QtWidgets
from sasmodels import generate
from sasmodels import ... | SasView/sasview | src/sas/qtgui/Perspectives/Fitting/FittingWidget.py | Python | bsd-3-clause | 175,859 | [
"Gaussian"
] | 05d27bccfc6d313616ca492e0b019002654086a3bb63a4d8af85ea1b0901adc9 |
# -*- coding: utf-8 -*-
# author: degoldschmidt
# date: 25/8/2017
import logging
import os
from pytrack_analysis.profile import *
from pytrack_analysis.database import *
from pytrack_analysis.logger import Logger
import pytrack_analysis.preprocessing as prp
from pytrack_analysis import Kinematics
from pytrack_analysis ... | degoldschmidt/pytrack-analysis | examples/oldstuff/eLife2016_figure2.py | Python | gpl-3.0 | 4,423 | [
"VisIt"
] | b25075cdaad23435fb1f0fb8d75f3058d5a6d58b7ec334d1ce52971b765a0271 |
#!/usr/bin/env python3
"""
Copyright 2020 Paul Willworth <ioscode@gmail.com>
This file is part of Galaxy Harvester.
Galaxy Harvester is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 ... | pwillworth/galaxyharvester | html/user.py | Python | gpl-3.0 | 8,202 | [
"Galaxy"
] | 211da55ee4462de3940f704f6afc5deb453920212cd2459cc2bfa17b214ca080 |
##!/usr/bin/env python
import vtk
def main():
fileName = get_program_parameters()
colors = vtk.vtkNamedColors()
# Set the background color.
colors.SetColor("BkgColor", [60, 93, 144, 255])
# Read in an image and compute a luminance value. The image is extracted
# as a set of polygons (vtkIm... | lorensen/VTKExamples | src/Python/Images/ImageWarp.py | Python | apache-2.0 | 2,853 | [
"VTK"
] | 8d0eabf772e67c950cc2483a162621ca9d52e43d323f4495a8c227b3cf0a3250 |
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