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import copy
from structlog import get_logger
from app.helpers.schema_helpers import get_group_instance_id
from app.questionnaire.location import Location
from app.questionnaire.routing_path import RoutingPath
from app.questionnaire.rules import (
evaluate_goto,
evaluate_skip_conditions,
is_goto_rule,
g... | ONSdigital/eq-survey-runner | app/questionnaire/path_finder.py | Python | mit | 12,982 | [
"VisIt"
] | 4ff25b4a79950c7222775d3fa08d028876b63eb421cedf82214e33e588de9004 |
import numpy as np
from numpy.testing import assert_almost_equal, assert_allclose
import pickle
import os
from skcv import data_dir
from skcv.multiview.two_views.fundamental_matrix import *
from skcv.multiview.util.points_functions import *
from skcv.multiview.util.camera import *
def test_fundamental_from_cameras():... | guillempalou/scikit-cv | skcv/multiview/two_views/tests/test_fundamental_matrix.py | Python | bsd-3-clause | 3,578 | [
"Gaussian"
] | 0f7bcd3217a4ba0babcf14dc3821313a02b736ee87831c71d1c5409ca4d9fc1f |
from distutils.core import setup
setup(
name='RiboMethSeq',
version='0.1.1',
author='Brett N. Olsen',
author_email='brett.olsen@gmail.com',
packages=['ribomethseq'],
scripts=['bin/calculate-ribomethseq-from-bam', 'bin/bed-to-wig', 'bin/split-bed'],
license='LICENSE',
description='Implem... | caethan/ribomethseq | setup.py | Python | mit | 436 | [
"pysam"
] | ef646a019af18158d86192f542727b8217207d0c611dbe2eaa1249dbbde37e09 |
#!/usr/bin/env python
# Copyright 2014-2019 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/dmrgscf/dmrgci.py | Python | apache-2.0 | 43,433 | [
"Molpro",
"PySCF"
] | da043ec6147b74357192cdd33fc9154409d0d69affaa07d1d7ce6c0eb9dcac8e |
"""\
This program inputs a GAMESS basis, e.g. from the EMSL basis set order
form, and formats it into PyQuante format
Copyright (c) 2004, Richard P. Muller. All Rights Reserved.
PyQuante version 1.2 and later is covered by the modified BSD
license. Please see the file LICENSE that is part of this
distribution.
"... | gabrielelanaro/pyquante | PyQuante/Basis/Tools.py | Python | bsd-3-clause | 3,588 | [
"GAMESS"
] | a3d9793a69d58afc174a20151a10ac4051183cb30fc200a64a6847b4a2768119 |
# Copyright 2016 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | TakayukiSakai/tensorflow | tensorflow/contrib/distributions/python/ops/normal.py | Python | apache-2.0 | 10,511 | [
"Gaussian"
] | 0b27a230521271bce9bb43e5bfc6fedc236ca6e06a77b8eb2ef50c14122daad5 |
# -*- coding: utf-8 -*-
"""
morphsnakes
===========
This is a Python implementation of the algorithms introduced in the paper
Márquez-Neila, P., Baumela, L., Álvarez, L., "A morphological approach
to curvature-based evolution of curves and surfaces". IEEE Transactions
on Pattern Analysis and Machine Intelligen... | tian-zhou/InstrumentSegmentation | help/snake_python/morphsnakes.py | Python | gpl-2.0 | 11,921 | [
"Mayavi"
] | 6e5e751315ddcb7b5983bfc69895fe1f3e025bb19ecc61d24cc4cf81f67cc984 |
import warnings
import unittest as unittest
import numpy as np
from scipy.spatial import ConvexHull
from pymatgen import Composition
from pymatgen.entries.computed_entries import ComputedEntry
from pymatgen.analysis.phase_diagram import PhaseDiagram, \
GrandPotentialPhaseDiagram
from pymatgen.analysis.reaction_cal... | mbkumar/pymatgen | pymatgen/analysis/tests/test_interface_reactions.py | Python | mit | 26,284 | [
"pymatgen"
] | b38aaa8882ed61892dd4db28ae137d9b259c45631548b472c93ee53a2b2b2993 |
# Copyright (c) 2012-2014, GPy authors (see AUTHORS.txt).
# Licensed under the BSD 3-clause license (see LICENSE.txt)
# Kurt Cutajar
import numpy as np
class GridPosterior(object):
"""
Specially intended for the Grid Regression case
An object to represent a Gaussian posterior over latent function values,... | befelix/GPy | GPy/inference/latent_function_inference/grid_posterior.py | Python | bsd-3-clause | 1,826 | [
"Gaussian"
] | 3e0bd91c7edcb969ca7d6bc94537387eea6d51f22bcfe7c1d9e765f55159aad9 |
#!/usr/bin/env python
# Author: Qiming Sun <osirpt.sun@gmail.com>
'''
Change the default SCF convergence criteria iterations.
SCF object has a hook check_convergence to redefine the convergence criteria.
If a convergence testing function is assigned to the attribute
check_convergence of an SCF object, the testing fu... | gkc1000/pyscf | examples/scf/55-overload_convergence_criteria.py | Python | apache-2.0 | 1,202 | [
"PySCF"
] | ba08cb1f846fa14ed59164945ec084f92fdb9966b68d64a66b9804e98fc0ebdf |
"""
Functions that compute circular variance and orientation bandwidth from the full_matrix data.
"""
from math import pi,sin,cos,sqrt
import numpy
from numpy import array
import topo
#
# Smoothing function
#
def smooth(x,window_len=10,window='hanning'):
"""smooth the data using a window with requested size.
... | ioam/svn-history | contrib/jm_analysis.py | Python | bsd-3-clause | 7,287 | [
"NEURON"
] | 03009ac78787488df46f95fdd1403bbd20c65d80461c9dbbbb71211a3ad7d48f |
#
# gPrime - A web-based genealogy program
#
# Copyright (C) 2000-2006 Donald N. Allingham
# Copyright (C) 2005-2009 Serge Noiraud
# Copyright (C) 2007-2009 Brian G. Matherly
# Copyright (C) 2010 Peter Landgren
# Copyright (C) 2010 Jakim Friant
# Copyright (C) 2011 Adam Stein <adam@csh.rit.edu>
# C... | sam-m888/gprime | gprime/plugins/docgen/odfdoc.py | Python | gpl-2.0 | 70,275 | [
"Brian"
] | 199b6329c51a705cb9fccd18a68a9c7d7120b6aa908a29f7a1f4aa41c80c801e |
import numpy as np
import GPy
from mcmcGP import BinnedPoisson, GPMCMC, SGPMCMC, HMC
from jug import TaskGenerator as TG
def load_coal():
X = np.loadtxt('coal.csv')
return X
#@TG
def build_vb(bin_mids, counts, num_inducing, seed):
np.random.seed(seed)
# grid Z
Z = np.linspace(bin_mids.min(), bin_... | sparseMCMC/NIPS2015 | experiments/coal/coal_plotting.py | Python | gpl-2.0 | 6,720 | [
"Gaussian"
] | de56d12cacc883435f80edc28b472c815d11715f9c0e2363c82474859b4cde68 |
"""
Test the about xblock
"""
import datetime
import pytz
from django.conf import settings
from django.core.urlresolvers import reverse
from django.test.utils import override_settings
from mock import patch
from opaque_keys.edx.locations import SlashSeparatedCourseKey
from course_modes.models import CourseMode
from x... | olexiim/edx-platform | lms/djangoapps/courseware/tests/test_about.py | Python | agpl-3.0 | 22,488 | [
"VisIt"
] | bc5bcc52c8c13cea1937b53f4cbb01bc511b20d07619bedabb35e1bec63238a1 |
import argparse
from acpype.params import MAXTIME, epilog, outTopols, usage
def get_option_parser():
# not used yet: -e -l -r
parser = argparse.ArgumentParser(usage=usage + epilog)
group = parser.add_mutually_exclusive_group()
parser.add_argument(
"-i",
"--input",
action="stor... | alanwilter/acpype | acpype/parser_args.py | Python | gpl-3.0 | 5,074 | [
"Amber",
"CHARMM",
"MOPAC"
] | dbd3d2b0d25daf393fb78d28bf2ea290d523b918bc70ca1f332cd36626122ed1 |
# Tests min and variance to check whether Newcomb's speed of light data is Gaussian or not
# Author : Aleyna Kara
# This file is generated from https://github.com/probml/pmtk3/blob/master/demos/newcombPlugin.m
import superimport
import pyprobml_utils as pml
import numpy as np
import requests
import matplotlib.pyplot ... | probml/pyprobml | scripts/newcomb_plugin_demo.py | Python | mit | 1,651 | [
"Gaussian"
] | e6d25fd51968b6bca66b407c9e6f8f88e2f0615b4eea07f4f5a51a01cc1f39fe |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# --- BEGIN_HEADER ---
#
# findtype - Detect client entity type
# Copyright (C) 2003-2015 The MiG Project lead by Brian Vinter
#
# This file is part of MiG.
#
# MiG is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License... | heromod/migrid | mig/shared/findtype.py | Python | gpl-2.0 | 3,561 | [
"Brian"
] | fcbe4c93bac6592d7d27d8828c094b6c4a17912771d4199160d32851acea9a05 |
# -*- coding: utf-8 -*-
# Copyright (C) 2017 by Pedro Mendes, Virginia Tech Intellectual
# Properties, Inc., University of Heidelberg, and University of
# of Connecticut School of Medicine.
# All rights reserved.
# Copyright (C) 2010 - 2016 by Pedro Mendes, Virginia Tech Intellectual
# Properties, Inc., Universit... | jonasfoe/COPASI | copasi/bindings/python/unittests/Test_CChemEq.py | Python | artistic-2.0 | 4,443 | [
"COPASI"
] | a4b5c5d24e68af4e92ce40e022b0535de0dcf91392801acbc9b13554debcaad5 |
#!/usr/bin/pythonTest
# -*- coding: utf-8 -*-
#
# Collection functions Output
#
# 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 v... | netvigator/myPyPacks | pyPacks/Collect/Output.py | Python | gpl-2.0 | 5,707 | [
"MOE"
] | 1d9401be7fb6d55c0537228a9768e4b65e45f9717976618d44b7c06c71d57e28 |
#!/usr/bin/python
"""
gene_server v0.01
- a xmlrpc server providing a storage/query service for the GA trade system
Copyright 2011 Brian Monkaba
This file is part of ga-bitbot.
ga-bitbot is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public Licens... | enikesha/ga-bitbot | gene_server.py | Python | gpl-3.0 | 22,487 | [
"Brian"
] | 170b2ba7b45bf18fa1d3cea4f7ddf29f9a6e8f26b06cff21dba4c71f6b0ebf63 |
# -*- 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.
"""Tools for identifying, reading and writing files and streams."""
from __future__ import print_function
import io
imp... | gaursagar/cclib | src/cclib/io/ccio.py | Python | bsd-3-clause | 14,822 | [
"ADF",
"Dalton",
"GAMESS",
"Gaussian",
"Jaguar",
"MOPAC",
"Molpro",
"NWChem",
"ORCA",
"cclib"
] | 24411be99d35bb1622de34cb61d8c34d5151d8b0f9dab94ae304f8aa5aa2e038 |
#A* -------------------------------------------------------------------
#B* This file contains source code for the PyMOL computer program
#C* Copyright (c) Schrodinger, LLC.
#D* -------------------------------------------------------------------
#E* It is unlawful to modify or remove this copyright notice.
#F* -------... | gratefulfrog/lib | python/pymol/parser.py | Python | gpl-2.0 | 34,589 | [
"PyMOL"
] | 05b6b118a9b030efe615249fafaf4550cf88ca847037f8cab73a6fb13ff915ef |
import functools
from typing import List, Any
import numpy as np
import scipy.sparse as sp
import pytest
from sklearn.metrics import euclidean_distances
from sklearn.random_projection import johnson_lindenstrauss_min_dim
from sklearn.random_projection import _gaussian_random_matrix
from sklearn.random_projection im... | glemaitre/scikit-learn | sklearn/tests/test_random_projection.py | Python | bsd-3-clause | 13,593 | [
"Gaussian"
] | a7481b1bf1aeedbb92a0b6b56cde4eb782826be0d215db02ddae35a043711908 |
## Absolute location where all raw files are
RAWDATA_DIR = '/auto/cmb-06/as/skchoudh/dna/May_05_2018_Penalva_RPS05/PenalvaL_05022018'
## Output directory
OUT_DIR = '/staging/as/skchoudh/rna/May_05_2018_Penalva_RPS05'
## Absolute location to 're-ribo/scripts' directory
SRC_DIR = '/auto/cmb-panasas2/skchoudh/github_... | saketkc/ribo-seq-snakemake | configs/May_05_2018_Penalva_RPS05.py | Python | bsd-3-clause | 2,308 | [
"HTSeq",
"pysam"
] | baab41048a6147d77a8db88223dd57124b41fdffaf942ee6a063123694353bcc |
# (c) 2013-2014, Michael DeHaan <michael.dehaan@gmail.com>
# (c) 2015 Toshio Kuratomi <tkuratomi@ansible.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... | emersonsoftware/ansiblefork | lib/ansible/executor/module_common.py | Python | gpl-3.0 | 37,121 | [
"VisIt"
] | c43e0a537e3b582a756e46d6e5d34e49ced1924ddc246b8048eb103261a10306 |
#! /bin/bash/env python
from Applications import NcbiblastpCommandline
import math
import os
from decimal import *
import settings
added = []
class Blaster(object):
def __init__(self):
pass
def blast(self, evalue):
# create a database and conduct the all-vs-all BLAST search against it
print 'Creating databas... | jfoox/venninator | blast.py | Python | mit | 4,357 | [
"BLAST"
] | 1c89a6eb8a7280324f35ee4c7b930b3d293b17c9c970b16f90db583d017e05a0 |
# -*- coding: utf-8 -*-
"""
End-to-end tests for LibraryContent block in LMS
"""
import ddt
import textwrap
from nose.plugins.attrib import attr
from ..helpers import UniqueCourseTest
from ...pages.studio.auto_auth import AutoAuthPage
from ...pages.studio.overview import CourseOutlinePage
from ...pages.studio.library ... | beni55/edx-platform | common/test/acceptance/tests/lms/test_library.py | Python | agpl-3.0 | 13,189 | [
"VisIt"
] | 025824f636a922484fe4ebb7f834528ebeb9b7443a5310accb4303ddeb315d7c |
import pypyodbc
import Log
class TrnPhonebook(object):
# cephonebookdev-sql.epic.com
# CE_Phonebook_TRN
def __init__(self):
self.phonebook_dbo = "[CE_Phonebook_TRN].[dbo].[phonebook]"
self.update_phonebook = "UPDATE {0}".format(self.phonebook_dbo)
self.class_orgs = "OrgID > 99 AND... | jabez007/Training_Helpyr | Phonebook/__init__.py | Python | mit | 8,865 | [
"Galaxy"
] | 0e1657e32478e453a88ecff2630c2853e458b3a1e8ca06520a82890b63c19bb7 |
import setuptools
with open("README.md", "r") as fh:
long_description = fh.read()
setuptools.setup(
name='brocc',
version='1.4.0',
author='Serena Dollive, Kyle Bittinger',
author_email='kylebittinger@gmail.com',
maintainer='Kyle Bittinger',
maintainer_email='kylebittinger@gmail.com',
d... | kylebittinger/brocc | setup.py | Python | gpl-3.0 | 883 | [
"BLAST"
] | 818899dc65fac738b13248c717babb28a5ad40041cbdd52d0a82810343024f14 |
# coding: utf-8
# ## Tracking and nowcasting of lightning flash-cells using data from the LINET network
# Analysis of lightning strike density distribution, clustering, cell-tracking, and nowcasting using open-source tools (Python).
# **Author**: Petar Sarajcev, PhD (petar.sarajcev@fesb.hr)
#
# University of Spli... | sarajcev/nowcasting | nowcasting.py | Python | gpl-3.0 | 55,031 | [
"Gaussian"
] | cb78a1cfceb92a0b5f4e3752ea688787db13ea48328da18a221a98e112b8bbe0 |
################################################################################
# SCFGP: Sparsely Correlated Fourier Features Based Gaussian Process
# Github: https://github.com/MaxInGaussian/SCFGP
# Author: Max W. Y. Lam (maxingaussian@gmail.com)
####################################################################... | MaxInGaussian/SCFGP | experiments/boston_housing/test_regression.py | Python | bsd-3-clause | 1,779 | [
"Gaussian"
] | 2f808c3c685b80640728acd11f8f3abaef8d0e205e8c378bf7919ca4ff8fad1c |
# 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
# distributed under the Li... | os-cloud-storage/openstack-workload-disaster-recovery | dragon/flow_utils.py | Python | apache-2.0 | 1,348 | [
"VisIt"
] | ca41ca9044dbca5af8f9ab8f6397ba08e4f0a7bcf85d9fe58a4cf3e5557c86ca |
# Initialize App Engine and import the default settings (DB backend, etc.).
# If you want to use a different backend you have to remove all occurences
# of "djangoappengine" from this file.
from djangoappengine.settings_base import *
import os
# the project directory
ROOT_PATH = os.path.abspath(os.path.dirname(__file... | bdelliott/wordgame | web/settings.py | Python | mit | 2,650 | [
"Brian"
] | 42626bb060a72247bea8400242a0c4eab6c0f0e8c4786b5bc2917c53a59c9898 |
# -*- coding: utf-8 -*-
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2003-2005 Donald N. Allingham
# Copyright (C) 2008 Brian G. Matherly
# Copyright (C) 2010 Andrew I Baznikin
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU Ge... | SNoiraud/gramps | gramps/plugins/rel/rel_no.py | Python | gpl-2.0 | 9,750 | [
"Brian"
] | 9540bf00b7b76b8b992fc1d40d2ee6bcbf1b7fd586f32be08c8d06585abc360e |
# Copyright 2008 by Bartek Wilczynski
# Adapted from Bio.MEME.Parser by Jason A. Hackney. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
from Bio.Alphabet import IUPAC
from Bi... | bryback/quickseq | genescript/Bio/Motif/Parsers/MEME.py | Python | mit | 12,014 | [
"Biopython"
] | d84d051c9188693e97dfa70c8d02c6c2b291a48380988bbcb40c766692c7c984 |
# encoding: UTF-8
# Copyright 2016 Google.com
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to... | dimroc/tensorflow-mnist-tutorial | mnist_4.0_batchnorm_five_layers_sigmoid.py | Python | apache-2.0 | 9,962 | [
"Gaussian"
] | aa63b64d90be79ac6b39ff040e024832874c99d2090e874a4e39eb3dbc7aac34 |
''' Apache License
Version 2.0, January 2004
http://www.apache.org/licenses/
TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION
1. Definitions.
"License" shall mean the terms and conditions for use, reproduction,... | ihateprog/Test | getbiochembl.py | Python | apache-2.0 | 20,284 | [
"Pybel"
] | 132604f983e76f579477a47def1815fa4741f0256bd6e7383d2ebd7a246cc19c |
# -*- 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... | OpusVL/odoo | addons/project/project.py | Python | agpl-3.0 | 74,419 | [
"VisIt"
] | 0d0ac9de758d30ed4a7e3cd4aac50e2c759a0b0cbd04f275fc23d5974acd8657 |
# -*- coding: utf-8 -*-
from parsimonious import Grammar
from parsimonious import NodeVisitor
import os
# PDF to text with:
# > pdftotext -layout -enc "UTF-8" [pdf file] [text file]
grammars = [
r"""
docket = page+
page = header body? footer page_break?
header = ws* ~"COURT OF COMMON PLEAS OF PHILADELPHIA COUNTY"... | NateV/GrammarDev | grammar_dev/grammars/grammar_dev.py | Python | gpl-2.0 | 26,761 | [
"VisIt"
] | ae06dc488f37b518f60fde7a65078eb59d566ab8e38c5e8978895ce723daf4f9 |
# -*- coding: utf-8 -*-
# Copyright 2007-2022 The HyperSpy developers
#
# This file is part of HyperSpy.
#
# HyperSpy is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at y... | jat255/hyperspy | hyperspy/tests/samfire/test_strategy.py | Python | gpl-3.0 | 18,681 | [
"Gaussian"
] | f502a4f3e0aa515e2b096d61ce092106efaea77f3b08b77cf81de2be11afb7b6 |
# dialog.py --- A Python interface to the ncurses-based "dialog" utility
# -*- coding: utf-8 -*-
#
# Copyright (C) 2002, 2003, 2004, 2009, 2010, 2013 Florent Rougon
# Copyright (C) 2004 Peter Åstrand
# Copyright (C) 2000 Robb Shecter, Sultanbek Tezadov
#
# This library is free software; you can redistribute it and/o... | tranquilit/WAPT | lib/site-packages/dialog.py | Python | gpl-3.0 | 150,382 | [
"VisIt"
] | 842547f5095ce8c318b5eb73f0a01b2d9ed61fd6f7cc252c60e5df129eb17b64 |
"""
Copyright (c) 2015 Civic Knowledge. This file is licensed under the terms of the
Revised BSD License, included in this distribution as LICENSE.txt
"""
import petl
import six
from ambry_sources.util import copy_file_or_flo
from .exceptions import SourceError
class Source(object):
"""Base class for accessor... | CivicKnowledge/ambry_sources | ambry_sources/sources/accessors.py | Python | bsd-2-clause | 21,176 | [
"VisIt"
] | 69218c976016a1d4d73098b2cc712d7e38f0d452013a7098608572bad158e463 |
# Storage filtering classes
#
# Copyright (C) 2013 Red Hat, Inc.
#
# This copyrighted material is made available to anyone wishing to use,
# modify, copy, or redistribute it subject to the terms and conditions of
# the GNU General Public License v.2, or (at your option) any later version.
# This program is distributed... | jkonecny12/anaconda | pyanaconda/ui/gui/spokes/advanced_storage.py | Python | gpl-2.0 | 27,163 | [
"VisIt"
] | 790d7e18fad8eae621057e1417119aec4e7019959d1ee7e8049e2b1a7dca4730 |
#
# Copyright (C) 2013,2014 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any l... | RudolfWeeber/espresso | testsuite/python/particle.py | Python | gpl-3.0 | 4,959 | [
"ESPResSo"
] | 36618f939504e0ad7f3ca1a5392c1e66a7375436fecf6bff288d5c94a0501376 |
"""
This module contains the AmberWriter class and associated methods,
which outputs a prmtop/inpcrd file with CHARMM names and parameters
for use with simulation with the AMBER molecular dynamics package.
It does this by using the chamber functionality of ParmEd API.
Author: Robin Betz
Copyright (C) 2015 Robin... | drorlab/dabble | Dabble/param/amber.py | Python | gpl-2.0 | 37,529 | [
"Amber",
"CHARMM",
"VMD"
] | 28209a4e093c944d26a94d16449f984dd271211af8707e9992db9bd75ff93fe7 |
# (c) 2014, Brian Coca, Josh Drake, et al
#
# 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 version.
... | simplyguru-dot/ansible | lib/ansible/plugins/cache/jsonfile.py | Python | gpl-3.0 | 4,640 | [
"Brian"
] | 07f458f4b3a824972820b8b345676658f9c4ecceaa893e364673d5b457849b67 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
A module to perform diffusion analyses (e.g. calculating diffusivity from
mean square displacements etc.). If you use this module, please consider
citing the following papers::
Ong, S. P., Mo, Y., Rich... | gVallverdu/pymatgen | pymatgen/analysis/diffusion_analyzer.py | Python | mit | 37,894 | [
"VASP",
"pymatgen"
] | b3cc36d569b2e2858fbf21d6dcc78a3024d955a2b5fbd6524d97686a1e92dc39 |
"""
Distance based spatial weights.
"""
__author__ = "Sergio J. Rey <srey@asu.edu> "
import pysal
import scipy.spatial
from pysal.common import KDTree
from pysal.weights import W
import scipy.stats
import numpy as np
__all__ = ["knnW", "Kernel", "DistanceBand"]
def knnW(kdtree, k=2, p=2, ids=None):
"""
Cr... | schmidtc/pysal | pysal/weights/Distance.py | Python | bsd-3-clause | 16,487 | [
"Gaussian"
] | 56ee53967cb62c45a5b941e81d20a92986b479bb013a9ae3b96147833c52676a |
#!/usr/bin/python
# (C) 2013, Markus Wildi, markus.wildi@bluewin.ch
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2, or (at your option)
# any later version.
#
# Thi... | zguangyu/rts2 | scripts/rts2saf/rts2saf/acquire.py | Python | gpl-2.0 | 21,054 | [
"VisIt"
] | 07368d14a74c27a4e21b1dc7f3fedc7869a2646327866fa1beb66c168d14c4f2 |
#!/usr/bin/env python
# encoding: utf-8
"""
This script reads a text file with a list of OpenBabel format xyz coordinates
and converts it to an RMG dictionary.
Separate entries should be separated by at least one empty line
OpenBabel format:
First line is the number of atoms
Second line is for species name
... | mliu49/RMG-stuff | Scripts/xyzToDictionaryAromatic.py | Python | mit | 3,200 | [
"Pybel"
] | f4e11a060fb30a104c52e29bb006aa4c751a0457f782649e0c845cac9d2888d4 |
"""
Acceptance tests for Studio related to the acid xblock.
"""
from unittest import skip
from nose.plugins.attrib import attr
from bok_choy.web_app_test import WebAppTest
from ..pages.studio.auto_auth import AutoAuthPage
from ..pages.studio.overview import CourseOutlinePage
from ..pages.xblock.acid import AcidView
fr... | TangXT/edx-platform | common/test/acceptance/tests/test_studio_acid_xblock.py | Python | agpl-3.0 | 7,495 | [
"VisIt"
] | b12d73f8ad316d3938420806a17b5041c9749de67606fe074e53637d9057d182 |
# Copyright 2016 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | hfp/tensorflow-xsmm | tensorflow/python/autograph/converters/call_trees.py | Python | apache-2.0 | 12,529 | [
"VisIt"
] | 7becb18a72b3ddbd29d11dac4db5c40245589cc1bea8fb925824b99e1acb14b9 |
""" Base class for all services
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
import os
import time
import psutil
import DIRAC
from DIRAC.Core.DISET.private.FileHelper import FileHelper
from DIRAC.Core.Utilities.ReturnValues import S_OK, S_ERROR, isR... | ic-hep/DIRAC | src/DIRAC/Core/DISET/RequestHandler.py | Python | gpl-3.0 | 24,212 | [
"DIRAC"
] | d3952f074e41c475af7595e6161a5eabbcd47aa9905428b874d423ded960063e |
#! /usr/bin/env python
"""
Module with cosmetics procedures. Contains the function for bad pixel fixing.
Also functions for cropping cubes.
"""
__author__ = 'Carlos Alberto Gomez Gonzalez, V. Christiaens'
__all__ = ['cube_crop_frames',
'cube_drop_frames',
'frame_crop',
'frame_pad',
... | vortex-exoplanet/VIP | vip_hci/preproc/cosmetics.py | Python | mit | 15,951 | [
"Gaussian"
] | 8d40c5d8b653296cf8c2eda9326cc8ada4f045deb34ebb1c358484866b0fafcd |
# coding: utf-8
"""
This module provides objects for extracting timing data from the ABINIT output files
It also provides tools to analye and to visualize the parallel efficiency.
"""
from __future__ import unicode_literals, division
import sys
import collections
import numpy as np
from monty.string import is_string... | Dioptas/pymatgen | pymatgen/io/abinitio/abitimer.py | Python | mit | 25,451 | [
"ABINIT",
"pymatgen"
] | 1583a6965ff4f48127686e3be4f219c152756af1b1561aece157b3858a21d68a |
# Copyright (C) 2010-2019 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later v... | KaiSzuttor/espresso | testsuite/python/comfixed.py | Python | gpl-3.0 | 2,031 | [
"ESPResSo"
] | deb1e9cf918d00c2e6fae8e9cf19a284bbb403396425fcc99d59046dd758bee7 |
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
This package contains core modules and classes for representing structures and
operations on them.
"""
import os
try:
from ruamel import yaml
except ImportError:
try:
import ruamel_yaml as yaml # type: i... | vorwerkc/pymatgen | pymatgen/core/__init__.py | Python | mit | 1,706 | [
"pymatgen"
] | 7ec0ff14a71f0cf2c0d891b63a90b55ce6d74c92205c13d2be5309f07a6c34f5 |
""" DowntimeCommand module will look into GOC DB to find announced downtimes for RSS-managed sites and resources.
If found, downtimes are added to the internal RSS cache using ResourceManagementClient.
GOCDB downtimes that are modified or deleted are also synced.
"""
__RCSID__ = '$Id$'
import urllib2
import ... | andresailer/DIRAC | ResourceStatusSystem/Command/DowntimeCommand.py | Python | gpl-3.0 | 13,817 | [
"DIRAC"
] | ac31c9a673540fdbe6750cee6d6e40c90aacb749e23f76908f2eb163f37fe5f4 |
#!/usr/bin/env python
# Author: Andrew Jewett (jewett.aij at g mail)
# License: MIT License (See LICENSE.md)
# Copyright (c) 2020, Scripps Research
# All rights reserved.
man_page_text = """
Usage (example):
postprocess_transitions.py ttree_assignments.txt -t file.template \
> new_file.template
Where "file.tem... | jewettaij/moltemplate | moltemplate/postprocess_transitions.py | Python | mit | 13,401 | [
"LAMMPS"
] | e67e457088d88fed583e2625a0f40d14bd267aaae3bafb0c9796f9d29bcc5435 |
__author__ = 'duarte'
import sys
from preset import *
import numpy as np
"""
spike_noise_input
- standard network setup, driven with noisy, Poissonian input
- quantify and set population state
- run with noise_driven_dynamics in computations
- debug with noise_driven_dynamics script
"""
run = 'local'
data_label = 'ex... | rcfduarte/nmsat | projects/examples/parameters/noise_driven_dynamics.py | Python | gpl-2.0 | 6,567 | [
"NEURON"
] | 90b18844086196fab4d233cad81ad3e1901137093ce9ed08c2a5a91151b4e043 |
#!/usr/bin/env python
#
# Appcelerator Titanium Module Packager
#
#
import os, sys, glob, string
import zipfile
cwd = os.path.abspath(os.path.dirname(sys._getframe(0).f_code.co_filename))
required_module_keys = ['name','version','moduleid','description','copyright','license','copyright','platform','minsdk']
module_def... | omorandi/TiSMSDialog | build_debug.py | Python | mit | 5,506 | [
"VisIt"
] | 7843c3978401a3dd972568b53d55d143bded8bfe643cec13afdbcd7cab48785e |
""" NormalizeTuples removes implicit variable -> tuple conversion. """
from pythran.analyses import Identifiers
from pythran.passmanager import Transformation
import ast
class _ConvertToTuple(ast.NodeTransformer):
def __init__(self, tuple_id, renamings):
self.tuple_id = tuple_id
self.renamings =... | artas360/pythran | pythran/transformations/normalize_tuples.py | Python | bsd-3-clause | 6,420 | [
"VisIt"
] | 6202f3cfc1bb30ea4cd67d4073d6920e72f7008247387b368457154c494dea2a |
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
__RCSID__ = "$Id$"
import time
import random
from DIRAC.ConfigurationSystem.Client.ConfigurationData import gConfigurationData
from DIRAC.ConfigurationSystem.Client.PathFinder import getGatewayURLs
from DIRA... | yujikato/DIRAC | src/DIRAC/ConfigurationSystem/private/RefresherBase.py | Python | gpl-3.0 | 5,893 | [
"DIRAC"
] | 2e2ab99430bee7306f76e536c048e19c0f20ca3bc163eb969c2786a19f1de0f4 |
'''
Use satellite and ocean in situ data to reconstruct oceanic 3D field.
Created on Mar 20, 2013
@author: Jinbo Wang <jinbow@gmail.com>
'''
if __name__ == '__main__':
import numpy as np
import pylab as plt
import isqg
lon = np.linspace(0,10,50)
lat = np.linspace(30,40,50)
x,y = isqg.lo... | jinbow/isQG | src/optimize.py | Python | gpl-2.0 | 1,818 | [
"Gaussian"
] | 74703bfe6cdf2d72b3f2f252e64a2b4246d74d75b16e91414c167a9f064aa789 |
""" Test class for SiteDirector
"""
# pylint: disable=protected-access
# imports
import pytest
from mock import MagicMock
from DIRAC import gLogger
# sut
from DIRAC.WorkloadManagementSystem.Agent.SiteDirector import SiteDirector
mockAM = MagicMock()
mockGCReply = MagicMock()
mockGCReply.return_value = 'TestSetup'
... | arrabito/DIRAC | WorkloadManagementSystem/Agent/test/Test_Agent_SiteDirector.py | Python | gpl-3.0 | 7,503 | [
"DIRAC"
] | b4b36829d248f9db6bbd7133834d112d39b66b70c94419c2ff7821fc341fd3a3 |
from django.contrib import admin
from visits.models import Visit
# Register your models here.
class VisitAdmin(admin.ModelAdmin):
ordering = ['date']
admin.site.register(Visit, VisitAdmin)
| robjordan/unesco_project | unesco/visits/admin.py | Python | apache-2.0 | 196 | [
"VisIt"
] | 7c921f63bcd090dc5aa20c892d9c271e19644e1a76ccfe4c229e51ae430618f8 |
"""io.py"""
import os
from collections import OrderedDict
import xray
try:
from ConfigParser import SafeConfigParser
except ImportError:
from configparser import SafeConfigParser
import tarfile
from contextlib import closing
from netCDF4 import Dataset
class RasmLibIOError(Exception):
pass
# -----------... | jhamman/rasmlib | rasmlib/io.py | Python | gpl-3.0 | 7,297 | [
"NetCDF"
] | cacd46d4015142fc28c1461351758fe81ff8de0f45c056efe2bdbacfb27def82 |
#
# GenDisplacement.py
#
# Class to generate displacements of atoms
#
# Copyright (c) 2020 Terumasa Tadano
#
# This file is distributed under the terms of the MIT license.
# Please see the file 'LICENCE.txt' in the root directory
# or http://opensource.org/licenses/mit-license.php for information.
#
from __future__ imp... | ttadano/alamode | tools/GenDisplacement.py | Python | mit | 32,324 | [
"Gaussian"
] | 4c3c103c444bc9f373bfdadae29c9a3beedeafa45756e1ba5c4f11f1b66e2cfe |
# 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 RAcgh(RPackage):
"""Classes and functions for Array Comparative Genomic Hybridization data... | LLNL/spack | var/spack/repos/builtin/packages/r-acgh/package.py | Python | lgpl-2.1 | 1,402 | [
"Bioconductor"
] | 45da7414a88613e9eefca13385aea47575900786db3fc5f636c2f9450328decd |
"""
Rosetta modules are a translation tables between multiple Python
namespaces. They can be used to map the constructs of one numeric Python
project to another project.
The goal is "glue" together different PyData projects and make them
understand each other's type systems and interoperate at the type level
easing th... | davidcoallier/blaze | blaze/rosetta/parse.py | Python | bsd-2-clause | 2,641 | [
"VisIt"
] | 87675a8cc1e8d6c3e0ad13e8b54c9415211cf97550fdc173711467ffe3bf3ee1 |
import io
import os
import re
from distutils.core import setup
def read(path, encoding='utf-8'):
path = os.path.join(os.path.dirname(__file__), path)
with io.open(path, encoding=encoding) as fp:
return fp.read()
def version(path):
"""Obtain the packge version from a python file e.g. pkg/__init_... | nhuntwalker/gatspy | setup.py | Python | bsd-2-clause | 2,369 | [
"VisIt"
] | cd500bd0a9637042528d64be75ffc131a2ccec5f30f89e87ebaf07bad7a5cdfe |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import division, unicode_literals, print_function
import itertools
import logging
from collections import defaultdict
import math
from math import cos
from math import sin
from fractions import... | aykol/pymatgen | pymatgen/symmetry/analyzer.py | Python | mit | 54,447 | [
"CRYSTAL",
"VASP",
"pymatgen"
] | 05ef433cd366df34dff826932166005e7d1800378c9b75522b300ef5384ac6be |
#!/usr/bin/python
#
# Created on Aug 25, 2016
# @author: Gaurav Rastogi (grastogi@avinetworks.com)
# Eric Anderson (eanderson@avinetworks.com)
# module_check: supported
# Avi Version: 17.1.1
#
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the te... | le9i0nx/ansible | lib/ansible/modules/network/avi/avi_applicationprofile.py | Python | gpl-3.0 | 7,245 | [
"VisIt"
] | 5639f7e8db7183051fb8a1d6ff7195525a39250f582c8ff8aff654dfa979f29c |
# TO-DO: to be moved to tests directory
from __future__ import print_function
from __future__ import absolute_import
from __future__ import division
import cmd
import sys
import os.path
from DIRAC.DataManagementSystem.Client.CmdDirCompletion.AbstractFileSystem import UnixLikeFileSystem
from DIRAC.DataManagementSystem... | ic-hep/DIRAC | src/DIRAC/DataManagementSystem/Client/test/new_dir_completion.py | Python | gpl-3.0 | 1,323 | [
"DIRAC"
] | 78159e9b2272ec6d3df518ac637e75a88ddf8c166b674a7de81895e7efb84dbd |
import re
from django import forms
from django.forms.utils import ErrorList
from django.forms.widgets import HiddenInput, RadioSelect, SelectMultiple
from crits.core import form_consts
from crits.core.form_consts import Action as ActionConsts
from crits.core.handlers import get_source_names, get_item_names, ui_themes... | Magicked/crits | crits/core/forms.py | Python | mit | 23,096 | [
"Amber"
] | 41da864e7598b499d255fad62261a3ce33287397e5c31747991f032286d43d07 |
# -*- coding: utf-8 -*-
"""Various text used throughout the website, e.g. status messages, errors, etc.
"""
# Status Messages
#################
# NOTE: in status messages, newlines are not preserved, so triple-quotes strings
# are ok
# Status message shown at settings page on first login
# (upon clicking primary em... | zachjanicki/osf.io | website/language.py | Python | apache-2.0 | 8,420 | [
"VisIt"
] | 6186421549fd25028fb6b842c0ed0a557b9e057a73efd87c02b248555f739134 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import division, unicode_literals
"""
Unit tests for defect transformations
"""
__author__ = "Bharat Medasani"
__copyright__ = "Copyright 2014, The Materials Project"
__version__ = "0.1"
__ma... | aykol/pymatgen | pymatgen/transformations/tests/test_defect_transformations.py | Python | mit | 4,993 | [
"pymatgen"
] | a9b78b7f248666474e4e93a9d30f76442eddb5a921881d14b70ac050e35292a4 |
"""Unit test for roman5.py
This program is part of "Dive Into Python", a free Python book for
experienced programmers. Visit http://diveintopython.org/ for the
latest version.
"""
__author__ = "Mark Pilgrim (mark@diveintopython.org)"
__version__ = "$Revision: 1.3 $"
__date__ = "$Date: 2004/05/05 21:57:20 $"
__copyri... | tapomayukh/projects_in_python | sandbox_tapo/src/refs/diveintopython-pdf-5.4/diveintopython-5.4/py/roman/stage5/romantest5.py | Python | mit | 5,496 | [
"VisIt"
] | 4174a2470f29df80f342699afde94a284bf0635837bf338f1a46a0536a554183 |
########################################################################
#
# (C) 2015, Brian Coca <bcoca@ansible.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... | pgmillon/ansible | lib/ansible/galaxy/__init__.py | Python | gpl-3.0 | 2,113 | [
"Brian",
"Galaxy"
] | 25240abf62323f675f253160d4664f265396c47b7ffaa6cc7af708511eeea0bc |
#!/usr/bin/env python
# Copyright 2014-2019 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/prop/magnetizability/rhf.py | Python | apache-2.0 | 10,881 | [
"PySCF"
] | 86704efbccfd3d8c24453ea3667602f99ce381b411ae774596b6a67030331cc7 |
"""
A program to solve the 3D Nonlinear Schrodinger equation using a
second order splitting method
More information on visualization can be found on the Mayavi
website, in particular:
http://github.enthought.com/mayavi/mayavi/mlab.html
which was last checked on 6 April 2012
"""
import math
import numpy
from mayavi ... | openmichigan/PSNM | PythonPrograms/Programs/PythonCode/NLSsplitting3D.py | Python | bsd-2-clause | 4,197 | [
"Mayavi"
] | cc6414b93d272fcb9905dedc4812e7ed20037d4cb71937d79483db57c2839805 |
##
# Copyright 2009-2020 Ghent University
# Copyright 2015-2020 Stanford University
#
# This file is part of EasyBuild,
# originally created by the HPC team of Ghent University (http://ugent.be/hpc/en),
# with support of Ghent University (http://ugent.be/hpc),
# the Flemish Supercomputer Centre (VSC) (https://vscentrum... | pescobar/easybuild-easyblocks | easybuild/easyblocks/v/vmd.py | Python | gpl-2.0 | 9,894 | [
"LAMMPS",
"NAMD",
"NetCDF",
"VMD"
] | 9cfdd2aff47fd0ff0eef9be33881bd60cb788c6ce538385d226dcb09a5bf28a0 |
import numpy as np
from sklearn.model_selection import KFold
from sklearn.tree import DecisionTreeRegressor
def get_features_targets(data):
features = np.zeros((data.shape[0], 4)) #n lines, 4 columns
features[:,0] = data['u'] - data['g']
features[:,1] = data['g'] - data['r']
features[:,2] = data['r'] - data['i... | lokijota/datadrivenastronomymooc | wk5/optional/QSO_and_Galaxy.py | Python | mit | 2,471 | [
"Galaxy"
] | 19870f77bf217d68c83a75eade6c3ac5b13eb7c45da85dbe2b79739e6d8e4de8 |
#!/usr/bin/python
# Copyright (C) 2014 Brian J. Stucky
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# This progr... | mengqvist/DNApy | src/external/abi.py | Python | gpl-3.0 | 22,898 | [
"Brian"
] | d6672342ea1a9a62dbdf25ea849ecd76b62b1bd947931d0235c64f403b0592f9 |
from umibukela.importer.mavc import cycle1_2
"""
_ _ ______ _ _______ _ _
| | | | ____| /\ | | |__ __| | | |
| |__| | |__ / \ | | | | | |__| |
| __ | __| / /\ \ | | | | | __ |
| | | | |____ / ____ \| |____| | | | | |
|_| |_|______/_/ \_\______|_| |_| |_|
... | Code4SA/umibukela | umibukela/importer/mavc/cycle1_2_health.py | Python | mit | 10,951 | [
"VisIt"
] | 0884c2e75b2679b2d2b0b920fcfc7145b265e49bcb168ec92b2e7f391fa0e4e4 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# Copyright 2013 The Plaso Project Authors.
# Please see the AUTHORS file for details on individual 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 L... | cvandeplas/plaso | plaso/formatters/safari.py | Python | apache-2.0 | 1,127 | [
"VisIt"
] | aeef989077de121018cb02add784b17873da9d4ae13600641a391c3a03a7dee6 |
# -*- coding: latin1 -*-
from __future__ import print_function
"""
.. currentmodule:: pylayers.antprop.rays
.. autosummary::
:members:
"""
import doctest
import os
import glob
try:
from tvtk.api import tvtk
from mayavi.sources.vtk_data_source import VTKDataSource
from mayavi import mlab
except:
p... | dialounke/pylayers | pylayers/antprop/rays.py | Python | mit | 132,068 | [
"Mayavi"
] | cf88779bf62cc303f70d7cf7d8d4e8d7741756ab86df12ee265fd1e1293ad4f4 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
# Copyright: (c) 2014, Brian Coca <briancoca+ansible@gmail.com>
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
from __future__ import absolute_import, division, print_function
__metaclass__ = type
ANSIBLE_METADATA = {'metadata_ve... | Shaps/ansible | lib/ansible/modules/system/debconf.py | Python | gpl-3.0 | 5,675 | [
"Brian"
] | 2d55a6742a79cc7cf2711c694adf342e1b3323182e7068d26fa208a61a5bf90c |
#!/usr/bin/python
import os
import sys
### Requires MPV to be installed, use - sudo apt install mpv
#default user settings
time_skip = 1 #when making timelapse uses every Nth frame so 4 is 4x faster
darksize =50000 #all smaller files are removed assumed to be useless 50-75000 is a good value
infps = 10 #10 i... | Pragmatismo/TimelapsePi-EasyControl | timelapse_assemble.py | Python | gpl-2.0 | 7,794 | [
"VisIt"
] | f9955b000a29f3d4bc339104790db4c0c3435a74f6189d149d6a6ac05d0fb2d0 |
import numpy as np
from scipy._lib._util import check_random_state
def rvs_ratio_uniforms(pdf, umax, vmin, vmax, size=1, c=0, random_state=None):
"""
Generate random samples from a probability density function using the
ratio-of-uniforms method.
Parameters
----------
pdf : callable
A ... | person142/scipy | scipy/stats/_rvs_sampling.py | Python | bsd-3-clause | 7,096 | [
"Gaussian"
] | 2275875fdf5aca513d73cb74a6eace4d7cfd5c485a1f2876add0d0cfd5b7a9f1 |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2022 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of Psi4.
#
# Psi4 is free software; you can redistribute it and/or modify
#... | susilehtola/psi4 | psi4/driver/procrouting/wrappers_cfour.py | Python | lgpl-3.0 | 36,345 | [
"CFOUR",
"Psi4"
] | d44481e003a8eb36d0c5f91ae09156a09fc2a803c07322352282e6bb16f57720 |
#-*- encoding: utf-8 -*-
# Copyright (C) 2013-2014 Alexander Weigl, Nicolai Schoch
#
# 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 la... | CognitionGuidedSurgery/restflow | restflow/resultfunc.py | Python | gpl-3.0 | 2,286 | [
"VTK"
] | e72e474062a5058df860195a3ce553f5bb9af5b7b781c2e70b30e59e3dae89b2 |
#!/usr/bin/env python
from DIRAC import S_OK
from DIRAC.Core.Base import Script
__RCSID__ = "$Id$"
Script.setUsageMessage( """
Get status of the available Storage Elements
Usage:
%s [<options>]
""" % Script.scriptName )
vo = None
def setVO( arg ):
global vo
vo = arg
return S_OK()
allVOsFlag = False
def se... | andresailer/DIRAC | DataManagementSystem/scripts/dirac-dms-show-se-status.py | Python | gpl-3.0 | 2,691 | [
"DIRAC"
] | 9a95a6e07b527dc3caa2c314bbd93d7a7cc2c0d4787fe8959a98f611f466da19 |
# BEGIN_COPYRIGHT
#
# Copyright (C) 2014 CRS4.
#
# This file is part of blast-python.
#
# blast-python 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)
# ... | crs4/blast-python | test/test_blaster.py | Python | gpl-3.0 | 23,119 | [
"BLAST"
] | 5121535dc3df6fe623765c520b26c66f86dc5cd7ccbf5a164e23c62691deae0c |
#
# Copyright (c) 2013, 2017, Oracle and/or its affiliates. All rights reserved.
# DO NOT ALTER OR REMOVE COPYRIGHT NOTICES OR THIS FILE HEADER.
#
# This code is free software; you can redistribute it and/or modify it
# under the terms of the GNU General Public License version 2 only, as
# published by the Free Softwar... | akunft/fastr | mx.fastr/mx_fastr.py | Python | gpl-2.0 | 21,978 | [
"VisIt"
] | d869487a70b834966104bff8aee4414a99ad2d516f7d34447e6201b553296a1b |
"""
N.B. this is a v2 of the distortions_corrector started in Dec 2017 -MAR
This file contains the Distortions_corrector.
An object used to correct distortions using an interactive procedure
involving repeated measurements.
"""
from qcodes.instrument.base import Instrument
from qcodes.instrument.parameter import Man... | DiCarloLab-Delft/PycQED_py3 | pycqed/instrument_drivers/meta_instrument/distortions_corrector_v2.py | Python | mit | 37,317 | [
"DIRAC"
] | 8e8139f3dd10fd5c8a44cdde83dd02cd49981cc4bf06e4cce3fb06bcf0c1e4d6 |
from ase.lattice.spacegroup import crystal
a = 5.64
nacl = crystal(['Na', 'Cl'], [(0, 0, 0), (0.5, 0.5, 0.5)], spacegroup=225,
cellpar=[a, a, a, 90, 90, 90])
| grhawk/ASE | tools/doc/tutorials/spacegroup/spacegroup-nacl.py | Python | gpl-2.0 | 174 | [
"ASE",
"CRYSTAL"
] | 7e5c30c7f8b3b7c9b7eeaa1683c6da0ceb11540f23cdcd7004c6274528193c3c |
#!/usr/bin/env python
import vtk
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
# This little example shows how a cursor can be created in
# image viewers, and renderers.
# Global values
CURSOR_X = 20
CURSOR_Y = 20
CURSOR_Z = 20
IMAGE_MAG_X = 4
IMAGE_MAG_Y = 4
IMAGE_MAG_Z = 1
# Pipeline... | sumedhasingla/VTK | Rendering/Volume/Testing/Python/cursor3D.py | Python | bsd-3-clause | 2,900 | [
"VTK"
] | cadc030e2a23af3cb580dfeda5c9a76a35e4fe7ff592c6f582ad299258a5e975 |
# -*- coding: utf-8 -*-
import pytest
from django.core.urlresolvers import reverse
pytestmark = pytest.mark.django_db
global_footer_links = [
'About',
'Developers',
'Privacy',
'Report an issue',
]
def assert_title_and_links_on_page(browser, url, title, links_text):
browser.visit(url)
assert... | fossevents/fossevents.in | tests/frontend/test_page_contents.py | Python | mit | 851 | [
"VisIt"
] | 338c27f850027a099cb2f2ccee873103000467b516ee06f85ca4ae3b48c3886e |
# pylint: disable=missing-docstring
import datetime
import os
import pytz
from django.conf import settings
from mock import patch
from pytz import UTC
from splinter.exceptions import ElementDoesNotExist
from selenium.common.exceptions import NoAlertPresentException
from nose.tools import assert_true, assert_equal, asse... | Semi-global/edx-platform | lms/djangoapps/courseware/features/lti.py | Python | agpl-3.0 | 14,199 | [
"VisIt"
] | 40dc06a5134cd3885f933f94fd95fb98ffa8e8495bdbd364f20d59f887b95a29 |
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