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#!/usr/bin/python
#
# Copyright 2015 John Kendrick
#
# This file is part of PDielec
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the MIT License
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied wa... | JohnKendrick/PDielec | PDielec/CrystalOutputReader.py | Python | mit | 14,704 | [
"CRYSTAL"
] | 6814bf8bc3fc907d56d36d37f949942bb5cea730c102b208bf2b0b9d14b52fe1 |
# Support for the Numato Galatea - PCI Express Spartan 6 Development Board
# https://numato.com/product/galatea-pci-express-spartan-6-fpga-development-board
from collections import OrderedDict
from litex.build.generic_platform import *
from litex.build.xilinx import XilinxPlatform, iMPACT
from third_party.litex.lite... | mithro/HDMI2USB-litex-firmware | platforms/galatea.py | Python | bsd-2-clause | 8,108 | [
"CRYSTAL"
] | dd9cd7fe9ea951287851dd7f3cbe785fcca02d335c37ff17dd7f2311dfa18676 |
# pylint: disable=bad-continuation
"""
Certificate HTML webview.
"""
import logging
from datetime import datetime
from uuid import uuid4
import six
import pytz
from django.conf import settings
from django.contrib.auth.decorators import login_required
from django.http import Http404, HttpResponse
from django.templat... | appsembler/edx-platform | lms/djangoapps/certificates/views/webview.py | Python | agpl-3.0 | 33,078 | [
"VisIt"
] | fe7fa2a55cb1bfb2db6b828bf51bfdd67e865d7bd99830bb1b0ed7c2861d4415 |
# Copyright 2017 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
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, ... | google/decoupled_gaussian_process | exact_moment_matching_predictor.py | Python | apache-2.0 | 5,936 | [
"ADF",
"Gaussian"
] | 205b840d36dda8b1accfbc7a6ff455b28f288a502ec9ed0321ece4d549afde58 |
# Copyright 2021, The TensorFlow 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 t... | tensorflow/privacy | tensorflow_privacy/privacy/dp_query/tree_aggregation_query.py | Python | apache-2.0 | 22,246 | [
"Gaussian"
] | 982d8609186c3ce1e783d929b2b46428da9c3da307e5deeba8eca627ecfa42cc |
from rdkit.Chem import AllChem as Chem
from rdkit import DataStructs
from collections import OrderedDict
import numpy
class FP:
def __init__(self, fp):
self.fp = fp
def __str__(self):
return self.fp.__str__()
def computeFP(x):
# compute depth-2 morgan fingerprint hashed to 2048 bits
f... | chembl/target_predictions | utils.py | Python | apache-2.0 | 858 | [
"RDKit"
] | 3b19623d41b4404da3e60abce7d55e8f0c4dbab486aa9c8d1b3a09f26ab8a358 |
#!/usr/bin/python
########################################################################
# 12 Jan 2015
# Patrick Lombard, Centre for Stem Stem Research
# Core Bioinformatics Group
# University of Cambridge
# All right reserved.
########################################################################
import subproce... | pdl30/chipseq_misc | scatterplot_peaks.py | Python | gpl-2.0 | 3,620 | [
"pysam"
] | e02691a50d8f88f0c6c3126652efd11f8171fd412c7ef87d4f41094c139e8dfb |
# 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)
class PyGpytorch(PythonPackage):
"""GPyTorch is a Gaussian process library implemented using PyTorch.
GPyTorch is... | LLNL/spack | var/spack/repos/builtin/packages/py-gpytorch/package.py | Python | lgpl-2.1 | 1,184 | [
"Gaussian"
] | 2ac3b38b04a42b0b8d03d73f0ad884d884716d9b5eeec68fc84bf902b4ae3497 |
# -*- coding: utf-8 -*-
"""
Regression tests for the Test Client, especially the customized assertions.
"""
from __future__ import unicode_literals
import os
from django.conf import settings
from django.core.exceptions import SuspiciousOperation
from django.core.urlresolvers import reverse
from django.template import... | hellhovnd/django | tests/test_client_regress/tests.py | Python | bsd-3-clause | 48,998 | [
"VisIt"
] | e4f8c7ff6b3f3a63e28ad81d991de74f387ea88b1f42eeed3a27d11a2576d282 |
# Licensed to the Apache Software Foundation (ASF) under one or more
# contributor license agreements. See the NOTICE file distributed with
# this work for additional information regarding copyright ownership.
# The ASF licenses this file to You under the Apache License, Version 2.0
# (the "License"); you may not use ... | StackPointCloud/libcloud | libcloud/compute/drivers/azure.py | Python | apache-2.0 | 113,180 | [
"VisIt"
] | 7e22d193ab3bfe58d218c45eafb33e4b0fd4ddddcd7f645f72b145b8b64dbf82 |
# coding: utf-8
# Copyright (c) Materials Virtual Lab
# Distributed under the terms of the BSD License.
import warnings
import logging
import re
from io import StringIO
from veidt.kernel import get_kernel
import pandas as pd
from collections import OrderedDict, defaultdict
from scipy.spatial.distance import pdist, squ... | materialsvirtuallab/veidt | veidt/potential/agni.py | Python | bsd-3-clause | 19,583 | [
"LAMMPS",
"pymatgen"
] | 304eaf47a52451c6e5073c504b7492abcc0b816327ea0b7533d1aae5ea4f947b |
#!/usr/bin/env python
'''
compliance_checker/protocols/netcdf.py
Functions to assist in determining if the URL points to a netCDF file
'''
def is_netcdf(url):
'''
Returns True if the URL points to a valid local netCDF file
:param str url: Location of file on the file system
'''
# Try an obvious ... | petejan/compliance-checker | compliance_checker/protocols/netcdf.py | Python | apache-2.0 | 1,402 | [
"NetCDF"
] | 66933929c16753e72e3b53e8dfd66269fd648fb63c54a2f089dd3d4bca29692c |
# -*- coding: utf-8 -*-
#
# rate_neuron_dm.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 License,... | weidel-p/nest-simulator | pynest/examples/rate_neuron_dm.py | Python | gpl-2.0 | 5,952 | [
"NEURON"
] | b6c97726cebc22969f8fdeb43e242327acfabb46a5ef9e081b3ab67cea71470f |
"""
################################################################################
# Copyright (c) 2003, Pfizer
# Copyright (c) 2001, Cayce Ullman.
# Copyright (c) 2001, Brian Matthews.
#
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provid... | cmsdaq/hltd | lib/SOAPpy-py3-0.52.24/src/SOAPpy/Types.py | Python | lgpl-3.0 | 52,492 | [
"Brian"
] | 0b60c28a7db93f49f3cc4ad60405f68d04ede7566c0ba93ddd9b4050334ff6f8 |
import json
import os
from django import template
from django.conf import settings
from django.templatetags.static import static
register = template.Library()
@register.simple_tag
def bridge(filename):
""" Add hash to filename for cache invalidation.
Uses gulp-buster for cache invalidation. Adds current fil... | romantolkachyov/django-bridge | django_bridge/templatetags/bridge.py | Python | mit | 992 | [
"GULP"
] | 2cd405288960eb1bc21295a71135cbabd14dca21d490380fd03acbbc747de976 |
#!/usr/bin/env python
########################################################################
# File : dirac-proxy-init.py
# Author : Adrian Casajus
########################################################################
import os
import sys
import glob
import time
import datetime
import DIRAC
from DIRAC import... | fstagni/DIRAC | FrameworkSystem/scripts/dirac-proxy-init.py | Python | gpl-3.0 | 10,864 | [
"DIRAC"
] | 8e80ea5d6c3f10f3d11607b2cc52e7ee1d02b35db2f30702437f270cf051d534 |
# Copyright 2011 Rackspace
# Copyright (c) 2011 X.commerce, a business unit of eBay Inc.
# Copyright 2013 IBM Corp.
# 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
#
# ... | cloudbase/nova | nova/tests/unit/network/test_manager.py | Python | apache-2.0 | 172,055 | [
"FEFF"
] | fa5ba6d426f3c68f4aaacbf2fcf724d683d88d2f1b92258758457e0dce4cf4ec |
#!/usr/bin/python
# -*- coding: utf-8 -*
###############################################################################
# #
# This file is part of 3d Brain Atlas Reconstructor #
# ... | pmajka/3dbar | lib/pymodules/python2.6/bar/rec/formats.py | Python | gpl-3.0 | 5,278 | [
"VTK"
] | a7431a677a322a8de647bbeb5dedd2659dcc57864c852de6d8d5576b233407fa |
#!/usr/bin/env python
# File created on 23 Nov 2011
from __future__ import division
__author__ = "Greg Caporaso"
__copyright__ = "Copyright 2011-2013, The PICRUSt Project"
__credits__ = ["Greg Caporaso","Morgan Langille"]
__license__ = "GPL"
__version__ = "1.0.0-dev"
__maintainer__ = "Greg Caporaso"
__email__ = "gregc... | wasade/picrust | picrust/util.py | Python | gpl-3.0 | 21,831 | [
"VisIt"
] | cf1d2e9f08adc026acbb0aff2b9c29ef542b060875952772b11ae550c67548c7 |
from __future__ import print_function
import sys
import os
import copy
import random
sys.path.insert(1, os.path.join("..",".."))
import h2o
from tests import pyunit_utils
from h2o.grid.grid_search import H2OGridSearch
from h2o.estimators.deeplearning import H2ODeepLearningEstimator
def deeplearning_grid_cars():
... | YzPaul3/h2o-3 | h2o-py/tests/testdir_algos/deeplearning/pyunit_grid_cars_deeplearning.py | Python | apache-2.0 | 4,110 | [
"Gaussian"
] | 163367de4cbd0c323c9d199757f9941a2f65f83d0089709a9b3afd05f40d2209 |
# Copyright 2010-2017, The University of Melbourne
# Copyright 2010-2017, Brian May
#
# This file is part of Karaage.
#
# Karaage is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License... | brianmay/karaage | karaage/plugins/kgsoftware/applications/tests/settings.py | Python | gpl-3.0 | 1,078 | [
"Brian"
] | 5f0076e8c10fec7f327b361634b2e41484091deb4a45ac6118899efbf0cc2f59 |
from SymbolTable import SymbolTable, VariableSymbol, FunctionSymbol
import AST
ttype = {}
arithmetic_operators = ['+', '-', '*', '/', '%']
bitwise_operators = ['|', '&', '^', '<<', '>>']
logical_operators = ['&&', '||']
comparison_operators = ['==', '!=', '>', '<', '<=', '>=']
assignment_operators = ['=']
def all_o... | tmachows/kompilatory | lab04-interpreter/TypeChecker.py | Python | gpl-2.0 | 12,046 | [
"VisIt"
] | 9be0f7c2dbcc791334b62c1a9c5b647cd1e3b97fec6fc405a92c271357a26e61 |
import os
import sys
import argparse
import pysam
__author__ = 'Rob Edwards'
"""
Count the reads associated with one or more contigs.
"""
parser = argparse.ArgumentParser(description='Count reads to one or more contigs in a bam file')
if __name__ == '__main__':
parser = argparse.ArgumentParser(description='calcu... | linsalrob/EdwardsLab | JohnMolkili/count_reads_to_contigs.py | Python | mit | 1,205 | [
"pysam"
] | 6d52b12827d2856b4910ca733b7c5865d1a5ce91105700f8c80e5611e84a6366 |
#-----------------------------------------------------------------------------#
# Quarter Bot - A Twitter bot that flips a coin. #
# emoji.py #
# #
... | brainix/quarter-bot | emoji.py | Python | gpl-3.0 | 62,546 | [
"CRYSTAL",
"Octopus"
] | 3d3a30cd61ae373b04263b162990881ab509688d92520a270918511916f00ab3 |
# coding: utf-8
#
# Copyright 2012 NAMD-EMAP-FGV
#
# This file is part of PyPLN. You can get more information at: http://pypln.org/.
#
# PyPLN 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 o... | fccoelho/pypln.backend | tests/test_worker_extractor.py | Python | gpl-3.0 | 8,375 | [
"NAMD"
] | b4401551e3c888650eca0c534ff960ec4924e6acdc33625dbc4a182a14d3dccc |
import os, sys
from collections import defaultdict
import meta
NO_ENTRY_NAME = 'no_db_entry_name'
NO_ENTRY_RANK = 'no_db_entry_rank'
ranks = { 'superkingdom' : 0,
'kingdom' : 1,
'subkingdom' : 2,
'superphylum' : 3,
'phylum' : 4,... | abulovic/pgnd-meta | meta/data/tax.py | Python | mit | 12,071 | [
"BLAST"
] | eb31435ebeaf290264aff519138f919939b2635b0733682321f141c9b55bb384 |
# 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... | psci2195/espresso-ffans | testsuite/python/constraint_homogeneous_magnetic_field.py | Python | gpl-3.0 | 3,646 | [
"ESPResSo"
] | 8d8e30fca66c073b9bcc014aa8a769e7687a431d71bba76f3df2518868f02d6b |
"""
@name: PyHouse_Install/src/Install/test/win_pwd.py
@author: D. Brian Kimmel
@contact: D.BrianKimmel@gmail.com
@copyright: (c) 2015-2015 by D. Brian Kimmel
@license: MIT License
@note: Created on Oct 27, 2015
@Summary:
"""
class pwd(object):
"""
"""
def getpwnam(p_name):
... | DBrianKimmel/PyHouse_Install | src/Install/test/win_pwd.py | Python | mit | 349 | [
"Brian"
] | 6242c8c6dfe984ee591c047d98862b32bcf559bdfa81a8c2847aa2bc8b090f3b |
"""Dirty magic. Should never be used. Ever."""
# Answers SO questions # 54476645, 28244921
import ast
import inspect
from dapper.tools.colors import coloring
def get_call():
"""Get calling statement (even if it is multi-lined), 2 frames back.
NB: returns full lines (may include junk before/after calls)
... | nansencenter/DAPPER | dapper/tools/magic.py | Python | mit | 5,622 | [
"VisIt"
] | 24318a0d119c5e67adbf4226df3e7d7d10c752c951db92d03f94982b1546569f |
from __future__ import print_function
import time
import numpy as np
import sympy as sy
from bokeh.objects import Plot, DataRange1d, LinearAxis, ColumnDataSource, Glyph, Grid, Legend
from bokeh.widgetobjects import Slider, TextInput, HBox, VBox, Dialog
from bokeh.glyphs import Patch, Line, Text
from bokeh.document i... | the13fools/Bokeh_Examples | glyphs/taylor_server.py | Python | bsd-3-clause | 3,532 | [
"VisIt"
] | 02589e819aba9473bca8464b38bcae820e97a0a98da198dd1e7dd2825014bdc8 |
#!/usr/bin/env python
from distutils.core import setup
setup(name='icolor',
version='1.2',
description='Interpolate ANSI colors in strings',
author='Brian M Hunt',
author_email='brianmhunt@gmail.com',
url='https://github.com/brianmhunt/icolor',
py_modules=['icolor'],
classifi... | brianmhunt/icolor | setup.py | Python | mit | 660 | [
"Brian"
] | a4adba7b73a1373bceaae614023c04150a2ad9e923f61b890f7321e69e51d3ae |
########################################################################
#
# (C) 2015, Brian Coca <bcoca@ansible.com>
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation... | shawnsi/ansible | lib/ansible/galaxy/role.py | Python | gpl-3.0 | 11,993 | [
"Brian",
"Galaxy"
] | 928d4d704f7618244b7f3de25946d8d14e39bb41803aab708edf0b978756f622 |
# pylint: disable=C0111
# pylint: disable=W0621
import time
import os
from lettuce import world, step
from nose.tools import assert_true, assert_in # pylint: disable=no-name-in-module
from django.conf import settings
from student.roles import CourseRole, CourseStaffRole, CourseInstructorRole
from student.models impo... | pku9104038/edx-platform | cms/djangoapps/contentstore/features/common.py | Python | agpl-3.0 | 12,528 | [
"VisIt"
] | bc4a17bf5311b3c9801776d42bc3a878236469824fe85fd4dc0f2d84c78bb64e |
symbols = [
["Lower-case Greek",
5,
r"""\alpha \beta \gamma \chi \delta \epsilon \eta \iota \kappa
\lambda \mu \nu \omega \phi \pi \psi \rho \sigma \tau \theta
\upsilon \xi \zeta \digamma \varepsilon \varkappa \varphi
\varpi \varrho \varsigma \vartheta"""],
["Upper-case Gree... | bjornaa/gridmap | doc/sphinxext/math_symbol_table.py | Python | mit | 6,887 | [
"Bowtie"
] | 54854650df9a77a29625c935619ce8a6bb77d909f076d0d74d07ae651c631656 |
"""
Vector Autoregression (VAR) processes
References
----------
Lutkepohl (2005) New Introduction to Multiple Time Series Analysis
"""
from __future__ import division
from collections import defaultdict
from cStringIO import StringIO
import numpy as np
import numpy.linalg as npl
from numpy.linalg import cholesky as... | yarikoptic/pystatsmodels | statsmodels/tsa/vector_ar/var_model.py | Python | bsd-3-clause | 50,782 | [
"Gaussian"
] | f56534e61f6a7b7812fb27ac47b107425c9c51da1d946fdca2be8aa3010cbe0b |
# coding: utf-8
from __future__ import division, unicode_literals
"""
This module defines classes representing non-periodic and periodic sites.
"""
__author__ = "Shyue Ping Ong"
__copyright__ = "Copyright 2012, The Materials Project"
__version__ = "0.1"
__maintainer__ = "Shyue Ping Ong"
__email__ = "shyuep@gmail.co... | rousseab/pymatgen | pymatgen/core/sites.py | Python | mit | 18,071 | [
"pymatgen"
] | f2cc40977599d4af003564713d9b891d391b007011c6a5bc6fa5148dcf8cc69b |
# coding: utf8
{
'': '',
' Quotas: %(quotas)s x%(quota_amount).2f': ' Quotas: %(quotas)s x%(quota_amount).2f',
' Transaction number: %s': ' Transaction number: %s',
'"update" is an optional expression like "field1=\'newvalue\'". You cannot update or delete the results of a JOIN': '"update" is an optional expression lik... | reingart/gestionlibre | languages/es-es.py | Python | agpl-3.0 | 34,263 | [
"VisIt"
] | 400624179e0fb433f68a7b84804b93b1aeecd90a92cdb01ba402930a9cfbd4bf |
#!/usr/bin/python2
#NOTE: Run this plot script from directory deft/papers/fuzzy-fmt with command
# ./new-melting_anyplot_script.py [directory where data stored] --f[fixed quantity] [value of fixed quantity] --x[] --y[]
#to create plots from plot.dat files already in the data directory
#ie. ENTER ./new-melting_anyplot_s... | droundy/deft | papers/fuzzy-fmt/new-melting_anyplot_script.py | Python | gpl-2.0 | 6,245 | [
"CRYSTAL",
"Gaussian"
] | 80deb16525c0ab60b6d5ff06a2592ab2a2e29c1572627a764b2aa722cf559723 |
import ast
from .fixer import fix
UNSUPPORTED_ASSIGNMENTS = ast.Subscript, ast.Attribute
class AstProvider(object):
def __init__(self):
self.cache = {}
def get(self, module):
try:
return self.cache[module.name]
except KeyError:
pass
source = module.g... | baverman/supplement | supplement/tree.py | Python | mit | 3,043 | [
"VisIt"
] | 308b9280b1a51ea822274d4c6c8f1b392dc4ed6f2f996a8dec6376f7837ccc0d |
"""Imports and standardises data into crowdastro.
Matthew Alger
The Australian National University
2016
"""
import argparse
import csv
import hashlib
import logging
import os
from astropy.coordinates import SkyCoord
import astropy.io.fits
from astropy.io import ascii
import astropy.utils.exceptions
import astropy.wcs... | chengsoonong/crowdastro | crowdastro/import_data.py | Python | mit | 34,208 | [
"Galaxy"
] | 3cf82b81d50d5fa2700f0d7ff999a8fedf0f68acb9d911cc6591d08aa43bec79 |
########################################################################
# File : SSHComputingElement.py
# Author : Dumitru Laurentiu, A.T.
########################################################################
""" SSH (Virtual) Computing Element: For a given IP/host it will send jobs directly through ssh
"""
__R... | petricm/DIRAC | Resources/Computing/SSHComputingElement.py | Python | gpl-3.0 | 26,783 | [
"DIRAC"
] | 9494631d5be20c19fbb4096d9a15c7fc257f7f5e55fd4e449a4bf6d790c601cb |
#* 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/lgpl-2.1.html
import sys
... | nuclear-wizard/moose | python/peacock/ExodusViewer/plugins/BackgroundPlugin.py | Python | lgpl-2.1 | 14,075 | [
"MOOSE"
] | f1e7de7ff9f6c0296a880fd3a06529e3c6a31dce4b7787070dde0d281c2db85b |
# Natural Language Toolkit: Corpus Reader Utilities
#
# Copyright (C) 2001-2016 NLTK Project
# Author: Steven Bird <stevenbird1@gmail.com>
# Edward Loper <edloper@gmail.com>
# URL: <http://nltk.org/>
# For license information, see LICENSE.TXT
import os
import bisect
import re
import tempfile
from functools imp... | JFriel/honours_project | venv/lib/python2.7/site-packages/nltk/corpus/reader/util.py | Python | gpl-3.0 | 30,870 | [
"VisIt"
] | b06721904f995197de52eb1eb35a6fb465cddd0380a4086cc80a4b13f123e861 |
#########################################################################
# Ryuretic: A Modular Framework for RYU #
# !/ryu/ryu/app/Ryuretic/Ryuretic_Intf.py #
# Authors: #
# Jacob Cox (jcox70@gatech.edu) ... | Ryuretic/RAP | ryu/ryu/app/Ryuretic/Ryuretic_Intf_v7.py | Python | apache-2.0 | 24,856 | [
"VisIt"
] | eaee13e122cd7eeb3423c10cfcb5e39c0e40f01493b147b0ff3379ff48a0e826 |
import json
import logging
from edge.opensearch.isoresponse import IsoResponse
from datetime import date, datetime
class IsoResponseBySolr(IsoResponse):
def __init__(self):
super(IsoResponseBySolr, self).__init__()
def generate(self, solrDatasetResponse, solrGranuleResponse = None, pretty=False):
... | dataplumber/edge | src/main/python/libraries/edge/opensearch/isoresponsebysolr.py | Python | apache-2.0 | 6,181 | [
"NetCDF"
] | cb34ec6874db0f3a3f0fd88eebcfb85e6388b328f57fa79b20cdc9dd116028c8 |
#!/usr/bin/env python
__author__ = "Jae Stutzman"
__copyright__ = "Copyright 2012, Jae Stutzman"
__license__ = "GPLv3"
__version__ = "0.1.0"
__email__ = "jaebird@gmail.com"
__status__ = "Testing"
"""
Description:
This script reads an XBee serial stream (config settings at the bottom
of this script) being sent... | jaebird/mousewatcher | mousewatcher.py | Python | gpl-3.0 | 11,891 | [
"Amber"
] | 1a32af10cd58b78192f264c49f469a1f34fd1d6528d2eacd32ec04ad01a463f8 |
import itertools
import matplotlib
import numpy as np
from scipy.optimize import curve_fit
from scipy import interpolate
from astropy import units
from matplotlib import pyplot as plt
# Imports for fast_running_median
from collections import deque
from itertools import islice
from bisect import insort, bisect_lef... | PYPIT/PYPIT | pypeit/utils.py | Python | gpl-3.0 | 49,387 | [
"Gaussian"
] | 90e1095512054271c013ae38f046488ba50d7f5e14dd4b003a6ec8bacf62779f |
# coding: utf-8
#
# Copyright (C) 2014 Savoir-faire Linux Inc. (<www.savoirfairelinux.com>).
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU Affero General Public License as
# published by the Free Software Foundation, either version 3 of the
# License, ... | sfl-drupal/docker-aegir-jenkins | deploy/fabfile.py | Python | gpl-2.0 | 25,241 | [
"VisIt"
] | d5a80e6dab3ed6951f2af81e22068904a1d87911e9e18b89b51dc461589dc5c5 |
#! /usr/bin/env python
# encoding: utf-8
# Thomas Nagy, 2010 (ita)
"""
This file is provided to enable compatibility with waf 1.5
It was enabled by default in waf 1.6, but it is not used in waf 1.7
"""
import sys
from waflib import ConfigSet, Logs, Options, Scripting, Task, Build, Configure, Node, Runner, TaskGen, Ut... | tommo/gii | support/waf/waflib/extras/compat15.py | Python | mit | 9,285 | [
"VisIt"
] | 5d0ed5d264252d6c4c661c02b5e84a888b5ab250a04fc4ae5dbf039308066570 |
# 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 | lib/molmod/io/gaussian03/mkinput.py | Python | gpl-3.0 | 5,030 | [
"Gaussian"
] | c597b71f252d5192e718c25632dbd9bb3c1c413fd775c6ded631801142ea6ebe |
import glob
import pandas as pd
import numpy as np
pd.set_option('display.max_columns', 50) # print all rows
import os
os.chdir("/gpfs/commons/home/biederstedte-934/evan_projects/correct_phylo_files")
normalB = glob.glob("binary_position_RRBS_normal_B_cell*")
mcell = glob.glob("binary_position_RRBS_NormalBCD19pCD27... | evanbiederstedt/RRBSfun | trees/chrom_scripts/normal_chr01.py | Python | mit | 25,843 | [
"MCell"
] | b8c7f1505618886aff4f551631472fe3219cabdb8838b3f0aeafcd2c1d05154a |
# Licensed to the Apache Software Foundation (ASF) under one
# or more contributor license agreements. See the NOTICE file
# distributed with this work for additional information
# regarding copyright ownership. The ASF licenses this file
# to you under the Apache License, Version 2.0 (the
# "License"); you may not u... | dmlc/tvm | python/tvm/ir/base.py | Python | apache-2.0 | 7,780 | [
"VisIt"
] | 3a2a0d82e18720b25b7301c60093fd127ba5693d93a7620987ca7b370904e6c2 |
# -*- coding: utf-8 -*-
from __future__ import division
import numpy as np
from scipy.stats import multivariate_normal
from pgmpy.factors.distributions import BaseDistribution
class GaussianDistribution(BaseDistribution):
"""
In its most common representation, a multivariate Gaussian distribution
over ... | khalibartan/pgmpy | pgmpy/factors/distributions/GaussianDistribution.py | Python | mit | 20,036 | [
"Gaussian"
] | 5ca9ea8c3fb0f2458eb7d640f880e604242850e54c0e78fb357320d3ef2d4382 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
"""
Ansible module to configure .deb packages.
(c) 2014, Brian Coca <briancoca+ansible@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 Softwa... | camradal/ansible | lib/ansible/modules/system/debconf.py | Python | gpl-3.0 | 5,870 | [
"Brian"
] | 8170345569c56102025dc0ce3dc78261809cafe3738034deaff7df9326151d87 |
"""
===============
GMM covariances
===============
Demonstration of several covariances types for Gaussian mixture models.
See :ref:`gmm` for more information on the estimator.
Although GMM are often used for clustering, we can compare the obtained
clusters with the actual classes from the dataset. We initialize th... | DailyActie/Surrogate-Model | 01-codes/scikit-learn-master/examples/mixture/plot_gmm_covariances.py | Python | mit | 4,257 | [
"Gaussian"
] | 9c1d6f04025b97898cffd19ac6efbac2df9644350065193d26ae7452d76acff7 |
'''
Created on Aug 5, 2014
@author: gearsad, alucard
@change: Fixed GetOrientation(), Re-factored Code, added FK [Gears]
@version: v0.5
'''
import vtk
class SceneObject(object):
'''
This is a basic superclass for any object that will be included in the 3D scene.
'''
def __init__(self, renderers, paren... | GearsAD/semisorted_arnerve | arnerve/scene/SceneObject.py | Python | mit | 2,944 | [
"VTK"
] | 33af763880dd8ba622fa1f2e5803e215312e42fdcda877e91a878ee7c37d7462 |
from __future__ import absolute_import
import fluent.syntax.ast as FTL
from fluent.migrate.helpers import transforms_from
from fluent.migrate.helpers import VARIABLE_REFERENCE, TERM_REFERENCE
from fluent.migrate import REPLACE, COPY
index = "firefox/mobile/index.lang"
mobile_2019 = "firefox/mobile-2019.lang"
def migr... | hoosteeno/bedrock | lib/fluent_migrations/firefox/mobile/index.py | Python | mpl-2.0 | 7,671 | [
"VisIt"
] | e307084dd721377ebe5335767c3c03a280c32e9b4af00d4254746fb940dba6f5 |
"""
Tests for the memory estimators on JK objects
"""
import psi4
import pytest
from .utils import *
def _build_system(basis):
mol = psi4.geometry("""
Ar 0 0 0
Ar 0 0 5
Ar 0 0 15
Ar 0 0 25
Ar 0 0 35
""")
#psi4.set_options({"INTS_TOLERANCE": 0.0})
basis = psi4.core.B... | jturney/psi4 | tests/pytests/test_jkmemory.py | Python | lgpl-3.0 | 1,305 | [
"Psi4"
] | b91349a1de885da769aa9d73cfc096bbfaf9e8c991bc763046839713c6c5fa8e |
"""
wc_server v0.01
web client server
Copyright 2011 Brian Monkaba
This file is part of ga-bitbot.
ga-bitbot is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
... | stahn/ga-bitbot | wc_server.py | Python | gpl-3.0 | 5,063 | [
"Brian"
] | 1f0b691f8af14099384b5d6b488628d0c139691d517f3901fe48a2a49d51f0af |
# 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... | eadgarchen/tensorflow | tensorflow/contrib/timeseries/python/timeseries/ar_model.py | Python | apache-2.0 | 31,904 | [
"Gaussian"
] | 0aa9d187f70caa2b333a566a6e6283b5a01014cf7cb234be0cdb4f25fc20caf6 |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2005, 2006 Async Open Source <http://www.async.com.br>
## All rights reserved
##
## This program is free software; you can redistribute it and/or modify
## it under the terms of the GNU Lesser General Public License as published by
## the Free Soft... | andrebellafronte/stoq | stoqlib/gui/slaves/branchslave.py | Python | gpl-2.0 | 2,676 | [
"VisIt"
] | d70f768b773c894405b80717d158eb24fd36f27f0bbc40b0e99cfdeba4a2c213 |
# -*- coding: utf-8 -*-
u"""Shadow execution template.
:copyright: Copyright (c) 2017 RadiaSoft LLC. All Rights Reserved.
:license: http://www.apache.org/licenses/LICENSE-2.0.html
"""
from __future__ import absolute_import, division, print_function
from pykern import pkio
from pykern.pkcollections import PKDict
from... | radiasoft/sirepo | sirepo/template/shadow.py | Python | apache-2.0 | 29,799 | [
"CRYSTAL"
] | 2f5c10696c849b6deab1d83accf31698f61490f6d66ba5fb1907b48a90548316 |
#
# This source file is part of appleseed.
# Visit http://appleseedhq.net/ for additional information and resources.
#
# This software is released under the MIT license.
#
# Copyright (c) 2012-2013 Esteban Tovagliari, Jupiter Jazz Limited
# Copyright (c) 2014-2016 Esteban Tovagliari, The appleseedhq Organization
#
# P... | docwhite/appleseed | src/appleseed.python/logging.py | Python | mit | 2,551 | [
"VisIt"
] | 3d225da51c5a1bdbb6cf82bfdf94aff15947478df0c3bf0c5e8023bd047cfa7e |
#!/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... | sunqm/pyscf | pyscf/tools/test/test_fcidump.py | Python | apache-2.0 | 2,967 | [
"PySCF"
] | ec12c347a77ddb93c591d9d8fb85555f73df10b3c57bdcbf43e9687111690c7d |
# Copyright (C) 2009 by Eric Talevich (eric.talevich@gmail.com)
# 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.
"""Classes corresponding to Newick trees, also used for Nexus trees.
See classes in `Bi... | updownlife/multipleK | dependencies/biopython-1.65/build/lib.linux-x86_64-2.7/Bio/Phylo/Newick.py | Python | gpl-2.0 | 1,112 | [
"Biopython"
] | 7774ac0624eabe70ac18e9e320d489c5f5a5e92ff4fe8cb895508e5f558af8d0 |
#!/usr/bin/env python
# -*- coding: UTF-8 -*-
"""
btab format, used by BLAST and NUCMER, found spec here:
<http://www.agcol.arizona.edu/~matthew/formats.html>
btab format used by aat, found spec here:
<http://ergatis.diagcomputing.org/cgi/documentation.cgi?article=components&page=aat_aa>
"""
import sys
from jcvi.fo... | sgordon007/jcvi_062915 | formats/btab.py | Python | bsd-2-clause | 6,660 | [
"BLAST"
] | 4c58eed4694e7a11a8898d066d573972fe93d2b257cb46e173c20041ed76b2bf |
# -*- coding: utf-8 -*-
"""
sphinx.writers.manpage
~~~~~~~~~~~~~~~~~~~~~~
Manual page writer, extended for Sphinx custom nodes.
:copyright: Copyright 2007-2011 by the Sphinx team, see AUTHORS.
:license: BSD, see LICENSE for details.
"""
from docutils import nodes
try:
from docutils.writers.ma... | devs1991/test_edx_docmode | venv/lib/python2.7/site-packages/sphinx/writers/manpage.py | Python | agpl-3.0 | 11,052 | [
"VisIt"
] | bfea26110de611d572c3612825c3549370b6b8e3f5722117c330352d4d84e2b7 |
# -*- coding: utf-8 -*-
#
# String constants for the RHN Register TUI/GUI.
# Copyright (c) 2000--2015 Red Hat, Inc.
#
# Author:
# James Slagle <jslagle@redhat.com>
import gettext
t = gettext.translation('rhn-client-tools', fallback=True)
_ = t.ugettext
COPYRIGHT_TEXT = _(u"Copyright © 2006--2010 Red Hat... | davidhrbac/spacewalk | client/debian/packages-already-in-debian/rhn-client-tools/src/up2date_client/rhnreg_constants.py | Python | gpl-2.0 | 20,209 | [
"VisIt"
] | d449611b88bf14d2415283630b99c685b13881f5f3312164427c6b97e3fb0e9e |
"""
=========================================
Segmenting the picture of Lena in regions
=========================================
This example uses :ref:`spectral_clustering` on a graph created from
voxel-to-voxel difference on an image to break this image into multiple
partly-homogeneous regions.
This procedure (spe... | JT5D/scikit-learn | examples/cluster/plot_lena_segmentation.py | Python | bsd-3-clause | 2,421 | [
"Brian"
] | facf65b980bc9891fa47ed027d22d6f1f7251cb7a149376d436389cd25915892 |
#!/usr/bin/env python2
# -*- coding: utf-8 -*-
##################################################
# GNU Radio Python Flow Graph
# Title: NOAA APT Satellite Receiver
# Author: Brian McLaughlin
# Generated: Thu Mar 31 13:26:49 2016
##################################################
import threading
if __name__ == '__mai... | SpinStabilized/stem_station | grc_files/apt_rx.py | Python | gpl-3.0 | 27,999 | [
"Brian"
] | bbd66f090d352ba80ab1d8565cc71972458ee9ae44e2e7163e1d5eb597bfe45b |
# proxy module
from __future__ import absolute_import
from mayavi.scripts.util import *
| enthought/etsproxy | enthought/mayavi/scripts/util.py | Python | bsd-3-clause | 88 | [
"Mayavi"
] | e8bf2234608071c274c1a59a0f15c660e1fc3aab715bf8c3e1e1eefe323a90d3 |
# Copyright 2004-2010 PyTom <pytom@bishoujo.us>
#
# 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, mer... | MSEMJEJME/ReAlistair | renpy/atl.py | Python | gpl-2.0 | 45,015 | [
"VisIt"
] | bddf22d9d6557f6a42774978e9ea457cb2f8619bb24d884e29a609a392e944ff |
"""View routing."""
import calendar
import datetime
import json
import os
import threading
import flask
from flask import (Blueprint, current_app, redirect, render_template, redirect,
request, url_for)
from sqlalchemy import func
from app import global_stats, parse
from app.helpers import add_mont... | gbasood/vgstation-statistics-viewer | app/public/views.py | Python | mit | 8,987 | [
"MOE"
] | 34afb369b0129bf55c2b233b5d8d5e657b312aefb87b419f8c05be6dafac6be2 |
# shamelessly copied from pliExpertInfo (Vali, Mirakels, Littlesat)
from enigma import iServiceInformation, iPlayableService
from Components.Converter.Converter import Converter
from Components.Element import cached
from Components.config import config
from Tools.Transponder import ConvertToHumanReadable
from Tools.Ge... | Open-Plus/opgui | lib/python/Components/Converter/PliExtraInfo.py | Python | gpl-2.0 | 25,040 | [
"Galaxy"
] | fff895bbdd4b707aef7e387a59a859be5d21527b55bd4745e9b2144264198271 |
#!/usr/bin/env python3
desc="""Calculate completeness of transcripts
Assumes sense read orientation (as in direct RNA-seq ONT).
Support spliced alignments and mapping quality filtering.
By default ignores secondary alignments, duplicates and quality failed reads.
Takes into account only the first read from pair.
US... | lpryszcz/bin | bam2transcript_completeness.py | Python | gpl-3.0 | 8,163 | [
"pysam"
] | 093a04c1c9fcb94644c6893b1c4689ccbb72174167621b949db96507addfbdaf |
#!/usr/bin/python
import argparse
import hashlib
import sys
import os
import subprocess
import signal
import getpass
import simplejson
from termcolor import colored
import ConfigParser
import StringIO
import functools
import time
import random
import string
from configobj import ConfigObj
import tempfile
import pwd, g... | live4thee/zstack-utility | zstackctl/zstackctl/ctl.py | Python | apache-2.0 | 375,657 | [
"VisIt"
] | 40230361ad8eeb302fa39de35c8ec5b86684b72706e19a942d726f2308c9b6f3 |
import numpy as np
import subprocess as subp
import matplotlib.pyplot as plt
import matplotlib.cm as cm
import mayavi.mlab as mlab
from matplotlib.patches import Ellipse
import ipdb, re
import os.path
import time
from js.utils.plot.colors import colorScheme
from js.utils.config import Config2String
from vpCluster.... | jstraub/dpMM | python/evalSphereMMsynthetic.py | Python | mit | 14,704 | [
"Mayavi"
] | 52ad56d7f5611fd2a5ae0072f7a56d22723e14f1b6d6c03d61c40c32db20ba76 |
#!/usr/bin/env python3
#
# Copyright (C) 2019 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your... | fweik/espresso | maintainer/CI/dox_warnings.py | Python | gpl-3.0 | 4,195 | [
"ESPResSo"
] | 141fd833f87d00ce33d036a7525c791fcbc3bdae5eebf33ba6f8d15b2d2ce60d |
"""
KeepNote
MultiEditor widget in main window
This editor contain multiple editors that can be switched based on
the content-type of the node.
"""
#
# KeepNote
# Copyright (c) 2008-2009 Matt Rasmussen
# Author: Matt Rasmussen <rasmus@mit.edu>
#
# This program is free software; you can redistrib... | reshadh/Keepnote-LaTeX | keepnote/gui/editor_multi.py | Python | gpl-2.0 | 6,682 | [
"VisIt"
] | e2b848427dc4423727a1dd0cc2c31cffc90a62cdd3142ce3918f88bc9cac7146 |
import json
def path_ID(start, end):
out_arr = [start, end]
out_arr.sort()
return out_arr[0] + "-" + out_arr[1]
with open("walked_paths.json") as f:
paths = json.load(f)
with open("../data/speeding_graph_data.json") as f:
speeding_data = json.load(f)
with open("../old/id_data.json", "r") as f... | SvenvDam/programmeerproject | Pre-processing/path_busyness.py | Python | unlicense | 1,529 | [
"VisIt"
] | 9b30b02585c97dfdcedbff6a2563feaa7517bd15c98a6d5127af0d89bd0300ed |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# conda execute
# env:
# - python >=3
revisados01 = [
]
revisados02 = [
]
revisados03 = [
]
revisados04 = [
]
#1305 últimos de primero
revisados05 = [
'Liga de la Justicia',
'Leyenda negra española',
'Tarzán',
'Dick Grayson',
'República Cromañón',
'María Díaz... | races1986/SafeLanguage | CEM/_s/revisados.py | Python | epl-1.0 | 23,672 | [
"MOE"
] | 10e9ac02a0efef46648b902058be870939a8b610e0bd0a26756f7729ba329c02 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import os
import unittest
import warnings
from math import pi
import numpy as np
import pytest
from monty.os.path import which
from pymatgen.core.periodic_table import Element
from pymatgen.core.lattice import... | davidwaroquiers/pymatgen | pymatgen/analysis/tests/test_local_env.py | Python | mit | 53,478 | [
"CRYSTAL",
"Jmol",
"pymatgen"
] | 6a3440fb47fd02bea6b21aee49d90bbfcfaaa9c1080a5855e76760683797c248 |
# 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... | annarev/tensorflow | tensorflow/python/ops/image_grad_test_base.py | Python | apache-2.0 | 25,063 | [
"Gaussian"
] | c0f2c743135df020fd891ae4de5d4305fda265b66fde24e095a6d5efadfb5e72 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
# Copyright: (c) 2014, Ruggero Marchei <ruggero.marchei@daemonzone.net>
# Copyright: (c) 2015, Brian Coca <bcoca@ansible.com>
# Copyright: (c) 2017, Ansible Project
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
from __future__ im... | tsdmgz/ansible | lib/ansible/modules/files/find.py | Python | gpl-3.0 | 12,572 | [
"Brian"
] | 5cb9a9c194f1565d6cc2cb094d735463bc977d33e4a43b87610643bac3a28bac |
from functools import wraps
import multiprocessing
import numpy
import logging
import geodat.units
logging.basicConfig(level=logging.DEBUG)
logger = logging.getLogger(__name__)
try:
import pyferret
PYFERRET_INSTALLED = True
_IMPORT_PYFERRET_ERROR = None
except ImportError:
logger.warning("Failed to... | kitchoi/geodat | geodat/pyferret_func.py | Python | mit | 11,096 | [
"NetCDF"
] | 366d309ebd5ae6dfc0abe68191dfc2678f52cda2dd1972236527a8530c4f6445 |
import collections
import contextlib
import heapq
import inspect
import traceback
import weakref
import six
import chainer
from chainer import _backprop_utils
from chainer import backend
from chainer.backends import cuda
from chainer import configuration
from chainer import function_hook
from chainer.graph_optimizati... | okuta/chainer | chainer/function_node.py | Python | mit | 53,362 | [
"VisIt"
] | 4fd92aaeffc782bcbd62c65e2758b472d233235578cee93459397fcc51165274 |
"""
Tool for converting from a suntans to untrim netcdf formats
"""
from sunpy import Spatial, Grid
import othertime
from datetime import datetime
from netCDF4 import Dataset
import numpy as np
from untrim_tools import untrim_ugrid as ugrid
import pdb
#Dictionary containing the suntans-untrim equivalent grid variabl... | UT-CWE/Hyospy | Hyospy_ensemble/lib/SUNTANS/UNTRIM/suntans2untrim.py | Python | mit | 9,710 | [
"NetCDF"
] | c540080792bd94e7e1b990e8dc9a4a3fcf00ca0ebb0bca47dddae6d55d9c12a8 |
#%pylab inline
import matplotlib.pyplot as plt
import numpy as np
from scipy.optimize import curve_fit
from scipy.special import cbrt
import os
import sys
sys.path.append("..")
from PythonLibrary.residuals import *
from PythonLibrary.selectDomain import selectdomain
from PythonLibrary.estError import est_error
fro... | bzcheeseman/phys211 | Neutron_Studies/data_processing.py | Python | lgpl-3.0 | 14,509 | [
"Gaussian"
] | 6837137b4bc79e81b76b9212e7ff0425d6ff8927fdecde5b983bbb45556c15e2 |
import os, sys, site, re, urllib
site.addsitedir(os.path.join(os.path.dirname(os.path.abspath(__file__)), '../core'))
from db import SQLite3
from db.mapper import Pages
from summary import *
from classifier import get_words, FisherClassifier
from pprint import pprint
from datetime import datetime
pages = [
['htt... | after12am/expecto | machine_learning/feed_classifier/src/web/train.py | Python | mit | 75,349 | [
"Brian",
"CRYSTAL"
] | fa9efdcc7857dcc5df0301c748e9e2a57b2c5277051dce94d347409306e86a09 |
#!/usr/bin/env python
import os
import vtk
from vtk.util.misc import vtkGetDataRoot
from vtk.util.misc import vtkGetTempDir
VTK_DATA_ROOT = vtkGetDataRoot()
VTK_TEMP_DIR = vtkGetTempDir()
file0 = VTK_TEMP_DIR + '/ugFile0.vtu'
file1 = VTK_TEMP_DIR + '/ugFile1.vtu'
file2 = VTK_TEMP_DIR + '/ugFile2.vtu'
# read in some... | HopeFOAM/HopeFOAM | ThirdParty-0.1/ParaView-5.0.1/VTK/IO/XML/Testing/Python/TestXMLUnstructuredGridIO.py | Python | gpl-3.0 | 2,784 | [
"VTK"
] | 92cda563f1a1546cc0476c767421ccc2d7f49bb2e47f2bf24ef74b093f2a4e02 |
""" The Script class provides a simple way for users to specify an executable
or file to run (and is also a simple example of a workflow module).
"""
import os
import sys
import re
import stat
import distutils.spawn
from DIRAC.Core.Utilities.Subprocess import shellCall
from DIRAC i... | vmendez/DIRAC | Workflow/Modules/Script.py | Python | gpl-3.0 | 4,256 | [
"DIRAC"
] | 75fd1ab2d38b04dd4d5ee9faf772029f21677fdf3a4c159e955945ee033da5d6 |
"""
A buffered iterator for big arrays.
This module solves the problem of iterating over a big file-based array
without having to read it into memory. The ``Arrayterator`` class wraps
an array object, and when iterated it will return subarrays with at most
``buf_size`` elements.
The algorithm works by first finding a... | illume/numpy3k | numpy/lib/arrayterator.py | Python | bsd-3-clause | 5,149 | [
"NetCDF"
] | d9db88c3477ce47825a436f01437496b44209a7d163699428203ec353f424363 |
# Copyright (C) 2012,2013
# Max Planck Institute for Polymer Research
# Copyright (C) 2008,2009,2010,2011
# Max-Planck-Institute for Polymer Research & Fraunhofer SCAI
#
# This file is part of ESPResSo++.
#
# ESPResSo++ is free software: you can redistribute it and/or modify
# it under the terms of the G... | espressopp/espressopp | src/analysis/Autocorrelation.py | Python | gpl-3.0 | 2,306 | [
"ESPResSo"
] | f22f9ab22b17831bd96f8078da3b4142b17cf260e43cd99fea3cb0cf6ae049b6 |
# Licensed to the Apache Software Foundation (ASF) under one or more
# contributor license agreements. See the NOTICE file distributed with
# this work for additional information regarding copyright ownership.
# The ASF licenses this file to You under the Apache License, Version 2.0
# (the "License"); you may not use ... | mistio/libcloud | libcloud/common/google.py | Python | apache-2.0 | 30,831 | [
"VisIt"
] | 98ade432fd6181605fd50ad306c7f9ad88fbb791e8721bd81681ed8c2741e585 |
import numpy as np
import scipy.signal as signal
from scipy.special import erf
from scipy.interpolate import interp1d
import matplotlib.mlab as ml
from ..misc import nextpow2
from ..simulate import SimLightcurve
from math import factorial
def estimate_noise_ps(lightcurve, estfrac=0.5):
"""
Use the high frequen... | BayesFlare/bayesflare | bayesflare/noise/noise.py | Python | gpl-2.0 | 10,350 | [
"Gaussian"
] | b4309b6d40570799fa0f42d775e470b81ce17d94d250b3c456154346211a69f5 |
# -*- coding: utf-8 -*-
"""
pbm_ImageAnalysis is an analysis module for ACQ4.
This module provides:
1. Bleaching correction of image stacks
2. Normalization of image stacks
3. ROI's on Z-stacks (or T-stacks), including saving and retrieving the ROI files
(the format is the same as in PyImageAnalysis... | mgraupe/acq4 | acq4/analysis/modules/pbm_ImageAnalysis/pbm_ImageAnalysis.py | Python | mit | 145,987 | [
"Gaussian"
] | 90af00e62c4584387710dbc988a5390f83eea96a376463488cede7f1ccfce3cf |
#!/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/IO/Core/Testing/Python/TestGlobFileNames.py | Python | bsd-3-clause | 3,266 | [
"VTK"
] | f58cb180b55d4a205696e28a75962cc4762c1870cedafd6786982688d4a175a1 |
"""
sender - SimplE Neuron DEleteR
Deletes the least significant neurons. Value of neuron is defined as
sum of absolute values of weights outgoing from neuron divided by
sum of absolute values of weights outgoing from entire layer.
"""
import numpy as np
from athenet.layers import FullyConnectedLayer... | heurezjusz/Athenet | athenet/algorithm/simple_neuron_deleter.py | Python | bsd-2-clause | 3,741 | [
"NEURON"
] | 5667a1960cd4ddce88b90441eefa169fcb560d0a2c7dec0202f9afade9d68d37 |
# -*- coding: utf-8 -*-
"""Utilities for PyBEL testing."""
from uuid import uuid4
from requests.compat import urlparse
from ..manager import Manager
from ..manager.models import Namespace, NamespaceEntry
from ..struct import BELGraph
from ..struct.summary import (
get_annotation_values_by_annotation,
iter_a... | pybel/pybel | src/pybel/testing/utils.py | Python | mit | 1,985 | [
"Pybel"
] | 81ddeca2c9e2a56a509eddec3787fbf19cba04abfc59f250cda0f0d7dd4c81f3 |
#! /usr/bin/env python
if __name__ == '__main__':
print "Importing..."
from enthought.mayavi import mlab
from enthought.mayavi.modules.surface import Surface
import numpy
import sys
print " done."
if(len(sys.argv) != 5):
raise RuntimeError("Wrong number of arguments!\nUsage: grid_to_m.py sol.vtu var_nam... | cdiener/bar1_project | tasks/grid_to_m.py | Python | gpl-3.0 | 1,273 | [
"Mayavi"
] | c474849d24406f32b2dd7bfe802bf876a36057e82e855a25459fa78d186e0a21 |
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