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# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License
"""
Module for reading Lobster output files. For more information
on LOBSTER see www.cohp.de.
"""
import itertools
import os
import warnings
from collections import OrderedDict
from typing import D... | mbkumar/pymatgen | pymatgen/io/lobster/inputs.py | Python | mit | 33,083 | [
"VASP",
"pymatgen"
] | 198edd17e41883f61eb2068063668f1ad22c9eb9f74ed038a8f4b152ca5a5496 |
"""
The script used to run the FastQ simulation process.
The program is designed to take input files in either GenBank or LRG formats.
For each new run on the program, a number is randomly picked to be integrated
into all file names for identification purposes. From these input files, the
process will use the trans... | MattWellie/FastqSimulator | fqRunner.py | Python | gpl-2.0 | 12,230 | [
"BWA"
] | cea94bbe575cd199fd8eabfea200ae9ec2ae702f3b47ccc646d43f4dfec19ab8 |
"""
PySCeS - Python Simulator for Cellular Systems (http://pysces.sourceforge.net)
Copyright (C) 2004-2020 B.G. Olivier, J.M. Rohwer, J.-H.S Hofmeyr all rights reserved,
Brett G. Olivier (bgoli@users.sourceforge.net)
Triple-J Group for Molecular Cell Physiology
Stellenbosch University, South Africa.
Permission to us... | bgoli/pysces | pysces/PyscesUtils.py | Python | bsd-3-clause | 12,587 | [
"PySCeS"
] | 61cc7d233bf85c1549e838c7697a00210474e41000753896cfb18ff130fffead |
##############################################################################
# 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... | mfherbst/spack | var/spack/repos/builtin/packages/r-s4vectors/package.py | Python | lgpl-2.1 | 2,358 | [
"Bioconductor"
] | 5e3fe66a0e304e99d6faeebd19380f01a0af0314d36f2f35e1a2fd5f838665a3 |
__doc__ = \
"""
===============================================================================
Tools for fitting cylinders to an image (:mod:`mango.application.cylinder_fit`)
===============================================================================
.. currentmodule:: mango.application.cylinder_fit
Functions an... | pymango/pymango | misc/python/mango/application/cylinder_fit.py | Python | bsd-2-clause | 40,112 | [
"NetCDF"
] | 17049b1a03a9aff4eaa9daa73784363adaec5937c76d09cce82552da9fab7b2a |
#! /usr/bin/env python
########################################################################
# $HeadURL$
# File : dirac-stager-monitor-requests
# Author : Daniela Remenska
########################################################################
"""
Report the details of file staging requests, based on selectio... | Sbalbp/DIRAC | StorageManagementSystem/scripts/dirac-stager-monitor-requests.py | Python | gpl-3.0 | 8,343 | [
"DIRAC"
] | a7586beab2e1b09bd318ce25242303ea1335ff44f23c2a1229fce503395e827d |
# -*- coding: utf-8 -*-
"""Single-dipole functions and classes."""
# Authors: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Eric Larson <larson.eric.d@gmail.com>
#
# License: Simplified BSD
from copy import deepcopy
import functools
from functools import partial
import re
import numpy as np
from .cov ... | bloyl/mne-python | mne/dipole.py | Python | bsd-3-clause | 60,294 | [
"Mayavi"
] | fa361f7149004a6c697da6c38dafad3cc7d919da445233063ac28a3a05186c03 |
# coding=utf-8
# Copyright 2017 The Tensor2Tensor 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... | waterblue13/tensor2tensor | tensor2tensor/utils/expert_utils.py | Python | apache-2.0 | 34,703 | [
"MOE"
] | 723058c06ae0804fae8a2abc48465cebdf21f35dd012ff6188b8dd2b1bf5b71d |
#!/usr/bin/env python
from __future__ import print_function
import itertools,os,re,argparse,string,sys
sys.path.append('/dataset/bioinformatics_dev/active/data_prism')
from data_prism import prism , build, bin_discrete_value, get_text_stream , get_file_type, PROC_POOL_SIZE
def my_first_hit_provider(filename, *xargs)... | AgResearch/prbdf | summarise_probe_blasts.py | Python | gpl-3.0 | 13,989 | [
"BLAST"
] | c0c152239d018aeb7090a47a59111ced7fa29e6862cf6cb3dad0e72153674d96 |
from inspect import cleandoc
from typing import TYPE_CHECKING
from pyramid.httpexceptions import (
HTTPConflict,
HTTPCreated,
HTTPException,
HTTPForbidden,
HTTPGone,
HTTPInternalServerError,
HTTPNotFound,
HTTPNotImplemented,
HTTPOk
)
from pyramid.settings import asbool
from sqlalche... | Ouranosinc/Magpie | magpie/api/management/register/register_utils.py | Python | apache-2.0 | 20,317 | [
"VisIt"
] | cc251a847c3e30f3664a616e9ce049075e950cf758a772b3f39b03e3989fd019 |
#import urllib2
import urllib
import subprocess
import time
import os.path
import sys
import getopt
from Bio.PDB import *
import openbabel
import pybel
import yaml
from rdkit import Chem
from rdkit.Chem import AllChem
from rdkit.Chem import Draw
import re
import os
from collections import Counter
import numpy as n... | fosfataza/protwis | interaction/legacy_functions.py | Python | apache-2.0 | 62,018 | [
"Open Babel",
"Pybel",
"RDKit"
] | 82d05500d6e64788e7a4f0a73bfaf0ed00c4679a6d69debe4b6e6b4e8ca86d94 |
#!/usr/bin/env python
########################################################################
# File : dirac_admin_accounting_cli
# Author : Adria Casajus
########################################################################
"""
Command line administrative interface to DIRAC Accounting DataStore Service
"""
from ... | DIRACGrid/DIRAC | src/DIRAC/AccountingSystem/scripts/dirac_admin_accounting_cli.py | Python | gpl-3.0 | 627 | [
"DIRAC"
] | 1e16f89311856b978322feafcac40edf8e2104e187367e8021575f4d8482dbe7 |
"""Sequence to sequence translation models."""
from deepchem.models import TensorGraph
from deepchem.models.tensorgraph import layers
from heapq import heappush, heappushpop
import numpy as np
import tensorflow as tf
class SeqToSeq(TensorGraph):
"""Implements sequence to sequence translation models.
The model i... | Agent007/deepchem | deepchem/models/tensorgraph/models/seqtoseq.py | Python | mit | 26,116 | [
"Gaussian"
] | ac1bfc7057eca54dd285c66547280cd7cbdf07228638557906701ac0d875777f |
# 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)
import os.path
from spack import *
class Pgdspider(Package):
""""PGDSpider is a powerful automated data conversion ... | LLNL/spack | var/spack/repos/builtin/packages/pgdspider/package.py | Python | lgpl-2.1 | 1,388 | [
"BWA"
] | 8a36cb1f32046d770b8ea82e8bb60017b65f3671058a197b38e51197bff996c3 |
"""
ALFAFA "source" .sav file
"""
from __future__ import print_function
import idlsave
try:
import astropy.io.fits as pyfits
except ImportError:
import pyfits
import pyspeckit
import numpy as np
def read_alfalfa_file(filename):
"""
Read the contents of a whole ALFALFA source file
"""
savfile = ... | vlas-sokolov/pyspeckit | pyspeckit/spectrum/readers/alfalfa.py | Python | mit | 2,369 | [
"Gaussian"
] | 333c3a08981e01e468d5bc4bbe5663d3708b439f9721634a3cd0e4da3b44256e |
from abc import ABCMeta, abstractmethod
import warnings
import numpy as np
import matplotlib.pyplot as plt
from scipy import linalg
from scipy.signal import fftconvolve
from scipy import stats
from ..utils.progress_bar import ProgressBar
from ..utils.maths import squared_norm
from ..utils.validation import check_arra... | RPGOne/Skynet | pactools-master/pactools/dar_model/base_dar.py | Python | bsd-3-clause | 40,526 | [
"Gaussian"
] | 336034bab04afef908dcb9d77913e8f47ac459919aa972bb9e4dbe2d1cbad36a |
from collections import OrderedDict
import warnings
from warnings import catch_warnings
import numpy as np
import pytest
import pandas.util._test_decorators as td
import pandas as pd
from pandas import DataFrame, Index, Series, Timestamp, concat
from pandas.core.base import SpecificationError
from pandas.tests.windo... | toobaz/pandas | pandas/tests/window/test_api.py | Python | bsd-3-clause | 12,926 | [
"Gaussian"
] | 2f3987a202b41fd9db554efdbbcc45403412093d0c73ce60e5e8ffce1167c4ae |
# Jython Database Specification API 2.0
#
# Copyright (c) 2001 brian zimmer <bzimmer@ziclix.com>
from zxtest import zxCoreTestCase
class OracleSPTest(zxCoreTestCase):
def setUp(self):
zxCoreTestCase.setUp(self)
c = self.cursor()
try:
try:
c.execute("drop tabl... | ofermend/medicare-demo | socialite/jython/Lib/test/zxjdbc/sptest.py | Python | apache-2.0 | 7,877 | [
"Brian"
] | dc85848b06f89788dd3325f348f4d8ec4df04306772156bb0879c2910f8366e0 |
# -*- coding: utf-8 -*-
# <nbformat>3.0</nbformat>
# <headingcell level=2>
# ROMS Glider
# <markdowncell>
# Virtual glider extraction: (lon,lat,time) interpolation from ROMS files using the OKEAN python package: https://github.com/martalmeida/okean
# <codecell>
%matplotlib inline
from okean.roms import glider
fro... | rsignell-usgs/notebook | ROMS/roms_glider-sandy-temp-Copy0.py | Python | mit | 2,634 | [
"ESPResSo",
"NetCDF"
] | d78754c27725299ebc8c019aa295fc93ff6edba3c5d5ab1fdad4d86477149409 |
# -*- coding: utf-8 -*-
#
# This file is part of cclib (http://cclib.github.io), a library for parsing
# and interpreting the results of computational chemistry packages.
#
# Copyright (C) 2006-2014, the cclib development team
#
# The library is free software, distributed under the terms of
# the GNU Lesser General Pub... | ghutchis/cclib | src/cclib/parser/logfileparser.py | Python | lgpl-2.1 | 18,154 | [
"ADF",
"Avogadro",
"Dalton",
"GAMESS",
"Gaussian",
"Jaguar",
"Molpro",
"NWChem",
"ORCA",
"cclib"
] | d912211232e1a1eb5b616c303c26ae35e7dd2780594e7cf7fc5eda406215b129 |
"""
.. _on_screen_notification_tests:
:mod:`on_screen_notification_tests` -- Module for testing on-screen notifications
=================================================================================
.. automodule:: on_screen_notification_tests
.. moduleauthor:: Evgeny Fadeev <evgeny.fadeev@gmail.com>
"""
import... | maxwward/SCOPEBak | askbot/tests/on_screen_notification_tests.py | Python | gpl-3.0 | 21,812 | [
"VisIt"
] | e592c6613c3d522622410ae52de04afa3023abbb2e04a383542404ee0fae26f8 |
from aces.materials.POSCAR import structure as Material
class structure(Material):
def getPOSCAR(self):
return """ACES POSCAR
1.00000000000000
6.0650009646400260 0.0128832718845054 0.0134996181012706
0.0137312583263575 6.0649984601980913 0.0137359852819097
... | vanceeasleaf/aces | aces/materials/Sn4Se4_nacl_modulation_minimize.py | Python | gpl-2.0 | 1,066 | [
"ASE"
] | 223d3a70963404671769a0dcc9f9ea86c9fe3bce559215b798bbffc9b5094b56 |
from ..utils import *
##
# Minions
class OG_051:
"""Forbidden Ancient"""
def play(self):
mana = self.controller.mana
yield SpendMana(CONTROLLER, mana)
yield Buff(SELF, "OG_051e") * mana
OG_051e = buff(+1, +1)
class OG_044:
"""Fandral Staghelm"""
update = Refresh(CONTROLLER, {
GameTag.CHOOSE_BOTH: Tru... | jleclanche/fireplace | fireplace/cards/wog/druid.py | Python | agpl-3.0 | 1,878 | [
"Amber"
] | f4aefb9a90314cd4fe945e96f91a02861ffaa13d8bc4b4eae81428882c2a3cff |
#! rhf gradient code
"""
This script calculates nuclear gradients of RHF Wavefunction using
gradients of one and two electron integrals obtained from PSI4.
Reference: "Derivative studies in Hartree--Fock and Moller--Plesset theories",
J. A. Pople, R. Krishnan, H. B. Schlegel and J. S. Binkley
DOI: 10.1002/qua.560160... | psi4/psi4 | samples/psi4numpy/rhf-gradient/input.py | Python | lgpl-3.0 | 5,028 | [
"Psi4"
] | 0553cf68361b640c966b60df2ed00115ddde0bf1569b45be4183446cd7c1f77c |
from paraview import simple
from tonic.paraview.data_writer import *
ds = simple.Wavelet()
dataRenderer = ScalarRenderer()
view = dataRenderer.getView()
view.ViewSize = [500, 500]
simple.Show(ds, view)
simple.ResetCamera(view)
dataRenderer.writeArray('/Users/seb/Desktop/composite/', ds, 'RTData')
| Kitware/tonic-data-generator | scripts/paraview/tests/extract-scalar.py | Python | bsd-3-clause | 303 | [
"ParaView"
] | c984b8b8bf55a45c7fb73d20bcc1ff24379ce7ed6611404713188a6f66221e8a |
import graph_tool.all as gt
import numpy as np
class LayeredNet(object):
"""This is a wrapper for the graph_tool.Graph object.
One can register vertex/edge properties and use them in algorithm implementation.
It also implements basic forward and backward operations.
One can create a layered architec... | janekolszak/graph-tool-nn | gtnn/network/layered_net.py | Python | gpl-3.0 | 5,137 | [
"NEURON"
] | fec7525ce5f438b0b61703efde29a43177797a56e2fa32facacaaf4e71dac45a |
#
# Copyright (c) 2003-2006 Rational Discovery LLC
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
""" utility functionality for fingerprinting s... | rvianello/rdkit | rdkit/Chem/Fingerprints/FingerprintMols.py | Python | bsd-3-clause | 17,632 | [
"RDKit"
] | ed1dba0dc9dfae50c41a2c0796d5e0e13acb30b110c2f23c57db0b383f14e14f |
from builtins import range
import warnings
import numpy as np
from numpy.lib.scimath import sqrt as csqrt
from scipy.special import j0,j1, la_roots
from peri import util
from peri import interpolation
from peri.comp import psfs
def j2(x):
""" A fast j2 defined in terms of other special functions """
to_retur... | peri-source/peri | peri/comp/psfcalc.py | Python | mit | 38,764 | [
"Gaussian"
] | 88c88d49b4b40de299e305d0f52226ccc868ea1ecc55146428e4a3f46309fe42 |
# coding: utf-8
from os.path import dirname, abspath, join
from collections import namedtuple
CONFIG_DIR = dirname(abspath(__file__))
CALCORE_DIR = join(dirname(CONFIG_DIR), 'data')
DRAGON_PATH = join(CALCORE_DIR, 'fordragon')
MOPAC_PATH = join(CALCORE_DIR, 'formopac')
GAUSSIAN_PATH = join(CALCORE_DIR, 'forgaussian'... | tianweidut/ChemToolsWebService | chemistry/calcore/config.py | Python | agpl-3.0 | 850 | [
"Gaussian",
"MOPAC"
] | 059095e47c433429921b3398a1995fa53e72b1f8e8f23759a00a9d95b3adcd99 |
id_mappings = {
"EX1_097": "Abomination",
"CS2_188": "Abusive Sergeant",
"EX1_007": "Acolyte of Pain",
"NEW1_010": "Al'Akir the Windlord",
"EX1_006": "Alarm-o-Bot",
"EX1_382": "Aldor Peacekeeper",
"EX1_561": "Alexstrasza",
"EX1_393": "Amani Berserker",
"CS2_038": "Ancestral Spirit",
... | slaymaker1907/hearthbreaker | tests/card_tests/id_mapping.py | Python | mit | 23,324 | [
"BLAST",
"CRYSTAL",
"TINKER"
] | 2749d68c253f731e7787d1491da5f0b29e5ce1c4e004b09e3007f241c36b8891 |
"""
Author: Dr. Mohamed Amine Bouhlel <mbouhlel@umich.edu>
Some functions are copied from gaussian_process submodule (Scikit-learn 0.14)
This package is distributed under New BSD license.
TODO:
- fail_iteration and nb_iter_max to remove from options
- define outputs['sol'] = self.sol
- debug _train: self_pkl = pick... | hwangjt/SMT | smt/surrogate_models/krg_based.py | Python | bsd-3-clause | 20,696 | [
"Gaussian"
] | 2009fa35c8ccaa4fb2d1e2674eed158a3fa2645c45bb95f38494743323402463 |
#!/usr/bin/env python
# ----------------------------------------------------------------------------
# Copyright 2015 Nervana Systems Inc.
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# ... | misko/neon | examples/mnist_mlp.py | Python | apache-2.0 | 4,741 | [
"Gaussian"
] | 8038fd49068136ba015fe9f6b0edca17b4b189754c079896147b9595bc95eddd |
#!/usr/bin/env python3
import sys
from math import *
from scipy.stats import gamma,norm
from scipy import mean,optimize
import numpy as np
import argparse
def plot_hist(h,points,cap,label=""):
plot([min(cap,x) for x in h[:points]],label=label)
class KmerSpectra(object):
"""A kmer spectra, comprised of di... | georgek/KAT | scripts/kat_distanalysis.py | Python | gpl-3.0 | 17,406 | [
"Gaussian"
] | 3b48db815b6faeb27d8a7a56193bb1760718d8159b2649375ba282795184b8fe |
""" NOTA BENE: This agent should NOT be run alone. Instead, it serves as a base class for extensions.
The TaskManagerAgentBase is the base class to submit tasks to external systems,
monitor and update the tasks and file status in the transformation DB.
This agent is extended in WorkflowTaskAgent and Reque... | miloszz/DIRAC | TransformationSystem/Agent/TaskManagerAgentBase.py | Python | gpl-3.0 | 25,382 | [
"DIRAC"
] | 3f02bd44c7d17576ca5c19171d9b4701e31a743a4ed45229d132ba98a16c6c5a |
##############################################################################
# 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... | lgarren/spack | var/spack/repos/builtin/packages/r-edger/package.py | Python | lgpl-2.1 | 2,157 | [
"Bioconductor"
] | 6845e722da2adb43317b9f298aedac24fd9e0e34e42a67d8c0a6fdfa0f4db72d |
# Authors: Matti Hämäläinen <msh@nmr.mgh.harvard.edu>
# Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Matti Hämäläinen <msh@nmr.mgh.harvard.edu>
# Denis A. Engemann <denis.engemann@gmail.com>
#
# License: BSD-3-Clause
# Many of the computations in this code were derived from Matti Hämäl... | pravsripad/mne-python | mne/surface.py | Python | bsd-3-clause | 76,222 | [
"VTK"
] | a15e3f10e0d37288001c167757c4411f248d0fbd2e1bf72b1fdacff6619be8b2 |
#!/usr/bin/env python3
'''Test cases for Nielsen.'''
import unittest
import unittest.mock
import pathlib
import tempfile
import nielsen
# Ensure config is loaded regardless of test order
nielsen.load_config('nielsen.ini')
class TestConfig(unittest.TestCase):
'''Tests for the config module'''
def test_load_config... | IrishPrime/Nielsen | test.py | Python | gpl-3.0 | 10,036 | [
"Brian",
"Firefly"
] | 978da12513bacfd4b1664687e64268afc00a94d7ddecfb4e072e8012e0528e34 |
#
# This file is part of the CCP1 Graphical User Interface (ccp1gui)
#
# (C) 2002-2007 CCLRC Daresbury Laboratory
#
# 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 ... | alexei-matveev/ccp1gui | interfaces/calc.py | Python | gpl-2.0 | 22,581 | [
"PyMOL"
] | 42ec810e595243255aa08e3fdf1ae27557fb8c466d09fe624e533142e7f0d686 |
# Copyright (C) 2008-2009 Open Society Institute
# Thomas Moroz: tmoroz.org
# 2010-2011 Large Blue
# Fergus Doyle: fergus.doyle@largeblue.com
#
# This program is free software; you can redistribute it and/or modify it
# under the terms of the GNU General Public License Version ... | amarandon/opencore | opencore/security/policy.py | Python | gpl-2.0 | 9,277 | [
"VisIt"
] | 579213c52b468a7ca0d545e4208a585e8617365ccde9ea38b3be97c4852dcc37 |
'''
SASSIE: Copyright (C) 2011 Joseph E. Curtis, Ph.D.
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.
... | madscatt/zazzie | src_2.7/sassie/test_sassie/calculate/sld_mol/test_sld_mol.py | Python | gpl-3.0 | 155,075 | [
"Gaussian"
] | 0a00f7ab110df7131ab5f6dc72dd2ac225321b22e4191eca55ebdcd7897fd3f4 |
# This program 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 License, or
# (at your option) any later version.
#
# This program is distributed in the hope that it will be usefu... | scylladb/scylla-longevity-tests | sdcm/utils/data_validator.py | Python | agpl-3.0 | 32,348 | [
"VisIt"
] | e010c861295d88701887d754fcce7939a8e4c034a6ee387dbde7b03728bd15f6 |
"""This test checks that the StrainFilter works using the default
built-in EMT calculator."""
import numpy as np
from ase.constraints import StrainFilter
from ase.optimize.mdmin import MDMin
from ase.calculators.emt import EMT
from ase.lattice import bulk
cu = bulk('Cu', 'fcc', a=3.6)
class EMTPlus(EMT):
def get... | grhawk/ASE | tools/ase/test/strain_emt.py | Python | gpl-2.0 | 466 | [
"ASE"
] | 3e0d59606c56333f3deec10e708288b0a9b25e2179f0ea373a1bfbd15a8ed7cc |
"""
Title: Working with RNNs
Authors: Scott Zhu, Francois Chollet
Date created: 2019/07/08
Last modified: 2020/04/14
Description: Complete guide to using & customizing RNN layers.
"""
"""
## Introduction
Recurrent neural networks (RNN) are a class of neural networks that is powerful for
modeling sequence data such as ... | keras-team/keras-io | guides/working_with_rnns.py | Python | apache-2.0 | 19,767 | [
"VisIt"
] | d5c5fc995b669889f9204214dd7e532107d62529380eb57802315e03fd3901ad |
"""Amber Electric Sensor definitions."""
# There are three types of sensor: Current, Forecast and Grid
# Current and forecast will create general, controlled load and feed in as required
# At the moment renewables in the only grid sensor.
from __future__ import annotations
from collections.abc import Mapping
from t... | rohitranjan1991/home-assistant | homeassistant/components/amberelectric/sensor.py | Python | mit | 8,362 | [
"Amber"
] | dce5d0ceee987e68bd91410c9c4a3592fa445d4843c883d0f1b7ba8d1d6481b0 |
# Copyright 2017 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... | apark263/tensorflow | tensorflow/python/autograph/pyct/static_analysis/type_info.py | Python | apache-2.0 | 7,398 | [
"VisIt"
] | 5f11acc50c5b4ea2f0e093fcff0eb8527a187eccb7bd2c5146ee7d8a9827354a |
from constant import *
from clientserver import *
from decimal import *
import re
# phase number (key) : [phase name, phase specific prompt message]
# used to generate phase specific messages
PHASE_DICTIONARY = {
PHASE_NUM.KEYWORD_CAMPAIGN: ['keyword campaign', 'Please select the number corresponding ' +
'to the ... | googleinterns/step51-2020 | hangout_bot/messages.py | Python | apache-2.0 | 51,151 | [
"VisIt"
] | 68eb7ee7df0003d03c5144adf2492a0e7b40c029f2ef0c4a1b2c8cbac2824f5d |
# Copyright (c) 2012 OpenStack Foundation
# 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 ... | petrutlucian94/nova | nova/tests/unit/compute/test_resource_tracker.py | Python | apache-2.0 | 57,205 | [
"exciting"
] | cb661c1657c951b3e1f00adbdf06edfe411ab5730b74e0b55ca1414ef09f5716 |
# 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)
from spack import *
class PyHtseq(PythonPackage):
"""HTSeq is a Python package that provides infrastructure to proce... | LLNL/spack | var/spack/repos/builtin/packages/py-htseq/package.py | Python | lgpl-2.1 | 1,030 | [
"HTSeq",
"pysam"
] | 584310cded08e8579e9ca45af12a4d77908c78564d7a142b9f1f461d94771733 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
from cellsim16popsParams_modified_regular_input import multicompartment_params
from plot_methods import network_sketch, plot_population, plot_signal_sum
import analysis_params
from hybridLFPy import CachedNetwork
import plotting_helpers as phlp
import os
from matplotlib imp... | espenhgn/hybridLFPy | examples/Hagen_et_al_2016_cercor/figure_01.py | Python | gpl-3.0 | 5,434 | [
"NEURON"
] | 4679e3a52424f9dd8998e72fb0cf74e5378f45cda0b7799c73d1ec794229a40b |
from __future__ import print_function
if __name__ == '__main__':
import matplotlib
matplotlib.use('Agg')
import os
import sys
import time
import tempfile
import numpy as np
import fitsio
from legacypipe.runbrick import main
from astrometry.util.fits import fits_table
def set_env():
for v in ['UNWISE_COADDS... | legacysurvey/pipeline | py/test/runbrick_test.py | Python | gpl-2.0 | 27,275 | [
"Galaxy"
] | 004eccbbe45d19ded9793dbc507beb830725823b35e12bb00a654a0018551424 |
#!/usr/bin/env python
#
# Author: Qiming Sun <osirpt.sun@gmail.com>
#
import numpy
from pyscf import gto, scf, ao2mo, mcscf
'''
User-defined Hamiltonian for CASSCF module.
Defining Hamiltonian once for SCF object, the derivate post-HF method get the
Hamiltonian automatically.
'''
mol = gto.M()
mol.nelectron = 6
# ... | gkc1000/pyscf | examples/mcscf/40-customizing_hamiltonian.py | Python | apache-2.0 | 997 | [
"PySCF"
] | 443c207254cd55b981a7ca24a2d5ec197bc6ddce9e7de943c94c87a76e102844 |
# rgToolFactory.py
# see https://bitbucket.org/fubar/galaxytoolfactory/wiki/Home
#
# copyright ross lazarus (ross stop lazarus at gmail stop com) May 2012
#
# all rights reserved
# Licensed under the LGPL
# suggestions for improvement and bug fixes welcome at https://bitbucket.org/fubar/galaxytoolfactory/wiki/Home
#
# ... | tiagoantao/tools-iuc | tools/rglasso/rgToolFactory.py | Python | mit | 28,526 | [
"Galaxy"
] | e6387b67251ed2e308ba1b19a6e85862e05e03ca5e9229136df0febddcd23e2e |
from __future__ import unicode_literals
import copy
from six.moves import xrange
from scrapi.base import XMLHarvester
from scrapi.base.schemas import DOESCHEMA
from scrapi.linter.document import RawDocument
from scrapi.base.helpers import updated_schema, build_properties, single_result
RAW_DOC = {
'doc': b'{}',... | fabianvf/scrapi | tests/utils.py | Python | apache-2.0 | 8,205 | [
"Brian"
] | 776bd157f063fa0e88184e2490248e3f687b99c0541f9ef92c93a8b1430f7be6 |
import numpy as np
import gnumpy as gpu
import pickle
import os
from copy import deepcopy
from .train import CDTrainer
from .util import Configuration, sigmoid, activation
def full(name = ''):
"""Given the name of a network, return the default path to it."""
return os.path.join(os.path.dirname(__file__), 'n... | ggiuffre/DBNsim | DBNsite/DBNlogic/nets.py | Python | mit | 4,572 | [
"NEURON"
] | 1c270e4295d57d23e7c85feb2f33dcad09cd7059e86737883e9005b01421747e |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
from datetime import datetime, timedelta
import re
from particle.common import db
from HTMLParser import HTMLParser
from urlparse import urlparse
import pytz
import requests
from pprint import pprint
import string
import json
import logging
import sys
import yaml
from bs4 ... | abelsonlive/particle | particle/helpers.py | Python | mit | 9,878 | [
"ADF"
] | f8e2f16c18c82ce672abdfd7b6259976b69de249038d0c8b0be0eb6acc807d90 |
from __future__ import (absolute_import, division, print_function)
from AbinsModules import AbinsParameters
import numpy as np
# noinspection PyPep8Naming
class Instrument(object):
_name = None
def calculate_q_powder(self, input_data=None):
"""
Calculates Q2.
:param input_data: da... | wdzhou/mantid | scripts/AbinsModules/Instruments/Instrument.py | Python | gpl-3.0 | 3,550 | [
"Gaussian"
] | 5ea78e604f15a79c0a0c214a12da06de1b46012b5f6f0df6ff0397b2c78e455b |
import numpy as np
import matplotlib
matplotlib.use('Agg')
import matplotlib.pyplot as plt
import glob
def plot_raster_bars(t_start, t_stop, n_rec, frac_to_plot, network_pops,
path, filename, conf):
# PYTHON2.6: ADDED ARGUMENT network_pops, NEEDED FOR EXTRACTING FIRST
# ID PER POPULATION
... | jakobj/UP-Tasks | NEST/microcircuit_task/plotting.py | Python | gpl-2.0 | 4,050 | [
"NEURON"
] | 569e2eb5c5436242705df7659ba1f67eada9a01c80eb9078db0a4c596ab67ae9 |
import logging
import os
import threading
import galaxy.tools
from galaxy.tools.search import ToolBoxSearch
from xml.etree import ElementTree as XmlET
from tool_shed.util import basic_util
from tool_shed.util import common_util
from tool_shed.util import shed_util_common as suc
from tool_shed.util import xml_util
lo... | mikel-egana-aranguren/SADI-Galaxy-Docker | galaxy-dist/lib/tool_shed/galaxy_install/tools/tool_panel_manager.py | Python | gpl-3.0 | 34,225 | [
"Galaxy"
] | 5c4611359da2bdf33fa5a6e578800c78fa1ac20c7637ecb9f3f29be5c151918e |
#!/usr/bin/env python
# Copyright 2014-2020 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# U... | sunqm/pyscf | pyscf/pbc/dft/numint.py | Python | apache-2.0 | 52,003 | [
"CRYSTAL",
"PySCF"
] | e2b774d6c2f0066d4517278d54524b830aef08fa37cfe6860630b1647ebff154 |
#!/usr/bin/env python
"""
Easy Install
------------
A tool for doing automatic download/extract/build of distutils-based Python
packages. For detailed documentation, see the accompanying EasyInstall.txt
file, or visit the `EasyInstall home page`__.
__ https://setuptools.readthedocs.io/en/latest/easy_install.html
""... | swjtuacmer/Ranker | Ranker/venv/lib/python2.7/site-packages/setuptools/command/easy_install.py | Python | mit | 85,901 | [
"VisIt"
] | e0b39c2675b63de84530bdbf9ed7b3db7a2c2e0fe27ffd41622a9490a1f66151 |
# vim: ft=python fileencoding=utf-8 sts=4 sw=4 et:
# Copyright 2014-2016 Florian Bruhin (The Compiler) <mail@qutebrowser.org>
#
# This file is part of qutebrowser.
#
# qutebrowser is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free S... | neeasade/qutebrowser | scripts/dev/pylint_checkers/qute_pylint/config.py | Python | gpl-3.0 | 3,009 | [
"VisIt"
] | c68212e076c582de7e86509511517111760afc267f00fe842da35560615634dc |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
#
# MDAnalysis --- https://www.mdanalysis.org
# Copyright (c) 2006-2020 The MDAnalysis Development Team and contributors
# (see the file AUTHORS for the full list of names)
#
# Released under t... | MDAnalysis/mdanalysis | package/MDAnalysis/analysis/hole2/templates.py | Python | gpl-2.0 | 4,474 | [
"Amber",
"MDAnalysis"
] | f8ad71cfab207fe1a3a44bc33924ab486370ca54af750dfe998cbeb5178e479d |
# test native alignment class and fasta parser
# ------------------------------------------------------------------------------
from tfbayes.alignment import *
from tfbayes.interface import *
from tfbayes.phylotree import *
tree = pt_root_t ("alignment-test.nh")
alignment = alignment_t("alignment-test.fa", tre... | pbenner/tfbayes | tfbayes/alignment/alignment-test.py | Python | gpl-2.0 | 837 | [
"Biopython"
] | b19bbc59528422ab573c6ce0526aa29f7516667efdbbb73ba0118b88489da068 |
# encoding: utf-8
import datetime
from south.db import db
from south.v2 import SchemaMigration
from django.db import models
class Migration(SchemaMigration):
def forwards(self, orm):
# Adding field 'CustomValue.data_type'
db.add_column(u'profiles_customvalue', 'data_type', self.gf('django... | 216software/Profiles | communityprofiles/profiles/oldmigrations/0053_auto__add_field_customvalue_data_type.py | Python | mit | 18,188 | [
"MOE"
] | 59484f4195917dd99c74a14808611b08846d2f49d0faaf133d037e20ad6a80a8 |
"""
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 2 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOU... | SamWitte/Codds_DarkMatter | src/Data/DAMA_2Bin.py | Python | gpl-2.0 | 1,969 | [
"Gaussian"
] | dac210c9b0b4db857b35b61dc3d9f88237fc3b942563e3a2ddc7e2672fae76a3 |
# -*- coding: ISO-8859-15 -*-
# =============================================================================
# Copyright (c) 2004, 2006 Sean C. Gillies
# Copyright (c) 2007 STFC <http://www.stfc.ac.uk>
#
# Authors :
# Dominic Lowe <d.lowe@rl.ac.uk>
#
# Contact email: d.lowe@rl.ac.uk
# ========================... | kalxas/OWSLib | owslib/coverage/wcs110.py | Python | bsd-3-clause | 18,892 | [
"NetCDF"
] | 95ae351e8b7a9c0a7fa459c4587f94f15fecafd436f3325755ffe434dbd1c1e0 |
from __future__ import unicode_literals
import base64
import datetime
import hashlib
import json
import netrc
import os
import re
import socket
import sys
import time
import xml.etree.ElementTree
from ..compat import (
compat_cookiejar,
compat_HTTPError,
compat_http_client,
compat_urllib_error,
co... | Kagee/youtube-dl | youtube_dl/extractor/common.py | Python | unlicense | 46,306 | [
"VisIt"
] | e3725032128dcf65d951032e7975f40e56522af99dc8804379b6259676ac7a6b |
"""
Optimade support.
"""
import logging
import sys
from collections import namedtuple
from os.path import join
from typing import Dict, List, Optional, Union, Set
from urllib.parse import urlparse
import requests
from tqdm import tqdm
# from retrying import retry
from pymatgen.core.periodic_table import DummySpeci... | vorwerkc/pymatgen | pymatgen/ext/optimade.py | Python | mit | 23,621 | [
"pymatgen"
] | 296e47d41f868e9ab1ea7c38fd1f16dd2d684a4c74c5f5c27684f8e74b43c7f9 |
# Replace the API Key and Shared Secret with the one given for your
# App by Shopify.
#
# To create an application, or find the API Key and Secret, visit:
# - for private Apps:
# https://${YOUR_SHOP_NAME}.myshopify.com/admin/api
# - for partner Apps:
# https://www.shopify.com/services/partners/api_clients
#
# Y... | daniyalzade/burgaz | shopify_settings.py | Python | mit | 809 | [
"VisIt"
] | 0c7ccdeed5dbfb9865319e3a396eca48d9c2dc1a658e8c210d94054e5f017716 |
# ----------------------------------------------------------------------------
# Copyright (c) 2013--, scikit-bio development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file COPYING.txt, distributed with this software.
# --------------------------------------------... | jdrudolph/scikit-bio | skbio/diversity/alpha/tests/test_base.py | Python | bsd-3-clause | 18,232 | [
"scikit-bio"
] | cbaf83d0973424c9a2aa6a676591d8f7b36b01988bc5a13b0a7e2f355cd10141 |
# Copyright 2008-2014 Nokia Solutions and Networks
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable l... | eric-stanley/robotframework | src/robot/model/keyword.py | Python | apache-2.0 | 2,939 | [
"VisIt"
] | cd5a22404868c06629baa869f35169801951f7a938cb1844722dfdf86721fc89 |
# This file is part of DEAP.
#
# DEAP 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 3 of
# the License, or (at your option) any later version.
#
# DEAP is distributed... | marcioweck/PSSLib | reference/deap/examples/bbob.py | Python | lgpl-3.0 | 5,228 | [
"Gaussian"
] | 878700952ab40075e58c8c08e0ba8cba3b99b7c9434d686b6625c1f2c782774a |
"""
=================================
Gaussian Mixture Model Sine Curve
=================================
This example highlights the advantages of the Dirichlet Process:
complexity control and dealing with sparse data. The dataset is formed
by 100 points loosely spaced following a noisy sine curve. The fit by
the GMM... | depet/scikit-learn | examples/mixture/plot_gmm_sin.py | Python | bsd-3-clause | 2,726 | [
"Gaussian"
] | f92405f3dddb51a565ac218e5864918d0c02e93f20a549c0b70f38b5bd40cee0 |
#!/usr/bin/env python
""" load mWGS DNA prep into OSDF using info from data file """
import os
import re
from cutlass.WgsDnaPrep import WgsDnaPrep
import settings
from cutlass_utils import \
load_data, get_parent_node_id, list_tags, format_query, \
write_csv_headers, values_to_node_dict, write_out_cs... | TheJacksonLaboratory/osdf_submit | nodes/WgsDnaPrep.py | Python | gpl-3.0 | 11,319 | [
"VisIt"
] | 7a3a942d3bf497a74450b1fd399c42169a5f29ff277efb565edec05f87a19ee8 |
# -*- coding: utf-8 -*-
from setuptools import setup, find_packages
with open('README.md') as f:
readme = f.read()
with open('svtyper/version.py') as f:
exec(f.read())
setup(
name='svtyper',
version=__version__,
description='Bayesian genotyper for structural variants',
long_description=readm... | hall-lab/svtyper | setup.py | Python | mit | 1,437 | [
"pysam"
] | 10bce88c87dabeb601c79b593f755ca0cf706a2fc3c24404a4414f75b3ea460e |
# test_squid.py ---
#
# Filename: test_squid.py
# Description:
# Author: Subhasis Ray
# Maintainer:
# Created: Wed Feb 22 00:41:36 2012 (+0530)
# Version:
# Last-Updated: Wed Feb 22 00:41:51 2012 (+0530)
# By: Subhasis Ray
# Update #: 2
# URL:
# Keywords:
# Compatibility:
#
#
# Commentary:
#
... | BhallaLab/moose-examples | squid/test_squid.py | Python | gpl-2.0 | 4,139 | [
"MOOSE"
] | a311567970b423a34de2a0e585661d2218268ac0fc2c7c16b99e6f9ca1d83dff |
"""
=======
Plotter
=======
.. moduleauthor:: Adam Ginsburg <adam.g.ginsburg@gmail.com>
"""
import matplotlib
import matplotlib.pyplot
import matplotlib.figure
import itertools
from ..config import *
import numpy as np
from pyspeckit.specwarnings import warn
import copy
import widgets
import inspect
interactive_help_... | keflavich/pyspeckit-obsolete | pyspeckit/spectrum/plotters.py | Python | mit | 24,306 | [
"Gaussian"
] | e1cad08d3f21df0f8e7dff12a0f84d1d084650ad0ab4e88e4a63d5e834c85b80 |
#pylint: disable=too-many-public-methods,invalid-name
from __future__ import (absolute_import, division, print_function)
import unittest
from mantid import logger
from mantid.api import ITableWorkspace
from mantid.simpleapi import (SimulatedDensityOfStates, CompareWorkspaces,
Scale, Creat... | wdzhou/mantid | Framework/PythonInterface/test/python/plugins/algorithms/WorkflowAlgorithms/SimulatedDensityOfStatesTest.py | Python | gpl-3.0 | 12,978 | [
"CASTEP",
"Gaussian"
] | cd3c6830e6ca4d8723a690e8c94433c42d912d2eb8e5a89e0abe1e2a9e754240 |
# -*- coding: utf-8 -*-
#
# clopath_synapse_small_network.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 ... | SepehrMN/nest-simulator | pynest/examples/clopath_synapse_small_network.py | Python | gpl-2.0 | 7,512 | [
"Gaussian",
"NEURON"
] | 04188fde3e9aff09f8a40c75673895155c66a8f87ba2a7eff00571850ebc809b |
# -*- coding: utf-8 -*-
"""
Write initial ATP Profile for an ECs Mesh in legacy VTK format as .vtk.
"""
import os
import sys
# Run in current directory.
os.chdir(os.path.dirname(os.path.abspath(__file__)))
# Relative import path for the DumpATPMeshToLegacyFormat script.
importPath = os.path.abspath(os.path.join(os.p... | BlueFern/DBiharMesher | meshes/c4080Murrified/50/Write4080ATPMeshHdf5.py | Python | gpl-2.0 | 1,014 | [
"VTK"
] | 1d76d360765b67b4f04b2a16d5c915ae43fba8d38912c35af8e6eb9329544cca |
#
# @file TestL3ModelHistory.py
# @brief test for ModelHistory on any SBase object
#
# @author Akiya Jouraku (Python conversion)
# @author Sarah Keating
#
# $Id$
# $HeadURL$
#
# ====== WARNING ===== WARNING ===== WARNING ===== WARNING ===== WARNING ======
#
# DO NOT EDIT THIS FILE.
#
# This file was generated a... | alexholehouse/SBMLIntegrator | libsbml-5.0.0/src/bindings/python/test/annotation/TestL3ModelHistory.py | Python | gpl-3.0 | 22,879 | [
"VisIt"
] | f09336ce9fa45715328e69874576e4c30032a0f7c826f81c524a894ba6243b24 |
__RCSID__ = "$Id$"
from DIRAC import gLogger, S_OK
from DIRAC.Core.Base.AgentModule import AgentModule
from DIRAC.Core.DISET.RPCClient import RPCClient
AGENT_NAME = 'StorageManagement/RequestFinalizationAgent'
class RequestFinalizationAgent( AgentModule ... | Sbalbp/DIRAC | StorageManagementSystem/Agent/RequestFinalizationAgent.py | Python | gpl-3.0 | 7,154 | [
"DIRAC"
] | 4788aff4ceac47af8dbb3fd1c3fb74abaf9da465caac2beb84402463cae18c66 |
#!/usr/bin/env python
## \file project.py
# \brief package for optimization projects
# \author T. Lukaczyk, F. Palacios
# \version 6.1.0 "Falcon"
#
# The current SU2 release has been coordinated by the
# SU2 International Developers Society <www.su2devsociety.org>
# with selected contributions from the open-source... | drewkett/SU2 | SU2_PY/SU2/opt/project.py | Python | lgpl-2.1 | 18,308 | [
"ParaView"
] | 2c4f6a3ad1bb3357a3fb70f8299a6e6afa6e3319aff6d31e2f93f20f2ac1e1c9 |
from sfepy.base.base import *
from sfepy.applications import SimpleApp, Application
from sfepy.fem.region import sort_by_dependency
from coefs_base import MiniAppBase
def insert_sub_reqs( reqs, levels, req_info ):
"""Recursively build all requirements in correct order."""
all_reqs = []
## print '>', levels... | olivierverdier/sfepy | sfepy/homogenization/engine.py | Python | bsd-3-clause | 6,244 | [
"VTK"
] | fe5a9c97f91ea1e02ac480315d63c58e9b0a7d6f5286dd94f01dcbe3bd86aaa9 |
#!/usr/bin/env python3
import configparser
import backend
import json
from flask import Flask
from flask_restful import Resource, Api, reqparse
config = configparser.ConfigParser()
config.read('config.ini')
print(config.sections())
recommender = backend.Recommender(config)
#first_places = recommender.get_places("Wh... | giocatori86/AdamGoodPlanner | bluemix/__main__.py | Python | mit | 2,419 | [
"VisIt"
] | 68235ce308b067a79a2aa6d6a5dc518f3dc74a3bbd7dec514a34fc5556bffb58 |
"""@camvtk docstring
This module provides classes for visualizing CAD/CAM algorithms using VTK.
This module is part of OpenCAMLib (ocl), a toolpath-generation library.
Copyright 2010-2011 Anders Wallin (anders.e.e.wallin "at" gmail.com)
Published under the GNU General Public License, see http://www.gnu.org/licenses/
"... | play113/swer | opencamlib-read-only/lib/camvtk.py | Python | mit | 27,822 | [
"VTK"
] | 567e9690099b53f0844a6b76b8045ff94bc816eb29132636124592ba8a0aa33d |
from DIRAC import S_OK, S_ERROR
from DIRAC.ConfigurationSystem.Client.Helpers.Registry import getAllGroups, getGroupOption
from DIRAC.DataManagementSystem.DB.FileCatalogComponents.SecurityManager import SecurityManagerBase, _readMethods, _writeMethods
from DIRAC.Core.Utilities.ReturnValues import returnSingleResult
im... | fstagni/DIRAC | DataManagementSystem/DB/FileCatalogComponents/SecurityPolicies/VOMSPolicy.py | Python | gpl-3.0 | 23,475 | [
"DIRAC"
] | 93445a194023ff264ad8df5f807b8ccb2fa3f5845ec153026cb084ef91362635 |
#!/usr/bin/env python
#-*- coding:utf-8 -*-
# vim:ai:sta:et:ts=4:sw=4:sts=4
"""kernelng 0.x
Tool for maintaining customized overlays of kernel-ng.eclass-based ebuilds
Copyright 2005-2014 Gentoo Foundation
Copyright (C) 2005 Colin Kingsley <tercel@gentoo.org>
Copyright (C) 2008 Zac Medico <zmedico@ge... | gmt/kernel-ng-util | kernelng/kngclicktextwrapper.py | Python | gpl-2.0 | 2,149 | [
"Brian"
] | d469290498aab12622740fd3df6947bdab06d90a582c8d71c6b209527246311e |
#
# Copyright (C) 2017-2019 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later... | pkreissl/espresso | testsuite/python/rdf.py | Python | gpl-3.0 | 5,306 | [
"ESPResSo"
] | cdd116e8d000346eb9692e61a414875b03872d8fa9d1bb450b22e02f1ca033a8 |
import numpy as np
import pytest
import vtk
from vtky.Points import Points
@pytest.fixture
def vtk_points():
points = vtk.vtkPoints()
points.InsertNextPoint(0., 1., 2.)
points.InsertNextPoint(1., 2., 3.)
points.InsertNextPoint(2., 3., 4.)
return points
@pytest.fixture
def np_points():
points... | marcelotrevisani/vtky | tests/test_points.py | Python | mit | 4,279 | [
"VTK"
] | 8860138280672b33ff4c7a066fcf1405dbcdfeae946b169de411eb858b2948e6 |
# $Id$
#
# Copyright (C) 2005-2006 Rational Discovery LLC
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
from __future__ import print_function
... | soerendip42/rdkit | rdkit/Chem/FeatFinderCLI.py | Python | bsd-3-clause | 3,234 | [
"RDKit"
] | e4e60e30de66fb48a9ac703a56cf560a28ee87de1ebb918040d6572bc4370348 |
#
# Copyright 2013 Quantopian, Inc.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in wr... | mattcaldwell/zipline | tests/test_perf_tracking.py | Python | apache-2.0 | 53,403 | [
"COLUMBUS"
] | be0d48bc3007fb88e4afa21cb19472cf65eb8d20726765b101fd899034bf6215 |
''' -- imports from python libraries -- '''
# import os -- Keep such imports here
import json
''' -- imports from installed packages -- '''
from django.http import HttpResponseRedirect
from django.http import HttpResponse
from django.http import Http404
from django.core.urlresolvers import reverse
from django.shortcut... | olympian94/gstudio | gnowsys-ndf/gnowsys_ndf/ndf/views/moderation.py | Python | agpl-3.0 | 21,060 | [
"VisIt"
] | b35f0ea8d8cf607c22325e104292eba0868191529c59f5c6d0b987ee7ba6e2d5 |
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import os
import warnings
from pymatgen.alchemy.filters import ContainsSpecieFilter
from pymatgen.alchemy.transmuters import CifTransmuter, PoscarTransmuter
from pymatgen.transformations.advanced_transformations import Super... | materialsproject/pymatgen | pymatgen/alchemy/tests/test_transmuters.py | Python | mit | 3,757 | [
"pymatgen"
] | 8532cc6acc62449306960faa3c1db2f9f0592ed6a23f6c1e62996b5f1fe5be97 |
# Copyright 2010-2017, The University of Melbourne
# Copyright 2010-2017, Brian May
#
# This file is part of Karaage.
#
# Karaage 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... | Karaage-Cluster/karaage | karaage/plugins/kgapplications/tests/fixtures.py | Python | gpl-3.0 | 1,768 | [
"Brian"
] | 5a2c8457a845fcfdd9caab1c1120d5695f9b43e73c39df2c5ae4670fd411f3cf |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# Copyright (c) 2016-2021 Satpy developers
#
# This file is part of satpy.
#
# satpy 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 Licens... | pytroll/satpy | satpy/readers/nucaps.py | Python | gpl-3.0 | 17,184 | [
"NetCDF"
] | f92d091e24f817cf171ee3ae81f633fb8ee0e27e3d2a7a1a05173b6711ed4272 |
#!/usr/bin/env python
# Copyright (C) 2011 Mattias Slabanja <slabanja@chalmers.se>
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at your option) any l... | ThomasCOConnor/dynsf | dsf/molfile_plugin.py | Python | gpl-2.0 | 15,728 | [
"Amber",
"CHARMM",
"CPMD",
"Gromacs",
"LAMMPS",
"NAMD",
"NetCDF",
"Quantum ESPRESSO",
"VASP",
"VMD"
] | c5050d26e1c2e216528cfa12b271d5c6f8232ef291a2d44a78c5072bc23428fe |
# -*- coding: utf-8 -*-
##############################################################################
#
# OpenERP, Open Source Management Solution
# Copyright (C) 2004-today OpenERP SA (<http://www.openerp.com>)
#
# This program is free software: you can redistribute it and/or modify
# it under the terms o... | minhphung171093/OpenERP_V8 | openerp/addons/project/project.py | Python | agpl-3.0 | 70,106 | [
"VisIt"
] | a070fd50da0a124d71f62c4e26001ddd79d2220d976b3bad09d3f593317d7993 |
#!/usr/bin/env python3
# ***** BEGIN GPL LICENSE BLOCK *****
#
# This program is free software; you can redistribute it and/or
# modify it under the terms of the GNU General Public License
# as published by the Free Software Foundation; either version 2
# of the License, or (at your option) any later version.
#
# This... | Microvellum/Fluid-Designer | win64-vc/2.78/Python/bin/2.78/scripts/addons/io_blend_utils/blend/blendfile_path_walker.py | Python | gpl-3.0 | 33,960 | [
"VisIt"
] | eb7d1d7f97b5bb5aa43954c91735eb156c2f9a1922758f0d648df0b8082c7c31 |
# -*- coding: utf-8 -*-
""" Partition Management
This module provides classes and methods for managing partitions.
(c) 2015, 2016 - Jaguar Land Rover.
Mozilla Public License 2.0
"""
import gtk
import dbus
import dbus.service
from dbus.mainloop.glib import DBusGMainLoop
import sys
import time
import swm
import settin... | rstreif/genivi_software_management | partition_manager/partition_manager.py | Python | mpl-2.0 | 19,225 | [
"Jaguar"
] | e6a49c4ff2e65c71ebaabd3565e27f943f52dacbbe98d56ff04a4a5e7d6da722 |
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