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import numpy as np
from scipy.optimize import leastsq
from scipy.special import erf, erfc
import matplotlib.pyplot as plt
from labrad.units import Unit,Value
V, mV, us, ns, GHz, MHz, dBm, rad = [Unit(s) for s in ('V', 'mV', 'us', 'ns', 'GHz', 'MHz', 'dBm', 'rad')]
import pyle.envelopes as env
from pyle.pipeline impor... | McDermott-Group/LabRAD | LabRAD/TestScripts/fpgaTest/pyle/pyle/dataking/multiqubit.py | Python | gpl-2.0 | 98,669 | [
"Gaussian",
"exciting"
] | 98f66cb5bc2ef997d85cc7733315c82e7a9d198e035175b492372e302cb51da6 |
# -*- coding: utf-8 -*-
# Copyright 2022 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... | googleapis/python-scheduler | tests/unit/gapic/scheduler_v1beta1/test_cloud_scheduler.py | Python | apache-2.0 | 119,535 | [
"Octopus"
] | 8b99ed3815d8cf55d6f3f71c7f252f86b5a7656b40ac8e13b3d2d03538479815 |
from __future__ import print_function
import openpyxl
import scipy.io as sio
import numpy as np
from sklearn import linear_model
import matplotlib.pyplot as plt
from functions_extract_database import get_rates_from_trials
folder = './database/'
filename = 'SummaryDatabase'
format_type = '.xlsx'
# Extract all the dat... | h-mayorquin/camp_india_2016 | project1/predict_location_block.py | Python | mit | 1,995 | [
"NEURON"
] | e3aae872838564b81d92d284cada113e2557c03040a1fbe8d5d3d4e2a62f24f6 |
#!/usr/bin/env python
import argparse
import pysam
def Parser():
parser = argparse.ArgumentParser(description='miRNAs counts and coverages')
parser.add_argument('-a', '--alignment', metavar='FILE', type=str,
dest='alignment_file', help='Alignment bam file')
parser.add_argument('--... | ARTbio/tools-artbio | tools/mircounts/mircounts.py | Python | mit | 4,827 | [
"pysam"
] | c3ff6062a8c684fa4110092789cc992314255524e49f59dbdd0c83aca90135e5 |
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
Input sets for Qchem
"""
import logging
import os
from typing import Dict, List, Literal, Optional
from monty.io import zopen
from pymatgen.core.structure import Molecule
from pymatgen.io.qchem.inputs import QCInput
fro... | materialsproject/pymatgen | pymatgen/io/qchem/sets.py | Python | mit | 45,466 | [
"pymatgen"
] | 8b27a64d16f81f53e2fddcf983b00de6626c63d2476b13c52560178b7e89ea4d |
import numpy as np
import math
import naxion
from quasi_observable_data import *
run_name='mp_DM_GRID'
##############################
# Set up your model #
##############################
# A grid-based sampler on two variables
# Model selection
nax=20
model=1
# 10^2 samples
nsteps = 100
# number of samples ... | DoddyPhysics/AxionNet | Example_MP_GRID.py | Python | mit | 2,858 | [
"Gaussian"
] | 26274e4bebb2cfc5f6c97c277de95361e7cbc667842a0de9d4590bd3deba63fd |
# 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... | rabipanda/tensorflow | tensorflow/contrib/py2tf/pyct/pretty_printer.py | Python | apache-2.0 | 2,964 | [
"VisIt"
] | cfc384393e141dcb86fe7c809c9adb55baf302c2e90b93f03bba5cf30ba1f867 |
# coding=utf-8
import os
import datetime
import pytz
from django.core.exceptions import ValidationError
from django.core.files.uploadedfile import UploadedFile
from django.test import TransactionTestCase
from django.contrib.auth.models import Group
from rest_framework import status
from hs_core.testing import MockIR... | hydroshare/hydroshare | hs_composite_resource/tests/test_composite_resource.py | Python | bsd-3-clause | 156,066 | [
"NetCDF"
] | c29acac54e8671593becf9de836f77663411b0ea95c964f5896138c8a89fb787 |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
#
# mpinterfaces documentation build configuration file, created by
# sphinx-quickstart on Sat Mar 11 21:29:43 2017.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this... | henniggroup/MPInterfaces | docs/conf.py | Python | mit | 5,576 | [
"VASP"
] | 727d6d8b339153bacf38d2652b2b8efd6175cc6a3a22f0bd9185770c0f949079 |
from __future__ import absolute_import
import time
import os.path as op
import numpy as nm
from sfepy.base.testing import TestCommon
def fix_u_fun(ts, coors, bc=None, problem=None, extra_arg=None):
return nm.zeros_like(coors)
class Test(TestCommon):
@staticmethod
def from_conf(conf, options):
im... | BubuLK/sfepy | tests/test_high_level.py | Python | bsd-3-clause | 6,703 | [
"VTK"
] | 8a5c652bb6c97b5f8ff7f8f4c1b4926c48617d26ccbc3458de3b333af77bc0b0 |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2007-2008 Stephane Charette
# Copyright (C) 2007-2008 Brian G. Matherly
# Copyright (C) 2009-2010 Gary Burton
# Contribution 2009 by Bob Ham <rah@bash.sh>
# Copyright (C) 2010 Jakim Friant
# Copyright (C) 2011-2014 Paul Franklin
#
# This ... | gramps-project/gramps | gramps/plugins/graph/gvfamilylines.py | Python | gpl-2.0 | 47,895 | [
"Brian"
] | 84430f97fedc31b3e22d2edd5daa6d059bea04f009f9813ec500b9ca48fd23f6 |
"""
Import utilities
Exported classes:
ImportManager Manage the import process
Importer Base class for replacing standard import functions
BuiltinImporter Emulate the import mechanism for builtin and frozen modules
DynLoadSuffixImporter
"""
from warnings import warnpy3k
warnpy3k(... | nmercier/linux-cross-gcc | win32/bin/Lib/imputil.py | Python | bsd-3-clause | 26,489 | [
"BLAST"
] | 29f00c8ffca5d2a4df0ec583aebc2ec72cc194514212ae813d0764bf1fd5fbb9 |
# 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... | grpc/grpc-ios | native_src/src/python/grpcio/grpc_core_dependencies.py | Python | apache-2.0 | 88,129 | [
"ORCA"
] | 79b205aa68a67c5088f1c1605f4353b21e9bba97063d38379bfcd917bf3d24cf |
#!/usr/bin/env python2
"""
convert output of gamess/GAU$$IAN to ezfio
Usage:
qp_convert_output_to_ezfio.py <file.out> [-o <ezfio_directory>]
Option:
file.out is the file to check (like gamess.out)
folder.ezfio is the name you whant for the ezfio
(by default is file.out.ezfio)
"""
import sys
impo... | LCPQ/quantum_package | scripts/ezfio_interface/qp_convert_output_to_ezfio.py | Python | gpl-2.0 | 12,989 | [
"GAMESS"
] | 8a19122bd49e8d2f465c7779d5be51600f062b21990138b000a1b25512c05d85 |
# -*- coding: UTF8 -*-
from pybuilder.core import use_plugin, init, Author, task
import os
import sys
SRC = os.path.join(os.path.dirname(__file__), "src")
DOC = os.path.join(os.path.dirname(__file__), "docs")
sys.path.append(SRC)
from _spy import __version__
use_plugin("python.core")
use_plugin("python.install_depend... | labase/vitollino | build.py | Python | gpl-3.0 | 2,529 | [
"VisIt"
] | cadcd773a6b86c0adb7cedabda5fcfe5cadd4be1dc1d12a6758a74a937e0d7d3 |
##############################################################################
# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | krafczyk/spack | var/spack/repos/builtin/packages/libcint/package.py | Python | lgpl-2.1 | 3,592 | [
"Gaussian"
] | de6ec97436f00b44d68c93121b57a10351bf04d6857494f13ee419cbec2fd139 |
#!/usr/bin/env python
import json
import optparse
import os.path
def _add_data_table_entry( data_manager_dict, data_table_name, data_table_entry ):
data_manager_dict['data_tables'] = data_manager_dict.get( 'data_tables', {} )
data_manager_dict['data_tables'][ data_table_name ] = data_manager_dict['data_tables... | Christian-B/galaxy_shedtools | gene_transfer_by_path/data_manager/path_name_value_key_manager.py | Python | gpl-2.0 | 3,076 | [
"Galaxy"
] | 8147668303d3917d5e368e3fd41825cec046ddcdbfdb4c074166b0d49c37a754 |
#!/usr/bin/env python
"""
dirac-rss-sync
Script that synchronizes the resources described on the CS with the RSS.
By default, it sets their Status to `Unknown`, StatusType to `all` and
reason to `Synchronized`. However, it can copy over the status on the CS to
the RSS. Important: If the StatusTyp... | Sbalbp/DIRAC | ResourceStatusSystem/scripts/dirac-rss-sync.py | Python | gpl-3.0 | 7,467 | [
"DIRAC"
] | 066cb18522ff986cf801ecc73e144afc73f183a26a67e0731f3ba722bb2c458c |
"""
Test courseware search
"""
import os
import json
from nose.plugins.attrib import attr
from ..helpers import UniqueCourseTest, remove_file
from ...pages.common.logout import LogoutPage
from ...pages.studio.utils import add_html_component, click_css, type_in_codemirror
from ...pages.studio.auto_auth import AutoAuth... | B-MOOC/edx-platform | common/test/acceptance/tests/lms/test_lms_courseware_search.py | Python | agpl-3.0 | 7,307 | [
"VisIt"
] | 810f630cda015fb6943db67cb320bd7e61f9b309571b3bb32d4e5ecaf1e7ebcd |
# 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 | tests/micro/zephyr/test_zephyr.py | Python | apache-2.0 | 19,332 | [
"VisIt"
] | 5f755a8235471bf517c2491ce6736f8b131f526e954ae5eb3f3a5f6b3407200b |
# -*- coding: utf-8 -*-
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2007 Donald N. Allingham
# Copyright (C) 2008 Brian Matherly
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software F... | gramps-project/addons-source | CalculateEstimatedDates/CalculateEstimatedDates.py | Python | gpl-2.0 | 26,470 | [
"Brian"
] | eba93b513fe9b49bacde70af0bc561b67cb0eedfd953f583b56a3c693c4d1b61 |
"""
This file contains the basic code to download and store all the data for the 5th and 8th class exam from the Punjab Education Commission
Website. This site achieves that by doing the following:
1. It runs through the entire list of possible roll numbers from '00-000-000' to '99-999-999'.
2. After every page load, ... | AliSajid/pec58 | main.py | Python | gpl-3.0 | 5,060 | [
"VisIt"
] | f1a573db65438bd75e375bc2c89dd2fe38ea1e6a8284e32265ebfe7a780ca03b |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
#
# MDAnalysis --- http://www.mdanalysis.org
# Copyright (c) 2006-2016 The MDAnalysis Development Team and contributors
# (see the file AUTHORS for the full list of names)
#
# Released under t... | kain88-de/mdanalysis | package/MDAnalysis/topology/PDBQTParser.py | Python | gpl-2.0 | 5,227 | [
"MDAnalysis"
] | 2d3c723be7e028bab5bd74defa130ff7c32f5b4c8894b0eb527edcd1ced05622 |
#!/usr/bin/env python
import sys
import os
import PyQt4
import vtk
from vtk.test import Testing
class TestQVTKWidget(Testing.vtkTest):
def testQVTKWidget2(self):
w2 = vtk.QVTKWidget2()
w2.resize(500,500)
ren = vtk.vtkRenderer()
ren.SetBackground(0,0,0)
ren.SetBackground2(1,1,1)
ren.SetGra... | HopeFOAM/HopeFOAM | ThirdParty-0.1/ParaView-5.0.1/VTK/GUISupport/Qt/Testing/Python/TestQVTKWidget2.py | Python | gpl-3.0 | 877 | [
"VTK"
] | 094802091c6a2d6d91dd24764f58136e07e19a1d9d4cb0a62924180dabd176a5 |
#!/usr/bin/env python
#
# $File: freqDependentSelector.py $
#
# This file is part of simuPOP, a forward-time population genetics
# simulation environment. Please visit http://simupop.sourceforge.net
# for details.
#
# Copyright (C) 2004 - 2010 Bo Peng (bpeng@mdanderson.org)
#
# This program is free software: you can r... | BoPeng/simuPOP | docs/freqDependentSelector.py | Python | gpl-2.0 | 1,767 | [
"VisIt"
] | 14dbe86308132ebbc462853496ee00076395d652ebe7451039920d64527d339f |
from __future__ import absolute_import
import numpy as np
from .core import MaskedLayer
import theano
import theano.tensor as T
from theano.sandbox.rng_mrg import MRG_RandomStreams as RandomStreams
class GaussianNoise(MaskedLayer):
'''
Corruption process with GaussianNoise
'''
def __init__(self, s... | bottler/keras | keras/layers/noise.py | Python | mit | 1,925 | [
"Gaussian"
] | 88757474ee555276ff2412fe047cc1b432f25fdee37c6bf6b56a051fdb5f65f6 |
# -*- coding: utf-8 -*-
"""Functions for FIR filter design."""
from __future__ import division, print_function, absolute_import
from math import ceil, log
import operator
import warnings
import numpy as np
from numpy.fft import irfft, fft, ifft
from scipy.special import sinc
from scipy.linalg import (toeplitz, hankel... | arokem/scipy | scipy/signal/fir_filter_design.py | Python | bsd-3-clause | 47,872 | [
"Brian"
] | f5ddbbca931a78335328722dfba5d974565dc6a1ccb971e5547005072ac42e63 |
# -*- coding: utf-8 -*-
# Copyright 2013 splinter authors. All rights reserved.
# Use of this source code is governed by a BSD-style
# license that can be found in the LICENSE file.
import os
import unittest
from splinter import Browser
from .fake_webapp import EXAMPLE_APP
from .base import WebDriverTests
def fire... | nikolas/splinter | tests/test_webdriver_firefox.py | Python | bsd-3-clause | 3,823 | [
"VisIt"
] | 15a446e4b5014b193e85768af5fe529d0341a98be6761ea03c5e6b6e24e13358 |
import os, sys, getopt
try:
from PyQt4 import QtCore, QtGui
QtCore.Signal = QtCore.pyqtSignal
QtCore.Slot = QtCore.pyqtSlot
except ImportError:
try:
from PySide import QtCore, QtGui
QtCore.QString = str
except ImportError:
raise ImportError("Cannot load either PyQt or PySide... | Chuban/moose | gui/vtk/ExodusResult.py | Python | lgpl-2.1 | 6,236 | [
"VTK"
] | 7c91c45de843fbd7a5c39c52082a7af777da31a8010530c033cb5006faa3c58a |
########################################################################
# This program is copyright (c) Upinder S. Bhalla, NCBS, 2015.
# It is licenced under the GPL 2.1 or higher.
# There is no warranty of any kind. You are welcome to make copies under
# the provisions of the GPL.
# This programme illustrates buildi... | BhallaLab/moose-examples | paper-2015/Fig2_elecModels/Fig2C.py | Python | gpl-2.0 | 14,223 | [
"MOOSE",
"NEURON"
] | 04cd1d5c9f6631455287275bc85f097c2f3c6eec032cea63845896f4724211c4 |
########################################################################
# File: FileCatalogHandler.py
########################################################################
"""
:mod: FileCatalogHandler
.. module: FileCatalogHandler
:synopsis: FileCatalogHandler is a simple Replica and Metadata Catalog service
""... | andresailer/DIRAC | DataManagementSystem/Service/FileCatalogHandler.py | Python | gpl-3.0 | 28,601 | [
"DIRAC"
] | 92dc30f48c37d9b3fa21d6069847bd9dcc2a0d97edd49b25617efe0ccb480ab7 |
import os
import sys
import argparse
import math
import random
import logging
logging.basicConfig(level=logging.DEBUG)
#from common import find_mxnet
import common.data_cotrain as data
#from common import fit
import mxnet as mx
import mxnet.optimizer as optimizer
import resnet_dcn
import numpy as np
import os, urllib
... | deepinsight/Deformable-ConvNets | deeplab/fine_tunec.py | Python | apache-2.0 | 13,939 | [
"Gaussian"
] | 4d42fc455d8c11bba52c5fd3f4780f873c8529e34e0923d6fc7ad52f4f7acfac |
# (C) 2016, Markus Wildi, wildi.markus@bluewin.ch
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2, or (at your option)
# any later version.
#
# This program is distr... | jerryjiahaha/rts2 | scripts/u_point/transform/u_skyfield.py | Python | lgpl-3.0 | 3,328 | [
"VisIt"
] | 52911b7eb6af53b691944e9328dc270cdb336c08e23f3f3c20835c4d6f482fe4 |
"""Tests for items views."""
import copy
import json
import os
import tempfile
import textwrap
from uuid import uuid4
from mock import patch
from django.core.urlresolvers import reverse
from django.test.utils import override_settings
from django.conf import settings
from contentstore.tests.utils import CourseTestCas... | cecep-edu/edx-platform | cms/djangoapps/contentstore/views/tests/test_transcripts.py | Python | agpl-3.0 | 29,110 | [
"FEFF"
] | 33540ebde0a9042b09d03b3ee7ed88554d370c57691acc1843ab96eb8a5ecc5b |
from matplotlib.colors import LogNorm
import matplotlib.pyplot as plt
import numpy as np
import pandas as pd
import sys
from itertools import islice
from scipy import signal # To find peaks, for edge-detecting the crystal
import os
import editable_input as ei # My script for editable text input
import mie_utils as my
... | f-forcher/crystal-channeling-analysis | geometric_cuts.py | Python | gpl-3.0 | 12,164 | [
"CRYSTAL"
] | eca54e1715059cba49f9a48cfe36c457dcf52cb3e4882cd501a13616235c2514 |
import os
import site
# Add all of the directories in ./modules as site package directories
extensionPath = os.path.dirname(__file__)
modulesPath = os.path.join(extensionPath, "modules")
for item in os.listdir(modulesPath):
itemPath = os.path.join(modulesPath, item)
if os.path.isdir(itemPath):
site.add... | andyclymer/ControlBoard | lib/ControlBoard.py | Python | mit | 19,550 | [
"CRYSTAL"
] | 4dfc343cd931add82507921e45ea52b02d1f0cf19c37dd37e88da6409610354b |
from .base import *
class networks(object):
"""
cytoscape session interface as shown in CyREST's swagger documentation.
:param url: an url of the type 'http://' + host + ':' + str(port) + '/' + version + '/'.
"""
def __init__(self, url):
self.__url = url + 'commands/networks'
self... | idekerlab/py2cytoscape | py2cytoscape/cyrest/networks.py | Python | mit | 60,858 | [
"Cytoscape"
] | 302b1bc63e51ff7c76d3dce14071dc34b42027b991ed3f4b55cd4efff7208c2e |
import numpy as np
from alis import almsgs
from alis import alfunc_base
msgs=almsgs.msgs()
class vSigma(alfunc_base.Base) :
"""
Convolves the spectrum with a Gaussian with a velocity sigma vsig:
p[0] = vsig
"""
def __init__(self, prgname="", getinst=False, atomic=None, verbose=2):
self._ids... | rcooke-ast/ALIS | alis/alfunc_vsigma.py | Python | gpl-3.0 | 15,474 | [
"Gaussian"
] | 3e247038b87390879ede3a9597343eaada4357122a036b62753333cc5d62dbee |
import subprocess
import os
from os import listdir
#========== gsnap alignment ==========================
def gsnap_Db(fa,db_path,db_name,annotation):
"""
This function builds index for genome
"""
cmd = ('gmap_build -D {db_path} -d {db_name} {fa}').format(db_path=db_path,db_name=db_name,fa=fa)
sub... | shl198/Pipeline | DetectVirusPipeline/f02_aligner_command.py | Python | mit | 11,487 | [
"BLAST",
"BWA"
] | b37242898d89d8cc62041d93c3c1a79ebfb1bcbc77199f4fd2bdb8993fe991a5 |
import os
from datetime import datetime
from django.test import SimpleTestCase
from django.utils.functional import lazystr
from django.utils.html import (
conditional_escape, escape, escapejs, format_html, html_safe, json_script,
linebreaks, smart_urlquote, strip_spaces_between_tags, strip_tags, urlize,
)
from... | fenginx/django | tests/utils_tests/test_html.py | Python | bsd-3-clause | 11,870 | [
"ADF"
] | 5233629695a7641fc803feb0bacd85a50a1e0cbca410b5d22bd77732cfc2be04 |
##############################################################################
# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | TheTimmy/spack | var/spack/repos/builtin/packages/ncl/package.py | Python | lgpl-2.1 | 10,030 | [
"NetCDF"
] | fd320741651af072d59638ee51a6f73b0546cdd18b2fb3b0083259f72beea442 |
##############################################################################
# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | lgarren/spack | var/spack/repos/builtin/packages/r-a4reporting/package.py | Python | lgpl-2.1 | 1,790 | [
"Bioconductor"
] | 4f0f38a7c7ba4ede493efdfeb2ac7a2bfbe1f6c2fa17aa999355ce2dfac2c381 |
#!/usr/bin/env python
# Copyright (c) 2011 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 module is a simple qa tool that installs extensions and tests whether the
browser crashes while visiting a list of urls.
... | zcbenz/cefode-chromium | chrome/test/functional/extensions.py | Python | bsd-3-clause | 18,001 | [
"VisIt"
] | 0debb63a533bcc2d6e8637c6efb2b5bbf58c2a0af25e751179a8e937bd71f474 |
#!/usr/bin/env python
#
# Appcelerator Titanium Module Packager
#
#
import os, sys, glob, string
import zipfile
from datetime import date
cwd = os.path.abspath(os.path.dirname(sys._getframe(0).f_code.co_filename))
os.chdir(cwd)
required_module_keys = ['name','version','moduleid','description','copyright','license','co... | kishikawakatsumi/TiKeyChainStore | build.py | Python | mit | 5,891 | [
"VisIt"
] | 433e8fd95937dca36e93b56e88b7f3fd0f1b529320055dc16ecba810e700a2c7 |
# -*- coding: utf-8 -*-
from __future__ import absolute_import
from django.conf import settings
from django.http import HttpResponse
from django.test import TestCase
from mock import patch
from fakeldap import MockLDAP
from zilencer.models import Deployment
from zerver.views import do_change_password, create_homepag... | Jianchun1/zulip | zerver/tests/test_signup.py | Python | apache-2.0 | 48,268 | [
"VisIt"
] | 0478252658b351ff49fbcf9432e4c79452af805837aad21bbf22db35185f7532 |
#!/usr/bin/env python
# ----------------------------------------------------------------------------------------
# Created by: Lee Bergstrand
# Description: Counts up BLAST hits per subject.
#
# Usage: QueryProteinRepeats.py <input.csv>
# Example: QueryProteinRepeats.py AUUJ0000000000.csv
# --------------------------... | LeeBergstrand/BackBLAST_Reciprocal_BLAST | Statistics/QueryProtienRepeats.py | Python | mit | 2,038 | [
"BLAST"
] | 4160880202cc98b7728a019e17c1a4ffe8e6776413b1412e6ff4cbebedbcc3dd |
import os, re, subprocess, unittest
# enable test mode
os.putenv('LAMMPS_SHELL_TESTING','1')
shell_prompt_re = r"([^>]*LAMMPS Shell> ([a-z0-9_]+) *([a-z0-9_\.]+)?.*\n)+"
cmd_group_re = r"([^>]*LAMMPS Shell> ([a-z0-9_]+) +([a-z0-9]+) +([a-z0-9]+)? *([a-z/0-9]+)?.*\n)+"
#
class LammpsShell(unittest.TestCase):
de... | stanmoore1/lammps | unittest/tools/test_lammps_shell.py | Python | gpl-2.0 | 5,735 | [
"LAMMPS"
] | 32aa0649c9d477ee9f56a24f3bee71e59c80524db703585d27be347e9f710d66 |
import itertools
import numpy as np
import mdtraj as md
from . import Featurizer, TrajFeatureUnion
ATOM_NAMES = ["N", "CA", "CB", "C", "O", "H"]
def get_atompair_indices(reference_traj, keep_atoms=ATOM_NAMES, exclude_atoms=None, reject_bonded=True):
"""Get a list of acceptable atom pairs.
Parameters
---... | rmcgibbo/msmbuilder | msmbuilder/featurizer/subset_featurizer.py | Python | lgpl-2.1 | 9,327 | [
"MDTraj"
] | ea05aae86286d98fe32154f0ff9636a61733d1b632b0e3988c4dfdeb6de61cdf |
# $HeadURL$
__RCSID__ = "$Id$"
import GSI
from DIRAC.Core.Utilities.LockRing import LockRing
from DIRAC.FrameworkSystem.Client.Logger import gLogger
class ThreadSafeSSLObject:
cLock = LockRing().getLock()
def __init__( self, object ):
self.cObject = object
def __getattr__( self, name ):
method = getattr... | Sbalbp/DIRAC | Core/DISET/private/Transports/SSL/ThreadSafeSSLObject.py | Python | gpl-3.0 | 1,638 | [
"DIRAC"
] | 2cb783fc356f7099149bd463a08fb08eddc8f42d8a6bc2e04bddeb4b2b84b458 |
import math
import numpy as np
import matplotlib.pyplot as plt
@np.vectorize
def sigmoid(x):
return 1 / (1 + math.exp(-2 * x))
@np.vectorize
def cosine(x):
return (math.cos(x) / 2) + 0.5
@np.vectorize
def sine(x):
return (math.sin(x) / 2) + 0.5
@np.vectorize
def gaussian(x):
return 1 / (math.exp(... | rebeccabilbro/machine-learning | code/activation_viz.py | Python | mit | 1,050 | [
"Gaussian"
] | 122237ef39c12a9042ba0fb77d7ed6aff211bc5141613870e54d750ccca934ff |
#! /usr/env/python
"""
A class used to create and manage regular raster grids for 2D numerical models
in Landlab.
Do NOT add new documentation here. Grid documentation is now built in a semi-
automated fashion. To modify the text seen on the web, edit the files
`docs/text_for_[gridfile].py.txt`.
"""
import numpy as n... | csherwood-usgs/landlab | landlab/grid/raster.py | Python | mit | 202,340 | [
"NetCDF"
] | 730e2e1c2b60d06622a3309874d3b44fe523bc552216bde45b3c4987c5ce3cf8 |
"""
Contains functions to calculate costs
The functions in this file are used to calculate the costs of buildings and
researches. There are certain categories of these items; the only difference
is the base factor.
Note: Costs in OGame are growing exponentially.
This library contains functions to calculate the costs... | Mischback/django-oweb | oweb/libs/costs.py | Python | mit | 7,145 | [
"CRYSTAL"
] | 5a1c26b439fff484a2cc25db6787e2a766160a61b102846041f38b13418ab034 |
# -*- coding: utf-8 -*-
import diaper
import fauxfactory
import hashlib
import iso8601
import random
import re
import command
import yaml
from collections import namedtuple
from contextlib import closing
from django.core.cache import cache
from django.core.exceptions import ObjectDoesNotExist
from django.core.mail i... | Yadnyawalkya/integration_tests | sprout/appliances/tasks.py | Python | gpl-2.0 | 107,856 | [
"VisIt"
] | 2c9544eec9bed66d5059eddcac4a8bfd1d439207f9b07f95f47f1c40a2a498c6 |
# 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.
"""Top-level presubmit script for Chromium.
See http://dev.chromium.org/developers/how-tos/depottools/presubmit-scripts
for more details about the presu... | sgraham/nope | PRESUBMIT.py | Python | bsd-3-clause | 64,823 | [
"VisIt"
] | 1cb9624fdfd40e4a35ffb9110bedba5fbc0924115cc51c02dae8764dc467e162 |
"""This module defines an ASE interface to ABINIT.
http://www.abinit.org/
"""
import os
from glob import glob
from os.path import join, isfile, islink
import shutil
import copy
from ase.atoms import Atoms
import numpy as np
from ase.data import atomic_numbers
from ase.units import Bohr, Hartree, fs, Ha, eV
from ase.... | mailhexu/pyDFTutils | pyDFTutils/abinit/myabinit_vca.py | Python | lgpl-3.0 | 69,432 | [
"ABINIT",
"ASE",
"DIRAC",
"GPAW",
"Gaussian",
"VASP"
] | ef25c7f2ae658dbaced37a26544eead7eff32c5d8dcbf91a589b1fb752a45ea3 |
# Copyright (c) 2016 Jamie Bull
# =======================================================================
# Distributed under the MIT License.
# (See accompanying file LICENSE or copy at
# http://opensource.org/licenses/MIT)
# =======================================================================
"""
Integration te... | eayoungs/eppy | eppy/tests/test_runner.py | Python | mit | 18,731 | [
"EPW"
] | c827968d583cdba1173061cdd01eaa93615807f69e3103f25d28a5a1e8934180 |
#
# Copyright (c) 2015 nexB Inc. and others. All rights reserved.
# http://nexb.com and https://github.com/nexB/scancode-toolkit/
# The ScanCode software is licensed under the Apache License version 2.0.
# Data generated with ScanCode require an acknowledgment.
# ScanCode is a trademark of nexB Inc.
#
# You may not use... | yasharmaster/scancode-toolkit | src/commoncode/functional.py | Python | apache-2.0 | 7,534 | [
"VisIt"
] | 3eea1f1379af2dddf0a40e4054a8d04982c37c128fc76a76bd24d68fca7e1ee9 |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2007-2008 Brian G. Matherly
# Copyright (C) 2010 Jakim Friant
# Copyright (C) 2013-2014 Paul Franklin
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published b... | pmghalvorsen/gramps_branch | gramps/plugins/textreport/endoflinereport.py | Python | gpl-2.0 | 12,732 | [
"Brian"
] | 171e790f10de422d01bc86e7da4294092aafe6473c6102beaef524ca9c9ceec7 |
'''Julian's copy of sdssfitpsf.psf'''
from examples.Pal2012_transitPhot.gaussfitter import gaussfit
import numpy as np
from util import utils
from util.readDict import readDict
from mpl_toolkits.mplot3d import Axes3D
import matplotlib.pyplot as plt
def aperture(startpx,startpy,radius=3):
r = radius
length =... | bmazin/ARCONS-pipeline | examples/Pal2012_transitPhot/transitFitPSF.py | Python | gpl-2.0 | 5,627 | [
"Gaussian"
] | 4b150253da39b6c42caa78216764c30a4f67f592de997f736d1d72bc1470d844 |
from __future__ import print_function, division
import os
import numpy as np
from . import get_data_home
from .tools import download_with_progress_bar
DATA_URL = ("http://www.astro.washington.edu/users/ivezic/"
"DMbook/data/SDSSspecgalsDR8.fit")
def fetch_sdss_specgals(data_home=None, download_if_miss... | nhuntwalker/astroML | astroML/datasets/sdss_specgals.py | Python | bsd-2-clause | 6,586 | [
"Galaxy"
] | c4fd4993b5af06775951f61b12e51e3a2f006ce47d221b5f8c27c61a746c7de5 |
#
# Copyright (C) 2016 by frePPLe bv
#
# This library 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, or
# (at your option) any later version.
#
# This library is distri... | frePPLe/frePPLe | freppledb/common/widget.py | Python | agpl-3.0 | 5,913 | [
"VisIt"
] | 327099355e77d593401972006e44e5bd9b7488d23ca3291d940575e844c3bfba |
import logging
import subprocess
import os
import sys
import re
import warnings
import pysam
from distutils.version import LooseVersion
# Check java version to make sure it is Java 8
MY_DIR = os.path.dirname(os.path.realpath(__file__))
VARSIMJAR = os.path.realpath(os.path.join(MY_DIR, "VarSim.jar"))
RTGJAR = os.path.re... | bioinform/varsim | utils.py | Python | bsd-2-clause | 14,793 | [
"pysam"
] | d978ec56dc76609f610878de864d85a1858185f3c3d77bf804bb315116d36659 |
__source__ = 'https://leetcode.com/problems/course-schedule-ii/description/'
# https://github.com/kamyu104/LeetCode/blob/master/Python/course-schedule-ii.py
# Time: O(|V| + |E|)
# Space: O(|E|)
#
# Description: Leetcode # 210. Course Schedule II
#
# There are a total of n courses you have to take, labeled from 0 to n... | JulyKikuAkita/PythonPrac | cs15211/CourseScheduleII.py | Python | apache-2.0 | 11,683 | [
"VisIt"
] | c00ee009090ef030693c25d1e1bbb0099d29e09e65452f44a026fc4fb05d947f |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#==============================================================================
# Copyright 2012 Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Amazon Software License (the "License"). You may not use
# this file except in compliance with th... | DennisDenuto/puppet-commonscripts | files/aws_cli/AWS-ElasticBeanstalk-CLI-2.6.3/eb/macosx/python3/scli/resources.py | Python | mit | 19,513 | [
"VisIt"
] | 5d0fdb867eb4dab86e855accec8886ca0e72af8d9b2c55f95255cf085801ab65 |
#### PATTERN | VECTOR ##############################################################################
# -*- coding: utf-8 -*-
# Copyright (c) 2010 University of Antwerp, Belgium
# Author: Tom De Smedt <tom@organisms.be>
# License: BSD (see LICENSE.txt for details).
# http://www.clips.ua.ac.be/pages/pattern
############... | boompieman/iim_project | project_python2/lib/python2.7/site-packages/pattern/vector/__init__.py | Python | gpl-3.0 | 124,430 | [
"NEURON",
"VisIt"
] | aacbf48e1485bc2ee9f4ee3bf48e7cd38b51c97f92f63d5150de3e25970aa84a |
import argparse
import sys
from coalib.misc import Constants
from coalib.collecting.Collectors import get_all_bears_names
class CustomFormatter(argparse.RawDescriptionHelpFormatter):
"""
A Custom Formatter that will keep the metavars in the usage but remove them
in the more detailed arguments section.
... | abhiroyg/coala | coalib/parsing/DefaultArgParser.py | Python | agpl-3.0 | 7,902 | [
"VisIt"
] | 6e5bed4fd8f6f0a871daa624d9c39a1537911a92422d1b66ab2d199ae9c3f601 |
# -*- Mode: Python; coding: utf-8; indent-tabs-mode: nil; tab-width: 4 -*-
### BEGIN LICENSE
# Copyright (C) 2014 Brian Douglass bhdouglass@gmail.com
# This program is free software: you can redistribute it and/or modify it
# under the terms of the GNU General Public License version 3, as published
# by the Free Softwa... | bhdouglass/agui | agui/awidgets/menu.py | Python | gpl-3.0 | 1,253 | [
"Brian"
] | 033501f384b35de26f31174159567e45a6a11bcf8cdaabc7f8b31171e52ec9f8 |
__all__ = ['RigidRegistration']
from ...registration import interface, apply_transforms
class Registration(object):
"""
How would it work:
# Co-registration within-visit
reg = Registration('Rigid', fixed_image=t1_template,
save_dir=save_dir, save_suffix='_coreg')
for im... | ANTsX/ANTsPy | ants/contrib/sklearn_interface/sklearn_registration.py | Python | apache-2.0 | 5,900 | [
"VisIt"
] | a248e68b6d33d4cec9bb904ee59480616ab2160ee13cc0787600a7860500b2e4 |
# encoding: utf-8
"""
A base class for objects that are configurable.
Inheritance diagram:
.. inheritance-diagram:: IPython.config.configurable
:parts: 3
Authors:
* Brian Granger
* Fernando Perez
* Min RK
"""
#-----------------------------------------------------------------------------
# Copyright (C) 2008-20... | noslenfa/tdjangorest | uw/lib/python2.7/site-packages/IPython/config/configurable.py | Python | apache-2.0 | 13,891 | [
"Brian"
] | 133b09bf8d63f60a5c6168df22033c4a819baf2817165d17d99a5530890cb4a1 |
'''Higher level functions for analyzing the data
'''
from copy import deepcopy
from functools import partial, wraps
from logging import getLogger
import numpy as np
import pandas as pd
import xarray as xr
from dask import local, compute, delayed
from .data_processing import (get_interpolated_position_dataframe,
... | edeno/Jadhav-2016-Data-Analysis | src/analysis.py | Python | gpl-3.0 | 25,687 | [
"NEURON"
] | 0896052038a356c4141a71f1cac764cd2f676ead3d39ee9f906b62c41b76711e |
# ======================================================================
# Atomistica - Interatomic potential library and molecular dynamics code
# https://github.com/Atomistica/atomistica
#
# Copyright (2005-2020) Lars Pastewka <lars.pastewka@imtek.uni-freiburg.de>
# and others. See the AUTHORS file in the top-level A... | Atomistica/atomistica | src/python/tools/a_voro.py | Python | gpl-2.0 | 1,628 | [
"ASE"
] | 12546ade403313028583f469ed8f1cb988de4480865dd4b57a865c4b32e1b521 |
# Author: Idan Gutman
# Modified by jkaberg, https://github.com/jkaberg for SceneAccess
# URL: http://code.google.com/p/sickbeard/
#
# This file is part of SickRage.
#
# SickRage 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 Sof... | slightstone/SickRage | sickbeard/providers/hdtorrents.py | Python | gpl-3.0 | 13,925 | [
"VisIt"
] | ae6668e28f13f2d6975e0316ea9d3db21521df7972211ccfc55c7c0f17a6d804 |
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import unittest
from pymatgen.command_line.bader_caller import *
from pymatgen.util.testing import PymatgenTest
@unittest.skipIf(not which("bader"), "bader executable not present.")
class BaderAnalysisTest(unittest.TestCase... | vorwerkc/pymatgen | pymatgen/command_line/tests/test_bader_caller.py | Python | mit | 5,068 | [
"pymatgen"
] | c9b8c7db89547c0e429921c306aa5fa1e0e2616b3f2114a1d99ab9d611154547 |
# Copyright (C) 2009, Thomas Leonard
# See the README file for details, or visit http://0install.net.
from zeroinstall import _, gobject
from zeroinstall.support import tasks
from zeroinstall.injector import handler, download
version = '1.12'
class GUIHandler(handler.Handler):
dl_callbacks = None # Download -> [ c... | dabrahams/0install | zeroinstall/0launch-gui/gui.py | Python | lgpl-2.1 | 2,898 | [
"VisIt"
] | 0735437e93468be6128d8cccbfd74ef8ecf58fe06811a8dd33ca38836c7555aa |
##############################################################################
# MDTraj: A Python Library for Loading, Saving, and Manipulating
# Molecular Dynamics Trajectories.
# Copyright 2012-2013 Stanford University and the Authors
#
# Authors: Robert McGibbon
# Contributors:
#
# MDTraj is free software: y... | jchodera/mdtraj | tests/test_hdf5.py | Python | lgpl-2.1 | 10,182 | [
"MDTraj",
"OpenMM"
] | 483241657d4b738d661132eef1dcf44892e5dd0a38eb55961c7daedf6644881f |
from instagram.client import InstagramAPI
import sys
if len(sys.argv) > 1 and sys.argv[1] == 'local':
try:
from test_settings import *
InstagramAPI.host = test_host
InstagramAPI.base_path = test_base_path
InstagramAPI.access_token_field = "access_token"
InstagramAPI.authori... | mcxiaoke/python-labs | instagram/get_access_token.py | Python | apache-2.0 | 1,556 | [
"VisIt"
] | fd99888c4b01dd7ad0008bbbb35ef6662d3d6d175d0126cae134da2b14c44e2f |
import numpy as np
import pandas as pd
from astropy import constants as c
from cachelib import SimpleCache
cache = SimpleCache()
colors = {
'Blue': '#1f77b4',
'Orange': '#ff7f0e',
'Green': '#2ca02c',
'Red': '#d62728',
'Purple': '#9467bd',
}
def readExoplanetEU():
"""Read the exoplanet.eu data... | DanielAndreasen/SWEETer-Cat | sweetercat/utils.py | Python | mit | 10,496 | [
"NetCDF"
] | 9709f38d2db3c94232100e2233535fb82c3d4b1c5a5fde870a2233eedb0d5616 |
from junction.tickets.management.commands.sync_data import Command
from junction.tickets.management.commands.explara import Explara
from mock import MagicMock
import pytest
def none_events():
return None
def single_event():
list_of_event = list()
list_of_event.append(
{"eventId": "EKDJHH", "even... | ChillarAnand/junction | tests/unit/tickets/management/commands/test_sync_data.py | Python | mit | 2,467 | [
"VisIt"
] | 9ae8f2cf4129973923fa6f1ee0d652015c632b605bf74f3899308649c3b3a521 |
#
# Copyright (C) 2003 Greg Landrum and Rational Discovery LLC
#
""" defines class _DbResultSet_ for lazy interactions with Db query results
**Note**
this uses the Python iterator interface, so you'll need python 2.2 or above.
"""
from __future__ import print_function
import sys
from rdkit.Dbase import DbInfo
c... | soerendip42/rdkit | rdkit/Dbase/DbResultSet.py | Python | bsd-3-clause | 6,080 | [
"RDKit"
] | 5b5b14c302131681ce0fa4d7cac4d3e98ddedb56bed6d6262159d0ab45b8eefa |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
The util package implements various utilities that are commonly used by various
packages.
"""
__author__ = "Shyue"
__date__ = "$Jun 6, 2011 7:30:05 AM$"
| dongsenfo/pymatgen | pymatgen/util/__init__.py | Python | mit | 269 | [
"pymatgen"
] | a5def33b853fe72b54ebbe05bd07f50578e0ac1d07686aa331a26e96bb8de48e |
"""
:mod:`pyvx.codegen` --- Code generation tools
=============================================
"""
from pycparser import c_parser, c_ast
from pycparser.c_generator import CGenerator
from cffi import FFI
import tempfile
import subprocess
import os, re
from shutil import rmtree, copy
typedefs = ''.join("typedef int u... | hakanardo/pyvx | old/pyvx/codegen.py | Python | mit | 10,785 | [
"VisIt"
] | 12c797792ac076c682b00f4ea75e957cb9df9f50d53340bd52c14958be5adb1b |
# Copyright (c) 2012 Google Inc. All rights reserved.
# Use of this source code is governed by a BSD-style license that can be
# found in the LICENSE file.
from compiler.ast import Const
from compiler.ast import Dict
from compiler.ast import Discard
from compiler.ast import List
from compiler.ast import Module
from co... | migua1204/jikexueyuan | 极客学院/BusStopBoard/node_modules/.3.4.0@node-gyp/gyp/pylib/gyp/input.py | Python | apache-2.0 | 115,880 | [
"VisIt"
] | fa25f29cdd4936b5135a9043850603586e8b0be37f6d34dea38c11ebbfe5be6b |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
nmap.py - version and date, see below
Source code : https://bitbucket.org/xael/python-nmap
Author :
* Alexandre Norman - norman at xael.org
Contributors:
* Steve 'Ashcrow' Milner - steve at gnulinux.net
* Brian Bustin - brian at bustin.us
* old.schepperhand
* Joha... | VillanCh/vscanner | vplugin/nmap/nmap.py | Python | apache-2.0 | 41,045 | [
"Brian"
] | 60f4ac2ba94bab8661a1280a0ef130e01324ecc5c0d64a329f66844bbabd0628 |
#!/usr/bin/python -E
import subprocess
import datetime
import os
import time
import socket
from subprocess import call
import re
def listAll(args):
submithost = socket.gethostname()
mX = submithost[:2]
partition = mX + "-vis-c6"
username = os.path.expandvars('$USER')
total_seconds = 0
cmd = ["... | monash-merc/cvl-fabric-launcher | scripts/MASSIVE/C6/vis_manager.py | Python | gpl-3.0 | 12,834 | [
"ParaView"
] | f1f2c69502c0a2b915cb23b4f4004eba129a193171e2cfb469b0e16916b9b507 |
#!/usr/bin/env python
########################################################################
# File : dirac-configure
# Author : Ricardo Graciani
########################################################################
"""
Main script to write dirac.cfg for a new DIRAC installation and initial download of CAs a... | arrabito/DIRAC | Core/scripts/dirac-configure.py | Python | gpl-3.0 | 20,322 | [
"DIRAC"
] | 6b4de6cfbf4f17dd06b57025e82b57f219b14aedecd16cf3e22407248533d79b |
#!/usr/bin/env python3
#
# Copyright (C) 2018-2019 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... | psci2195/espresso-ffans | maintainer/gh_post_docs_warnings.py | Python | gpl-3.0 | 3,077 | [
"ESPResSo"
] | ba9dc14f0ca79d28e9a24f1a535874e250d43b837df08014e5d6d86a1920f7e2 |
#
# File : mkdir.py
# This file is part of RT-Thread RTOS
# COPYRIGHT (C) 2006 - 2018, RT-Thread Development Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of th... | igou/rt-thread | tools/mkdist.py | Python | apache-2.0 | 13,809 | [
"CDK"
] | 42b3643e7b1b0803dcfcd78d4493a7e6c80e7596427185a67f116358eba91f70 |
"""Module symbol-table generator"""
from compiler import ast
from compiler.consts import SC_LOCAL, SC_GLOBAL, SC_FREE, SC_CELL, SC_UNKNOWN
from compiler.misc import mangle
import types
import sys
MANGLE_LEN = 256
class Scope:
# XXX how much information do I need about each name?
def __init__(self, name, mo... | MalloyPower/parsing-python | front-end/testsuite-python-lib/Python-2.2/Lib/compiler/symbols.py | Python | mit | 13,005 | [
"VisIt"
] | ded155babf86172893f29868920a7ad943a5b751159f6238aa6bea717aa1e7a5 |
# -*- coding: utf-8 -*-
#
# Copyright (C) 2014 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 applicabl... | GoogleCloudPlatform/gce-oreilly | ch7-1.py | Python | apache-2.0 | 5,575 | [
"VisIt"
] | 7c4d98b4907a70a667f9b51b298f968b450afbc2a926b135063e79ffa81ce861 |
"""
View for Courseware Index
"""
# pylint: disable=attribute-defined-outside-init
from datetime import datetime
from django.conf import settings
from django.contrib.auth.decorators import login_required
from django.contrib.auth.models import User
from django.core.context_processors import csrf
from django.core.urlreso... | mbareta/edx-platform-ft | lms/djangoapps/courseware/views/index.py | Python | agpl-3.0 | 23,668 | [
"VisIt"
] | 4bd615cec2cf9b958e947ee1e6042bda0c60c2f779b07911863a3b47f4b9d10f |
import sys
import copy
import pprint
import pytest
import numpy as np
from utils import *
from addons import *
import qcdb
from qcdb.physconst import psi_bohr2angstroms
subject1 = """O 0 0 0
no_com
H 1 ,, 0 \t 0 # stuff-n-nonsense"""
ans1 = {'geom': [0., 0., 0., 1., 0., 0.],
'elbl': ['O', 'H'],
... | amjames/psi4 | psi4/driver/qcdb/pytest/test_from_string.py | Python | lgpl-3.0 | 38,671 | [
"Psi4"
] | 677d12307585b663762c38f47626f71d348d0fc69ff5c454c7f6eb3a5f75ec66 |
# -*- coding: utf-8 -*-
# HORTON: Helpful Open-source Research TOol for N-fermion systems.
# Copyright (C) 2011-2015 The HORTON Development Team
#
# This file is part of HORTON.
#
# HORTON is free software; you can redistribute it and/or
# modify it under the terms of the GNU General Public License
# as published by th... | eustislab/horton | horton/part/test/test_proatomdb.py | Python | gpl-3.0 | 8,698 | [
"CP2K"
] | eb2cc28fddd4edd94349eb3e7788894a867b6c58a6128e8c0d486119b1f9beab |
# Import Libraries
# ----------------
import numpy as np
from numba import jit
import matplotlib
import matplotlib.pyplot as plt
from pylab import rcParams
# Ignore Warning Messages
# -----------------------
import warnings
warnings.filterwarnings("ignore")
from mpl_toolkits.axes_grid1 import make_axes_locatable
@j... | daniel-koehn/Theory-of-seismic-waves-II | 08_1D_visco_elastic_SH_modelling/tew2/FD_2DAC.py | Python | gpl-3.0 | 7,094 | [
"Gaussian"
] | 778f7ea6a665c5dd83135e808010ea7121d2025e913b65b92cb5fab48fdbfbda |
"""
API operations for samples in the Galaxy sample tracking system.
"""
import logging
from galaxy import util
from galaxy.web.base.controller import *
from galaxy.model.orm import *
from galaxy.util.bunch import Bunch
log = logging.getLogger( __name__ )
class SamplesAPIController( BaseAPIController ):
update_ty... | mikel-egana-aranguren/SADI-Galaxy-Docker | galaxy-dist/lib/galaxy/webapps/galaxy/api/samples.py | Python | gpl-3.0 | 7,615 | [
"Galaxy"
] | 9d63cd77e9557ac130b61cb410cad2de47e610c1191f0ef1db050603c6161024 |
import unittest
from nose.tools import * # PEP8 asserts
from tests.base import OsfTestCase
from tests.test_features import requires_search
from tests.factories import (
UserFactory, ProjectFactory, NodeFactory,
UnregUserFactory, UnconfirmedUserFactory
)
from framework.auth.core import Auth
import website.se... | AndrewSallans/osf.io | tests/test_elastic.py | Python | apache-2.0 | 13,299 | [
"Brian"
] | 94cecfe8bdff7b097e4c14e2e2cbc5c332dc4d57cf423275a782cd0c723d4d50 |
import unittest
from Tests.utils.utils import get_test_path
from kalliope.core.Models import Brain
from kalliope.core.Models import Neuron
from kalliope.core.Models import Synapse
from kalliope.core.Models.MatchedSynapse import MatchedSynapse
from kalliope.core.Models.Signal import Signal
from kalliope.core.OrderAnaly... | kalliope-project/kalliope | Tests/test_order_analyser.py | Python | gpl-3.0 | 30,914 | [
"NEURON"
] | b70756d140a2de98cda388f21dcd27adc37edb7269786a3d966b676a40bc1b46 |
# coding: utf-8
import os
PRODUCTION = os.environ.get('SERVER_SOFTWARE', '').startswith('Google App Eng')
DEBUG = DEVELOPMENT = not PRODUCTION
try:
# This part is surrounded in try/except because the config.py file is
# also used in the run.py script which is used to compile/minify the client
# side files (*.l... | gae-init/gae-init-docs | main/config.py | Python | mit | 6,466 | [
"GULP"
] | 7821a52e135b13cf4d59a83821fb88b195502a0c632ee5ff09b37ea3ba8eee2e |
def fleur():
color(55, 255, 102)
rosquare(200)
color(234, 255, 129)
rosquare(125)
color(255, 255, 255)
rosquare(50)
| alcemirfernandes/pynguin | doc/examples_src/morex_pynd/00005.py | Python | gpl-3.0 | 140 | [
"FLEUR"
] | 5dca963bd022c72fe9434eff230fb73055e54711ad5b2f5898988c51550928c2 |
from contextlib import contextmanager
from typing import Dict, List
class _NormalizerMeta(type):
def __new__(cls, name, bases, dct):
new_cls = type.__new__(cls, name, bases, dct)
new_cls.rule_value_classes = {}
new_cls.rule_type_classes = {}
return new_cls
class Normalizer(metacl... | snakeleon/YouCompleteMe-x64 | third_party/ycmd/third_party/jedi_deps/parso/parso/normalizer.py | Python | gpl-3.0 | 5,597 | [
"VisIt"
] | 81e606f54650e99a5a7d373f0a25d0a01b7c54899d06c88dc3afc624b79219b8 |
#######################################################################
#######################################################################
# CoNIFER: Copy Number Inference From Exome Reads
# Developed by Niklas Krumm (C) 2012
# nkrumm@gmail.com
#
# homepage: http://conifer.sf.net
# This program is described in:
#... | moka-guys/RPKM | conifer.py | Python | gpl-3.0 | 27,574 | [
"pysam"
] | 53bfe80a58e358aeb21c079036c2f6898305ee709c4f562ba6f272b52263f28e |
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