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"""Next-gen sequencing alignment with Novoalign: http://www.novocraft.com
For BAM input handling this requires:
novoalign (with license for multicore)
samtools
"""
import os
import subprocess
from bcbio import bam, utils
from bcbio.ngsalign import alignprep, postalign
from bcbio.pipeline import config_utils
from ... | guillermo-carrasco/bcbio-nextgen | bcbio/ngsalign/novoalign.py | Python | mit | 5,964 | [
"Galaxy"
] | f040564625e7007cfea5b8f095f9afa3285a33ce646c60307a603ee7b416eeb3 |
import json
import pprint
from urllib.parse import urlparse
from tornado.escape import xhtml_escape
from tornado import template
from DIRAC import gLogger
from DIRAC.Core.Tornado.Server.private.BaseRequestHandler import TornadoResponse
from WebAppDIRAC.Lib import Conf
from WebAppDIRAC.Lib.WebHandler import _WebHandl... | DIRACGrid/WebAppDIRAC | src/WebAppDIRAC/WebApp/handler/RootHandler.py | Python | gpl-3.0 | 8,103 | [
"DIRAC"
] | ee9007ca80dfdb489266f6f1ab0f0b3b57a361c0b0c39e524bf5c8924cbeb21d |
#!/usr/bin/env python
########################################################################
# File : dirac-wms-get-queue-normalization.py
# Author : Ricardo Graciani
########################################################################
"""
Report Normalization Factor applied by Site to the given Queue
Exampl... | DIRACGrid/DIRAC | src/DIRAC/Interfaces/scripts/dirac_wms_get_queue_normalization.py | Python | gpl-3.0 | 1,246 | [
"DIRAC"
] | c240df19a7b9d14fb91874fb0172e94ffbc23f1c846fe12b052dd5748cd620b3 |
#
# Author: Travis Oliphant 2002-2011 with contributions from
# SciPy Developers 2004-2011
#
from __future__ import division, print_function, absolute_import
from scipy.lib.six import string_types, exec_
import sys
import keyword
import re
import inspect
import types
import warnings
from scipy.misc import... | jsilter/scipy | scipy/stats/_distn_infrastructure.py | Python | bsd-3-clause | 111,679 | [
"Gaussian"
] | f101075ee93fc33fba68a626de73a09a2d7c4b9b9fdb01759eff37f3ef037287 |
import numpy as np
from scipy import sqrt, pi, arctan2, cos, sin, exp
from scipy.ndimage import gaussian_filter
from .. import img_as_float, draw
from ..color import gray2rgb
from .._shared.utils import assert_nD
def daisy(img, step=4, radius=15, rings=3, histograms=8, orientations=8,
normalization='l1', si... | jwiggins/scikit-image | skimage/feature/_daisy.py | Python | bsd-3-clause | 9,777 | [
"Gaussian"
] | 18272d8c81c83d9b34e7d2d8fdb40cc0bc85b68d40281d101591169e268cbac0 |
# This code is developed based on RL code in the following repository in github
# https://github.com/rlcode/reinforcement-learning-kr-v2
import copy
import matplotlib.pyplot as plt
import random
import numpy as np
from environment_hm import Env
import tensorflow as tf
from tensorflow.keras.layers import Dense, BatchNor... | jskDr/jamespy_py3 | wireless/hamming_nb/train_hm.py | Python | mit | 10,223 | [
"Gaussian"
] | 779bca4846057964877f3170e55b7e4cd0a8b49c3e81b41416bde38d2fb112a6 |
"""The suite of window functions."""
import operator
import warnings
import numpy as np
from scipy import linalg, special, fft as sp_fft
__all__ = ['boxcar', 'triang', 'parzen', 'bohman', 'blackman', 'nuttall',
'blackmanharris', 'flattop', 'bartlett', 'hanning', 'barthann',
'hamming', 'kaiser',... | andyfaff/scipy | scipy/signal/windows/_windows.py | Python | bsd-3-clause | 79,008 | [
"Gaussian"
] | b40886fb0a22e77f79b863fd0adf2b0b7c37b24881bf5a31da57bf0b808f3ddf |
#!/usr/bin/env python3
# Copyright 2015 The Chromium Authors. All rights reserved.
# Use of this source code is governed by a BSD-style license that can be
# found in the LICENSE file.
# 'top'-like memory/network polling for Android apps.
import argparse
import curses
import logging
import os
import re
import sys
imp... | chromium/chromium | tools/android/appstats.py | Python | bsd-3-clause | 36,723 | [
"Galaxy"
] | 5365e6015561512a5970fa5bf8c6976564ff81fc61690bede4136b63b0b20731 |
"""
Test functions for models.GLM
"""
import os
import numpy as np
from numpy.testing import *
import scikits.statsmodels.api as sm
from scikits.statsmodels.genmod.generalized_linear_model import GLM
from scikits.statsmodels.tools.tools import add_constant
from scikits.statsmodels.tools.sm_exceptions import PerfectSep... | wesm/statsmodels | scikits/statsmodels/genmod/tests/test_glm.py | Python | bsd-3-clause | 17,531 | [
"Gaussian"
] | 06243dc2427e7487862300860e4b37dbced50efae6223c70e9f552647f3c4aac |
#-------------------------------------------------------------------------------
# Copyright (c) 2012 Gael Honorez.
# All rights reserved. This program and the accompanying materials
# are made available under the terms of the GNU Public License v3.0
# which accompanies this distribution, and is available at
# htt... | IDragonfire/modular-client | src/trueSkill/TrueSkill/TrueSkillFactorGraph.py | Python | gpl-3.0 | 5,201 | [
"VisIt"
] | be110c7d3f814bbba1b1fea0fdd81a6eb814dcf99127e9e94709228251cfbd78 |
##############################################################################
# adaptiveMD: A Python Framework to Run Adaptive Molecular Dynamics (MD)
# Simulations on HPC Resources
# Copyright 2017 FU Berlin and the Authors
#
# Authors: Jan-Hendrik Prinz
# Contributors:
#
# `adaptiveMD` is free software: ... | jrossyra/adaptivemd | adaptivemd/analysis/pyemma/_remote.py | Python | lgpl-2.1 | 10,247 | [
"MDTraj"
] | 13f02e5abfa155dece7597827cc5e1781e90671b5083fcf9df48c218f800a221 |
# Heist was created by Redjumpman for Redbot
# Standard Library
import asyncio
import bisect
import os
import random
import string
import time
from ast import literal_eval
from operator import itemgetter
# Discord / Red Bot
import discord
from discord.ext import commands
from .utils.dataIO import data... | Injabie3/Red-DiscordBot | cogs/heist.py | Python | gpl-3.0 | 53,337 | [
"CASINO"
] | 80d2648028e5fb0f52372acd0db8a174fa7b269471523925593a01bf9247fe1b |
# -*- coding: utf-8 -*-
# please visit JadViE Studio's Kodi
import xbmc,xbmcgui,xbmcplugin,sys
plugin_handle = int(sys.argv[1])
xbmcplugin.setContent(plugin_handle, 'movies')
icon = xbmc.translatePath("special://home/addons/plugin.jadvie.studio.emby.for.kodi.-0.1/icon.png")
def add_video_item(url, infolabe... | SystemTN/jadvie-studio | zip/default.py | Python | gpl-3.0 | 1,281 | [
"VisIt"
] | 7fabf282b996785fe55102ff3713965d9437c76bab5c8fa067c8996181424f13 |
# -*- coding: utf-8 -*-
# Copyright (c) 2015 Ericsson AB
#
# 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 ... | EricssonResearch/calvin-base | calvin/runtime/south/storage/twistedimpl/securedht/append_server.py | Python | apache-2.0 | 92,062 | [
"Brian",
"exciting"
] | ab6ebc12ccd37ef39e2ed9c0d2e704913982b26495d35a3a23190981cc87372f |
# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
import os
from spack import *
class Openmolcas(CMakePackage):
"""OpenMolcas is a quantum chemistry software package... | LLNL/spack | var/spack/repos/builtin/packages/openmolcas/package.py | Python | lgpl-2.1 | 2,170 | [
"MOLCAS",
"OpenMolcas"
] | 5c268afca81cac59646ef5987ea6f5eb3bd3a09c60b5e0a99661f61f4230faaa |
# 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... | pkreissl/espresso | testsuite/python/lb_shear.py | Python | gpl-3.0 | 6,770 | [
"ESPResSo"
] | 3ba12acfd04e9c09ac88ccc5a4abd34522c08f07bd59d084e10cd68172688a13 |
#
# Copyright 2016 The BigDL 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 in ... | intel-analytics/BigDL | python/chronos/test/bigdl/chronos/autots/model/test_auto_arima.py | Python | apache-2.0 | 2,978 | [
"ORCA"
] | 73578dabfbc7f3d015afd267afb16d7e8b3a35ce55b3d649b8642a5b6287af03 |
# Copyright 2017 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | tensorflow/tensorflow | tensorflow/python/autograph/pyct/templates.py | Python | apache-2.0 | 9,510 | [
"VisIt"
] | a2f11e0d9ed9ffd599f8c25824610319759ce44c6348c5891d6f900c78477fe1 |
# intfire.py ---
#
# Filename: intfire.py
# Description:
# Author:Subhasis Ray
# Maintainer:
# Created: Thu Jun 21 16:40:25 2012 (+0530)
# Version:
# Last-Updated: Sat Jun 23 13:44:10 2012 (+0530)
# By: subha
# Update #: 35
# URL:
# Keywords:
# Compatibility:
#
#
# Commentary:
#
# Code snippet to show so... | BhallaLab/moose-examples | snippets/intfire.py | Python | gpl-2.0 | 2,935 | [
"MOOSE",
"NEURON"
] | cb0bc2133fc0eea0c7ee004f540fa8c20fee2061e06c1cc4a6a2e1a752823b02 |
# -*- coding: utf-8 -*-
# Generated by Django 1.9.7 on 2016-06-14 19:23
from __future__ import unicode_literals
from django.db import migrations
class Migration(migrations.Migration):
dependencies = [
('visit', '0101_remove_visit_raw_data'),
]
operations = [
migrations.DeleteModel(
... | koebbe/homeworks | visit/migrations/0102_auto_20160614_1423.py | Python | mit | 1,144 | [
"VisIt"
] | 49e2b0e9e21d441b2a85393d82aa9065af9bd5c038c68f54a8f1812bdb898932 |
#!/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/grad/uks.py | Python | apache-2.0 | 11,355 | [
"PySCF"
] | e50e623d826144afb468ff0eef4037d8a66e407345b15e230b7eb15cf34ef44a |
import ocl
import camvtk
import time
import vtk
import datetime
import math
# 2018.08: Weave not wrapped
def loop_waterline(zh, cutter,s):
fiber_range=2
Nmax = 200
yvals = [float(n-float(Nmax)/2)/Nmax*fiber_range for n in range(0,Nmax+1)]
xvals = [float(n-float(Nmax)/2)/Nmax*fiber_range for n in range... | aewallin/opencamlib | examples/python/fiber/fiber_12_waterline_onetriangle.py | Python | lgpl-2.1 | 3,075 | [
"VTK"
] | 311f95ecd53797435cfa88890fb48fda4cae0008efe1a16b085d78b4e9954ebc |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
#
# PMDA
# Copyright (c) 2017 The MDAnalysis Development Team and contributors
# (see the file AUTHORS for the full list of names)
#
# Released under the GNU Public Licence, v2 or any higher ve... | MDAnalysis/pmda | pmda/test/test_util.py | Python | gpl-2.0 | 8,518 | [
"MDAnalysis"
] | fddb1068faef298ea859e978e25ad246e922b88d2c51ec453ff18856811b1d38 |
# encoding: utf-8
"""nanotube.py - Window for setting up Carbon nanotubes and similar tubes.
"""
import gtk
from gettext import gettext as _
from ase.gui.widgets import pack, cancel_apply_ok, oops
from ase.gui.setupwindow import SetupWindow
from ase.gui.pybutton import PyButton
from ase.gui.status import formula
from ... | grhawk/ASE | tools/ase/gui/nanotube.py | Python | gpl-2.0 | 6,236 | [
"ASE"
] | 603e26b2acd4f9a0bca36318f12fca66369b5d031f193363d446f7648a27a7e4 |
"""Filter that allows a user to select one among several of the outputs
of a given input. This is typically very useful for a multi-block data
source. """
# Author: Prabhu Ramachandran <prabhu [at] aero . iitb . ac . in>
# Copyright (c) 2008, Prabhu Ramachandran
# License: BSD Style.
# Enthought library imports.
f... | dmsurti/mayavi | mayavi/filters/select_output.py | Python | bsd-3-clause | 3,402 | [
"Mayavi"
] | 278967c2155f6d4e7fe32d2e53616ede0d9a635c3a5dc7e81b7d3581fc363175 |
#!/usr/bin/env python
import roslib; roslib.load_manifest('coffee_machine_control')
import sys
import rospy
from coffee_machine_control.srv import *
def coffee_machine_client(coffee_type):
rospy.wait_for_service('coffee_machine')
coffee_machine_control = rospy.ServiceProxy('coffee_machine', coffee_machine)
... | Barista-Bot/coffee-machine-control | scripts/coffee_machine_client.py | Python | mit | 544 | [
"ESPResSo"
] | 14327f0af7c54102fdd2bda9a0f8686da03bbc431e0af01a0f17343146b99bfc |
# 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 Busco(PythonPackage):
"""Assesses genome assembly and annotation completeness with Benchma... | LLNL/spack | var/spack/repos/builtin/packages/busco/package.py | Python | lgpl-2.1 | 2,172 | [
"BLAST",
"Biopython"
] | 6882616f0a90a09662c5115745c9139c24244290009ad1cc5bf4e966840cd820 |
"""
The B{0install select} command-line interface.
"""
# Copyright (C) 2011, Thomas Leonard
# See the README file for details, or visit http://0install.net.
from __future__ import print_function
import sys
from zeroinstall import _, logger
from zeroinstall.cmd import UsageError
from zeroinstall.injector import mode... | dabrahams/0install | zeroinstall/cmd/select.py | Python | lgpl-2.1 | 7,343 | [
"VisIt"
] | e78c56cc389909493c063cf7aef5902b5206f5c919cbc1948cc3e0236446b4de |
import matplotlib
import matplotlib.pyplot as plt
import numpy as np
import time
import os
from matplotlib.path import Path
from dirac_sheet import dirac_sheet
import scipy.io
import Tkinter
from my_two_clim import my_two_clim
# Run_Dirac performs a time-domain simulation of the continuum dirac equation taking several... | arthurbarnard/Dirac_Simulation_w_scripting | dirac_run_timedomain.py | Python | gpl-3.0 | 5,340 | [
"DIRAC",
"Gaussian"
] | 92d84ebbb9b93dbdbc08510b85eab4435ab673e66415bc00150218f3c337bdea |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import unittest
import warnings
import numpy as np
from pymatgen.core.composition import Composition
from pymatgen.core.periodic_table import DummySpecies, Element, Species
from pymatgen.core.lattice import ... | richardtran415/pymatgen | pymatgen/io/tests/test_cif.py | Python | mit | 44,369 | [
"ABINIT",
"VASP",
"pymatgen"
] | 65634dbb709d243db40b8ed3a037da0efcd06d32080994e3c58d1b4488c273bf |
r"""
**openpnm.network**
----
This module contains the ``GenericNetwork`` class, whose main purpose is to
manage the topological representation of the Network. It also houses a
collection of Network generators.
----
**Available Network Generators**
OpenPNM includes a variety of Network generators. The basically... | TomTranter/OpenPNM | openpnm/network/__init__.py | Python | mit | 5,934 | [
"CRYSTAL"
] | c04f3cb26074f52773f602e35d9d51f28d13bd34b90af6f434b63a8442926a6e |
input_name = '../examples/biot/biot_npbc_lagrange.py'
output_name = 'test_biot_npbc_lagrange.vtk'
from testsBasic import TestInput
class Test(TestInput):
pass
| olivierverdier/sfepy | tests/test_input_biot_npbc_lagrange.py | Python | bsd-3-clause | 164 | [
"VTK"
] | a8a78be349bb68dc892cda18f1de7ca6b22597b04f3d63ec845e2b625ec06c4e |
print(__doc__)
#coding=utf-8
import numpy as np
import matplotlib.pyplot as plt
from matplotlib.colors import ListedColormap
from sklearn.model_selection import train_test_split
from sklearn.preprocessing import StandardScaler
from sklearn.datasets import make_moons, make_circles, make_classification
from sklearn.ne... | hitlonewind/PR-experiment | Classifrer/classifer.py | Python | mit | 4,186 | [
"Gaussian"
] | a1def076db13c50c337b97696860352e371ef35c93cad232382628f184ec8e2a |
""" ProxyManager is the implementation of the ProxyManagement service
in the DISET framework
"""
__RCSID__ = "$Id$"
import cStringIO
import tarfile
import os
from DIRAC.Core.DISET.RequestHandler import RequestHandler
from DIRAC import gLogger, S_OK, S_ERROR, gConfig
from DIRAC.Core.Utilities.ThreadScheduler impor... | Andrew-McNab-UK/DIRAC | FrameworkSystem/Service/BundleDeliveryHandler.py | Python | gpl-3.0 | 5,866 | [
"DIRAC"
] | 30249470bb784e34981fb01cdb2e917045c82f644ed7f9ba12adbab638abafe4 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# Copyright (C) 2009-2011 Umeå University
#
# 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... | BetterWorks/pysaml2 | src/saml2/attribute_resolver.py | Python | bsd-2-clause | 2,897 | [
"exciting"
] | 0048c5726f9567a6489311849108c2cc63192794c1183ccf1e73c592e92ebba9 |
# vectors.py ---
#
# Filename: vectors.py
# Description:
# Author: Subhasis Ray
# Maintainer:
# Created: Tue May 6 12:49:53 2014 (+0530)
# Version:
# Last-Updated:
# By:
# Update #: 0
# URL:
# Keywords:
# Compatibility:
#
#
# Commentary:
#
#
#
#
# Change log:
#
#
#
#
# This program is free software; yo... | BhallaLab/moose-examples | snippets/vectors.py | Python | gpl-2.0 | 1,393 | [
"MOOSE"
] | 397b33aadb57ad2a309d42fbbada86ab49f5f4a6605daca5e13ab6a320fcbbb2 |
from __future__ import print_function
import flask
import os
import sys
import threading
import time
import webbrowser
import tornado
from tornado.wsgi import WSGIContainer
from tornado.httpserver import HTTPServer
from tornado.ioloop import IOLoop
_basedir = os.path.join("..", os.path.dirname(__file__))
app = flas... | dennisobrien/bokeh | sphinx/docserver.py | Python | bsd-3-clause | 2,003 | [
"VisIt"
] | b941489b8e9d0252f058a7f907d41cf6644f438e4113076ea97c66ed458701da |
import fnmatch
import tempfile
from contextlib import contextmanager
from os import makedirs
from os import unlink
from os.path import (
abspath,
basename,
dirname,
exists,
join,
sep,
)
from re import compile, escape
from typing import Any, Dict, List, Type
from galaxy.util.bunch import Bunch
... | galaxyproject/pulsar | pulsar/client/action_mapper.py | Python | apache-2.0 | 28,634 | [
"Galaxy"
] | d7c478d19e4f19f8017f5a94967a84d1af8656632db0729460f330469dce614a |
"""
Test accessibility auditing.
"""
import os
from unittest.mock import patch
from bok_choy.web_app_test import WebAppTest
from bok_choy.a11y.a11y_audit import AccessibilityError, A11yAuditConfigError
from .pages import AccessibilityPage
class GoogleAxsAccessibilityTestMixin:
"""
Test cases for axs rulese... | edx/bok-choy | tests/test_accessibility.py | Python | apache-2.0 | 14,779 | [
"VisIt"
] | 32d3d0917886e2072effcb5caf58f37d3531fdc9432e53646314def6ae622d4b |
# $HeadURL$
__RCSID__ = "$Id$"
import base64
from DIRAC import S_OK, S_ERROR, gLogger
from DIRAC.Core.Utilities import DEncode
gForceRawEncoding = False
try:
import zlib
gZCompressionEnabled = True
except ImportError, x:
gZCompressionEnabled = False
def codeRequestInFileId( plotRequest, compressIfPossible = T... | Sbalbp/DIRAC | AccountingSystem/private/FileCoding.py | Python | gpl-3.0 | 2,719 | [
"DIRAC"
] | b54166b06ad5d20414279a51f31f3d430921b4f71588245454205c3b0b8e12af |
# coding=utf-8
# Copyright 2022 The Uncertainty Baselines 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 ap... | google/uncertainty-baselines | baselines/jft/experiments/jft300m_vit_l32_sngp.py | Python | apache-2.0 | 4,051 | [
"Gaussian"
] | 0aec8696c54151d53ae450683a66b1bd684e3639902c04620631963fce189881 |
import logging
from cStringIO import StringIO
from math import exp
from lxml import etree
from path import path # NOTE (THK): Only used for detecting presence of syllabus
import requests
from datetime import datetime
import dateutil.parser
from lazy import lazy
from xmodule.seq_module import SequenceDescriptor, Seque... | kuiwei/edx-platform | common/lib/xmodule/xmodule/course_module_bak.py | Python | agpl-3.0 | 50,523 | [
"VisIt"
] | 89b9b835ca7cf8dc08116a6bb07de8315f22f56734bfec5c15e3455a55fdf3f4 |
"""
Compute saddle-point integrals over trajectories traveling on adiabataic
potentials
This currently uses first-order saddle point.
"""
import numpy as np
import nomad.core.glbl as glbl
import nomad.compiled.nuclear_gaussian as nuclear
# Let propagator know if we need data at centroids to propagate
require_centroi... | mschuurman/FMSpy | nomad/integrals/fms_saddle_point.py | Python | lgpl-3.0 | 2,177 | [
"Gaussian"
] | 7b32f0e4b2652d413df526944b0ae1140e27631b18da668d71b93a95068b7972 |
"""Simple XML-RPC Server.
This module can be used to create simple XML-RPC servers
by creating a server and either installing functions, a
class instance, or by extending the SimpleXMLRPCServer
class.
It can also be used to handle XML-RPC requests in a CGI
environment using CGIXMLRPCRequestHandler.
A list ... | ericlink/adms-server | playframework-dist/play-1.1/python/Lib/SimpleXMLRPCServer.py | Python | mit | 21,529 | [
"Brian"
] | 829ce697a5ed8066d9b9315dfb06d79fc4f4d2850aae2cc7b50b9da22218ef41 |
#!/usr/bin/env python
from optparse import OptionParser
import os, sys, re
"""*********************** The likely/unlikely optimizer ***********************
This script runs gcov on data from instrumented object files and parses the out-
put to determine candidates for optimization using the likely/unlikely macros.
Re... | liuwenf/moose | framework/scripts/LikelyOptimzer.py | Python | lgpl-2.1 | 7,940 | [
"MOOSE"
] | acdcade432bd7019161fbb68d7bb3463a2d5fddb27f81b3ae0f4684b8d13c099 |
# Copyright 1999 by Jeffrey Chang. 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.
"""Code for more fancy file handles.
Classes:
UndoHandle File object decorator with sup... | bryback/quickseq | genescript/Bio/File.py | Python | mit | 6,211 | [
"Biopython"
] | b10160bc3eae836198b04dbeb9ceac012ada5397e712795ecd4ada4802ed4b4f |
# Coded from https://www.tensorflow.org/get_started/mnist/pros
# Download, extract and read the data Automatically
from tensorflow.examples.tutorials.mnist import input_data
mnist = input_data.read_data_sets('MNIST_data', one_hot=True)
# Importing tensorflow
import tensorflow as tf
# Create the model
x = tf.placeholde... | pk-ai/training | machine-learning/tensorflow/get_started/deep_mnist_for_experts.py | Python | mit | 4,896 | [
"NEURON"
] | 32c4bc871af036e5c7f575ba29d737f801bac13db5d6c717bd9a64ad61449206 |
from py4j.clientserver import ClientServer, JavaParameters, PythonParameters
from py4j.java_gateway import DEFAULT_ADDRESS
import logging, os, sys, traceback, array, time, socket
import cdms2
import numpy as np
def getIntArg( index, default ): return int(sys.argv[index]) if index < len( sys.argv ) else default
def g... | nasa-nccs-cds/EDAS | python/test/icdas.py | Python | gpl-2.0 | 7,835 | [
"Gaussian"
] | 020ec493d7cb62daf8c756652644bb24a3bef1b64758d790136d28571f1c8394 |
# This file is part of OpenHatch.
# Copyright (C) 2010 Parker Phinney
# Copyright (C) 2010 Jack Grigg
# Copyright (C) 2011 Krzysztof Tarnowski (krzysztof.tarnowski@ymail.com)
# Copyright (C) 2009, 2010, 2011 OpenHatch, Inc.
# Copyright (C) 2011 Jairo E. Lopez
#
# This program is free software: you can redistribute it a... | openhatch/oh-mainline | mysite/base/tests.py | Python | agpl-3.0 | 28,614 | [
"VisIt"
] | 09c07122801e89eb8f57cd0beb7a67abc406d489728a75dcb7954b2beb7816cc |
"""Check specific required program versions required during the pipeline.
"""
from distutils.version import LooseVersion
import subprocess
from bcbio.pipeline import config_utils
from bcbio.log import logger
def samtools(config, items):
"""Ensure samtools has parallel processing required for piped analysis.
"... | hjanime/bcbio-nextgen | bcbio/provenance/versioncheck.py | Python | mit | 2,721 | [
"BWA"
] | 98f85435efa804d6d81d1be428d77a9040218f03c36e59c3cf86358b1f67e652 |
# Authors: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Matti Hämäläinen <msh@nmr.mgh.harvard.edu>
# Denis A. Engemann <denis.engemann@gmail.com>
#
# License: BSD (3-clause)
from copy import deepcopy
from distutils.version import LooseVersion
import itertools as itt
from math import log
import ... | Teekuningas/mne-python | mne/cov.py | Python | bsd-3-clause | 75,999 | [
"Gaussian"
] | 19a00f87c98e742aa84ceea0577fb6cd0a523a3aae482aeeae0849bd8c863978 |
import sys
import os
import parmed
ambname = sys.argv[1]
crdname = os.path.splitext(ambname)[0]+".crd"
mol2name = os.path.splitext(ambname)[0]+".mol2"
pdbname = os.path.splitext(ambname)[0]+".pdb"
top = parmed.amber.AmberParm(ambname, xyz=crdname)
top.save(mol2name, format="mol2")
top.save(pdbname, format="pdb")
| SGenheden/Scripts | Mol/amb2mol2.py | Python | mit | 318 | [
"Amber"
] | b46b29757a4c0d14a22b53fd12c6fbb20553d4b3ec6e14471287ff01d1413b75 |
from pathlib import Path
import pytest
from pysisyphus.calculators.PySCF import PySCF
from pysisyphus.calculators import Turbomole, ORCA, ORCA5, Gaussian16, Psi4
from pysisyphus.helpers import geom_loader
from pysisyphus.init_logging import init_logging
from pysisyphus.optimizers.RFOptimizer import RFOptimizer
from p... | eljost/pysisyphus | tests/test_cytosin_opt/test_cytosin_opt.py | Python | gpl-3.0 | 3,407 | [
"ORCA",
"Psi4",
"PySCF",
"TURBOMOLE"
] | 4a7da4006ff3f323802d701e7dc8ba5558e956e02d1081c1845503009559a7d3 |
"""
Class for outlier detection.
This class provides a framework for outlier detection. It consists in
several methods that can be added to a covariance estimator in order to
assess the outlying-ness of the observations of a data set.
Such a "outlier detector" object is proposed constructed from a robust
covariance es... | ltiao/scikit-learn | sklearn/covariance/outlier_detection.py | Python | bsd-3-clause | 6,624 | [
"Gaussian"
] | 207675567660a148b0db2b5a7f8590d4ce38c83f7dc43a8ea561cc03af3aa372 |
input_name = '../examples/linear_elasticity/linear_elastic_up.py'
output_name = 'test_linear_elastic_up.vtk'
from testsBasic import TestInput
class Test( TestInput ):
pass
| olivierverdier/sfepy | tests/test_input_linear_elastic_up.py | Python | bsd-3-clause | 177 | [
"VTK"
] | 9bfd3b3f0cf44ec4307427c8ae4c8ab7b018ecee8769215c2f627b6cea80b2a6 |
#!/usr/bin/env python3
# Copyright (C) 2011, 2014 Torsten Albrecht (torsten.albrecht@pik-potsdam.de)
import numpy as np
from pylab import figure, clf, hold
import matplotlib.pyplot as plt
try:
from netCDF4 import Dataset as NC
except:
print("netCDF4 is not installed!")
sys.exit(1)
pism_output = "flowline_... | pism/pism | examples/marine/flowline/plot_flowline.py | Python | gpl-3.0 | 3,658 | [
"NetCDF"
] | 58e67dd2b0ebcb38564d61d6ecbbadff8f280ee60f7873e160ce949aa5102351 |
#!/usr/bin/env python
########################################################################
# File : dirac-dms-get-file
# Author : Stuart Paterson
########################################################################
"""
Retrieve a single file or list of files from Grid storage to the current directory.
Usag... | yujikato/DIRAC | src/DIRAC/Interfaces/scripts/dirac_dms_get_file.py | Python | gpl-3.0 | 1,436 | [
"DIRAC"
] | a8c0e9191ba903964d0f3e9a18414c264bb61ebe73e1522e2570906e60ffaee8 |
# python3
# coding=utf-8
# Copyright 2020 The Google Research 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 b... | google/localized-narratives | localized_narratives.py | Python | apache-2.0 | 6,191 | [
"VisIt"
] | 1f7b1ae9852e3c943a1577bccc8ed7b74ee6d99dfde2cc7877d7b82679ef5f5f |
# -*- coding: utf-8 -*-
"""Tests for node utilities."""
import unittest
from pybel import BELGraph
from pybel.constants import INCREASES
from pybel.dsl import ComplexAbundance as g
from pybel.dsl import CompositeAbundance as c
from pybel.dsl import Protein, Reaction
from pybel.examples.various_example import (
a... | pybel/pybel | tests/test_struct/test_node_utils.py | Python | mit | 4,850 | [
"Pybel"
] | f095351fbb5dc0f8f5ce9415416d60d4ef8811651639db9db3492c94132a29f6 |
# coding: utf-8
"""
This module provides functions for finding the dimensions of connected subunits
in a crystal structure.
This method finds the dimensionality of the material even when the material is
not layered along low-index planes, or does not have flat layers/molecular wires.
See details at : Cheon, G.; Duerl... | tschaume/pymatgen | pymatgen/analysis/find_dimension.py | Python | mit | 8,645 | [
"CRYSTAL",
"Jmol",
"pymatgen"
] | a08eb44931ba911581920077bea39450090c49c7124ca31d837ad49a5d1fc0cb |
# -*- coding: UTF-8 -*-
#
"""
history
Names of cities, countries, addresses.
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
3.0.0 - split all the content into babycontents
evb - note: only one dictionary named 'content' allowed per module
this limitation is to spe... | LettError/filibuster | Lib/filibuster/content/geography.py | Python | mit | 15,602 | [
"COLUMBUS"
] | 5da8e5d4c1ffc1a22966e2e7e585e9ba657d6ed4291f9a5b573d235412caba50 |
from psi4 import *
import readline # optional, will allow Up/Down/History in the console
import code
def run():
print_out("\nStarting interactive session.\n\n")
vars = globals().copy()
vars.update(locals())
shell = code.InteractiveConsole(vars)
shell.interact()
| spring01/libPSI | lib/python/interactive.py | Python | gpl-2.0 | 285 | [
"Psi4"
] | 4e66c3da53f3b6fb2aedc8b015267ae8c6c64b54435b807aaf242a8348adcea2 |
""" Priority corrector for the group and in-group shares
"""
__RCSID__ = "$Id$"
from DIRAC import gLogger, S_OK, S_ERROR
from DIRAC.Core.Utilities import ObjectLoader
from DIRAC.ConfigurationSystem.Client.Helpers.Operations import Operations
from DIRAC.WorkloadManagementSystem.private.correctors.BaseCorrector import ... | fstagni/DIRAC | WorkloadManagementSystem/private/SharesCorrector.py | Python | gpl-3.0 | 4,492 | [
"DIRAC"
] | 4ed81065931e26dfb02012ff975c515e26f7ecd72f92482e188166e4facbb8eb |
import pychemia
import unittest
class KPointsTest(unittest.TestCase):
def test_optimized_grid(self):
"""
Test (pychemia.crystal.kpoints) :
"""
st = pychemia.code.vasp.read_poscar('tests/data/SbBi/POSCAR')
kp = pychemia.crystal.KPoints.optimized_... | MaterialsDiscovery/PyChemia | tests/test_crystal_kpoints.py | Python | mit | 1,240 | [
"CRYSTAL",
"VASP"
] | 6679e7dda02527443f7cbeb4d1740bfe83c315e24aa7d9bb0bedf278e0542652 |
import os
from boxbranding import getMachineBrand, getMachineName
import xml.etree.cElementTree
from datetime import datetime
from time import ctime, time, strftime, localtime, mktime
from bisect import insort
from enigma import eActionMap, quitMainloop
from Components.config import config
from Components.TimerSanity... | schleichdi2/OpenNfr_E2_Gui-6.0 | PowerTimer.py | Python | gpl-2.0 | 44,745 | [
"ASE"
] | 9ef19ff74da4ccb2ed258e24d5c54340b5437767a74448da4c76ea99104f63f4 |
#!/usr/bin/env python
'''
setup board.h for chibios
'''
import argparse
import sys
import fnmatch
import os
import dma_resolver
import shlex
import pickle
import re
import shutil
import filecmp
parser = argparse.ArgumentParser("chibios_pins.py")
parser.add_argument(
'-D', '--outdir', type=str, default=None, help=... | collmot/ardupilot | libraries/AP_HAL_ChibiOS/hwdef/scripts/chibios_hwdef.py | Python | gpl-3.0 | 91,373 | [
"CRYSTAL"
] | 64a9dfb9c64d278be5f839a058288c1e38b9fc94cef2d1d95430ec5333e5546a |
"""
How to get a particular Neuron's gap junctions from the database.
"""
from __future__ import absolute_import
from __future__ import print_function
from owmeta_core.command import OWM
from owmeta_core.context import Context
from owmeta.worm import Worm
from owmeta.neuron import Neuron
# Connect to existing databa... | openworm/PyOpenWorm | examples/gap_junctions.py | Python | mit | 1,122 | [
"NEURON"
] | 2a5b1f47d126dc566492f4e3b6b2a8e5d44cf4a47e8de4b717a4d279ba031147 |
#!/usr/bin/env python
# Copyright 2018 Google LLC
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# https://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or ... | googleads/google-ads-python | examples/advanced_operations/add_expanded_text_ad_with_upgraded_urls.py | Python | apache-2.0 | 4,556 | [
"VisIt"
] | b4758ad2047eea33f0cd3919a03aac0ef0a35863b438aace33f1c3c088b6bfea |
from __future__ import absolute_import
from __future__ import unicode_literals
import logging
from functools import reduce
from docker.errors import APIError
from .config import ConfigurationError
from .config import get_service_name_from_net
from .const import DEFAULT_TIMEOUT
from .const import LABEL_ONE_OFF
from .... | ph-One/compose | compose/project.py | Python | apache-2.0 | 12,485 | [
"VisIt"
] | a0369ada692c0944a3497d10333c56c37245a254d9896dadd4db5dd78f43a2c8 |
"""
Weight models for the Network GLM
"""
import numpy as np
import theano.tensor as T
from component import Component
from pyglm.components.priors import create_prior
def create_weight_component(model, latent):
type = model['network']['weight']['type'].lower()
if type == 'constant':
weig... | slinderman/theano_pyglm | pyglm/components/weights.py | Python | mit | 3,441 | [
"Gaussian"
] | 1f2d1c76674c0e9023d14b5b1c94643973c3acecba5afcaf291c391b6d3085f8 |
# $Id$
#
# Copyright (C) 2002-2008 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.
#
"""unit testing code ... | rdkit/rdkit-orig | rdkit/Chem/Pharm2D/UnitTestMatcher.py | Python | bsd-3-clause | 2,870 | [
"RDKit"
] | 6db1b0c77c3a72544e05dd34303cb6bdb82eb7e8dd2a2b539351a1c34f85361a |
'''
Created on 30.04.2015
@author: marscher
'''
import unittest
import os
import tempfile
from glob import glob
from pyemma.coordinates.data.traj_info_cache import _TrajectoryInfoCache as TrajectoryInfoCache
import mdtraj
path = os.path.join(os.path.split(__file__)[0], 'data')
# os.path.join(path, 'bpti_mini.xtc')
x... | arokem/PyEMMA | pyemma/coordinates/tests/test_traj_info_cache.py | Python | bsd-2-clause | 941 | [
"MDTraj"
] | 5415b2da3ffc2359f140f1bc7180e5c9fcaae7b1ab761d9d7738ef0867770fd1 |
#!/usr/bin/env python
import vtk
from vtk.test import Testing
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
# get the interactor ui
## Graphics stuff
# Create the RenderWindow, Renderer and both Actors
#
ren1 = vtk.vtkRenderer()
renWin = vtk.vtkRenderWindow()
renWin.AddRenderer(ren1)
iren =... | HopeFOAM/HopeFOAM | ThirdParty-0.1/ParaView-5.0.1/VTK/Filters/Core/Testing/Python/multipleComponentContour.py | Python | gpl-3.0 | 1,879 | [
"VTK"
] | 9ef282c0d29ed00f16ca57937dc6322f0d6b91f504f833bab54598f49daa3b08 |
#!/usr/bin/python
from dftCode import msg
import numpy as np
import csv
def examples():
"""Prints examples of using the script to the console using colored output.
"""
script = "Code to compute DFT energies of a crystal structure."
explain = ("This c... | nycmouli/PYDFT | dftCode/dftSolve.py | Python | mit | 7,052 | [
"CRYSTAL",
"Gaussian"
] | 88e41285dca397fa4d7caf1cf5bcf9a4e4319377a38e8b54503f66d1d19cf9ab |
from os import path, mkdir, listdir
from pysces import output_dir
__all__ = ['get_model_name', 'make_path', 'next_suffix', 'get_file_path',
'get_fmt']
def get_model_name(mod):
"""Returns the file name of a pysces model object sans the file extension.
Parameters
----------
mod : PysMod
... | exe0cdc/PyscesToolbox | psctb/modeltools/_paths.py | Python | bsd-3-clause | 5,393 | [
"PySCeS"
] | 9e2f24cc8bb08d8ef3edf1382dba13f9f92119e93deb6dd8cbada226d5d43e7d |
# -*- coding: utf-8 -*-
# vim: autoindent shiftwidth=4 expandtab textwidth=120 tabstop=4 softtabstop=4
###############################################################################
# OpenLP - Open Source Lyrics Projection #
# ------------------------------------------------------... | marmyshev/transitions | openlp/plugins/images/imageplugin.py | Python | gpl-2.0 | 5,414 | [
"Brian"
] | 479ccdb6f9305b28167d7161247c971d26f825ce9f61e0733ceab4874da91ac5 |
import ocl
import camvtk
import time
import vtk
import datetime
import math
if __name__ == "__main__":
print ocl.revision()
myscreen = camvtk.VTKScreen()
a = ocl.Point(0,1,0.3)
myscreen.addActor(camvtk.Point(center=(a.x,a.y,a.z), color=(1,0,1)))
b = ocl.Point(1,0.5,0.3)
myscreen.a... | tectronics/opencamlib | scripts/waterline/waterline_0_onetriangle.py | Python | gpl-3.0 | 3,463 | [
"VTK"
] | 0e8e8189446763787d9a2b1c33ed00bd8581633fcd24624f220d2fe0bffdf8e7 |
"""Test the Transformationinfo."""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
from collections import OrderedDict
from contextlib import contextmanager
import pytest
from mock import MagicMock as Mock, patch
from DIRAC import S_OK, S_ERROR
import DIRA... | yujikato/DIRAC | src/DIRAC/TransformationSystem/test/Test_TransformationInfo.py | Python | gpl-3.0 | 15,194 | [
"DIRAC"
] | f579f6804a8ab68ffe23b34a38c3d40ca86b8d19701c63626478b0bd20b8d8b1 |
import ocl
import camvtk
import time
import datetime
import vtk
def drawTree(myscreen,t,color=camvtk.red,opacity=0.2, offset=(0,0,0)):
nodes = t.get_nodes()
black=0
nmax=len(nodes)
i=0
for n in nodes:
cen = n.point()
#print "cen=",cen.str()
scale = n.get_scale()
#p... | aewallin/opencamlib | src/attic/ocode/ocode_cylcutter_volume_2.py | Python | lgpl-2.1 | 6,262 | [
"VTK"
] | 8dbfd42990b8c6c5a75f2ee81c3892c2c958e2d4de24ce659449dc6fa604fe83 |
#!/usr/bin/env python
# -*- encoding: utf-8 -*-
# CREATED:2015-03-06 14:24:58 by Brian McFee <brian.mcfee@nyu.edu>
'''Unit tests for JAMS core objects'''
import os
import tempfile
import json
import six
import sys
import warnings
import pytest
import numpy as np
import jams
xfail = pytest.mark.xfail
parametrize = ... | marl/jams | tests/test_jams.py | Python | isc | 37,321 | [
"Brian"
] | 64c5bcb06ca77245baa16077d565240a8ea92055656ee1a685215f37e1aab6c5 |
from pypipe import formats
class Bcftools:
@staticmethod
def view():
return {
'cmd': 'bcftools view',
'type': None,
'log': 'log',
'out': {
'redirect': True,
'return': [
{'arg': 'out', 'type': {'b': for... | ctlab/pypipe | pypipe-core/pypipe/tools/toolsconfig.py | Python | mit | 29,416 | [
"BWA"
] | 491b914c8c54ba06a8f34254eb4c5dd4fc7fe89393a365f47d5bbe83464a3c9a |
# Copyright (C) 2015-2022 by the RBniCS authors
#
# This file is part of RBniCS.
#
# SPDX-License-Identifier: LGPL-3.0-or-later
from dolfin import *
from rbnics import *
@DEIM("online")
@ExactParametrizedFunctions("offline")
class Gaussian(EllipticCoerciveProblem):
# Default initialization of members
def __... | mathLab/RBniCS | tests/methodology/tutorials/05_gaussian/tutorial_gaussian_deim_online_exact_offline.py | Python | lgpl-3.0 | 4,240 | [
"Gaussian"
] | 491170d51ec762fc6fd1b4a7fdf2fb4c21770f5165dd633224d719626dfa62b7 |
#!/usr/bin/env python
import vtk
import numpy as np
from vmtk import vmtkscripts
import argparse
import itertools
import os
# clip boxes along the surface
# calculate basis from vector
# Tom Duff, James Burgess, Per Christensen, Christophe Hery, Andrew Kensler, Max Liani, and Ryusuke Villemin, Building an Orthonorma... | kayarre/Tools | vmtk/get_slice_boxes.py | Python | bsd-2-clause | 7,466 | [
"VTK"
] | b92e8f17eac6da576845e8bf015946a6435ee3888b33e3bdca4150c11b9027d2 |
# Copyright 2012 Google Inc.
#
# http://www.logilab.fr/ -- mailto:contact@logilab.fr
# 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 late... | tianzhihen/python-mode | pymode/libs/pylama/lint/pylama_pylint/pylint/checkers/stdlib.py | Python | lgpl-3.0 | 2,616 | [
"VisIt"
] | bd4c1d214c94bb22526a7b86b92ab7fe41a075c6a1869b8a5ba12463be2f995a |
'''
TODO Add a proper introduction of the package.
'''
from pyPaSWAS.Core.Exceptions import InvalidOptionException
from datetime import datetime
try:
import ConfigParser
except ImportError:
import configparser as ConfigParser
import logging
import optparse
import os
import sys
def set_logger(settings... | swarris/pyPaSWAS | pyPaSWAS/__init__.py | Python | mit | 18,830 | [
"Biopython"
] | 67385b69b82de5e84e06692db6c985b12a3992ff3fdd4653fe4038a0357fcb81 |
#!/usr/bin/env python3
#* This file is part of the MOOSE framework
#* https://www.mooseframework.org
#*
#* All rights reserved, see COPYRIGHT for full restrictions
#* https://github.com/idaholab/moose/blob/master/COPYRIGHT
#*
#* Licensed under LGPL 2.1, please see LICENSE for details
#* https://www.gnu.org/licenses/lgp... | nuclear-wizard/moose | python/mooseutils/tests/test_mooseMessage.py | Python | lgpl-2.1 | 3,660 | [
"MOOSE"
] | c562fd566dbdc5b7daa6a31bb9d15ae98e810f3b8472ef20fa144620902aaf65 |
#!/usr/bin/python
# LICENSE: GPL2
# (c) 2014 Kamil Wartanowicz
import logging
from util import hextools
from util import types_g
from util import types
import sim_codes
import sim_reader
import file_parser
import sim_router
from sim import sim_files
SIM_ID_0 = 0
SIM_ID_ALL = 0xFF
logicalChannel = 0
INIT_CONTROL_CHAN... | kamwar/simLAB | sim/sim_ctrl_2g.py | Python | gpl-2.0 | 25,682 | [
"ADF"
] | 84cd5514a7d1622388f921a978ac70b139d45189e57d32e4b1220479c94f32da |
#!/usr/bin/python
# -*- coding: utf-8 -*-
# Copyright: (c) 2016, Ansible RedHat, Inc
# 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_version': '1.1',
... | alxgu/ansible | lib/ansible/modules/utilities/logic/set_stats.py | Python | gpl-3.0 | 1,935 | [
"Brian"
] | ef98ff3827a4ad2b162d0e22fe25f999c413d1386bd9c1b2d0e8a845f9826db5 |
# Copyright (c) 2010-12, Pierre-Antoine Delsart, Kurtis Geerlings, Joey Huston,
# Brian Martin, and Christopher Vermilion
#
#----------------------------------------------------------------------
# This file is part of SpartyJet.
#
# SpartyJet is free software; you can redistribute it and/or modify
# ... | mickypaganini/SSI2016-jet-clustering | spartyjet-4.0.2_mac/python/spartyjet/gui/SpartyGui.py | Python | mit | 36,875 | [
"Brian"
] | 5db1df97a1047b34345c33426daa0e3536c1fc752d452637cbef843bc72c5b13 |
# -*- coding: utf-8 -*-
# vim: autoindent shiftwidth=4 expandtab textwidth=120 tabstop=4 softtabstop=4
###############################################################################
# OpenLP - Open Source Lyrics Projection #
# ------------------------------------------------------... | marmyshev/transitions | openlp/plugins/songs/lib/zionworximport.py | Python | gpl-2.0 | 6,939 | [
"Brian"
] | 96c982da88b2b16d2fffff2f9d77bed521f07e41d30d13ea98483acfbffc1129 |
# -*- coding: utf-8 -*-
# vim: autoindent shiftwidth=4 expandtab textwidth=120 tabstop=4 softtabstop=4
###############################################################################
# OpenLP - Open Source Lyrics Projection #
# ------------------------------------------------------... | marmyshev/transitions | openlp/plugins/songs/lib/olp1import.py | Python | gpl-2.0 | 9,821 | [
"Brian"
] | 96ba2192893ad7c6e11ad4773a19a11f815e29fd0a3d3c624445169cb04201a0 |
# Principal Component Analysis Code :
from numpy import mean,cov,double,cumsum,dot,linalg,array,rank,size,flipud
from pylab import *
import numpy as np
import matplotlib.pyplot as pp
#from enthought.mayavi import mlab
import scipy as scp
import scipy.ndimage as ni
import scipy.io
import roslib; roslib.load_manifes... | tapomayukh/projects_in_python | sandbox_tapo/src/skin_related/AI_Surface_Recognition/src/k_NN_analyze.py | Python | mit | 4,949 | [
"Mayavi"
] | af0b9ebb9b18e9de60f062d0b25be8f5d52f7d2addd39f24b4ea846340957615 |
# Contains physical constants.
# All units are SI except where stated otherwise.
# Ideal gas constant
r_gas = 8.3144598 # SI
r_gas_cal = 1.9858775 # Calories
# Boltzmann constant
boltzmann_cnst = 1.3806488e-19
# Loschmidt constant
n_loschmidt = 2.6867805e+25
# Avogadro constant
n_avogadro = 6.022045e+23
# Atomic m... | DavidSAmundsen/socrates_tools | cmn/constants.py | Python | mit | 364 | [
"Avogadro"
] | f69f01f95542e90812f86b17f6cb0443ac7bb7f124db5079c0a3dc198b4ff2ff |
#!/usr/bin/env python
renWin = vtk.vtkRenderWindow()
iren = vtk.vtkRenderWindowInteractor()
iren.SetRenderWindow(renWin)
renderer = vtk.vtkRenderer()
renWin.AddRenderer(renderer)
src1 = vtk.vtkSphereSource()
src1.SetRadius(5)
src1.SetPhiResolution(20)
src1.SetThetaResolution(20)
mapper = vtk.vtkPolyDataMapper()
mapper... | collects/VTK | Rendering/Core/Testing/Python/TestCgShader.py | Python | bsd-3-clause | 937 | [
"VTK"
] | f437e99b1d869456f24f49688d0dcd275a572e79ba1c4b28b3cd6ed74c3aac5b |
#!/usr/bin/env python
#29-11-2016
#Authors:Sebastian ECHEVERRI RESTREPO,
# sebastian.echeverri.restrepo@skf.com, sebastianecheverrir@gmail.com
# James EWEN
# j.ewen14@imperial.ac.uk, jimmyewen@gmail.com
#################################################################################3
# This file contains a fu... | JE1314/LAMMPS_builder | root/Fe2O3.py | Python | gpl-3.0 | 2,996 | [
"ASE",
"CRYSTAL"
] | 57e439ed1166c65e6e15111eb10ac69e382b0ef1cc1e6ddd233c7c397e80a7c0 |
# copyright 2003-2012 LOGILAB S.A. (Paris, FRANCE), all rights reserved.
# contact http://www.logilab.fr/ -- mailto:contact@logilab.fr
#
# This file is part of Logilab-common.
#
# Logilab-common is free software: you can redistribute it and/or modify it
# under the terms of the GNU Lesser General Public License as publ... | tkaitchuck/nupic | external/common/lib/python2.6/site-packages/logilab/common/registry.py | Python | gpl-3.0 | 41,325 | [
"VisIt"
] | 17058a5a33ac01e6cf01fa408eb068a27349c17909cf12a73e81d939df2ac354 |
import sys
def addZones(core):
gcwService = core.gcwService
gcwService.addZone('corellia', 'corellia_airspace', 0, 0, 0, 35714286, 0)
gcwService.addZone('corellia', 'corellia_pve', 0, 0, 0, 89285715, 0)
gcwService.addZone('corellia', 'corellia_pvp', 0, 0, 0, 89285715, 0)
gcwService.addZone('corellia', 'gcw_re... | agry/NGECore2 | scripts/gcwzones.py | Python | lgpl-3.0 | 30,880 | [
"Galaxy"
] | ffa3366db91b5bfe61b1dcb982563afa8891dcb419a3cebbe530a7a55f65f691 |
# FreeCAD TemplatePyMod module
# (c) 2010 Werner Mayer LGPL
"""
The module can be executed with:
FreeCAD -P <path_to_file> Automation.py
FreeCADCmd -P <path_to_file> Automation.py
"""
import FreeCAD, Part
def makeSnapshotWithGui():
from PySide import QtGui
import FreeCADGui
def getMainWindow():
... | bblacey/FreeCAD-MacOS-CI | src/Mod/TemplatePyMod/Automation.py | Python | lgpl-2.1 | 2,291 | [
"CRYSTAL"
] | 83003166b43db38d521c1de9905e5aead0ca975649f23ddb473e76fdc82bac73 |
# import sys
import datetime
from sqlalchemy import create_engine
# from sqlalchemy.orm import sessionmaker
from app_config import db
from db_tables import Usage
from util import user_mapping
"""
This code was originally written to import data previous to 2012-03, which is
collected mannually from Chris Ing.
"""
de... | pomeslab/sumcoresg | queue_data.py | Python | gpl-2.0 | 3,142 | [
"ORCA"
] | a8df6564fc8d5bc4d0c77e88281d6fe3a657845d006ea5ed07096cbe112d8f5e |
def agts(queue):
h2_osc = queue.add('h2_osc.py', ncpus=8, walltime=2*60)
n2_osc = queue.add('n2_osc.py --state-parallelization=5',
ncpus=5*8, walltime=15*60)
na2_md = queue.add('na2_md.py', ncpus=8, walltime=2*60)
na2_osc = queue.add('na2_osc.py', ncpus=8, walltime=40*60)
if... | robwarm/gpaw-symm | gpaw/test/big/ehrenfest/submit.agts.py | Python | gpl-3.0 | 600 | [
"GPAW"
] | 3d14c9850b12adb160ce919e83fbb6a1b05be37ce717b7bd4772165a924c3ed0 |
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