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# Orca
#
# Copyright 2005-2008 Sun Microsystems Inc.
#
# This library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free Software Foundation; either
# version 2.1 of the License, or (at your option) any later version.
#
# This... | ruibarreira/linuxtrail | usr/lib/python3/dist-packages/orca/scripts/toolkits/Gecko/structural_navigation.py | Python | gpl-3.0 | 10,893 | [
"ORCA"
] | 4f12c89af40197d2df09496c572f2d514c1e34a48bb8290075846b079ac261ca |
"""Module collecting functions dealing with the GLUE2 information schema
:author: A.Sailer
Known problems:
* ARC CEs do not seem to publish wall or CPU time per queue anywhere
* There is no consistency between which memory information is provided where,
execution environment vs. information for a share
* Some ... | yujikato/DIRAC | src/DIRAC/Core/Utilities/Glue2.py | Python | gpl-3.0 | 14,902 | [
"DIRAC"
] | fa6da492228f5dfe2fe8aaa5c3ac7538fc3bf9f3fac8cff88e3237034ed495ab |
# -*- coding: utf-8 -*-
# Copyright (c) 2006-2016 LOGILAB S.A. (Paris, FRANCE) <contact@logilab.fr>
# Copyright (c) 2010 Maarten ter Huurne <maarten@treewalker.org>
# Copyright (c) 2012-2014 Google, Inc.
# Copyright (c) 2012 FELD Boris <lothiraldan@gmail.com>
# Copyright (c) 2013-2018 Claudiu Popa <pcmanticore@gmail.co... | ekwoodrich/python-dvrip | env/lib/python3.5/site-packages/pylint/checkers/classes.py | Python | mit | 65,760 | [
"VisIt"
] | 54104b80fc2cbf26eba0bd9c612984e0a00b18a690c89cb55d866e3b3847b874 |
# ============================================================================
#
# Copyright (C) 2007-2010 Conceptive Engineering bvba. All rights reserved.
# www.conceptive.be / project-camelot@conceptive.be
#
# This file is part of the Camelot Library.
#
# This file may be used under the terms of the GNU General... | kurtraschke/camelot | camelot/empty_project/model.py | Python | gpl-2.0 | 1,178 | [
"VisIt"
] | ba887679a2853520b3b465f374ade715e180ac3055be5834c4bb2f4dac42f3b2 |
# -*- coding: utf-8 -*-
"""
Based on code by oemof development team
This module provides a highlevel layer for reading and writing config files.
There must be a file called "config.ini" in the root-folder of the project.
The file has to be of the following structure to be imported correctly.
# this is a comment \n
# t... | openego/ego.io | egoio/tools/config.py | Python | agpl-3.0 | 2,381 | [
"NetCDF"
] | 5d0afb78f29a501ef76d53f1d433287c2a4822320e3fedd449a5aea60efafc9a |
# -*- coding: utf-8 -*-
"""
End-to-end tests for the main LMS Dashboard (aka, Student Dashboard).
"""
import six
from common.test.acceptance.fixtures.course import CourseFixture, XBlockFixtureDesc
from common.test.acceptance.pages.common.auto_auth import AutoAuthPage
from common.test.acceptance.pages.lms.dashboard im... | msegado/edx-platform | common/test/acceptance/tests/lms/test_lms_dashboard.py | Python | agpl-3.0 | 5,727 | [
"VisIt"
] | af1ba9d1af3b9c055565a0b7eed28b047d95291619955feaadf70cf7639297a6 |
import pandas as pd
import os,sys
import numpy as np
import argparse
from RASLseqAligner import *
class RASLseqAnalysis_obj_heur(object):
'''
This class creates a pandas DataFrame for RASLseq fastq sequences.
Attributes of this class annotate RASLseq fastq sequences.
The get_attributes ... | SuLab/RASLseqAligner | src/RASLseqAnalysis.py | Python | mit | 9,381 | [
"BLAST"
] | 438f29df00a1a2a75ab71016267f8c1aac0407d1df245e28d376418a1ad10b39 |
"""
=======================================
Robust vs Empirical covariance estimate
=======================================
The usual covariance maximum likelihood estimate is very sensitive to
the presence of outliers in the data set. In such a case, one would
have better to use a robust estimator of covariance to ga... | florian-f/sklearn | examples/covariance/plot_robust_vs_empirical_covariance.py | Python | bsd-3-clause | 5,859 | [
"Gaussian"
] | 0c2b8ceecf5b318fd56d2d3c962af8d69eaa7ff368cb2c2b3f46efccd9471432 |
import rose.upgrade
class vn40_vn41(rose.upgrade.MacroUpgrade):
"""Version bump macro"""
BEFORE_TAG = "vn4.0"
AFTER_TAG = "vn4.1"
def upgrade(self, config, meta_config=None):
# Nothing to do
return config, self.reports
class vn41_vn42(rose.upgrade.MacroUpgrade):
"""Vers... | braghiere/JULESv4.6_clump | rose-meta/jules-fcm-make/versions.py | Python | gpl-2.0 | 3,548 | [
"NetCDF"
] | e68d19f737f380162b2221a8f7a9d86a2a7039a4b067c2a2ad64042c11fae1aa |
#
# Copyright 2018 Analytics Zoo Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to... | intel-analytics/analytics-zoo | pyzoo/test/zoo/chronos/data/experimental/test_xshardstsdataset.py | Python | apache-2.0 | 8,398 | [
"ORCA"
] | ebbef1e0ac046d9c24aee32cae8d1b8566072e2e9391c6cd1c8cc6fd32323504 |
import cgi
import os
import os.path
import sys
import sha
import pgdb
import cStringIO
class http_response(object):
def __init__(self, environ, start_response):
self.buffer = cStringIO.StringIO()
self.environ = environ
self.start_response = start_response
self.status = '200 OK'
self.headers = [('Content-Ty... | barneydesmond/qqc | qqc_report.py | Python | mit | 15,399 | [
"Desmond"
] | 3aff7d934f21d34188b3689981ea310b47b65544c5b4adfa1ce2e7f5413bc207 |
# Copyright (c) 2012, James Hensman
# Licensed under the BSD 3-clause license (see LICENSE.txt)
import numpy as np
from ..core.sparse_gp_mpi import SparseGP_MPI
from .. import likelihoods
from .. import kern
from ..inference.latent_function_inference import VarDTC
from GPy.core.parameterization.variational import Nor... | mikecroucher/GPy | GPy/models/sparse_gp_regression.py | Python | bsd-3-clause | 2,607 | [
"Gaussian"
] | 3cdeb430aaf3f855ce2bbe6e1dff0c8652bad332ba01d6e03246b6c618478735 |
#-----------------------------------------------------------------------------
# Copyright (c) 2012 - 2018, Anaconda, Inc. All rights reserved.
#
# Powered by the Bokeh Development Team.
#
# The full license is in the file LICENSE.txt, distributed with this software.
#---------------------------------------------------... | mindriot101/bokeh | bokeh/__init__.py | Python | bsd-3-clause | 3,530 | [
"VisIt"
] | 82211d88fc0371f5051a2cf2882ab02632c3aacf4ef7147eb0f5df6c8e85bad1 |
from __future__ import absolute_import
# emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
# vi: set ft=python sts=4 ts=4 sw=4 et:
import numpy as np
from .transform import Transform
from .affine import apply_affine
from ._registration import _apply_polyaffine
TINY_SIGMA = 1e-200
class PolyAff... | alexis-roche/nipy | nipy/algorithms/registration/polyaffine.py | Python | bsd-3-clause | 3,773 | [
"Gaussian"
] | 88b0de6fdfa756a4f5d0e6ccc1ce63275dfbd8310b05bda606ae81a92dc31555 |
# Licensed to the Apache Software Foundation (ASF) under one
# or more contributor license agreements. See the NOTICE file
# distributed with this work for additional information
# regarding copyright ownership. The ASF licenses this file
# to you under the Apache License, Version 2.0 (the
# "License"); you may not u... | yajiedesign/mxnet | tests/python/unittest/test_gluon_probability_v1.py | Python | apache-2.0 | 97,908 | [
"Gaussian"
] | f21d1b35ca962a75852b8c461b7b6e84e1102548ae8a921c984c1c5e2b51b49e |
# Copyright 2012 Jose Blanca, Peio Ziarsolo, COMAV-Univ. Politecnica Valencia
# This file is part of ngs_crumbs.
# ngs_crumbs 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, ... | JoseBlanca/ngs_crumbs | test/bam/test_bam_tools.py | Python | gpl-3.0 | 8,763 | [
"pysam"
] | 8d688be0e1a86cea507e0cf60603a7032791e9828af97e870f877814f62c8385 |
#
# Copyright (c) 2017 nexB Inc. and others. All rights reserved.
# http://nexb.com and https://github.com/nexB/scancode-toolkit/
# The ScanCode software is licensed under the Apache License version 2.0.
# Data generated with ScanCode require an acknowledgment.
# ScanCode is a trademark of nexB Inc.
#
# You may not use... | yashdsaraf/scancode-toolkit | src/commoncode/hash.py | Python | apache-2.0 | 5,715 | [
"VisIt"
] | d165390d9b6716efa8f37911d931ae95705bb66af2452be309bce42c7989a74c |
import sys
import os
import yaml
import argparse
import subprocess
import pdb
import datetime
import compute, plots
"""
crosscorr:
This module is used to compute cross-correlation
redshifts for sets of galaxies.
"""
def process_configuration(filename):
with open(filename, 'r') as f:
config = yaml.load... | redshiftzero/crosscorr | crosscorr/run.py | Python | mit | 1,291 | [
"Galaxy"
] | e9bc6aae62de26a37fb9459d2eb2ef7e55190c9ac2db3c9ea76d9e52dc0293e4 |
import numpy
import os
import pandas
import six
import sys
import time
from io import StringIO
from svviz import app
class MockArgs(object):
def __getattr__(self, attr):
return None
def run(genome, vcfs, bams, previousSummaryPath):
timings = {}
summaries = pandas.DataFrame()
totalTime = 0
... | svviz/svviz | src/svviz/testCounts.py | Python | mit | 2,475 | [
"BWA"
] | c2f9aa1a9b8509d37e265f576c4804929df4f72c033483fe2647f1480045a39b |
# define your own custom voltage reset rule
# this one linearly scales the input voltage
def custom_voltage_reset_rule(neuron, voltage_t0, custom_param_a, custom_param_b):
return custom_param_a * voltage_t0 + custom_param_b
# initialize a neuron from a neuron config file
neuron_config = json_utilities.read('47242... | wvangeit/AllenSDK | doc_template/examples/glif_ex6.py | Python | gpl-3.0 | 677 | [
"NEURON"
] | 1414dc9af6ae6efaebfc4573c4dbf2f7cd24e5b08e682c715a9a7cef24f5d138 |
"""Leave one out coding"""
import numpy as np
import pandas as pd
from sklearn.base import BaseEstimator
import category_encoders.utils as util
from sklearn.utils.random import check_random_state
__author__ = 'hbghhy'
class LeaveOneOutEncoder(BaseEstimator, util.TransformerWithTargetMixin):
"""Leave one out codi... | scikit-learn-contrib/categorical-encoding | category_encoders/leave_one_out.py | Python | bsd-3-clause | 11,063 | [
"Gaussian"
] | f209bc773e889e3bf7a5bc6a6dcf73471a768285b3b14cfbea479851f0df7218 |
# -*- coding: utf-8 -*-
import math
import pytest
from chempy import Reaction, ReactionSystem, Substance
from chempy.chemistry import Equilibrium
from chempy.units import (
allclose,
Backend,
to_unitless,
units_library,
patched_numpy,
default_constants,
simplified,
default_units as u,... | bjodah/aqchem | chempy/kinetics/tests/test_rates.py | Python | bsd-2-clause | 15,162 | [
"ChemPy"
] | 2ec3cdf8e2f85e2e427881706aaa484fb19864c78e79d413f69105be9672d01b |
########################################################################
# $Id$
# File : InProcessComputingElement.py
# Author : Stuart Paterson
########################################################################
""" The simplest Computing Element instance that submits jobs locally.
"""
__RCSID__ = "$Id$"
fro... | Sbalbp/DIRAC | Resources/Computing/InProcessComputingElement.py | Python | gpl-3.0 | 4,456 | [
"DIRAC"
] | c0f10dcfed41ee6d8f1b4f5136e9d5029444ac390905314a24021b8f2420e90f |
# this program corresponds to special.py
### Means test is not done yet
# E Means test is giving error (E)
# F Means test is failing (F)
# EF Means test is giving error and Failing
#! Means test is segfaulting
# 8 Means test runs forever
### test_besselpoly
### test_mathieu_a
### test_mathieu_even_coef
##... | matthewalbani/scipy | scipy/special/tests/test_basic.py | Python | bsd-3-clause | 132,169 | [
"Elk"
] | 63be91bbaf35b1effc58812db515dfff6b858065c2bcca4d621055e1535d2357 |
#!/usr/bin/env python
"""
Extract outline edges of a given mesh and save them into
'<original path>/edge_<original mesh file name>.vtk'
or into a user defined output file.
The outline edge is an edge for which norm(nvec1 - nvec2) < eps,
where nvec1 and nvec2 are the normal vectors of the incident facets.
"""
from __fut... | sfepy/sfepy | script/extract_edges.py | Python | bsd-3-clause | 7,359 | [
"VTK"
] | c86eb2035a032144b6fd3ccee590f8ec5d3550d6c06aa10f22d47a93fb87f430 |
from setuptools import setup, find_packages
from glob import glob
import bio_bits
setup(
name = bio_bits.__projectname__,
version = bio_bits.__release__,
packages = find_packages(),
author = bio_bits.__authors__,
author_email = bio_bits.__authoremails__,
description = bio_bits.__description__,... | VDBWRAIR/bio_bits | setup.py | Python | gpl-2.0 | 1,712 | [
"Biopython"
] | 5bf063fccf2272ee9530825ae65db3c3d137529109dd78af0458a295d264f2f4 |
#!/usr/bin/env python
## @package fill_missing
# \brief This script solves the Laplace equation as a method of filling holes in map-plane data.
#
# \details The script is an implementation of the SOR method with Chebyshev
# acceleration for the Laplace equation, as described in 'Numerical Recipes in
# Fortran: the art... | m8se/pism_refined | util/fill_missing.py | Python | gpl-2.0 | 13,675 | [
"NetCDF"
] | b186a32f6a4d8902f942c1ee9687f88c5ebcca1715cda1d3b22e23e962b9ba02 |
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at your option) any later version.
#
# This program is distributed in the hope that it will be usefu... | dbbhattacharya/kitsune | vendor/packages/logilab-astng/utils.py | Python | bsd-3-clause | 11,560 | [
"VisIt"
] | f28127a332bc29b4e198180b1a4c3a2f62f765226d184643877e00fa8456bdac |
# -*- coding:utf-8 -*-
# Copyright (c) 2015, Galaxy Authors. All Rights Reserved
# Use of this source code is governed by a BSD-style license that can be
# found in the LICENSE file.
#
# Author: wangtaize@baidu.com
# Date: 2015-04-01
from bootstrap import settings
from common import http
from galaxy import wrapper
SHO... | leoYY/galaxy | console/backend/src/console/cluster/views.py | Python | bsd-3-clause | 2,618 | [
"Galaxy"
] | a4fae175dc5672ae850a29e71e0b72323020f363462d63688db885f0a0764a63 |
#!/usr/bin/python
#
##########################################################################
#
# This file is part of OCEMR.
#
# OCEMR 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 versi... | ph1l/ocemr | util/update_visit.py | Python | gpl-3.0 | 2,256 | [
"VisIt"
] | cb394844288c8e3b5a50f0a3838445fb3818e4f5d25d1f7e0b12fe642bdcba47 |
#!/usr/bin/python
'''
Use this in the same way as Python's SimpleHTTPServer:
./ssi_server.py [port]
The only difference is that, for files ending in '.html', ssi_server will
inline SSI (Server Side Includes) of the form:
<!-- #include virtual="fragment.html" -->
Run ./ssi_server.py in this directory and visit l... | Extentsoftware/Quest | src/Quest.WebCore/node_modules/dygraphs/docs/ssi_server.py | Python | agpl-3.0 | 1,938 | [
"VisIt"
] | fc412ac62419a6a3cb54db49b25ba4f119f78e504a2e1d59e6e5e3a96df882da |
# Noysim -- Noise simulation tools for Aimsun.
# Copyright (c) 2010-2011 by Bert De Coensel, Ghent University & Griffith University.
#
# Numeric and random number generation methods and functions
import math
import numpy
import scipy.special
import scipy.stats
import pylab
#----------------------------... | bertdecoensel/noysim | noysim/numeric.py | Python | mit | 8,991 | [
"Gaussian"
] | 98b637d3a08593f1c3c59236bf199b34f22fbe69064859dacfef36431674ddae |
# Author: Prabhu Ramachandran <prabhu [at] aero . iitb . ac . in>
# Copyright (c) 2008, Enthought, Inc.
# License: BSD Style.
# Enthought library imports.
from traits.api import Instance, List, Str, Bool
from traitsui.api import View, Group, Item
from tvtk.api import tvtk
from tvtk.common import is_old_pipeline
# Lo... | dmsurti/mayavi | mayavi/filters/set_active_attribute.py | Python | bsd-3-clause | 8,920 | [
"Mayavi",
"VTK"
] | 6192254ccd62e823a6ceff3ae9068f3be383053cd1db31a1768d53acfb26734d |
def makeRunBWAScript(fastqFileListFileName, saiFileListFileName, outputFilePath, referenceGenomeFileName, outputFileNameSuffix, scriptFileName):
# Make a script that will run bwa sampe for paired-end sequencing data
# ASSUMES THAT, IN THE FILE WITH NAME fastqFileListFileName and saiFileListFileName, ALL PAIRS ARE LIS... | imk1/IMKTFBindingCode | makeRunBWAScript.py | Python | mit | 1,904 | [
"BWA"
] | 21082b22f2fe6050f9aac9fd509c6c4059925502f84551be98e01e9c9b8d3de6 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Created on Tue Nov 1 18:09:05 2016
@author: Stein
"""
# this routine finds the brightest and darkest spots in an image
# a radius has to be provided and must be and odd number
# Import libraries
import cv2
import argparse
import os.path
print("\n")
print("********... | steincastillo/img_utils | bright_spot.py | Python | gpl-3.0 | 2,395 | [
"Gaussian"
] | 531538377ec274be5174480e0dd86613cf60c9164e2d1ec7089b5a8af6e5e66c |
"""
This script is used to design the design matrix for our linear regression.
We explore the influence of linear and quadratic drifts on the model
performance.
Script for the filtered data.
Run with:
python noise-pca_filtered_script.py
from this directory
"""
from __future__ import print_function, division
im... | berkeley-stat159/project-epsilon | code/utils/scripts/noise-pca_filtered_script.py | Python | bsd-3-clause | 14,799 | [
"Gaussian"
] | 4f80a318c8f0b6e933f5a87ef9897823b1808859aab405d86794b86c491c2bdf |
import unittest
import numpy as np
import scipy.misc
import scipy.stats
import tensorflow as tf
import autogp
from autogp import kernels
from autogp import likelihoods
SIG_FIGS = 5
class TestGaussianProcess(unittest.TestCase):
@classmethod
def setUpClass(cls):
# We expect the child class to instan... | VirgiAgl/V_AutoGP | test/gaussian_process_test.py | Python | apache-2.0 | 22,183 | [
"Gaussian"
] | f37d11de441b332f2bf9071f744ae26bc55d0ef1b7ab2d994b4906044e214257 |
"""
Deprecated v1 API client. To be removed once v2 is at parity with v1.
"""
from __future__ import absolute_import
import base64
import re
import os
import six
import sys
import urllib
import warnings
if six.PY3:
from io import StringIO
basestring = str
url_path_quote = urllib.parse.quote
else:
fro... | ewjoachim/dropbox-sdk-python | dropbox/client.py | Python | mit | 67,971 | [
"VisIt"
] | 64bb2d720ef0c3702df977d1379e7940933aaac4af4360d72ce7aa3d61e6893d |
from builtins import range
BOARDS = {
'arduino' : {
'digital' : tuple(x for x in range(14)),
'analog' : tuple(x for x in range(6)),
'pwm' : (3, 5, 6, 9, 10, 11),
'use_ports' : True,
'disabled' : (0, 1) # Rx, Tx, Crystal
},
'arduino_mega' : {
'digital' : tuple(... | jochasinga/pluto | pluto/boards.py | Python | mit | 1,726 | [
"CRYSTAL"
] | a63ddd4617767cae16f955d6b752487d4eafa90493cda5b7aa3abab07538f3bb |
#!/usr/bin/env python3
# -*- encoding: utf-8 -*-
""" a text adventure game
"""
import sys
from random import randint, random
from random import choice as randchoice
from collections import defaultdict
from copy import copy
from utils import Loop, Container, TextInput, first, sjoin, nl, space
from board import Stacka... | pythonbyexample/PBE | chapter01/adv.py | Python | bsd-3-clause | 7,574 | [
"CRYSTAL"
] | 6e51e4d38cbad0d1a43e178a0e465e4b3c18482218a619502aa8c8653234044d |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2012 Async Open Source <http://www.async.com.br>
## All rights reserved
##
## 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 Foundati... | andrebellafronte/stoq | stoq/gui/test/test_main.py | Python | gpl-2.0 | 4,112 | [
"VisIt"
] | 1fb45ea86d580331c7b7a4a82462cb3f7674abf89f27cb5352b76bfcaf575486 |
# Authors: Alexandre Gramfort <alexandre.gramfort@telecom-paristech.fr>
# Daniel Strohmeier <daniel.strohmeier@tu-ilmenau.de>
# Martin Luessi <mluessi@nmr.mgh.harvard.edu>
#
# License: BSD (3-clause)
import copy
import warnings
import numpy as np
from ..io.pick import pick_channels_cov
from ..forwar... | nicproulx/mne-python | mne/simulation/evoked.py | Python | bsd-3-clause | 5,502 | [
"Gaussian"
] | be10c10d21d4754ce650f6e0aa73f1be47f1a38f3ab9db6a07b0e8d141f43fd9 |
# -*- coding: utf-8 -*-
# Copyright 2014-2018 Nate Bogdanowicz
"""
Driver module for Tektronix function generators. Currently supports:
* AFG 3000 series
"""
import numpy as np
from . import FunctionGenerator
from .. import VisaMixin, MessageFacet
from ... import u, Q_
_INST_PARAMS = ['visa_address']
_INST_VISA_INFO ... | mabuchilab/Instrumental | instrumental/drivers/funcgenerators/tektronix.py | Python | gpl-3.0 | 26,889 | [
"Gaussian"
] | cf5fdff344d000e770b06e60dda3fc033061c79ab6dbfe8d576add730f90a83d |
# Orca
#
# Copyright 2004-2009 Sun Microsystems Inc.
# Copyright 2010-2011 The Orca Team
# Copyright 2012 Igalia, S.L.
#
# This library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free Software Foundation; either
# version 2... | ruibarreira/linuxtrail | usr/lib/python3/dist-packages/orca/orca.py | Python | gpl-3.0 | 26,903 | [
"ORCA"
] | 88ba2cbeba56c82672c877344745dfc6c66697a4fa8f0744d2a4fe0ddca67579 |
### this code was copied from http://stackoverflow.com/questions/39051451/ssim-ms-ssim-for-tensorflow
### and veryfied with the code in http://mubeta06.github.io/python/sp/_modules/sp/ssim.html
###
###
import tensorflow as tf
import numpy as np
def fspecial_gauss(size, sigma):
"""Function to mimic the 'fspecial'... | elaeon/ML | src/dama/utils/tf_functions.py | Python | apache-2.0 | 6,304 | [
"Gaussian"
] | 6788768cd05f67544869685d5f408d1052abd8b8800a176029b0a2031ddb4684 |
##############################################################################
# MDTraj: A Python Library for Loading, Saving, and Manipulating
# Molecular Dynamics Trajectories.
# Copyright 2012-2013 Stanford University and the Authors
#
# Authors: Robert McGibbon
# Contributors:
#
# MDTraj is free software: y... | kyleabeauchamp/mdtraj | mdtraj/formats/mdcrd.py | Python | lgpl-2.1 | 17,180 | [
"Amber",
"MDTraj"
] | af993b19607b21bcbcbe5f0fc508d0f4504bbf3fbdae6302283db3deca9a69f0 |
#!/usr/bin/env python
# -*- coding: utf8 -*-
# *****************************************************************
# ** PTS -- Python Toolkit for working with SKIRT **
# ** © Astronomical Observatory, Ghent University **
# *****************************************************************
##... | SKIRT/PTS | magic/core/cutout.py | Python | agpl-3.0 | 33,132 | [
"Gaussian"
] | 877cf6ea09135a778ad604c57474409a2fb14c94e0084ebb86b52c5caf16931c |
# coding: utf-8
from base64 import b64decode
from lastpass.account import Account
TEST_CHUNK_IDS = [
b'LPAV', b'ATVR', b'ENCU', b'CBCU', b'BBTE', b'IPTE', b'WMTE', b'ANTE', b'DOTE', b'FETE', b'FUTE',
b'SYTE', b'WOTE', b'TATE', b'WPTE', b'SPMT', b'NMAC', b'ACCT', b'EQDN', b'URUL', b'ENDM',
]
TEST_BLOB = b64dec... | konomae/lastpass-python | tests/test_data.py | Python | mit | 77,839 | [
"COLUMBUS"
] | 46755638bc0f5ebd00d27ab9ae57bc0781fa604be5d70193322911558c21622e |
#!/usr/bin/env python
# Copyright (c) Jonas Steinmann, 2010-2013
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License version 2 as
# published by the Free Software Foundation.
#
# You should have received a copy of the GNU General Public Licen... | steinmann/peakzilla | peakzilla.py | Python | gpl-2.0 | 28,458 | [
"Gaussian"
] | 21ebf6f2f56d5d8f0f1aae9acb6feb95845e62dcb9f0016799af0cda98b351d3 |
import os
import antlr4
from cleo.styles import OutputStyle
from sdoc.antlr.sdoc1Lexer import sdoc1Lexer
from sdoc.antlr.sdoc1Parser import sdoc1Parser
from sdoc.sdoc1.SDoc1Visitor import SDoc1Visitor
class SDoc1Interpreter:
"""
Class for processing SDoc1 documents.
"""
# --------------------------... | SDoc/py-sdoc | sdoc/sdoc1/SDoc1Interpreter.py | Python | mit | 1,640 | [
"VisIt"
] | d55a9993048d72e446a53f8a9f471099ae8347d49239e2fbad6a7f974370ec0e |
import os
import orca
import pandas as pd
from activitysim import activitysim as asim
from .util.mandatory_tour_frequency import process_mandatory_tours
"""
This model predicts the frequency of making mandatory trips (see the
alternatives above) - these trips include work and school in some combination.
"""
@orca.... | bhargavasana/activitysim | activitysim/defaults/models/mandatory_tour_frequency.py | Python | agpl-3.0 | 2,109 | [
"ORCA"
] | f88b16e356a02a5a95ab1e086c42bac794ffc8fc39ac3c933461ff5b8afbe925 |
import pytest
from .setup_transaction_tests import chain as s, tester as t, ethereum_utils as u, check_gas, \
get_contract_with_gas_estimation, get_contract, G1, G1_times_two, G1_times_three, \
curve_order, negative_G1
def test_block_number():
block_number_code = """
def block_number() -> num:
return ... | NedYork/viper | tests/test_parser.py | Python | mit | 24,491 | [
"MOOSE"
] | 4dcc1d248e92415e0a7e3f5f0fecaabc707c6c8d727d36e09d0ef89e8a3cbc9d |
#
# ----------------------------------------------------------------------------------------------------
#
# Copyright (c) 2007, 2020, 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 ... | graalvm/mx | mx_ideconfig.py | Python | gpl-2.0 | 10,365 | [
"VisIt"
] | 18cfb2c8f1bbb1b4b111fa2c58c27127202af50fe0edaa0acccd91dace05068f |
"""
Example to generate a .fit, .mod and .dat file to feed in MrMoose for
demonstration. The model consists of a single power-law and a black body
with 12 data points of which 1 is an upper limit, both from unresolved,
blended components at z=0
"""
import models as md
import numpy as np
import mm_utilities as mm
impo... | gdrouart/MrMoose | examples/example_3.py | Python | gpl-3.0 | 4,642 | [
"Gaussian"
] | d3b848c93502b493eb86b1818f74111398ce303c8b7a784ce6afdf6a9ee42f01 |
"""
@name: Modules/Computer/Bridges/_test/test_bridges.py
@author: D. Brian Kimmel
@contact: D.BrianKimmel@gmail.com
@copyright: (c) 2017-2019 by D. Brian Kimmel
@note: Created on Dec 23, 2017
@license: MIT License
@summary:
Passed all 6 tests - DBK - 2018-02-12
"""
__updated__ = '2019-12-15'
# Imp... | DBrianKimmel/PyHouse | Project/src/Modules/Computer/Bridges/_test/test_bridges.py | Python | mit | 4,079 | [
"Brian"
] | ed369f42239866b62e353e0937b7bb4d969e9a7fc30376197b3be61a6d33c348 |
#########################################################################################
# SLURM.py
# 10.11.2014
# Author: A.T.
#########################################################################################
""" SLURM.py is a DIRAC independent class representing SLURM batch system.
SLURM objects are use... | hgiemza/DIRAC | Resources/Computing/BatchSystems/SLURM.py | Python | gpl-3.0 | 6,508 | [
"DIRAC"
] | 5be7061401ac70816478d7a9ad0d16921de8827ccaa70355e7548b6acd620fdd |
import json
import logging
from datetime import date
import cmor
import netCDF4
import numpy as np
import pandas as pd
from cdo import *
# for compressed files
import gzip
import shutil
from ece2cmor3 import cmor_utils, cmor_target, cmor_task
# from cmor.Test.test_python_open_close_cmor_multiple import path
# Logg... | goord/ece2cmor3 | ece2cmor3/lpjg2cmor.py | Python | apache-2.0 | 35,969 | [
"NetCDF"
] | 3264523eb828d3d36d8d204f58fd318ff53ced8074af45dd7bf9aa2972311f1b |
#!/usr/bin/python2.4
#
# Copyright 2010 Google 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 o... | bennoleslie/pyutil | xoauth.py | Python | mit | 18,466 | [
"VisIt"
] | c99b7c9e6010e1d7af35fc6b849f795bd09b247eba96348f7fd131d2d1594b07 |
# Licensed to the Apache Software Foundation (ASF) under one or more
# contributor license agreements. See the NOTICE file distributed with
# this work for additional information regarding copyright ownership.
# The ASF licenses this file to You under the Apache License, Version 2.0
# (the "License"); you may not use ... | marcinzaremba/libcloud | libcloud/compute/providers.py | Python | apache-2.0 | 8,218 | [
"VisIt"
] | 6dc23fa2233b24fa1fa269754f92b6abca455990e0651ce6c752f22527a66007 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
import numpy as np
from scipy import odeint
import logging as log
from synergetics.config import config as cfg
from synergetics.neurons.neurons import Neuron
class AdExStochastic(Neuron):
def __init__(self, position, excitatory=True,
update_rule= None,
... | synergetics/neuron | src/neurons/LIF/AdExStochastic.py | Python | mit | 2,155 | [
"NEURON"
] | 928db155d9b6912684f0b1ce3226074670ab78687517ac57bc6b6192217a92bc |
"""
@name: Modules/House/Family/Insteon/__init__.py
@author: D. Brian Kimmel
@contact: D.BrianKimmel@gmail.com
@copyright: (c) 2010-2020 by D. Brian Kimmel
@note: Created on Apr 3, 2011
@license: MIT License
@summary: This module is for Insteon
This interfaces PyHouse to the Insteon family of produc... | DBrianKimmel/PyHouse | Project/src/Modules/House/Family/Insteon/__init__.py | Python | mit | 1,110 | [
"Brian"
] | d2bc7d206883c3453620386e58851f6bbb40490eb86305cec48cb143e5840336 |
# 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 numbers
from spack import *
def is_multiple_32(x):
"""multiple of 32 """
try:
return isinstance(... | LLNL/spack | var/spack/repos/builtin/packages/abyss/package.py | Python | lgpl-2.1 | 2,521 | [
"BWA"
] | 2074c57f1ac2d7881c92a5f97d80d40eaa093ff51ef1e75acaacfd544011c98b |
'''apport package hook for ghostscript
(c) 2009 Canonical Ltd.
Author: Brian Murray <brian@ubuntu.com>
'''
from apport.hookutils import *
def add_info(report):
attach_hardware(report)
attach_printing(report)
| Alberto-Beralix/Beralix | i386-squashfs-root/usr/share/apport/package-hooks/source_ghostscript.py | Python | gpl-3.0 | 219 | [
"Brian"
] | 018c8f5e2245ea2ec2372ae9ee557e727470a2e67bd81421255ca6a303c53c4b |
"""
Extended math utilities.
"""
# Authors: G. Varoquaux, A. Gramfort, A. Passos, O. Grisel
# License: BSD
import numpy as np
from scipy import linalg
from . import check_random_state
from . import deprecated
from .fixes import qr_economic
def norm(v):
v = np.asarray(v)
__nrm2, = linalg.get_blas_funcs(['nrm... | sgenoud/scikit-learn | sklearn/utils/extmath.py | Python | bsd-3-clause | 9,303 | [
"Gaussian"
] | d625429854c062b7820f969ecc182e6e96de8f93bbeac421ea3cda73b457f0a4 |
"""
Instructor Dashboard Views
"""
import logging
import datetime
from opaque_keys import InvalidKeyError
from opaque_keys.edx.keys import CourseKey
import uuid
import pytz
from django.contrib.auth.decorators import login_required
from django.views.decorators.http import require_POST
from django.utils.translation imp... | synergeticsedx/deployment-wipro | lms/djangoapps/instructor/views/instructor_dashboard.py | Python | agpl-3.0 | 32,070 | [
"VisIt"
] | 961cb7ff91dccbe6a752703a2c1b364a6a0436407ef7e128f8ede71b7f6ecfcf |
import ast
from unittest import TestCase
from darglint.analysis.assert_visitor import AssertVisitor
from .utils import reindent
class AssertVisitorTests(TestCase):
def assertFound(self, program, n=0):
tree = ast.parse(reindent(program))
visitor = AssertVisitor()
visitor.visit(tree)
... | terrencepreilly/darglint | tests/test_assert_visitor.py | Python | mit | 1,424 | [
"VisIt"
] | fcc55c9946b15618922286575e213fb3e9cd6b15cd5a0df97dff533bacc6c324 |
# Copyright (C) 2019 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later versio... | KaiSzuttor/espresso | testsuite/python/linear_momentum.py | Python | gpl-3.0 | 1,406 | [
"ESPResSo"
] | e1b8847de5b4b4670ca6e94eaf76b25f451e2082026be49817aa7c2ebe1d8e93 |
'''
synbiochem (c) University of Manchester 2015
synbiochem is licensed under the MIT License.
To view a copy of this license, visit <http://opensource.org/licenses/MIT/>.
@author: neilswainston
'''
# pylint: disable=no-member
# pylint: disable=redundant-unittest-assert
# pylint: disable=too-many-public-methods
imp... | synbiochem/synbiochem-py | synbiochem/utils/test/test_ice_utils.py | Python | mit | 12,120 | [
"VisIt"
] | 4e13aa9cb96404a8801e66f5eca6678c1a5a4fb807d5d322391eb3cd5588ce50 |
#!/usr/bin/env python
# -*- coding: UTF-8 -*-
import sys
sys.path.append('../../../src')
import os, argparse, logging, logging.handlers, time, datetime
import numpy as np
import tensorflow as tf
#from sklearn import preprocessing
#import cv2
import swl.machine_learning.util as swl_ml_util
#--------------------------... | sangwook236/sangwook-library | python/test/machine_learning/tensorflow/run_simple_training.py | Python | gpl-2.0 | 35,658 | [
"NEURON"
] | 09b9f956aae1ec1c7b387f8b9fad2351ffeaf1e775ec059f6ed98b5d911b2529 |
#
# This file is part of the statismo library.
#
# Author: Marcel Luethi (marcel.luethi@unibas.ch)
#
# Copyright (c) 2011 University of Basel
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions
# are met:
#
# ... | zarquon42b/statismo | modules/VTK/wrapping/tests/statismoTests/statismoTestUtils.py | Python | bsd-3-clause | 2,797 | [
"VTK"
] | d36e44d549ab8464abe7966ec1e2294f89baf89296f7fb4533e72b7a452dd408 |
# 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... | brianmay/karaage | karaage/tests/client.py | Python | gpl-3.0 | 6,976 | [
"Brian",
"VisIt"
] | f3472f9f05da81d799cf55ffe3280bb1a88e0f0fa9a23d8595bf5527bfb63308 |
import random as rand
from sage.all import ZZ
from sage.rings.all import RR, QQ, PolynomialRing, Zmod
from sage.rings.arith import next_prime
from sage.functions.all import log, ceil, sqrt
from sage.misc.misc_c import prod
from sage.modules.free_module_element import vector, zero_vector
from sage.stats.distributions.d... | zrathustra/mmap | ggh.py | Python | mit | 3,730 | [
"Gaussian"
] | f73e8c53aa1edc8e8ee672d981f7c0b2037627a3556d0823a45267676aef39bd |
from docutils import nodes, languages
class Context:
def __init__(self):
self.head = []
self.body = []
self.foot = []
def put_head(self, text):
self.head.append(text)
def put_body(self, text):
self.body.append(text)
def put_foot(self, text):
self.foot... | sixty-north/rst_to_md | rst_to_md/translator.py | Python | mit | 12,005 | [
"VisIt"
] | 1926249329aef589da05f097aec6ea3b344b9704f6373acb4858e7ade1080804 |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
# -*- mode: python -*-
# Time-stamp: <Sun, 23/07-2017 21:09:22 CST>
# Copyright (c) H.-K.Sun <spin.hk AT outlook DOT com>
"""A Sample From Vegas Tutorial."""
from numba import jit, float64
import numpy
import vegas
# Integrand: ridge of N Gaussian spread evenly along th... | SyrakuShaikh/python | learning/scientific_computation/Cython/ridge_numba.py | Python | gpl-3.0 | 872 | [
"Gaussian"
] | 769cfdede452f7c5276e12f013571c6799e9a40cc4b5e50e1f395b2282e8d6e8 |
'''
Created on 19/02/2010
@author: jose
'''
# Copyright 2009 Jose Blanca, Peio Ziarsolo, COMAV-Univ. Politecnica Valencia
# This file is part of franklin.
# franklin 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... | JoseBlanca/franklin | test/snv/snv_filters_test.py | Python | agpl-3.0 | 43,994 | [
"BLAST"
] | 630ad43152e12cdc3a567b7a8bbda03e6a65d3b26c31f0b8b16baafdf2e38220 |
#!/usr/bin/env python
#---------------- EDIT JOB NAME -------------------
#$ -N gsbpRMSfit
#--------------------------------------------------
#$ -S /usr/bin/python
# Importing the whole environment is important for setting up Charmm:
#$ -V
#$ -v PYTHONPATH=/home/oliver/Library/python-lib
#$ -v LD_LIBRARY_PATH=/opt/int... | iwelland/hop | doc/examples/rmsfit_gsbp.py | Python | lgpl-3.0 | 5,252 | [
"CHARMM",
"LAMMPS",
"MDAnalysis"
] | 35d6a9019c477bbe3d42160131927ec9657da31974d0d1d853e030e273bf8fd2 |
# mako/parsetree.py
# Copyright (C) 2006-2011 the Mako authors and contributors <see AUTHORS file>
#
# This module is part of Mako and is released under
# the MIT License: http://www.opensource.org/licenses/mit-license.php
"""defines the parse tree components for Mako templates."""
from mako import exceptions, ast, u... | rubencabrera/LazyLibrarian | mako/parsetree.py | Python | gpl-3.0 | 19,721 | [
"VisIt"
] | fd2ef43759b506260d7ee7e0e99a8ec2b4dd153bcd31d79f278a515b1cea4dc8 |
# $Id$
#
# Copyright (C) 2003-2008 Greg Landrum and 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.
#
""" command line util... | jandom/rdkit | rdkit/Chem/BuildFragmentCatalog.py | Python | bsd-3-clause | 19,438 | [
"RDKit"
] | 3dafd53993efdd93c36b826d05d12bfd94916ecbb0510ef16df74733f2c98159 |
##############################################################################
# MDTraj: A Python Library for Loading, Saving, and Manipulating
# Molecular Dynamics Trajectories.
# Copyright 2012-2013 Stanford University and the Authors
#
# Authors: Jason Swails
# Contributors:
#
# MDTraj is free software: you ... | rmcgibbo/mdtraj | tests/test_restart.py | Python | lgpl-2.1 | 4,202 | [
"MDTraj"
] | 8159e9ab04c4ca661dbf76c0c56dcc11b6829a6065d0fcc193b219c53d152846 |
# -*- coding:utf-8 -*-
#
# Copyright © Spyder Project Contributors
# Licensed under the terms of the MIT License
# (see spyder/__init__.py for details)
"""
Client widget for the IPython Console
This is the widget used on all its tabs
"""
# Standard library imports
from __future__ import absolute_import ... | bgris/ODL_bgris | lib/python3.5/site-packages/spyder/widgets/ipythonconsole/client.py | Python | gpl-3.0 | 17,017 | [
"Mayavi"
] | 9ea9efdf18aacd999b51940546decfed7baad62e7b606661672783290d670c58 |
# Copyright (C) 2012,2013
# Max Planck Institute for Polymer Research
# Copyright (C) 2008,2009,2010,2011
# Max-Planck-Institute for Polymer Research & Fraunhofer SCAI
#
# This file is part of ESPResSo++.
#
# ESPResSo++ is free software: you can redistribute it and/or modify
# it under the terms of t... | BackupTheBerlios/espressopp | src/standard_system/KGMelt.py | Python | gpl-3.0 | 1,397 | [
"ESPResSo"
] | 83c63111b53b0d5190fde7d1dbf51be0ab85db534515eca22ab68c4899a13de3 |
#!/usr/bin/python
# Audio Tools, a module and set of tools for manipulating audio data
# Copyright (C) 2007-2016 Brian Langenberger
# 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 vers... | tuffy/python-audio-tools | test/test_metadata.py | Python | gpl-2.0 | 387,599 | [
"Brian"
] | 1414416c3c81cc3aada4e41002d1f25236eb5b6e116e2887f2cc59e9357f5b93 |
import PISM
import PISM.testing
import os
from unittest import TestCase, SkipTest
# always available
backends = [PISM.PISM_NETCDF3]
if PISM.Pism_USE_PARALLEL_NETCDF4:
backends += [PISM.PISM_NETCDF4_PARALLEL]
if PISM.Pism_USE_PNETCDF:
backends += [PISM.PISM_PNETCDF]
if PISM.Pism_USE_PIO:
# assume that Pa... | pism/pism | test/regression/file.py | Python | gpl-3.0 | 23,589 | [
"NetCDF"
] | 4f698742d622800dcb536113d5a30beb940376c5203c4d5970dcf2218eabeb8c |
import configparser
import logging
import os
import pathlib
# Set default logging to debug for all tests
logging.basicConfig(level=logging.DEBUG)
def read_settings(filename):
config = configparser.ConfigParser()
config.read(filename)
return config
# Default scratch space
SCR = os.environ.get("TMPDIR", ... | ppqm/ppqm | tests/context.py | Python | mit | 1,233 | [
"GAMESS",
"MOPAC",
"xTB"
] | cdacfc89b78c25035004d1d7c23ae8114aad319c2d1a9093315234e21d98f288 |
from shapely.geometry import Point, box, Polygon
from toolz.dicttoolz import valmap
from functools import reduce
import math
class CottleWrapper:
def __init__(self, stage):
self.cottle = Cottle(stage)
def row_for_stage(self):
return [
self.cottle.relatedness_all(),
sel... | alepulver/my-thesis | results-tables/aggregators/cottle.py | Python | mit | 7,237 | [
"VisIt"
] | 0ea9cc3ce858360293e5cf70e33866bf2a618abf1d984fca30cfb1502e358350 |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2005-2012 Async Open Source <http://www.async.com.br>
## All rights reserved
##
## This program 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 Softw... | andrebellafronte/stoq | stoqlib/gui/dialogs/sellabledialog.py | Python | gpl-2.0 | 2,689 | [
"VisIt"
] | 90e04c03e10c3f31680a435402b1f9c4664ee42df0d98decc250256aaca5873f |
# Russian / Русский - Translations - Python 3 Only!
from seleniumbase import BaseCase
from seleniumbase import MasterQA
class ТестНаСелен(BaseCase): # noqa
def __init__(self, *args, **kwargs):
super(ТестНаСелен, self).__init__(*args, **kwargs)
self._language = "Russian"
def открыть(self, *a... | mdmintz/SeleniumBase | seleniumbase/translate/russian.py | Python | mit | 23,199 | [
"VisIt"
] | 6e201097d788970d142a5d7fe1d06e7a8e10d1ebf0a1317730fabb95ad462082 |
# Jackie's Map
# CMDR Jackie Silver, DISC
# Kay Johnston 2017 / 3303
# Thanks are due to everyone who's collected data for the various source lists, and particularly to edsm.
version = '3q'
# Standard Python imports. Might need to change PIL to pillow on some versions of Python?
from tkinter import *
import... | KayJohnston/jackies-map | jmap3r.py | Python | bsd-3-clause | 74,631 | [
"Galaxy"
] | e73457659e19f4ad60c373fe745b121667480c7f24bf730abe693726d4133bb5 |
"""
@file
@brief One class which visits a syntax tree.
"""
import ast
class CodeNodeVisitor(ast.NodeVisitor):
"""
Defines a visitor which walks though the syntax tree of the code.
.. exref::
:title: Get the tree of a simple function
The following code uses Python syntax but follows a S... | sdpython/pysqllike | src/pysqllike/translation/node_visitor_translator.py | Python | mit | 8,926 | [
"VisIt"
] | 2b1d7b62e898b4136a78f6d7469addce3b50c6c827c0b39325dca38831803461 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Build and install the TweetNaCl wrapper.
"""
from __future__ import print_function
import sys, os
from distutils.core import setup, Extension, Command
from distutils.util import get_platform
def setup_path():
# copied from distutils/command/build.py
plat_name... | warner/python-tweetnacl | setup.py | Python | mit | 4,417 | [
"Brian"
] | a0ad3dcd32d8b8efc332d34264efbe6946b365558155140cc29a39f74ea33e89 |
#
# gPrime - A web-based genealogy program
#
# Copyright (C) 2010 Brian G. Matherly
#
# 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 ... | sam-m888/gprime | gprime/cli/user.py | Python | gpl-2.0 | 7,898 | [
"Brian"
] | ad372717f9490b2759e51f2c4d56f923a662706c9f0bfd3cd0fc31164f09df7b |
from nose.tools import *
import mock
@mock.patch("espresso.bot.Espresso")
def test_response_send_msg(Espresso):
robot = Espresso() | ratchetrobotics/espresso | tests/response_test.py | Python | bsd-3-clause | 132 | [
"ESPResSo"
] | 3d3a5db3efb2500a021a49138f31c3a277b5709acb04978bf1bcae79aa4f3071 |
import contextlib
import functools
import logging
from typing import (
TYPE_CHECKING,
Dict,
FrozenSet,
Iterable,
Iterator,
List,
Mapping,
Optional,
Sequence,
Set,
Tuple,
TypeVar,
cast,
)
from pip._vendor.packaging.requirements import InvalidRequirement
from pip._vend... | google/material-design-icons | update/venv/lib/python3.9/site-packages/pip/_internal/resolution/resolvelib/factory.py | Python | apache-2.0 | 24,988 | [
"VisIt"
] | d2ad7876646b2d95edf4e629db24f92f62aa2862c9e68906a00aeeda135a7458 |
#!/usr/bin/env python
"""Data management based on project identifiers
Usage:
project_management.py <YAML config file> <flowcell_dir> <project_dir>
[<YAML run information>
--flowcell_alias=<flowcell_alias> --project_desc=<project_desc>
... | senthil10/scilifelab | scripts/project_management.py | Python | mit | 18,744 | [
"Galaxy"
] | c388e61b473142472da325b3cd922854f773ae53cff16b4b1e74ad02a2da0fb9 |
#!/usr/bin/env python
import randopt as ro
def loss(x):
return x**2 + 2*x - 3
def dloss(x):
return 2*x + 2
def grad_descent(f, df, init, num_epochs, lr):
params = init
convergence = []
for epoch in range(num_epochs):
params = params - (lr * df(params))
convergence.append(f(par... | seba-1511/randopt | examples/grad_descent.py | Python | apache-2.0 | 1,174 | [
"Gaussian"
] | 09e59654bfbae5fed5fc9ee708826957dde1eaa47aab945006576988485dd8bc |
#!/usr/bin/env python
#
# Author: Qiming Sun <osirpt.sun@gmail.com>
#
'''
Access molecule geometry.
Mole.natm is the total number of atoms. It is initialized in Mole.build()
function.
'''
from pyscf import gto
mol = gto.M(
atom = '''
O 0 0. 0
H1 0 -2.757 2.587
H2 0 2.757 2.587''',... | gkc1000/pyscf | examples/gto/10-atom_info.py | Python | apache-2.0 | 743 | [
"PySCF"
] | 388bbbb912904e8909df15f878568beef4741ad653debfe037e3a79207eeaee2 |
#! /usr/env/python
"""
A class used to create and manage regular square raster
grids for 2D numerical models in Landlab.
Getting Information about a Grid
--------------------------------
The following attributes, properties, and methods provide data about a
RasterModelGrid, its geometry, and the connectivity among the... | SiccarPoint/landlab | landlab/grid/raster.py | Python | mit | 215,327 | [
"NetCDF"
] | 814b3bced264c26298f561bc6bc8567f6c19b27f7a665909071c89215128ae0a |
# Copyright (C) 2003-2005 Peter J. Verveer
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions
# are met:
#
# 1. Redistributions of source code must retain the above copyright
# notice, this list of conditions and the following d... | teoliphant/scipy | scipy/ndimage/fourier.py | Python | bsd-3-clause | 9,758 | [
"Gaussian"
] | caa8b6e750d77d46b27a2fca14796e358ddc2365d42833746cff7b5130510cfb |
"""
Internal utilities to cleanup HTML 5 code.
These are used when FLUENT_TEXT_CLEANUP_HTML or FLUENT_TEXT_SANITIZE_HTML are enabled.
These are extracted from django-wysiwyg, so they can be used by default for all HTML fields.
It simplifies the dependencies a bit; html5lib can be directly mentioned as dependency.
"""... | edoburu/django-fluent-contents | fluent_contents/utils/html.py | Python | apache-2.0 | 2,444 | [
"ADF"
] | 5ab32fd84c186f5aa4c2beeb656aca5ae7bed30bdb013b1f12b6512961752235 |
"""pyNRC utility functions"""
import os, re
# Import libraries
import numpy as np
import matplotlib
import matplotlib.pyplot as plt
on_rtd = os.environ.get('READTHEDOCS') == 'True'
# Update matplotlib settings
rcvals = {'xtick.minor.visible': True, 'ytick.minor.visible': True,
'xtick.direction': 'in', 'ytic... | JarronL/pynrc | pynrc/nrc_utils.py | Python | mit | 74,702 | [
"Gaussian"
] | 1f4dcc62ab7d787c33b8a69f835d4aebd92842e933303dfa8c2acad87846bd06 |
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