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|---|---|---|---|---|---|---|---|
"""
Perform Levenberg-Marquardt least-squares minimization, based on MINPACK-1.
AUTHORS
The original version of this software, called LMFIT, was written in FORTRAN
as part of the MINPACK-1 package by XXX.
Craig Markwardt converted the FORTRAN code to IDL. The information for the
IDL version is:
... | crpurcell/RM-tools | RMutils/mpfit.py | Python | mit | 78,910 | [
"Gaussian"
] | 59ef2deab65f7495e506ba512cd07c56ab5b665724be396d2c93d1b7afe5c434 |
# (c) 2012, Michael DeHaan <michael.dehaan@gmail.com>
#
# This file is part of Ansible
#
# Ansible 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 lat... | nelsonsar/ansible | lib/ansible/template/safe_eval.py | Python | gpl-3.0 | 4,361 | [
"VisIt"
] | 544d7646f9231af80fc9a10230d712bd325e81d76bfce1c4683060823761c44d |
# (c) 2015, Brian Coca <briancoca+dev@gmail.com>
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later v... | majidaldo/ansible | v2/ansible/plugins/action/patch.py | Python | gpl-3.0 | 2,390 | [
"Brian"
] | 0d712f0f1fcc9b2585bc541766a0760f64be668f8a9132359efe05fe70824533 |
import os
from setuptools import setup
with open("README.md", "r") as fh:
long_description = fh.read()
# allow setup.py to be run from any path
os.chdir(os.path.normpath(os.path.join(os.path.abspath(__file__), os.pardir)))
setup(
name='django-blastplus',
version='3.0.0',
packages=['blastplus'],
... | michal-stuglik/django-blastplus | setup.py | Python | mit | 1,180 | [
"BLAST"
] | 4f0a498c7011ee439085cc53938e1e76fbf8f2e1aab60da8290914bfd31ee9fb |
from __future__ import print_function
import sys, os, os.path, time, errno, psutil
import csv
from subprocess import call
import multiprocessing
import optparse
time_init = time.strftime("%Y%m%d_%H%M%S")
pyDir = os.path.dirname(os.path.abspath(__file__)) #python file location
inputDir = os.path.join(pyDir, 'data_inpu... | hstau/covar-cryo | covariance/ManifoldEM_GUI.py | Python | gpl-2.0 | 452,414 | [
"Gaussian",
"Mayavi",
"VisIt"
] | 0f8717e4b66af3da36aa9b646267c39fb332853a78ff7bf63ece795d80432d60 |
# coding=utf-8
# Copyright 2022 RigL Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agree... | google-research/rigl | rigl/experimental/jax/pruning/masked.py | Python | apache-2.0 | 27,027 | [
"NEURON"
] | 744bb1a62aa52959e3bc7b3effdaa2cd630062c4429daffdbd4e1f7abde03bbf |
from ase.atoms import Atoms
from ase.quaternions import Quaternions
from ase.parallel import paropen
import numpy as np
""" This could be later merged with ase.io.lammps """
def read_lammps_dump(fileobj, index=-1):
"""Method which reads a LAMMPS dump file."""
if isinstance(fileobj, str):
f = paropen(fileobj)
els... | csmm/multiase | multiasecalc/lammps/io/lammps.py | Python | gpl-2.0 | 3,874 | [
"ASE",
"LAMMPS"
] | 3337c821cc8b731ca28aa8b452fc754f61308d9a0e54ec3d64a643f445e8f7b2 |
# Copyright Iris contributors
#
# This file is part of Iris and is released under the LGPL license.
# See COPYING and COPYING.LESSER in the root of the repository for full
# licensing details.
"""
A collection of routines which create standard Cubes for test purposes.
"""
from datetime import datetime
import os.path
... | pp-mo/iris | lib/iris/tests/stock/__init__.py | Python | lgpl-3.0 | 24,244 | [
"NetCDF"
] | 7986e38e301e1e834b96ccb5f123290c0bde67cbdd4bfeb550a44330d759b034 |
#!/usr/bin/env python
# BSD Licence
# Copyright (c) 2011, Science & Technology Facilities Council (STFC)
# All rights reserved.
#
# See the LICENSE file in the source distribution of this software for
# the full license text.
"""
Execute a programme that makes NetCDF-API OPeNDAP calls, capturing
request events and timi... | cedadev/dapbench | dapbench/record_dap.py | Python | bsd-3-clause | 4,715 | [
"NetCDF"
] | ac2b079bd21eba403e271f4d4111055d52bba9c9b17f0f5cc867be450996c0eb |
# pylint: disable=invalid-name,no-init,too-many-arguments,too-many-branches, unused-variable,too-many-return-statements
# This script creates numerous PeaksWorkspaces for different Crystal Types and Centerings. Random errors
# are also introduced into the peak's. Each PeaksWorkspace is sent through the algorithm's Fin... | ScreamingUdder/mantid | Testing/SystemTests/tests/analysis/Peak2ConvCell_Test.py | Python | gpl-3.0 | 34,919 | [
"CRYSTAL"
] | e199154a13e8f87eebebfa82f873a52cecb0e3405d11adff6d257b05a81de6ac |
# -*- coding: utf-8 -*-
# vim: autoindent shiftwidth=4 expandtab textwidth=120 tabstop=4 softtabstop=4
###############################################################################
# OpenLP - Open Source Lyrics Projection #
# ------------------------------------------------------... | marmyshev/item_title | openlp/core/ui/servicenoteform.py | Python | gpl-2.0 | 3,935 | [
"Brian"
] | 4f6dd141ca35faaf857a528547a9ed474e98eae3879c190415b0d86b87990163 |
#!/usr/bin/env python
# Copyright (c) 2012 The Chromium Authors. All rights reserved.
# Use of this source code is governed by a BSD-style license that can be
# found in the LICENSE file.
'''Collections of messages and their translations, called cliques. Also
collections of cliques (uber-cliques).
'''
import re
impo... | heke123/chromium-crosswalk | tools/grit/grit/clique.py | Python | bsd-3-clause | 18,007 | [
"xTB"
] | 4f09f28fe0e612fa587c7f95e1ba0ebe892ef7903f1da039c35ab6b54a825099 |
from __future__ import division
import numpy as np
from numpy.testing import TestCase, assert_almost_equal
from numpy.testing.decorators import slow
from utils import assert_within_tol, run_module_suite
from skmonaco import mcquad
HALF_ROOT_PI = 0.5*np.sqrt(np.pi)
class TestMCQuad(TestCase):
"""
The expect... | scikit-monaco/scikit-monaco | skmonaco/tests/test_uniform.py | Python | bsd-3-clause | 10,829 | [
"Gaussian"
] | 101dcab215f0f480f876c9bd496f7e3d3d460bb33da4e3d845af893eb452bae2 |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2018 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of Psi4.
#
# Psi4 is free software; you can redistribute it and/or modify
#... | amjames/psi4 | psi4/driver/p4util/numpy_helper.py | Python | lgpl-3.0 | 17,062 | [
"Psi4"
] | 46af7fb95dc23def2ef64fdce31c60d0b7afd66bcb556d9406d3fa576bf46cd5 |
#
# Licensed to the Apache Software Foundation (ASF) under one or more
# contributor license agreements. See the NOTICE file distributed with
# this work for additional information regarding copyright ownership.
# The ASF licenses this file to You under the Apache License, Version 2.0
# (the "License"); you may not us... | chenc10/Spark-PAF | python/pyspark/mllib/clustering.py | Python | apache-2.0 | 29,266 | [
"Gaussian"
] | 0c811da26bfcb8352c2c8963d9f671d3ab0668f7880ba70d70d17a34237f8ab1 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
import datetime
import hashlib
import random
from CTFd import create_app
from CTFd.models import Teams, Solves, Challenges, WrongKeys, Keys, Files, Awards
app = create_app()
USER_AMOUNT = 50
CHAL_AMOUNT = 20
AWARDS_AMOUNT = 5
categories = [
'Exploitation',
'Reversi... | liam-middlebrook/CTFd | populate.py | Python | apache-2.0 | 15,678 | [
"Amber",
"Brian",
"CRYSTAL"
] | 3d53483dcb5fdb5a8dab896a7b1f614e4b4b859c383a9205f6478fff34a00bc5 |
# -*- coding: utf-8 -*-
"""
equip.instrument
~~~~~~~~~~~~~~~~
Main interface to handle the instrumentation and run the visitors.
:copyright: (c) 2014 by Romain Gaucher (@rgaucher)
:license: Apache 2, see LICENSE for more details.
"""
from .prog import Program
from .bytecode import BytecodeObject
from .visit... | neuroo/equip | equip/instrument.py | Python | apache-2.0 | 6,703 | [
"VisIt"
] | 7d6302575eb18005720e82b0bbab227ffd6247b905ab3673951edf0004f1fd2c |
import numpy as np
import vtk
from vtky.BaseArray import BaseArray
class DoubleArray(BaseArray):
def __init__(self, array=np.array([])):
super(DoubleArray, self).__init__(array, vtk.VTK_DOUBLE)
class FloatArray(BaseArray):
def __init__(self, array=np.array([])):
super(FloatArray, self).__ini... | marcelotrevisani/vtky | vtky/DataArray.py | Python | mit | 1,844 | [
"VTK"
] | f0b6eb9763348f24129c65268cb7634c071a9a96102cdfb2ab1b56de65f47260 |
import vtk, qt, slicer
from .Effect import AbstractEffect
import WarpDrive
class AbstractPointerEffect(AbstractEffect):
def __init__(self, sliceWidget):
AbstractEffect.__init__(self, sliceWidget)
self.parameterNode = WarpDrive.WarpDriveLogic().getParameterNode()
self.previousVisibleIDs = vtk.vtkIdList... | andreashorn/lead_dbs | ext_libs/SlicerNetstim/WarpDrive/WarpDriveLib/Effects/PointerEffect.py | Python | gpl-3.0 | 3,117 | [
"VTK"
] | 931d43fb8c13aafc3518d9be111f5bbc562eace0e0e8631de1e44c85fcf5194e |
from synapse.tests.common import *
import synapse.tools.autodoc as s_autodoc
class TestAutoDoc(SynTest):
def test_tools_autodoc(self):
with self.getTestDir() as path:
save = os.path.join(path, 'model.rst')
outp = self.getTestOutp()
argv = ['--doc-model', '--savefile'... | vivisect/synapse | synapse/tests/test_tools_autodoc.py | Python | apache-2.0 | 1,425 | [
"NEURON"
] | 46ff8ec413cbe3dbb01cc6613a449f03badfd01c127986aedba2f3a252bfa03c |
# 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
# distribu... | quantumlib/OpenFermion | src/openfermion/__init__.py | Python | apache-2.0 | 10,661 | [
"VisIt"
] | 714fce92dd2d446d41bb96c5d89e2675201a2b97d6e44265a7d0fdde0d9a26b4 |
##############################################################################
# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | EmreAtes/spack | var/spack/repos/builtin/packages/r-alpine/package.py | Python | lgpl-2.1 | 2,390 | [
"Bioconductor"
] | 4a9d4bfda131c0bfacd85e1ebd4febaeb286e232e9da6fbdb8743aa0a9674079 |
# -*- coding: utf-8 -*-
#
# Copyright (c) 2017, the cclib development team
#
# This file is part of cclib (http://cclib.github.io) and is distributed under
# the terms of the BSD 3-Clause License.
"""A writer for chemical JSON (CJSON) files."""
import os.path
import json
import numpy as np
from cclib.io import filew... | langner/cclib | cclib/io/cjsonwriter.py | Python | bsd-3-clause | 9,748 | [
"Open Babel",
"cclib"
] | 30470c875f486bb361558b09f8252e4132ab1ecef285ca356ad449df0c799604 |
# ============================================================================
#
# Copyright (C) 2007-2010 Conceptive Engineering bvba. All rights reserved.
# www.conceptive.be / project-camelot@conceptive.be
#
# This file is part of the Camelot Library.
#
# This file may be used under the terms of the GNU General... | kurtraschke/camelot | camelot/view/controls/editors/codeeditor.py | Python | gpl-2.0 | 3,851 | [
"VisIt"
] | 008131fd96368d4d1873499633f8d1eee8545a6e60b63f147606f09bd301261d |
# $HeadURL$
__RCSID__ = "$Id$"
import time
import copy
import os.path
import GSI
from DIRAC.Core.Utilities.ReturnValues import S_ERROR, S_OK
from DIRAC.Core.Utilities.Network import checkHostsMatch
from DIRAC.Core.Utilities.LockRing import LockRing
from DIRAC.Core.Security import Locations
from DIRAC.Core.Security.X50... | arrabito/DIRAC | Core/DISET/private/Transports/SSL/SocketInfo.py | Python | gpl-3.0 | 13,473 | [
"DIRAC"
] | 56a185201db08713b4801b39b5c6ec31a52799d90c522a1d0fe403bc86cd2ae9 |
#!/usr/bin/env python2
#
# Copyright (C) 2013-2017(H)
# Max Planck Institute for Polymer Research
#
# 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,... | kkreis/espressopp | testsuite/python_tools/io/test_python_tools_io.py | Python | gpl-3.0 | 4,075 | [
"ESPResSo"
] | a0941c11f961b9140377010dca80c0c51f0092559ee6f25e3dfe93f74cad9e2c |
#!/usr/bin/env python
# *- coding: utf-8 -*-
# vim: set expandtab tabstop=4 shiftwidth=4 softtabstop=4 textwidth=79:
"""
[License: GNU General Public License v3 (GPLv3)]
This file is part of Dr. Disco.
FuMa is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public Licens... | yhoogstrate/dr-disco | tests/test_drdisco_bam-extract.py | Python | gpl-3.0 | 4,995 | [
"pysam"
] | 2ae5225c57f768324693d0f18b3d6e5579536bdcedfd043e9dd0b243f8663413 |
# -*- coding: utf-8 -*-
from __future__ import unicode_literals
from django.db import models, migrations
import re
import django.contrib.auth.models
import galaxy.main.mixins
import django.utils.timezone
import django.core.validators
class Migration(migrations.Migration):
dependencies = [
('auth', '0006... | chouseknecht/galaxy | galaxy/accounts/migrations/0001_initial.py | Python | apache-2.0 | 2,990 | [
"Galaxy"
] | e9ac624594e7bd515cf48d71d42048dbc7d77d6d281e633c63a2acae83caf0e9 |
# -*- coding: utf-8 -*-
"""
End-to-end tests related to the cohort management on the LMS Instructor Dashboard
"""
from datetime import datetime
from pytz import UTC, utc
from bok_choy.promise import EmptyPromise
from nose.plugins.attrib import attr
from .helpers import CohortTestMixin
from ..helpers import UniqueCour... | IndonesiaX/edx-platform | common/test/acceptance/tests/discussion/test_cohort_management.py | Python | agpl-3.0 | 54,443 | [
"VisIt"
] | 14bf75963addb1d9d39e33c4846c03aa4c237e9c5155425bf4f3a95de1edf59b |
"""
utilities
"""
import functools
import io
from collections import namedtuple
from contextlib import contextmanager
from datetime import datetime
from pathlib import Path
from typing import Dict, Generator, Optional, Union
from typing.io import BinaryIO
from urllib.parse import urlparse
import pandas as pd
import... | pyoceans/erddapy | erddapy/utilities.py | Python | bsd-3-clause | 4,106 | [
"NetCDF"
] | 52127d1a6e4926800ae4c3741efcbc1b84f2b653bb2a79f0c2e3e959f88cc8be |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# QUANTCONNECT.COM - Democratizing Finance, Empowering Individuals.
# Lean Algorithmic Trading Engine v2.0. Copyright 2014 QuantConnect Corporation.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with th... | kaffeebrauer/Lean | setup.py | Python | apache-2.0 | 7,158 | [
"VisIt"
] | 37f4466bbd1436e5d5791f193d7d13cc34eb8298cfb693a1a27a365b85fba245 |
import topo
import param
import imagen
from topo import projection, responsefn, learningfn, transferfn, sheet, sparse
import topo.learningfn.optimized
import topo.transferfn.optimized
import topo.responsefn.optimized
import topo.sheet.optimized
import topo.transferfn.misc
from topo.submodel import Model, ArraySpec, o... | Tasignotas/topographica_mirror | topo/submodel/gcal.py | Python | bsd-3-clause | 12,678 | [
"Gaussian"
] | 14a8fd269b3636bbb78b47c00401b24a9b4de785c4a955e8259cd2c93d0618c4 |
"""Diffusion along rows"""
from __future__ import print_function
from math import sqrt
from ase import Atoms, Atom
from ase.io import write
from ase.visualize import view
from ase.constraints import FixAtoms
from ase.optimize import QuasiNewton, MDMin
from ase.neb import NEB
from ase.calculators.emt import EMT
a = 4.... | misdoro/python-ase | doc/tutorials/selfdiffusion/neb1.py | Python | gpl-2.0 | 1,615 | [
"ASE"
] | 8394759c7b0030f8564a6beb981e434574d1a66f5a9494a3df1660fec9773cd2 |
"""
.. module:: collect_season_fcst_rainfall.py
:synopsis: It should create the directories hierarchy structure. And
It should get the partners data of observation rainfall data,
i.e. model fcst rainfall data for 24, 48, etc hours which is set
in the global configuration fil... | arulalant/mmDiagnosis | diagnosis1/diagnosis/collect_season_fcst_rainfall.py | Python | gpl-3.0 | 11,382 | [
"NetCDF"
] | aa6c63964f3db9f862a76a0b09cc80459e01d1877bb860a16f282a8f70a69798 |
# coding: utf-8
# Copyright (c) Henniggroup.
# Distributed under the terms of the MIT License.
from __future__ import division, print_function, unicode_literals, \
absolute_import
"""
Workflow to study the convergence of VASP parameters: ENCUT and KPOINTS
for a range of systems.
"""
from six.moves import range
... | henniggroup/MPInterfaces | examples/workflows/vasp_workflow.py | Python | mit | 3,992 | [
"VASP",
"pymatgen"
] | d898bcfd187b8d13f23936f8610058d6d035254d7cae4bff48aa42822dcf10d5 |
# Licensed to the Apache Software Foundation (ASF) under one
# or more contributor license agreements. See the NOTICE file
# distributed with this work for additional information
# regarding copyright ownership. The ASF licenses this file
# to you under the Apache License, Version 2.0 (the
# "License"); you may not u... | sxjscience/tvm | python/tvm/contrib/hexagon.py | Python | apache-2.0 | 8,340 | [
"VisIt"
] | 293d7efb301134e256738c70e24da1517111a8aa4ed57381b2c874cb8f724871 |
# test_suppyrrs.py ---
#
# Filename: test_suppyrrs.py
# Description:
# Author:
# Maintainer:
# Created: Mon Jul 16 16:12:55 2012 (+0530)
# Version:
# Last-Updated: Thu Nov 8 18:40:34 2012 (+0530)
# By: subha
# Update #: 517
# URL:
# Keywords:
# Compatibility:
#
#
# Commentary:
#
#
#
#
#... | BhallaLab/moose-examples | traub_2005/py/test_suppyrrs.py | Python | gpl-2.0 | 1,526 | [
"MOOSE"
] | b7fe65a3054a07c8cf2fc24a81a56c8af0d84b66291a95e8b29df81fd9cdd497 |
##############################################################################
# MDTraj: A Python Library for Loading, Saving, and Manipulating
# Molecular Dynamics Trajectories.
# Copyright 2012-2013 Stanford University and the Authors
#
# Authors: Robert McGibbon
# Contributors:
#
# MDTraj is free software: y... | mdtraj/mdtraj | tests/test_hdf5.py | Python | lgpl-2.1 | 10,187 | [
"MDTraj",
"OpenMM"
] | 5aac7a408ff310cfa07de92fec113d2022aba2b680145176edb3cf3e8653edff |
#!/usr/bin/env python
from ase import *
from gpaw import GPAW
import tab
def get_eigs(calc):
# returns eigs_skn
return np.array([[calc.get_eigenvalues(kpt=k, spin=s)
for k in range(calc.wfs.nibzkpts)]
for s in range(calc.wfs.nspins)])
noconv = dict(fixdensity=True, c... | qsnake/gpaw | oldtest/nonself_eigs.py | Python | gpl-3.0 | 1,628 | [
"ASE",
"GPAW"
] | 3335fe8d06fa6aa5883a25b1c9fe4d07e57ea5793209321e36fb347e9630206e |
# Copyright (c) 2013, Web Notes Technologies Pvt. Ltd. and Contributors
# MIT License. See license.txt
from __future__ import unicode_literals
import frappe
from frappe.utils import cint, now, get_gravatar
from frappe import throw, msgprint, _
from frappe.auth import _update_password
from frappe.core.doctype.notificat... | gangadhar-kadam/lgnlvefrape | frappe/core/doctype/user/user.py | Python | mit | 17,443 | [
"VisIt"
] | 9032cd6009e88a53cb5f0ac7d24493bcadaffac7f04b8229a4a21852ab1b579e |
# -*- coding: utf-8 -*-
#
# test_siegert_neuron.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the Lic... | jakobj/nest-simulator | pynest/nest/tests/test_siegert_neuron.py | Python | gpl-2.0 | 4,819 | [
"NEURON"
] | 61b8ece54addc44e5039ff5ef57401ef6a40d8ae5f7afc263846bd8684ce4ae5 |
# -*- coding: utf-8 -*-
#########################################################################
## This program is part of 'MOOSE', the
## Messaging Object Oriented Simulation Environment.
## Copyright (C) 2014 Upinder S. Bhalla. and NCBS
## It is made available under the terms of the
## GNU Lesser General ... | upibhalla/moose-core | tests/python/test_Xreacs4a.py | Python | gpl-3.0 | 3,359 | [
"MOOSE"
] | af390dc7c10600a80c62c40f7ba6a6a8cd62d1acbdc28f733caec02c8fc4c067 |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
#
# MDAnalysis --- http://www.mdanalysis.org
# Copyright (c) 2006-2016 The MDAnalysis Development Team and contributors
# (see the file AUTHORS for the full list of names)
#
# Released under t... | kain88-de/mdanalysis | package/MDAnalysis/topology/PDBParser.py | Python | gpl-2.0 | 11,336 | [
"MDAnalysis",
"VMD"
] | 9a5d38f69741f085de29aa1a04c9f8e77ffd8f7d7f11a7bea6cbc3ea69d2c906 |
import tensorflow as tf # neural network for function approximation
import gym # environment
import numpy as np # matrix operation and math functions
from gym import wrappers
import gym_morph # customized environment for cart-pole
import matplotlib
matplotlib.use('Agg')
import matplotlib.pyplot as plt
import time
star... | GitYiheng/reinforcement_learning_test | test03_monte_carlo/t33_rlvps01.py | Python | mit | 7,662 | [
"NEURON"
] | b4311ca5868d75f5173ef1289c3c8d7e1a32ea476ed537bdfd9e8d4747be6bfa |
# Copyright (C) 2012,2013
# Max Planck Institute for Polymer Research
# Copyright (C) 2008,2009,2010,2011
# Max-Planck-Institute for Polymer Research & Fraunhofer SCAI
#
# This file is part of ESPResSo++.
#
# ESPResSo++ is free software: you can redistribute it and/or modify
# it under the terms of t... | BackupTheBerlios/espressopp | src/integrator/FreeEnergyCompensation.py | Python | gpl-3.0 | 2,500 | [
"ESPResSo"
] | 17e4af773440bf1de5bc598f88cb0638ee7d5982f69658af9469bdbaa7a06cc7 |
#!/bin/env python
"""
Module simtk.unit.prefix
This is part of the OpenMM molecular simulation toolkit originating from
Simbios, the NIH National Center for Physics-Based Simulation of
Biological Structures at Stanford, funded under the NIH Roadmap for
Medical Research, grant U54 GM072970. See https://simtk.org.
Port... | casawa/mdtraj | mdtraj/utils/unit/prefix.py | Python | lgpl-2.1 | 6,747 | [
"OpenMM"
] | fce0a6e318b04be11615f18372736433a24f5567ae5d9b1425ebb83f1a5723a3 |
#!/usr/bin/env python
"""
Check that all the functions defined in the C API are
effectively used in the chemfiles binding.
"""
import os
import sys
import re
IGNORED = ["chfl_trajectory_open"]
ERROR = False
ROOT = os.path.join(os.path.dirname(os.path.abspath(__file__)), "..")
def error(message):
print(message)
... | chemfiles/Chemharp.jl | scripts/check_used_functions.py | Python | mpl-2.0 | 1,538 | [
"Chemfiles"
] | 2dbb19c7f884df5403edeffc940612c027f3cc62fa4cd965312214397d4e66d1 |
# -*- coding: utf-8 -*-
import numpy as np
import scipy.special
from bokeh.plotting import *
mu, sigma = 0, 0.5
measured = np.random.normal(mu, sigma, 1000)
hist, edges = np.histogram(measured, density=True, bins=50)
x = np.linspace(-2, 2, 1000)
pdf = 1/(sigma * np.sqrt(2*np.pi)) * np.exp(-(x-mu)**2 / (2*sigma**2))... | jakevdp/bokeh | examples/plotting/file/histogram.py | Python | bsd-3-clause | 3,982 | [
"TINKER"
] | 90ff9ca41e1e4a1e3ae3b246e0e425b84b97603aa44e34bef28c57a6364a5542 |
# Copyright (c) 2013, GPy authors (see AUTHORS.txt).
# Licensed under the BSD 3-clause license (see LICENSE.txt)
from kernpart import Kernpart
import numpy as np
from ...util.linalg import tdot
from ...core.mapping import Mapping
import GPy
class Gibbs(Kernpart):
"""
Gibbs non-stationary covariance function. ... | mikecroucher/GPy | GPy/kern/src/todo/gibbs.py | Python | bsd-3-clause | 7,153 | [
"Gaussian"
] | 8ed7c799cea46535c9643e8bacbe39e2afa988341e33c2d1643bb5f6a16606ff |
from django.http import HttpResponse, HttpResponseBadRequest, HttpResponseNotFound, HttpResponseNotAllowed
from rest_framework import viewsets
from db.serializers import *
from django.core import serializers
from datetime import datetime
import time
from django.views.decorators.csrf import csrf_exempt
import json
from ... | UWMediBook/backend | db/views.py | Python | apache-2.0 | 28,250 | [
"VisIt"
] | 5033bcd22e5a1224374b603717aa9cb11475a1b303d269211d26d7598b6fa481 |
# coding=utf-8
# Copyright 2014 Pants project contributors (see CONTRIBUTORS.md).
# Licensed under the Apache License, Version 2.0 (see LICENSE).
from __future__ import (absolute_import, division, generators, nested_scopes, print_function,
unicode_literals, with_statement)
from textwrap import... | jtrobec/pants | tests/python/pants_test/targets/test_wiki_page.py | Python | apache-2.0 | 2,958 | [
"exciting"
] | d1047284de56e16f912fa803b7f1335150123400d7f592bf45be5c6810011dd7 |
# -*- coding: utf-8 -*-
# vim: tabstop=4 shiftwidth=4 softtabstop=4
#
# Copyright (C) 2012-2016 GEM Foundation
#
# OpenQuake 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 of the Licen... | vup1120/oq-hazardlib | openquake/hazardlib/gsim/base.py | Python | agpl-3.0 | 40,533 | [
"Gaussian"
] | a1b60c94e365af0c3e354073a9c374675c060f75af7a660dd8591480c730dbd9 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# This file is part of the SPORCO package. Details of the copyright
# and user license can be found in the 'LICENSE.txt' file distributed
# with the package.
"""
Gaussian White Noise Restoration via CSC
========================================
This example demonstrates t... | alphacsc/alphacsc | alphacsc/other/sporco/examples/scripts/csc/gwnden_clr.py | Python | bsd-3-clause | 4,515 | [
"Gaussian"
] | c9ac90f7b40d8357f958990ea9927cbd0aff7cf703745a4a1547fe7a052d36e1 |
# -*- coding: utf-8 -*-
from collections import defaultdict
import csv
from datetime import datetime, timedelta
from itertools import chain
import dateutil.parser
import json
import networkx as nx
import pytz
import re
from typing import Any, DefaultDict, Dict, List, Optional, Set, Tuple, Union
from django.conf impor... | tomka/CATMAID | django/applications/catmaid/control/skeleton.py | Python | gpl-3.0 | 174,638 | [
"NEURON"
] | 8a4fa0f157c9657cd793550d96d49d265fc1c5450b60fca2ec2f34fe8583b304 |
'''
Created on Apr 20, 2015
@author: ayan
'''
from __future__ import (absolute_import, division, print_function)
from netCDF4 import Dataset
import numpy as np
import hashlib
from collections import OrderedDict
from .read_netcdf import NetCDFDataset, parse_padding, find_grid_topology_var
from .utils import calculat... | NOAA-ORR-ERD/pysgrid | pysgrid/sgrid.py | Python | bsd-3-clause | 38,395 | [
"NetCDF"
] | 946d356a7061680338d020fb7592a01b252132666b88a85a22d49f5e9d339e74 |
import sys
import argparse
import numpy as np
from ase.parallel import world
from ase.io import read
from ase.utils import devnull, prnt
from ase.data import chemical_symbols, atomic_numbers, covalent_radii
from ase.structure import molecule
from ase.lattice import bulk
from ase.atoms import Atoms, string2symbols... | conwayje/ase-python | ase/asec/asec.py | Python | gpl-2.0 | 8,563 | [
"ASE",
"CRYSTAL"
] | ad5ea4acc06432d658d8ca012751a295ba0aaee93d4fb2860d227723cc29a3b6 |
# Copyright: 2005-2009 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# Author(s): Brian Harring (ferringb@gentoo.org)
__all__ = ["Mapping", "MutableMapping", "UserDict", "ProtectedDict",
"LazyLoad", "slot_dict_class"]
import sys
import warnings
import weakref
class Mapping(obj... | fastinetserver/portage-idfetch | pym/portage/cache/mappings.py | Python | gpl-2.0 | 10,865 | [
"Brian"
] | edd6de6664129ef1e4ed2f1d2a5bfcb15ad2f66ae8dc8465857103ff2b1451e3 |
"""
"""
import os
from tempfile import tempdir
from pulsar.manager_factory import build_managers
from pulsar.cache import Cache
from pulsar.tools import ToolBox
from pulsar.tools.authorization import get_authorizer
from pulsar import messaging
from galaxy.objectstore import build_object_store_from_config
from galaxy.t... | jmchilton/pulsar | pulsar/core.py | Python | apache-2.0 | 5,500 | [
"Galaxy"
] | 245687badd2b947a8b7a65c31f1ea772e4b9b11f76039b2b4ff9f5a4b2bad0c9 |
""" A computing element class that attempts to use glexec if available then
defaults to the standard InProcess Computing Element behaviour.
"""
__RCSID__ = "$Id$"
import os
import stat
import distutils.spawn
import DIRAC
from DIRAC import S_OK, S_ERROR
from DIRA... | vmendez/DIRAC | Resources/Computing/glexecComputingElement.py | Python | gpl-3.0 | 13,887 | [
"DIRAC"
] | ec08c5d4adc328afc0e4e2e6ae17d7ebd5227664ddf29620242fd8563f3bd12f |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# views.py
#
# Copyright 2014 Gary Dalton <gary@ggis.biz>
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the Licen... | gary-dalton/Twenty47 | twenty47/views.py | Python | mit | 14,498 | [
"Dalton"
] | 9a1687a48ce253a1fa2b621ad9207fcbbd08cee8c9dd18a81f573645b5e9446a |
#!/usr/bin/python
#
# Copyright (C) 2015, Jaguar Land Rover
#
# This program is licensed under the terms and conditions of the
# Mozilla Public License, version 2.0. T full text of the
# Mozilla Public License is at https://www.mozilla.org/MPL/2.0/
#
#
# 1. Generate a device key through openssl.
# 2. Sign the pub... | linearregression/rvi_core | scripts/rvi_create_device_key.py | Python | mpl-2.0 | 4,411 | [
"Jaguar"
] | 0e15d90d3bb68d94fdab6e4ea094ca4088571bed30ad3b002bf33bfa1f3d939f |
#!/usr/bin/python3.4
# -*-coding:Utf-8 -*
'''module to manage antialiasing settings'''
import xml.etree.ElementTree as xmlMod
class OSA:
'''class to manage antialiasing settings'''
FILTERS = {
'BOX' : 'Box',
'TENT' : 'Tent',
'QUADRATIC' : 'Quadratic',
'CUBIC' : 'Cubic',
'CATMULLROM' : 'C... | CaptainDesAstres/Blender-Render-Manager | Preferences/PresetList/Preset/OSA.py | Python | mit | 6,230 | [
"Gaussian"
] | f99d8c07bf56c1ed6fa744c6e9d61d0fb1fda772e5483e6aeb8cd55cc7d1500d |
#!/usr/bin/env python
########################################################################
# File : dirac_accounting_decode_fileid
# Author : Adria Casajus
########################################################################
"""
Decode Accounting plot URLs
"""
from __future__ import absolute_import
from __f... | ic-hep/DIRAC | src/DIRAC/AccountingSystem/scripts/dirac_accounting_decode_fileid.py | Python | gpl-3.0 | 1,418 | [
"DIRAC"
] | 2961dd9e758d00017b9d2fc6dafa8ba16c41132485c87350c5eaa3e2e707058b |
#!/usr/bin/env python
import glob
print "id\ttype\ttranscript\ttpm"
for abundance in glob.glob("alignments/bwa/*/quants/abundance.filtered.tsv"):
path = abundance.split('/')
sample = path[2].split('_')
sample_id = sample[0]
sample_type = sample[1]
with open(abundance,'r') as in_file:
for ... | pjtatlow/bio465-capstone | analysis/combineBWAFiltered.py | Python | mit | 481 | [
"BWA"
] | 93f7bac2ddf7e7696fe3c1906a8686805c1f8e32517de511d78c1d20cbddb09e |
import pytest
def pytest_configure(config):
# Register marks to avoid warnings in psi4.test()
# sync with setup.cfg
config.addinivalue_line("markers", "check_triplet")
config.addinivalue_line("markers", "dft")
config.addinivalue_line("markers", "gga")
config.addinivalue_line("markers", "hf")
... | jturney/psi4 | tests/pytests/conftest.py | Python | lgpl-3.0 | 2,346 | [
"Psi4"
] | 9f0fe16323fe396405e385a7191231aefd940c2ba6ebd546fd877a3eb246943a |
# Known working version
# conda 4.6.7
# conda-build 3.17.8
# NOTE: This script is an advanced version of build_all_simplified.sh
# It can build conda and non conda binaries for both Linux and MacOS in
# a single run.
''' Building AmberTools binary for conda and non-conda install
for python 2.7, 3.4, 3.5, 3.6, 3.7 for ... | Amber-MD/ambertools-conda-build | build_all.py | Python | mit | 15,594 | [
"Amber"
] | 0bd7cc1b65a158548e068d238cbfb814c6f849ad63eafd9fce8472af0e68f798 |
# coding=utf-8
# Copyright 2021 The Ravens Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or... | google-research/ravens | ravens/models/mdn_utils.py | Python | apache-2.0 | 4,903 | [
"Gaussian"
] | 0babb29e4da1c7fa192a7a3192802319b791b56059824fed8a4b609f2d9390ac |
from __future__ import division
from copy import deepcopy
import numpy as np
from scipy.ndimage import binary_erosion
from menpo.image.base import Image
from menpo.image.boolean import BooleanImage
from menpo.visualize.base import ImageViewer
import menpo.features as fc
class MaskedImage(Image):
r"""
Represen... | jabooth/menpo-archive | menpo/image/masked.py | Python | bsd-3-clause | 27,793 | [
"Gaussian"
] | a45e1530426c3ec963b916191c0d172c4349c536cd7ee54afc3ff6ac8d22e4f1 |
from datetime import timedelta
from dateutil.relativedelta import relativedelta
from django.utils import timezone
from edc_consent.models import ConsentType
from edc_registration.models import RegisteredSubject
from edc_constants.constants import SCHEDULED, YES, NO, UNKNOWN, NOT_APPLICABLE, NEG, POS
from td_maternal.... | TshepangRas/tshilo-dikotla | td_maternal/tests/test_maternal_ultrasound_initial.py | Python | gpl-2.0 | 3,229 | [
"VisIt"
] | 283562a976fd2e59bced03ad8d761ab23cffc8720ab49972d004fa9998469755 |
#!/usr/bin/env python
"""
Functions to do automatic visualization of activation-like maps.
For 2D-only visualization, only matplotlib is required.
For 3D visualization, Mayavi, version 3.0 or greater, is required.
For a demo, see the 'demo_plot_map' function.
"""
# Author: Gael Varoquaux <gael dot varoquaux at nor... | arokem/nipy | nipy/labs/viz_tools/activation_maps.py | Python | bsd-3-clause | 15,081 | [
"Mayavi"
] | 37ae3dc9439cc9e55c163de4fef635bc26243bb0d0cda10b71da77b1bb22ea80 |
import numpy as np
import numpy.random as ra
from gpaw.setup import create_setup
from gpaw.xc import XC
from gpaw.test import equal, gen
if 1:
for functional in [
'LDA_X', 'LDA_X+LDA_C_PW', 'LDA_X+LDA_C_VWN', 'LDA_X+LDA_C_PZ',
'GGA_X_PBE+GGA_C_PBE', 'GGA_X_PBE_R+GGA_C_PBE',
'GGA_X_B88+GGA_C... | robwarm/gpaw-symm | gpaw/test/lxc_xcatom.py | Python | gpl-3.0 | 2,712 | [
"GPAW"
] | da184c8c3c1cb676e06995f2f1f3fc50d58708cbddb5e088670d32b582919e0c |
# visit https://morvanzhou.github.io/tutorials/ for more!
# 22 scope (name_scope/variable_scope)
from __future__ import print_function
import tensorflow as tf
with tf.name_scope("a_name_scope"):
initializer = tf.constant_initializer(value=1)
var1 = tf.get_variable(name='var1', shape=[1], dtype=tf.float32, in... | MediffRobotics/DeepRobotics | DeepLearnMaterials/tutorials/tensorflowTUT/tf22_scope/tf22_scope.py | Python | gpl-3.0 | 1,988 | [
"VisIt"
] | b5716d9c618da7de94ef787d43a8d6c879677d4131b7ec9b6dcc33b7afbe5acc |
"""Leetcode 160. Intersection of Two Linked Lists
Easy
URL: https://leetcode.com/problems/intersection-of-two-linked-lists/
Write a program to find the node at which the intersection of
two singly linked lists begins.
For example, the following two linked lists:
A1 -> A2
\ C1 -> C2 -> C2
... | bowen0701/algorithms_data_structures | lc0160_intersection_of_two_linked_lists.py | Python | bsd-2-clause | 5,606 | [
"VisIt"
] | 0875c2ba73b3fa6d404fdee4c915ba5a6ee56a3e41d99716e1561ad97c3feaad |
"""
This is our testing framework.
Goals:
* it should be compatible with py.test and operate very similarly
(or identically)
* doesn't require any external dependencies
* preferably all the functionality should be in this file only
* no magic, just import the test file and execute the test functions, that's it
* po... | drufat/sympy | sympy/utilities/runtests.py | Python | bsd-3-clause | 82,184 | [
"VisIt"
] | 1b120d063130b0d80c12de02c8b62e95d5a13b186d914e2a780fb72df2d0853f |
import inspect
import os
from datetime import datetime
from os.path import basename, isfile, join, normpath, splitext
from time import sleep
import chemcoord as cc
import numpy as np
import sympy
from chemcoord.xyz_functions import to_molden
from scipy.optimize import minimize
from sympy import latex
from tabulate imp... | mcocdawc/chemopt | src/chemopt/zmat_optimisation.py | Python | lgpl-3.0 | 37,035 | [
"MOLCAS",
"Molpro"
] | b920079352a6ea24cdf7576ff116a2a029038d7051bfb16e4edc1f23437343fd |
import random
from django import template
register = template.Library()
@register.inclusion_tag("utils/_object_controls.html", takes_context=True)
def object_controls(context, obj, app_label, label=None):
"""Renders a dropdown button with `Update` and `Delete` Links for the given
object. This tag accepts the... | tndatacommons/tndata_backend | tndata_backend/utils/templatetags/util_tags.py | Python | mit | 2,655 | [
"CRYSTAL"
] | 5b2c3094776fdfb30f759a9bf39ef47446086e69cc477fcab4c6fd26c25251c8 |
from unittest import TestCase
from remoteappmanager.docker.docker_labels import SIMPHONY_NS, SIMPHONY_NS_ENV
from remoteappmanager.docker.image import Image
from remoteappmanager.tests.mocking.virtual.docker_client import (
VirtualDockerClient)
class TestImage(TestCase):
def test_from_docker_dict_images(self... | simphony/simphony-remote | remoteappmanager/docker/tests/test_image.py | Python | bsd-3-clause | 2,193 | [
"Mayavi"
] | 33ba4ddfd4c6eca8b7c53099f2f3f0bc5a9600465b6510002ab44329600d8de5 |
#!/usr/bin/env python2
import argparse
import os, sys, time
panX_script_dir= os.path.dirname(os.path.realpath(__file__))
sys.path.insert(0,panX_script_dir+'/scripts/')
from pangenome_computation import pangenome
from sf_miscellaneous import times, check_dependency
'''
panX clusters genes from a set of microbial genome... | neherlab/pan-genome-analysis | panX.py | Python | gpl-3.0 | 17,983 | [
"BLAST"
] | bf1c2a68a04aa0bbb5b42757343d2bcb1755623d5d03433d3efaeb5823676a0f |
"""
A simple script to analyse lab PRNU data.
Currently uses the ESA CCD273 data.
"""
import matplotlib
matplotlib.rc('text', usetex=True)
matplotlib.rcParams['font.size'] = 17
matplotlib.rc('xtick', labelsize=14)
matplotlib.rc('axes', linewidth=1.1)
matplotlib.rcParams['legend.fontsize'] = 11
matplotlib.rcParams['leg... | sniemi/EuclidVisibleInstrument | analysis/analysePRNUdata.py | Python | bsd-2-clause | 5,967 | [
"Gaussian"
] | 1e03460c7b678eb557f552c8ea785df3d81b16f4ef2484a030efcbece40fd2f8 |
""" Test functions for stats module
"""
from __future__ import division, print_function, absolute_import
import warnings
import re
import sys
import pickle
from numpy.testing import (TestCase, run_module_suite, assert_equal,
assert_array_equal, assert_almost_equal, assert_array_almost_equal,
assert_allclose,... | Gillu13/scipy | scipy/stats/tests/test_distributions.py | Python | bsd-3-clause | 94,551 | [
"Gaussian"
] | e206f2be69180bdf3fee6a109deb97d69b9154ddbd2f3629d8f07c387535838b |
#!/usr/bin/env python
#
# Copyright 2016 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 requir... | Aloomaio/googleads-python-lib | examples/adwords/v201809/campaign_management/validate_text_ad.py | Python | apache-2.0 | 2,764 | [
"VisIt"
] | a069017ea3e4abbbd27bdfeddaba067bcd54977700f6f5525c9d1b2fc98596c7 |
#!/usr/bin/env python
#
# Copyright (c) 2013 The Chromium Authors. All rights reserved.
# Use of this source code is governed by a BSD-style license that can be
# found in the LICENSE file.
import re
import sys
from sets import Set
_ENTRIES = [
('Total', '.* r... .*'),
('Read-only', '.* r--. .*'),
('Rea... | GeyerA/android_external_chromium_org | tools/android/memdump/memreport.py | Python | bsd-3-clause | 4,296 | [
"Galaxy"
] | 0282dbb344d817824e61bcd17d6e813715d82693a3420f4bfcf49dd62343d09c |
# Copyright 2020 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
#
# https://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, ... | google/ldif | ldif/torch/sif_evaluation.py | Python | apache-2.0 | 7,971 | [
"Gaussian"
] | f72a97fb6db221369ccd8d84a22ddfecfc0a0428c18b51503419673fb924d7b2 |
# -*- Python -*-
#
# This file is part of the "UpLib 1.7.11" release.
# Copyright (C) 2003-2011 Palo Alto Research Center, Inc.
#
# 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... | zmughal/xerox-parc-uplib-mirror | python/uplib/basicPlugins.py | Python | gpl-2.0 | 184,260 | [
"VisIt"
] | 52d259538a3ab35bf97d202ec8b981659dbe3a16b00486d4c003275a768aba17 |
import sys
import os
import re
import logging
import gzip
import pysam
from .alignment_file_utils import get_bamfile
from parse_vcf import VcfReader
class BlameVariants(object):
''' Identify the number of contaminant reads versus
non-contaminant carrying given variants.
'''
def __init__(self, cont... | gantzgraf/bacta | bacta/blame_variants.py | Python | gpl-3.0 | 6,243 | [
"pysam"
] | b1b9c19997f4ed19c1c4a8f412b5d2d1344816bb1468abadcae59be8dd860ff0 |
# Copyright 2017 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 applicable law or a... | michellemorales/OpenMM | models/lfads/synth_data/synthetic_data_utils.py | Python | gpl-2.0 | 11,363 | [
"Gaussian"
] | d790b66a45479b4b399aac84c16f3081ec34752a5c88756d2e61dd63f36579dd |
# This file is part of OtfBot.
#
# OtfBot is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at your option) any later version.
#
# OtfBot is distributed in the hope that it... | otfbot/otfbot | otfbot/plugins/ircClient/marvin.py | Python | gpl-2.0 | 2,085 | [
"Galaxy"
] | d1d9d9b08b40719afb17f0747db9362d3c55b3510fd431a41772234e7bfc03eb |
# -*- coding: utf-8 -*-
"""
Authors: Hung-Hsin Chen <chenhh@par.cse.nsysu.edu.tw>
License: GPL v2
"""
import os
from datetime import date
from time import time
import numpy as np
import pandas as pd
import scipy.stats as spstats
import statsmodels.stats.stattools as stat_tools
import statsmodels.tsa.stattools as tsa_t... | chenhh/PySPPortfolio | PySPPortfolio/pysp_portfolio/exp_analysis.py | Python | gpl-3.0 | 64,902 | [
"ADF"
] | 4658a78c3f4928b2bc608a651545a61176d7f792ad3697b3ccee8e812b661778 |
###########################################################################
# (C) 2016 Elettra - Sincrotrone Trieste S.C.p.A.. All rights reserved. #
# #
# #
# This file is ... | ElettraSciComp/STP-Core | STP-Core/tools_multiangle.py | Python | gpl-3.0 | 20,442 | [
"Gaussian"
] | 245c22728bc05df65214b04273561d717350a5b0abf49578e049456dcd8f1fba |
from Firefly.const import AUTHOR
from .const import ROUTINE_EXECUTE, ROUTINE_ICON, ROUTINE_MODE, ROUTINE_ROUTINE
# TODO: Make automation const for other const types.
TITLE = 'Firefly Routines'
COMMANDS = [ROUTINE_EXECUTE]
METADATA = {
'title': TITLE,
'author': AUTHOR,
'commands': COMMANDS,
'interface'... | Firefly-Automation/Firefly | Firefly/automation/routine/metadata.py | Python | apache-2.0 | 5,174 | [
"Firefly"
] | 3e33f118868b25139a0026c1076c8070c6996cd49a9b9b4d9a1a44ecbeffc959 |
"""
=======================================
Signal processing (:mod:`scipy.signal`)
=======================================
Convolution
===========
.. autosummary::
:toctree: generated/
convolve -- N-dimensional convolution.
correlate -- N-dimensional correlation.
fftconvolve -- N-dimensional convol... | valexandersaulys/airbnb_kaggle_contest | venv/lib/python3.4/site-packages/scipy/signal/__init__.py | Python | gpl-2.0 | 11,295 | [
"Gaussian"
] | 1006cc42b365e78f3cb05ffbdcb15eac1bafefe4046e1250fc7c2bb6e90ab713 |
from logging import getLogger
logger = getLogger(__name__)
import chainer
from chainer import functions as F
from chainer import links as L
import policy_output
class Policy(object):
"""Abstract policy class."""
def __call__(self, state):
raise NotImplementedError
class SoftmaxPolicy(Policy):
... | muupan/async-rl | policy.py | Python | mit | 1,753 | [
"Gaussian"
] | f19577d764648e71176f5ae10e1564d3a0f0146f9d4253fda797c58c18e33e4b |
#! /usr/bin/env python
# -*- coding: utf-8 -*-
#
# graph_tool -- a general graph manipulation python module
#
# Copyright (C) 2006-2015 Tiago de Paula Peixoto <tiago@skewed.de>
#
# 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... | antmd/graph-tool | src/graph_tool/draw/cairo_draw.py | Python | gpl-3.0 | 86,373 | [
"EPW"
] | c7dee2d608a530836658ef20cc719fce93cf717f04658198941bf481f0f306e2 |
import sys
import os
import shutil
import datetime
import glob
import zipfile
import argparse
import re
QLXL = "QuantLibXL"
VERSION = "1.8.0"
VERSION_ = "1_8_0"
#VC_VERSION = "vc120"
VC_VERSION = "vc90"
QLXL_VERSION = QLXL + "-" + VERSION
ROOT_DIR = QLXL_VERSION + "\\"
class ZipFile:
root = None
zipFile = N... | eehlers/QuantLibXL | make_zip.py | Python | bsd-3-clause | 9,636 | [
"VisIt"
] | 743de1bcf41653163d2654f9f4ea8fb980c24d102920993ecec9c65bef84f204 |
'''
A collection of Distribution classes for the Continuous No Regret Problem.
@author: Maximilian Balandat, Walid Krichene
@date: Oct 24, 2014
'''
import numpy as np
from matplotlib import pyplot as plt
from matplotlib import cm
from scipy.stats import multivariate_normal
from scipy.linalg import inv
class Distr... | Balandat/cont_no_regret | old_code/Distributions.py | Python | mit | 11,991 | [
"Gaussian"
] | 0641fc85d4f9a199c09ac53ca5b321de5aa84fa505a5db76cc1f2a81b424978a |
# -*- coding: utf-8 -*-
"""
Created on Mon Sep 28 00:51:20 2015
module to transform raw vtk to rotated vtk along mom bud axis
@author: sweel
"""
import os
import os.path as op
import numpy as np
from mayavi import mlab
import pandas as pd
from tvtk.api import tvtk
from mombud.vtk_viz import vtkvizfuncs as vz
import wra... | moosekaka/sweepython | cell_pick_viz/vtk_rotate_mombudaxis.py | Python | mit | 8,447 | [
"Mayavi",
"VTK"
] | 44468bde3905d6e53bfb5640a5d2ad9e3734f882573e083c2f082af11ae8c6c2 |
# $HeadURL$
__RCSID__ = "$Id$"
import os
import os.path
import time
import threading
from DIRAC import S_OK, S_ERROR, gLogger, rootPath, gConfig
from DIRAC.Core.Utilities.DictCache import DictCache
class DataCache:
def __init__( self ):
self.graphsLocation = os.path.join( gConfig.getValue( '/LocalSite/Instan... | avedaee/DIRAC | AccountingSystem/private/DataCache.py | Python | gpl-3.0 | 3,173 | [
"DIRAC"
] | 18ccc15f4495fe3bd719ca3b0e0110460b8180c3dec12605282e7b98ae4918aa |
#!/usr/bin/env python
# Copyright 2014-2018 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# U... | gkc1000/pyscf | pyscf/pbc/cc/test/test_kgccsd.py | Python | apache-2.0 | 30,930 | [
"PySCF"
] | 4b03129817f72e4a1f43a46814dfeede94d776414d3c89e7a5f41b15bc4e532d |
# -*- coding: utf-8 -*-
"""
End-to-end tests for the LMS.
"""
import urllib
from datetime import datetime, timedelta
from textwrap import dedent
import pytz
from nose.plugins.attrib import attr
from common.test.acceptance.fixtures.course import CourseFixture, CourseUpdateDesc, XBlockFixtureDesc
from common.test.accep... | procangroup/edx-platform | common/test/acceptance/tests/lms/test_lms.py | Python | agpl-3.0 | 49,342 | [
"VisIt"
] | c484470f7d40a451c358793fbe790ef4b0cd1303d06ee4c83fa4aa8f75d731cf |
# ---
# jupyter:
# jupytext:
# formats: ipynb,.pct.py:percent
# text_representation:
# extension: .py
# format_name: percent
# format_version: '1.3'
# jupytext_version: 1.3.3
# kernelspec:
# display_name: Python 3
# language: python
# name: python3
# ---
# %% [markdown]
... | GPflow/GPflow | doc/source/notebooks/advanced/convolutional.pct.py | Python | apache-2.0 | 7,955 | [
"Gaussian"
] | 5a5cda67c7fdd82a315a55199df01469a6ce58c7d14b3a697f2035ba873d5f2b |
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