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# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
This module is used to estimate the Herfindahl-Hirschman Index, or HHI, of
chemical compounds. The HHI is a measure of how geographically confined or
dispersed the elements comprising a compound are. A low ... | gVallverdu/pymatgen | pymatgen/analysis/hhi.py | Python | mit | 3,863 | [
"pymatgen"
] | d4bb73d02d34cd57944238eacfed1a85865da09b23c5851fe3d8a4baef463758 |
#!/usr/bin/env python
################################################################################
# This program is part of the Zenpack.community.Memcached Zenpack for Zenoss.
# Copyright (C) 2011 B Maqueira
#
# This program can be used under the GNU General Public License version 2
# For complete information ple... | zenoss/ZenPacks.community.Memcached | ZenPacks/community/Memcached/libexec/check_memcached.py | Python | gpl-2.0 | 3,797 | [
"VisIt"
] | 522dbd01797b3e6a97d5ea7e67b323506d82a41be6cf9c0087e29d6748ee9d68 |
# $Id$
#
# Copyright (C) 2006 greg Landrum
#
# @@ 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.
#
import unittest
from rdkit.Chem.FeatMaps import Feat... | rvianello/rdkit | rdkit/Chem/FeatMaps/UnitTestFeatMapUtils.py | Python | bsd-3-clause | 10,562 | [
"RDKit"
] | f329bbee462d82098805ad5487fce86aff7271e0e97e50c9392f7ce900cc8ae3 |
"""Utilty functions for converting between MIDI data and human-readable/usable
values
"""
import numpy as np
import re
from .constants import DRUM_MAP, INSTRUMENT_MAP, INSTRUMENT_CLASSES
def key_number_to_key_name(key_number):
"""Convert a key number to a key string.
Parameters
----------
key_numb... | douglaseck/pretty-midi | pretty_midi/utilities.py | Python | mit | 17,897 | [
"Brian"
] | 7425c34a8fb8682e04799ec3ca44081aec40ee1b7cda13ad9b6f4a1ec12ed52f |
from coyote_framework.testing.coyote_test import CoyoteTest
from example.example_app.config.example_config import ExampleConfig
from coyote_framework.drivers.coyote_driverfactory import driver_context
from example.example_app.page_objects.example_home_page import ExampleHomePage
__author__ = 'matt'
class TestSubmitF... | Shapeways/coyote_framework | example/example_tests/TestSubmitForm_ConfirmValues.py | Python | mit | 1,576 | [
"VisIt"
] | da53f54da16dbddc50483b9002428ead147681c968a1d77eb8051255c0924821 |
# -*- coding: utf-8 -*-
"""
***************************************************************************
QGIS Server Plugin Filters: add OGC Web Processing Service capabilities
---------------------
Date : August 2015
copyright : (C) 2015 by DHONT René-Luc - 3Liz
email ... | 3liz/qgis-wps4server | filters/wpsFilter.py | Python | gpl-3.0 | 71,786 | [
"NetCDF"
] | 52ce5cf3ff26f1c24aa9a11ae82be84c50aa57a1cb715b9e72132076be15dd5b |
#!/usr/bin/python2.7
# encoding: utf-8
# 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 ... | ominux/personfinder | tests/server_test_cases/person_note_tests.py | Python | apache-2.0 | 228,980 | [
"VisIt"
] | 67a967ec57121196ac2539346a3394f790696ca5b56d2a46c61815c2f49a2984 |
#!/usr/bin/env python
"""
Commands related to syncing copytext from Google Docs.
"""
import app_config
import os
from fabric.api import task
from oauth import get_document, get_credentials
from termcolor import colored
@task(default=True)
def update():
"""
Downloads a Google Doc as an Excel file.
"""
... | PostDispatchInteractive/app-template | fabfile/text.py | Python | mit | 890 | [
"VisIt"
] | cf1605dbd063d4d368c76cc955d0ec9c10bd5298a9710497f66d26afca81bd26 |
# (c) 2012-2014, Michael DeHaan <michael.dehaan@gmail.com>
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) an... | 2gis/ansible | lib/ansible/utils/__init__.py | Python | gpl-3.0 | 58,610 | [
"Galaxy",
"VisIt"
] | 5dd7355ff11db945d8cb3ad2292a302266de8442cea6cbd92ea346b72fb89b78 |
"""Guess the MIME type of a file.
This module defines two useful functions:
guess_type(url, strict=True) -- guess the MIME type and encoding of a URL.
guess_extension(type, strict=True) -- guess the extension for a given MIME type.
It also contains the following, for tuning the behavior:
Data:
knownfiles -- list ... | ruibarreira/linuxtrail | usr/lib/python3.4/mimetypes.py | Python | gpl-3.0 | 20,735 | [
"NetCDF"
] | 6e2ee434e34da8692f1db8e62b463c3be96d1aa17b340becc72a8dc0bca562ba |
# -*- coding: utf-8 -*-
__author__ = 'mroohian'
from lettuce import step, world
from salad.logger import logger
from salad.tests.util import wait_for_completion, assert_with_negate
from leaf import leaf_world
def open_page(page_url):
if leaf_world.base_url is None:
raise ValueError('leaf_world.base_url i... | mroohian/Leaf | src/leaf/steps/browser/navigation.py | Python | bsd-3-clause | 2,694 | [
"VisIt"
] | 70c2c85ee4819b5ec9714f3b8d35e8eef4b4074ceba7af4720989b1ba29aa550 |
# Author: Suyog Dutt Jain <suyog.jain@aero.iitb.ac.in>
# Copyright (c) 2009, Enthought, Inc.
# License: BSD Style.
# Standard library imports.
import unittest
#Local Imports
from common import get_example_data
# Enthought library imports
from mayavi.core.null_engine import NullEngine
from mayavi.core.registry impor... | liulion/mayavi | mayavi/tests/test_registry.py | Python | bsd-3-clause | 5,919 | [
"Mayavi"
] | 87f9812c757fc9555da29b22d7514b89ef0320aa6a0485e385fbeeb359257d65 |
# MolMod is a collection of molecular modelling tools for python.
# Copyright (C) 2007 - 2008 Toon Verstraelen <Toon.Verstraelen@UGent.be>
#
# This file is part of MolMod.
#
# MolMod 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... | woutersmet/Molmodsummer | test/io/cp2k.py | Python | gpl-3.0 | 4,644 | [
"CP2K"
] | 3d81e24fd9856cc3d337ff3f087d6bba796938d9066b2b541647e0550c53995b |
#!/usr/bin/env python
# Copyright 2014-2018 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# U... | gkc1000/pyscf | pyscf/scf/__init__.py | Python | apache-2.0 | 6,904 | [
"DIRAC",
"PySCF"
] | e784aee655841750710b2df54baa008146abda087324673f126c08e0b85dedf7 |
#!/bin/env python
#
# Copyright 2013-2014 Graham McVicker and Bryce van de Geijn
#
# 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 ... | cdeboever3/WASP | CHT/bam2h5.py | Python | apache-2.0 | 25,039 | [
"pysam"
] | 62a794daf8bf99c70c065d19fd3b54c24f06b2a61ce8ec4fdd938e36f04bb9fb |
"""
==================================================
Automatic Relevance Determination Regression (ARD)
==================================================
Fit regression model with :ref:`bayesian_ridge_regression`.
Compared to the OLS (ordinary least squares) estimator, the coefficient
weights are slightly shifted ... | seckcoder/lang-learn | python/sklearn/examples/linear_model/plot_ard.py | Python | unlicense | 2,517 | [
"Gaussian"
] | 4e5aefbaecb75597e6a2ffb467e161310816e7da982a4d14b8b453cb6dd4192c |
import importlib
import io
import os
import csv
import math
import numpy as np
import matplotlib.pyplot as plt
import matplotlib.patches as patches
import matplotlib.path as path
import matplotlib.dates as mdates
from dateutil.parser import parse
from datetime import datetime
from datetime import timedelta
# Python 2 ... | bearing/dosenet-analysis | D3S_analysis/radon_variation_analysis.py | Python | mit | 19,367 | [
"Gaussian"
] | 18086607ee83887c9e0f931e2ac333f0dd7547bad77b693dd1e8a5b8549bae5c |
import httplib2
import os
import sys
import traceback
import time
import datetime
import apiclient
from apiclient import discovery
from oauth2client import file
from oauth2client import client
from oauth2client import tools
from sqlalchemy import engine_from_config
from sqlalchemy.exc import IntegrityError
from con... | GuardedRisk/Google-Apps-Auditing | acctwatch/acctwatch.py | Python | isc | 5,596 | [
"VisIt"
] | 266ca063ee36750a9711730b0af1bb4dd5beac3f0ef6b2b7db9ee3ed23c83053 |
"""Contain the AskViewTests class"""
import unittest
import os
import tempfile
import datetime
from shutil import copyfile
from pyramid import testing
from pyramid.paster import get_appsettings
from askomics.libaskomics.TripleStoreExplorer import TripleStoreExplorer
from askomics.libaskomics.rdfdb.SparqlQueryBuilder... | ofilangi/askomics | askomics/test/askView_test.py | Python | agpl-3.0 | 35,927 | [
"Galaxy"
] | 16b3ae15cb6c8481ca6cdcf0727a901ae3f9c4068d336ba375ddf226765e64d6 |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2021 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of Psi4.
#
# Psi4 is free software; you can redistribute it and/or modify
#... | ashutoshvt/psi4 | psi4/share/psi4/databases/NHTBH.py | Python | lgpl-3.0 | 36,605 | [
"Psi4"
] | 0ea0628ca75a23387da313771bc4df768ed64f9e4127125338d7568537f7f457 |
#!/usr/bin/env python
# Generates a phantom from an atlas of tracts
# Saves the phantom to a niftii image afterwards
## Import common Python libraries
# import os
# import getopt
# import sys
# import time
import glob
# import re
#Modif outside toolobx
import sct_utils as sct
#import sct_utilsc as sct
import numpy as... | 3324fr/spinalcordtoolbox | dev/atlas/validate_atlas/generate_phantom.py | Python | mit | 6,966 | [
"Gaussian"
] | 2ae75fab4473a9a9d5501a4ec51857f4dd45e7ce2b2298622c2346ad3c5cdb20 |
"""
=======================================
Signal processing (:mod:`scipy.signal`)
=======================================
Convolution
===========
.. autosummary::
:toctree: generated/
convolve -- N-dimensional convolution.
correlate -- N-dimensional correlation.
fftconvolve -- N-dimensional convol... | niknow/scipy | scipy/signal/__init__.py | Python | bsd-3-clause | 11,556 | [
"Gaussian"
] | 7cf36070e6642f1fef71a026de0d0719d8444c58e4165ca5424055e772a6f177 |
# Copyright 2017 Google Inc. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or ag... | Sorsly/subtle | google-cloud-sdk/lib/googlecloudsdk/command_lib/search_help/table.py | Python | mit | 3,038 | [
"VisIt"
] | 5db67b074b30d6b582aee69ba84b3fffb60754d2dd632649ea016b175e0580b9 |
"""
Collection of physical constants and conversion factors.
Most constants are in SI units, so you can do
print '10 mile per minute is', 10*mile/minute, 'm/s or', 10*mile/(minute*knot), 'knots'
The list is not meant to be comprehensive, but just convenient for everyday use.
"""
from __future__ import annotations
i... | scipy/scipy | scipy/constants/_constants.py | Python | bsd-3-clause | 10,194 | [
"Avogadro"
] | 23d636f9fea74c889a806d76fdbb75f1de9ab3eccb6b125bedc5f089cde06359 |
import os
import shutil
from tempfile import mkdtemp
import numpy
from trefoil.netcdf.crs import set_crs
from trefoil.netcdf.variable import SpatialCoordinateVariables
from django.conf import settings
from django.core.management.base import BaseCommand
from ncdjango.models import Service
from netCDF4 import Dataset
S... | consbio/seedsource-core | seedsource_core/django/seedsource/management/commands/convert_services_to_min_type.py | Python | bsd-3-clause | 3,677 | [
"NetCDF"
] | 170b99558edeb5431835440acbb2f27dbf7dfceb1659bd2c87d40245161d8051 |
import six
from json import dumps
from unittest import TestCase
try:
from unittest.mock import patch
except ImportError:
from mock import patch
from six.moves import builtins
from ..mocking import mockOpen, File
from .sample_data import PARAMS, RECORD0, RECORD1, RECORD2, RECORD3, RECORD4
from dark.reads imp... | bamueh/dark-matter | test/blast/test_titles.py | Python | mit | 39,957 | [
"BLAST"
] | ec34ca7050cc06b57173758de97f8a46dad5d2407af909b16c3ee2e6ce5460ab |
# -*- coding: utf-8 -*-
"""
Created on Wed Jan 13 09:41:53 2016
@author: Radu
"""
# -*- coding: utf-8 -*-
"""
Created on Tue Jan 12 10:34:07 2016
@author: Radu
"""
import sys
sys.path.insert(0, '../ClarkesNetwork')
from cell import Cell
from neuron import h
class Motoneuron(Cell): #### Inherits from Cell
"""... | penguinscontrol/Spinal-Cord-Modeling | CPG/motoneuron.py | Python | gpl-2.0 | 2,930 | [
"NEURON"
] | 8f29473867997f3b88079702bded446b741eeb556fbd05262aaed36a4b8c054e |
import openvoronoi as ovd
import ovdvtk
import time
import vtk
import math
import offset2vtk
if __name__ == "__main__":
# w=2500 # screen resolution for big screens
# h=1500
# w=1920
# h=1080
w = 1024
h = 1024
myscreen = ovdvtk.VTKScreen(width=w, height=h) # a VTK window for drawing
... | aewallin/openvoronoi | python_examples/offset/offset_1.py | Python | lgpl-2.1 | 3,285 | [
"VTK"
] | e0abb829525cf74ca4d64b345cbf44614a0f0b7832e5dfbd3aac10829936a366 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import json
import os
import unittest
import warnings
from monty.os.path import which
from monty.serialization import loadfn
from pymatgen.electronic_structure.bandstructure import BandStructure
from pymatge... | gmatteo/pymatgen | pymatgen/electronic_structure/tests/test_boltztrap.py | Python | mit | 15,695 | [
"ASE",
"BoltzTrap",
"pymatgen"
] | e37a0e6a79d37375f6b15c27af5a16bc37c7c1dafacc3893eb91579772e161a6 |
""" The Matcher service provides an XMLRPC interface for matching jobs to pilots
It uses a Matcher and a Limiter object that encapsulated the matching logic.
It connects to JobDB, TaskQueueDB, and PilotAgentsDB.
"""
__RCSID__ = "$Id$"
from DIRAC import gLogger, S... | Andrew-McNab-UK/DIRAC | WorkloadManagementSystem/Service/MatcherHandler.py | Python | gpl-3.0 | 5,131 | [
"DIRAC"
] | a85b011167fcf170e4ea16f5c0015fb9360fa905154891194fabea96d22aeb28 |
"""
End-to-end test for cohorted courseware. This uses both Studio and LMS.
"""
from bok_choy.page_object import XSS_INJECTION
from nose.plugins.attrib import attr
from common.test.acceptance.fixtures.course import XBlockFixtureDesc
from common.test.acceptance.pages.common.auto_auth import AutoAuthPage
from common.te... | Stanford-Online/edx-platform | common/test/acceptance/tests/test_cohorted_courseware.py | Python | agpl-3.0 | 12,136 | [
"VisIt"
] | d57777328bb80d2719e438cc22b5096dea33e489207c995c79481a698e477ec8 |
import contextlib
import itertools
import math
import os.path
import pickle
import shutil
import sys
import tempfile
import warnings
from contextlib import ExitStack
from io import BytesIO
from pathlib import Path
from typing import Optional
import numpy as np
import pandas as pd
import pytest
from pandas.errors impor... | shoyer/xarray | xarray/tests/test_backends.py | Python | apache-2.0 | 179,902 | [
"NetCDF"
] | da8079c50bd40affa8bcfa65d2012fdbd1757da34959beb94352fbe09a407f29 |
#!/usr/bin/env python
import argparse
import csv
import os
import pysam
def break_count(bam, chrom, poslist, minpad=5, flex=1, minmapq=10):
''' ref = number of reads spanning TSD, alt = number of reads clipped at breakpoint in poslist '''
altcount = 0
refcount = 0
discards = 0
poslist = list(po... | adamewing/tebreak | scripts/misc/genotype_nonref.py | Python | mit | 3,952 | [
"pysam"
] | 217225705c7085f2548bfbcb1bcc696aca5553194ce977bab21ec1c44f97584a |
# 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... | fweik/espresso | testsuite/python/dipolar_mdlc_p3m_scafacos_p2nfft.py | Python | gpl-3.0 | 7,562 | [
"ESPResSo"
] | 5adccf77eb65830106ed8589504f2032bd7272f7e2d5fccfab07051fe67714df |
#!/usr/bin/env python
# Copyright (c) 2012 The Chromium Authors. All rights reserved.
# Use of this source code is governed by a BSD-style license that can be
# found in the LICENSE file.
#
# This script can be used to convert messages.json to grd translations.
import codecs
import json
import optparse
import os
impor... | plxaye/chromium | src/remoting/tools/json_to_grd.py | Python | apache-2.0 | 6,744 | [
"xTB"
] | 39b0a8c11858db1e4776ef664a222e8a0ddefd31ccb91fd7770b6ddda0b67365 |
# ----------------------------------------------------------------------------
# Copyright (c) 2013--, scikit-bio development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file COPYING.txt, distributed with this software.
# --------------------------------------------... | SamStudio8/scikit-bio | skbio/_base.py | Python | bsd-3-clause | 17,384 | [
"scikit-bio"
] | c2e618e9682fd474ee9c4ea076cf7b744ba88bf2f544f7457577c1b0ba172efe |
""" SandboxMetadataDB class is a front-end to the metadata for sandboxes
"""
__RCSID__ = "$Id$"
from DIRAC import gLogger, S_OK, S_ERROR
from DIRAC.Core.Base.DB import DB
from DIRAC.Core.Utilities import List
from DIRAC.Core.Security import Properties, CS
class SandboxMetadataDB( DB ):
def __init__( self ):
... | petricm/DIRAC | WorkloadManagementSystem/DB/SandboxMetadataDB.py | Python | gpl-3.0 | 16,400 | [
"DIRAC"
] | e667782f3231ce874699d5fdf9f51a1943302f44f1f56cbcf7f24287e704c995 |
# -*- coding: utf-8 -*-
# Copyright: (c) 2020-2021, Ansible Project
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
"""A facade for interfacing with multiple Galaxy instances."""
from __future__ import (absolute_import, division, print_function)
__metaclass__ = type
import... | mattclay/ansible | lib/ansible/galaxy/collection/galaxy_api_proxy.py | Python | gpl-3.0 | 7,409 | [
"Galaxy"
] | b59e4021dbc7d851e58b829499c593805070267235e2b02033ac02dc8bf74431 |
from warnings import warn
warn("pytesmo grids are deprecated and will be removed in the future."
" Use pygeogrids instead!")
from pygeogrids.netcdf import *
| christophreimer/pytesmo | pytesmo/grid/netcdf.py | Python | bsd-3-clause | 162 | [
"NetCDF"
] | 80e51c49a3a929bf1b8bb28cfaf747e61006c70206bd7f331c8e77d644e0daa6 |
################################################################
# Code for managing and training a generator/inferencer pair. #
################################################################
# basic python
import numpy as np
import numpy.random as npr
from collections import OrderedDict
# theano business
import t... | Philip-Bachman/Sequential-Generation | OneStageModel.py | Python | mit | 15,725 | [
"Gaussian"
] | 848ef09a04ae7f9dd1f01d606ed7457e4291a73f9e7a6dd90017e0543daf263b |
# Same filtering task using a Programmable Python Filter in Paraview.
aneurysm = self.GetInputDataObject(0,0)
vessel = self.GetInputDataObject(0,1)
output = self.GetOutputDataObject(0)
distanceFilter = vtk.vtkDistancePolyDataFilter()
distanceFilter.SetInputConnection( 0, vessel.GetProducerPort())
distanceFilter.SetIn... | rcorredorj/VTK_Sandbox | BoundarySurfaceByDistance/lib/BoundarySurfaceExtraction.py | Python | apache-2.0 | 927 | [
"ParaView",
"VTK"
] | 5c69f7847f1b280b790bca8da87996f9e91f2699a663306450cae063b880df9b |
#################################################################
# $HeadURL$
#################################################################
"""
.. module:: Pfn
:synopsis: ProcessPool and related classes
ProcessPool
ProcessPool creates a pool of worker subprocesses to handle a queue of tasks
much like the produ... | sposs/DIRAC | Core/Utilities/ProcessPool.py | Python | gpl-3.0 | 31,113 | [
"DIRAC"
] | 3f1a86ee7816d060e7163fae5bc34f9b2a0b57dbfaf01a4049e42ae284931a87 |
# -*- coding: utf-8 -*-
#
# test_clopath_synapse.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the Li... | heplesser/nest-simulator | testsuite/pytests/test_clopath_synapse.py | Python | gpl-2.0 | 9,418 | [
"NEURON"
] | 9d03f05b8ecfc72cba28f47dc9fbdded173b9c0d3dd9fe0406d31cc5f77ff77d |
from subprocess import call #interface to command LangevinNoisePositive
import scipy.optimize as spo
import scipy.io as sio
import numpy as np
import matplotlib.pyplot as plt
plt.ion() #interactive plotting
fig = plt.figure()
ax1 = fig.add_subplot(111)
# ax1.set_title('001 loading')
# ax1.set_ylim([0,35])
# ax2 = f... | jhektor/Puffin | inputfiles/HWRcrypla/calibration_main.py | Python | lgpl-2.1 | 6,620 | [
"CRYSTAL",
"MOOSE"
] | ae98c1784c683322db88ead4787a7eaa458704fde26d9cac3ff87ccbe8c025bf |
import urllib,urllib2,re,sys,xbmcplugin,xbmcgui
import cookielib,os,string,cookielib,StringIO,gzip
import os,time,base64,logging
import xbmcaddon
import urlresolver
import datetime
try:
import json
except ImportError:
import simplejson as json
#Dramacrazy
ADDON=dc=xbmcaddon.Addon(id='plugin.video.dramacra... | dknlght/dkodi | src/plugin.video.dramacrazy/default.py | Python | gpl-2.0 | 90,631 | [
"VisIt"
] | 7e6060c18fc7bd4c37a6ef3639c3563d9a07f375b0b73b6464377c0b85e0e0f4 |
# = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = =
import numpy as np
import os
import sys
import astropy.io.fits as afits
import matplotlib as mpl
mpl.use('Agg') # prevent pyplot from opening window; enables closing ssh session with detached screen running TDO... | kasperschmidt/TDOSE | tdose_build_mock_cube.py | Python | mit | 15,475 | [
"Gaussian"
] | 1ed449a62cef5e96294b093f863af42a820dacb349639fc78b86a96c691e143c |
""" Create and send a combined request for any pending operations at
the end of a job:
* fileReport (for the transformation)
* jobReport (for jobs)
* accounting
* request (for failover)
"""
from DIRAC import gLogger
from DIRAC.TransformationSystem.Client import TransformationFilesStatus
fro... | DIRACGrid/DIRAC | src/DIRAC/Workflow/Modules/FailoverRequest.py | Python | gpl-3.0 | 4,031 | [
"DIRAC"
] | 4160a258faa30c797d08473b7881fa9cc8d21c6481e58dc0fb320a7db3a94799 |
from ovito import *
from ovito.io import *
from ovito.modifiers import *
from ovito.data import *
import numpy as np
node = import_file("../../files/CFG/shear.void.120.cfg")
modifier = CommonNeighborAnalysisModifier()
node.modifiers.append(modifier)
node.compute()
print("Number of FCC atoms: {}".format(node.output.at... | srinath-chakravarthy/ovito | tests/scripts/test_suite/mutable_particle_property.py | Python | gpl-3.0 | 575 | [
"OVITO"
] | fce2b29f2a62cc37f24c5eae8c498e0fa63f92164bd90e46ea424faa1d860854 |
import pytest
from capybara.exceptions import ElementNotFound
class SelectorTestCase:
@pytest.fixture(autouse=True)
def setup_session(self, session):
session.visit("/form")
class TestLabelSelector(SelectorTestCase):
def test_finds_a_label_by_text(self, session):
assert session.find("lab... | elliterate/capybara.py | capybara/tests/session/test_selectors.py | Python | mit | 1,736 | [
"VisIt"
] | 6777a14f35e4a9af0b09dc53bb851d5e4586aca412cbc68dad92a06618de9645 |
"""
Acceptance tests for Studio related to the acid xblock.
"""
from unittest import skip
from bok_choy.web_app_test import WebAppTest
from ...pages.studio.auto_auth import AutoAuthPage
from ...pages.studio.overview import CourseOutlinePage
from ...pages.xblock.acid import AcidView
from ...fixtures.course import Cours... | LearnEra/LearnEraPlaftform | common/test/acceptance/tests/studio/test_studio_acid_xblock.py | Python | agpl-3.0 | 7,198 | [
"VisIt"
] | 1722c12c9590af2a09c836a3ee43d5442b737c45b39253cd4107dff77b8449e6 |
# -*- coding: utf-8 -*-
"""
Global defaults and various utility functions usable by the general GUI
"""
import os
import re
import sys
import imp
import warnings
import webbrowser
import urllib.parse
import json
import types
import numpy
from io import BytesIO
import numpy as np
warnings.simplefilter("ignore")
impor... | SasView/sasview | src/sas/qtgui/Utilities/GuiUtils.py | Python | bsd-3-clause | 53,145 | [
"Gaussian"
] | 49f52ea007585bce58ed41e344dc4cba6cca631a4599a20f0d71a27dfc5a364b |
"""
UnshadowParameters prevents the shadow parameter phenomenon
"""
from pythran.analyses import Identifiers
from pythran.passmanager import Transformation
import gast as ast
class UnshadowParameters(Transformation):
'''
Prevents parameter shadowing by creating new variable.
>>> import gast as ast
... | serge-sans-paille/pythran | pythran/transformations/unshadow_parameters.py | Python | bsd-3-clause | 2,100 | [
"VisIt"
] | a1a2cd92974f428eb5e9377209d11671f62d415b9a0f4ebf0c07d20a22f95199 |
# -*- coding: utf-8 -*-
# Copyright 2007-2016 The HyperSpy developers
#
# This file is part of HyperSpy.
#
# HyperSpy is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at... | sem-geologist/hyperspy | hyperspy/_components/pes_see.py | Python | gpl-3.0 | 5,307 | [
"Gaussian"
] | 03a36b99d2b9ad135bccc731238a9f816d546aad8e8dfd9efb7b38261ff228c4 |
"""
API operations on Group objects.
"""
import logging
from galaxy.web.base.controller import BaseAPIController, url_for
from galaxy import web
log = logging.getLogger( __name__ )
class GroupRolesAPIController( BaseAPIController ):
@web.expose_api
@web.require_admin
def index( self, trans, group_id, **k... | mikel-egana-aranguren/SADI-Galaxy-Docker | galaxy-dist/lib/galaxy/webapps/galaxy/api/group_roles.py | Python | gpl-3.0 | 5,199 | [
"Galaxy"
] | 0596aa07e74356576319d9b8072ff8a71c2942032a97d91c77a7366584d04c07 |
import os
from setuptools import setup
__version__ = '0.3.0'
with open(os.path.join(os.path.dirname(__file__), 'CHANGES.rst')) as fp:
LONG_DESCRIPTION = fp.read()
setup(
name='compactor',
version=__version__,
description='Pure python implementation of libprocess actors',
long_description=LONG_DESCRIPTION... | wickman/compactor | setup.py | Python | apache-2.0 | 655 | [
"Brian"
] | 40ef705329ee329072979522cd82e0ba7aba9b3478914473dcb83fee3105dca4 |
#
#
import numpy as np
from GPy.core import SparseGP, Param
from GPy import likelihoods
from GPy import kern
from GPy.core.parameterization.variational import NormalPosterior, NormalPrior, VariationalPosterior
from GPy.core.parameterization.transformations import Logexp
from .variational import NormalEntropy,NormalPr... | zhenwendai/RGP | autoreg/layers.py | Python | bsd-3-clause | 79,869 | [
"Gaussian"
] | c02abb92534029ab8162667527125c041e41015b7c52640c4808be6397acb76a |
# Copyright 2009 by Cymon J. Cox. 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.
"""Command line wrapper for the multiple alignment program PROBCONS.
"""
from __future__ import... | updownlife/multipleK | dependencies/biopython-1.65/build/lib.linux-x86_64-2.7/Bio/Align/Applications/_Probcons.py | Python | gpl-2.0 | 5,220 | [
"Biopython"
] | eee8d74906f19ec827cca90fca23bae5573be26698a2ac00f413fc93f40497e9 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
""" ====================================
specEditor.py - Specification Editor
====================================
A development environment for specifications written in structured English,
allowing for editing, compilation, and execution/simulation
"""
... | VerifiableRobotics/LTLMoP | src/specEditor.py | Python | gpl-3.0 | 76,297 | [
"VisIt"
] | 2707db32611f14d82b780658aadc8b4f61e857e622290b18336223b26eb62fff |
# ======================================================================================================================
# Libraries and Modules
# Core modules
import numpy as np
import matplotlib.pyplot as plt
import illustris_python as ilpy
import translate_coordinates as tc #renato's code for camera projectio... | gsnyder206/mock-surveys | mocks_from_publicdata/summer2020/tng_lightcone_catalogs1.0.py | Python | mit | 28,299 | [
"Galaxy"
] | d667a427941ea8349e932ef5b93f42c1d13cbff09bddce093420bb25371278e6 |
# Copyright 2015 gRPC 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 writing... | muxi/grpc | src/python/grpcio/grpc_core_dependencies.py | Python | apache-2.0 | 42,221 | [
"ORCA"
] | f0810f5bfec05e624810b13da6243535079b4e2f6aba7ffbb78e9e9c78eac2db |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
'''
=========================================================================
Program: Visualization Toolkit
Module: TestNamedColorsIntegration.py
Copyright (c) Ken Martin, Will Schroeder, Bill Lorensen
All rights reserved.
See Copyright.txt or ... | hlzz/dotfiles | graphics/VTK-7.0.0/Filters/Core/Testing/Python/financialField.py | Python | bsd-3-clause | 7,028 | [
"VTK"
] | 498e8dda6473174a16ea5b836a6b7a34e62ebc9ebb7753d4339805aabdaa4c73 |
#!/usr/bin/env python
#
# This file is part of Buildbot. Buildbot 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, version 2.
#
# This program is distributed in the hope that it will be useful, but WITHOUT
# A... | jammerful/buildbot | master/setup.py | Python | gpl-2.0 | 20,057 | [
"Brian"
] | 33ee676d66ab1007ffef6ec3872b599e95b06cbcd1446afcd4fc69809195f3b6 |
#!/usr/bin/env python
# Copyright (C) 2013-2019 The ESPResSo project
# Copyright (C) 2012 Olaf Lenz
#
# 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 versio... | psci2195/espresso-ffans | src/config/featuredefs.py | Python | gpl-3.0 | 6,791 | [
"ESPResSo"
] | 383a6b986d122f4a9d5ac1b837eab9a1ac4da41398d47393e02d4e0bf4fd9127 |
# !usr/bin/env python
# -*- coding: utf-8 -*-
#
# Licensed under a 3-clause BSD license.
#
# @Author: Brian Cherinka
# @Date: 2018-09-03 18:56:38
# @Last modified by: Brian Cherinka
# @Last Modified time: 2018-11-20 12:06:47
from __future__ import absolute_import, division, print_function
from brain.utils.general... | sdss/marvin | python/marvin/api/query.py | Python | bsd-3-clause | 23,766 | [
"Brian"
] | 311f6fa14baed68ba35f9929de5ef632cf6d0f21344c18f3291c6d3129a4ee83 |
#!/usr/bin/python
"""
# Created on July 24, 2017
#
# @author: Vilian Atmadzhov (vilian.atmadzhov@paddypowerbetfair.com) GitHub ID: vivobg
#
# module_check: not supported
#
# Copyright: (c) 2017 Gaurav Rastogi, <grastogi@avinetworks.com>
# Vilian Atmadzhov, <vilian.atmadzhov@paddypowerbetfair.com>
# ... | valentin-krasontovitsch/ansible | lib/ansible/modules/network/avi/avi_api_version.py | Python | gpl-3.0 | 2,559 | [
"VisIt"
] | 17ac0bac7d3a79d51b2707a8f75595a6df095abd29a15867d1d73a29cdc2d21d |
''' DIRAC.ResourceStatusSystem.PolicySystem.Actions package
'''
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
__RCSID__ = '$Id$'
| yujikato/DIRAC | src/DIRAC/ResourceStatusSystem/PolicySystem/Actions/__init__.py | Python | gpl-3.0 | 193 | [
"DIRAC"
] | a428f1f2694b99470087f8d68a1fb9b69be9c3c738f83503b60ce442447e4b4a |
from pybrain.structure import FeedForwardNetwork
from pybrain.tools.validation import ModuleValidator,Validator
from pybrain.utilities import percentError
from pybrain.tools.customxml import NetworkReader
from pybrain.datasets import SupervisedDataSet
import numpy
import pylab
import os
def... | fxsjy/pybrain | examples/supervised/test_network_read_write/jpq2layersReader.py | Python | bsd-3-clause | 1,994 | [
"NEURON"
] | 54e6a1e49531989000161284fc0e46534bfb96b75a782427a7122412118855fe |
# MIT License
#
# Copyright The SCons Foundation
#
# Permission is hereby granted, free of charge, to any person obtaining
# a copy of this software and associated documentation files (the
# "Software"), to deal in the Software without restriction, including
# without limitation the rights to use, copy, modify, merge, ... | mapnik/mapnik | scons/scons-local-4.1.0/SCons/Taskmaster.py | Python | lgpl-2.1 | 41,096 | [
"VisIt"
] | d30084a60a46bdac85ff592cca8af54c18d5154c560fcd94822bf0bfbc4adb0b |
"""
========================================================================
Illustration of Gaussian process classification (GPC) on the XOR dataset
========================================================================
This example illustrates GPC on XOR data. Compared are a stationary, isotropic
kernel (RBF) and ... | manhhomienbienthuy/scikit-learn | examples/gaussian_process/plot_gpc_xor.py | Python | bsd-3-clause | 2,106 | [
"Gaussian"
] | 6c994eed53934205c70270c9c56a238554c5f51611af7f00687bf4c5f1bcb3f7 |
#
# Created by DraX on 2005.09.08
#
import sys
from net.sf.l2j.gameserver.model.quest import State
from net.sf.l2j.gameserver.model.quest import QuestState
from net.sf.l2j.gameserver.model.quest.jython import QuestJython as JQuest
#### CONSTANTS
####
#rewards
ADENA_ID = 57
DEMONS_TUN... | Barrog/C4-Datapack | data/jscript/quests/334_TheWishingPotion/__init__.py | Python | gpl-2.0 | 20,536 | [
"Amber"
] | 391156fc456f5f413aa7ff18025b1ef0e186ddbe813b537240033b0519d6a934 |
# -*- coding: utf-8 -*-
#
# Slave, (c) 2012-2014, see AUTHORS. Licensed under the GNU GPL.
from __future__ import (absolute_import, division,
print_function, unicode_literals)
from future.builtins import *
from slave.driver import Command, Driver
from slave.types import Boolean, Enum, Integer... | therealpyro/slave | slave/signal_recovery/sr7225.py | Python | gpl-3.0 | 27,674 | [
"ADF"
] | ac4ad9baf34046f450dc6a27374f9c6b417853bc0ff464b58f3b28fca8933019 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
dimensions= 1
size1d = 60
halfSize1 = [size1d,0.2,0.1]
halfSize2 = halfSize1
GRIDSIZE = 128
# wavepacket parameters
k0_x = 0
k0_y = 0
gaussWidth_x = 1.0
gaussWidth_y = 0.0
potentialCoefficient= [2.0,0.5,0.5]
O.engines=[
StateDispatcher([
St1_QMPacketGa... | cosurgi/trunk | examples/qm/1d-harmonic-interaction.py | Python | gpl-2.0 | 7,816 | [
"Gaussian"
] | 565e3c33beab12570bcd202b1f15b9f86547b184aa59cd54e9b5eb33bfef6850 |
"""
Implementation of gaussian filter algorithm
"""
from itertools import product
from cv2 import COLOR_BGR2GRAY, cvtColor, imread, imshow, waitKey
from numpy import dot, exp, mgrid, pi, ravel, square, uint8, zeros
def gen_gaussian_kernel(k_size, sigma):
center = k_size // 2
x, y = mgrid[0 - center : k_size ... | TheAlgorithms/Python | digital_image_processing/filters/gaussian_filter.py | Python | mit | 1,758 | [
"Gaussian"
] | 6d3a2c66ca9f3df63b369487e16584de438be562a1221778431179c8493a246b |
from utils import get_file
# Dictionary of ship types and sizes, 0 being smallest, 3 being largest
ship_types = {
"argosy": 1,
"barque": 3,
"barquentine": 2,
"bergantina": 2,
"bilander": 0,
"brig": 2,
"brigantine": 2,
"carrack": 3,
"cog": 2,
"corvette": 0,
"Dutch clipper": ... | eoinnoble/captains-log | data.py | Python | unlicense | 10,874 | [
"VisIt"
] | af8e482d0d37541677dbcaa65d3d43baaeba08a09cbab78ad9952ac41057f09a |
#!/usr/bin/env python
# By Jason Ladner
from __future__ import division
import sys, optparse, os, pysam
#For plotting
import matplotlib
matplotlib.use('PDF')
import matplotlib.pyplot as plt
from matplotlib.font_manager import FontProperties as fp
fontP = fp()
#Numpy for stdev
import numpy as np
import scipy
import sc... | jtladner/Scripts | strand_specific_coverage/plot_stranded_coverage_multinorm/plot_stranded_coverage_multinorm_v4.py | Python | gpl-3.0 | 8,059 | [
"pysam"
] | 427210b85a39e0f54604c791a5fe24c55adb1eee0d9dd7576b6f2e2f845cd5e7 |
from flask import Flask, render_template, request, g, Response, redirect, session, abort, send_file, url_for
from flask.ext.login import LoginManager, current_user
from jinja2 import FileSystemLoader, ChoiceLoader
from werkzeug.utils import secure_filename
from datetime import datetime, timedelta
from shutil import rmt... | SirCmpwn/listed | listed/app.py | Python | mit | 3,528 | [
"MOE"
] | 1233e2496e0125f7dc37b32e092a9fa2b06ef737b3c651082322948e83b93db3 |
#!/usr/bin/env python
import numpy as np
import cv2
import os
import glob
def findLaneLines(image):
#Define Parameters
#------------------------------------
#Region mask Parameters
lowery=1
upppery=0.6
dx=0.04
gap=0.07
#Color mask parameters
white_threshold=np.array([180]... | duc43836/FindingLanes | FindingLanes.py | Python | mit | 7,170 | [
"Gaussian"
] | 5a290f8cd530e31c7358fd2992543acf900e409fd51b0cbd8f493faa377edbef |
"""
provide a generic structure to support window functions,
similar to how we have a Groupby object
"""
from __future__ import division
import warnings
import numpy as np
from collections import defaultdict
from pandas.types.generic import (ABCSeries,
ABCDataFrame,
... | andyraib/data-storage | python_scripts/env/lib/python3.6/site-packages/pandas/core/window.py | Python | apache-2.0 | 60,756 | [
"Gaussian"
] | 2e47ec1f431e684daf21b5dfb08c94677a8681caee115689edb01c336a20a413 |
import RPi.GPIO as GPIO
import time
import signal
import sys
# Setup
GPIO.setmode(GPIO.BCM)
GPIO.setup(9, GPIO.OUT)
GPIO.setup(10, GPIO.OUT)
GPIO.setup(11, GPIO.OUT)
# Turn off all lights when user ends demo
def allLightsOff(signal, frame):
GPIO.output(9, False)
GPIO.output(10, False)
GPIO.output(11, False)
GPIO.... | simonprickett/pitrafficlights | basicdemo.py | Python | mit | 753 | [
"Amber"
] | f07a56470edf68b916ed60ae483e5dde4a48df222bdb0c18430d06440833ef95 |
# Authors: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Eric Larson <larson.eric.d@gmail.com>
# Oleh Kozynets <ok7mailbox@gmail.com>
# Guillaume Favelier <guillaume.favelier@gmail.com>
# jona-sassenhagen <jona.sassenhagen@gmail.com>
# Joan Massich <mailsik@gmail.com>
#... | wmvanvliet/mne-python | mne/viz/_brain/_brain.py | Python | bsd-3-clause | 154,690 | [
"VTK"
] | 3791ca6b8fc8522b1646f083d95fff353c429ed10c37b7230f09b357de3871aa |
# -*- coding: utf-8 -*-
"""
Created on Sun Jun 18 21:13:49 2017
@author: asadm2
"""
### DESCRIPTION
#This script checks if the RA and DEC of the galaxy are in the image
from astropy.wcs import WCS
from astropy.io import fits
from pathlib2 import Path
from glob import glob
import os
path_to_interim = '/fs1/masad/Res... | MehnaazAsad/ECO_Globular_Clusters | src/data/mods_prelim_checks_2/Obj_in_Img.py | Python | mit | 1,868 | [
"Galaxy"
] | 0b9bc9d1cf54756b74e238a7867091ee7a1964ed409b3f43a779be7899b43216 |
import py
from xdist.looponfail import RemoteControl
from xdist.looponfail import StatRecorder
class TestStatRecorder:
def test_filechange(self, tmpdir):
tmp = tmpdir
hello = tmp.ensure("hello.py")
sd = StatRecorder([tmp])
changed = sd.check()
assert not changed
hel... | ohmu/pytest-xdist | testing/test_looponfail.py | Python | mit | 8,439 | [
"VisIt"
] | bedaeb368b3b05ea0477ab9af982de813d4af4737e2bbc392ee395b276daa463 |
#
# GridCoordinates.py
#
# @author Alain Rinder
# @date 2017.06.02
# @version 0.1
#
import math
from src.Settings import *
from src.action.PawnMove import *
class Path:
"""
Find path for pawn
"""
def __init__(self, moves):
self.moves = moves
def... | alainrinder/quoridor.py | src/Path.py | Python | mit | 6,596 | [
"VisIt"
] | 95b4a26c12e1f436ab9aaebb15c61345bdbd1c622b13ddb74754c8c2556d2a70 |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""rna_tools_lib.py - main lib file, many tools in this lib is using this file."""
import os
import sys
from collections import OrderedDict
import re
import string
import time
import gzip
import tempfile
import shutil
import subprocess
from rna_tools.tools.extra_function... | m4rx9/rna-pdb-tools | rna_tools/rna_tools_lib.py | Python | mit | 82,236 | [
"Amber",
"Biopython",
"PyMOL",
"Pybel"
] | 9c348f4e6b63c0f06fa9f6e50fb1c0bebe9d3843314a318c6aa84b2865662f41 |
from django.shortcuts import render, redirect
from django.contrib.auth.decorators import login_required
from django.http import HttpResponse
from django.utils.encoding import smart_str
# from django.core.servers.basehttp import FileWrapper
from tethys_sdk.gizmos import SelectInput, JobsTable, ToggleSwitch
from app im... | CI-WATER/tethysapp-netcdf_to_gssha | tethysapp/netcdf_to_gssha/controllers.py | Python | bsd-2-clause | 5,643 | [
"NetCDF"
] | d8419b366a3bb5d4591b6068dd9e6046681a4d8eef87f8c9feec4efb881e3985 |
"""
Classes of taxonomy data
"""
import os
import sys
class TaxonNode:
def __init__(self, t=None, p=None, r=None, e=None, d=None, i=None, gc=None, igc=False, mgc=None, imgc=False,
gh=False, hs=False, c=None, *others):
self.parent = p
self.taxid = t
self.rank = r
... | linsalrob/PhageHosts | code/taxon/taxonomy/taxonomy.py | Python | mit | 3,396 | [
"BLAST"
] | 358fc92662b9acb9f155024c63816f0a9500073be013bf43a0fb1990b600ba2f |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
TODO: Modify unittest doc.
"""
__author__ = "Shyam Dwaraknath"
__copyright__ = "Copyright 2016, The Materials Project"
__version__ = "0.1"
__maintainer__ = "Shyam Dwaraknath"
__email__ = "shyamd@lbl.gov"
... | gVallverdu/pymatgen | pymatgen/analysis/tests/test_substrate_analyzer.py | Python | mit | 2,893 | [
"pymatgen"
] | 4e013427e124891a27e4876871ff4343698b68effecd48c435e73249786fa369 |
import time
from threading import Thread
from Box2D import *
from Box2D.b2 import *
import pygame, sys, math, random
from pygame.locals import *
running = True
colors = {
staticBody : (255,255,255,255),
dynamicBody : (127,127,127,255),
}
def my_draw_polygon(polygon, body, fixture, height, winSurf):
PPM=... | Lucas001/Reinforcement-Learning-Models | Q-Learning/RL-PathPlanning.py | Python | gpl-3.0 | 12,255 | [
"VisIt"
] | 877a47290d3d584d7c62db644a6c0e3dd8b407462466d7fd90459647315922bf |
import ast
import unittest
from pyt.core.transformer import PytTransformer
class TransformerTest(unittest.TestCase):
"""Tests for the AsyncTransformer."""
def test_async_removed_by_transformer(self):
self.maxDiff = 99999
async_tree = ast.parse("\n".join([
"async def a():",
... | python-security/pyt | tests/core/transformer_test.py | Python | gpl-2.0 | 2,336 | [
"VisIt"
] | 318dd76a390dc22abd66958c722d5d2ef053c63f42eef0cf886eec515efa738e |
from sqlalchemy import *
from sqlalchemy.orm import *
from sqlalchemy.exc import *
from migrate import *
from migrate.changeset import *
import datetime
now = datetime.datetime.utcnow
import sys, logging
# Need our custom types, but don't import anything else from model
from galaxy.model.custom_types import *
log = lo... | volpino/Yeps-EURAC | lib/galaxy/model/migrate/versions/0019_request_library_folder.py | Python | mit | 3,432 | [
"Galaxy"
] | ffe3e6eb5cee774563faa2da6e38e1b4c07f2495e1238278c2a8d392a97c68de |
"""
Tests for geography support in PostGIS
"""
from __future__ import unicode_literals
import os
from unittest import skipUnless
from django.contrib.gis.db.models.functions import Area, Distance
from django.contrib.gis.gdal import HAS_GDAL
from django.contrib.gis.measure import D
from django.test import TestCase, ign... | oinopion/django | tests/gis_tests/geogapp/tests.py | Python | bsd-3-clause | 5,944 | [
"VisIt"
] | 64e504c01b7253e02f4b6b1b8315dbebab6fcbf187578fbb29c163347fcf2ccc |
# Copyright 2007-2020 The HyperSpy developers
#
# This file is part of HyperSpy.
#
# HyperSpy is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later ve... | dnjohnstone/hyperspy | hyperspy/tests/component/test_component_set_parameters.py | Python | gpl-3.0 | 1,914 | [
"Gaussian"
] | 6ceac12217b57e1660d21d3f0fe805d9f6045b4a5de4b1af7c39c7348f6aaf94 |
# Warning - contains lots of spoilers
import random
import sys
from level import sign
def seekGoal(mob, target, radius, openDoors = False):
from pathfind import Pathfinder, infinity
import math
pf = Pathfinder(cost = lambda tile : infinity if tile.cannotEnterBecause( mob ) and not target(tile) and not (op... | svk/harmless7drl | ai.py | Python | mit | 21,665 | [
"BLAST"
] | e93e945e01c44e165e3d9973e8517bd431a7137214ca8950f5317d4529516531 |
#!/usr/bin/env python
import vtk
from vtk.test import Testing
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
# do alpha-blending of two images, but also clip with stencil
reader1 = vtk.vtkBMPReader()
reader1.SetFileName(VTK_DATA_ROOT + "/Data/masonry.bmp")
reader2 = vtk.vtkPNMReader()
reade... | sumedhasingla/VTK | Imaging/Core/Testing/Python/TestBlendStencil.py | Python | bsd-3-clause | 1,430 | [
"VTK"
] | ba0d5bd98e78b999033bc13ff9911876c0db49499a528f25e652f012534ec2aa |
r"""
Finite difference solution of the 2D wave equation for isotropic media.
* :func:`~fatiando.seismic.wavefd.elastic_psv`: Simulates the coupled P and SV
elastic waves using the Parsimonious Staggered Grid method of Luo and
Schuster (1990)
* :func:`~fatiando.seismic.wavefd.elastic_sh`: Simulates SH elastic waves... | mtb-za/fatiando | fatiando/seismic/wavefd.py | Python | bsd-3-clause | 32,983 | [
"BLAST",
"Gaussian"
] | 1b31437eef66aa8995c6bbd121fb72c062ce7daf282bfcc7c17169c351397560 |
"""Test that atoms.get_center_of_mass(scaled=True) works"""
import numpy as np
from ase import Atoms
d = 1.142
a = Atoms('CO', positions=[(2, 0, 0), (2, -d, 0)], pbc=True)
a.set_cell(np.array(((4, -4, 0), (0, 5.657, 0), (0, 0, 10))))
def array_almost_equal(a1, a2, tol=np.finfo(type(1.0)).eps):
return (np.abs(a1 ... | grhawk/ASE | tools/ase/test/com.py | Python | gpl-2.0 | 466 | [
"ASE"
] | 38ed2fed6fccf7d5ad5d9955acd6d53ac875583e0818fbb744ece6a14010825e |
#-*- coding: utf-8 -*-
# module pyparsing.py
#
# Copyright (c) 2003-2019 Paul T. McGuire
#
# Permission is hereby granted, free of charge, to any person obtaining
# a copy of this software and associated documentation files (the
# "Software"), to deal in the Software without restriction, including
# without limitation... | flavour/eden | modules/pyparsing.py | Python | mit | 253,545 | [
"VisIt"
] | 8de2eeb148d1ad0ecc97fc7fc6ba0bed253a3fde6dfd2d5b73e9652bf730edd7 |
# Copyright 2015 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... | ppwwyyxx/tensorflow | tensorflow/python/ops/image_ops_test.py | Python | apache-2.0 | 203,043 | [
"Gaussian"
] | 8a7e2f842f55ffc1d9c36942a851beb1d7070fa6c10001c68c469a86f5d2def0 |
#!/usr/bin/env python
__author__ = 'waroquiers'
import unittest
from pymatgen.analysis.chemenv.utils.coordination_geometry_utils import Plane
import numpy as np
import itertools
from pymatgen.util.testing import PymatgenTest
class PlanesUtilsTest(PymatgenTest):
def setUp(self):
#Test of plane 4x + 2y -... | matk86/pymatgen | pymatgen/analysis/chemenv/utils/tests/test_coordination_geometry_utils.py | Python | mit | 15,097 | [
"pymatgen"
] | b0ff6c40ea7aa369daa56f1783d707b4bb623426c894bb36a80dce1e9bc5cc4b |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2006 Donald N. Allingham
# Copyright (C) 2008 Brian G. Matherly
# Copyright (C) 2010 Jakim Friant
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as publi... | SNoiraud/gramps | gramps/plugins/tool/rebuild.py | Python | gpl-2.0 | 3,428 | [
"Brian"
] | 9ec8bb21359c8b035473b2afafffdcd150abf8815fd62d786f7cefe2f3cfec39 |
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