text stringlengths 12 1.05M | repo_name stringlengths 5 86 | path stringlengths 4 191 | language stringclasses 1
value | license stringclasses 15
values | size int32 12 1.05M | keyword listlengths 1 23 | text_hash stringlengths 64 64 |
|---|---|---|---|---|---|---|---|
# This file is part of PyEMMA.
#
# Copyright (c) 2015, 2014 Computational Molecular Biology Group, Freie Universitaet Berlin (GER)
#
# PyEMMA is free software: you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License as published by
# the Free Software Foundation, either vers... | marscher/PyEMMA | pyemma/coordinates/tests/test_discretizer.py | Python | lgpl-3.0 | 4,563 | [
"MDTraj"
] | c1f0fade73b5a082e58f2ba4609b54da88a14caf305678a1bded455d5a562258 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
from setuptools import setup, find_packages
import io
import os
import versioneer
VERSION = versioneer.get_version()
def read(*filenames, **kwargs):
encoding = kwargs.get('encoding', 'utf-8')
sep = kwargs.get('sep', '\n')
buf = []
for filename in filenam... | insilichem/ommprotocol | setup.py | Python | lgpl-3.0 | 1,700 | [
"OpenMM"
] | 864cab5122de4f7da3a5f0a996a15e448a6ccebec6a2451bd1f4fd1cbf15f8d5 |
"""
Basic SparseCFProjection with associated sparse CFs and output,
response, and learning function. If sparse component cannot be imported,
SparseCFProjection will fall back to a basic dense CFProjection.
CFSOF and CFSLF Plugin function allow any single CF output function to
be applied to the sparse CFs, but may suff... | mjabri/topographica | topo/sparse/sparsecf.py | Python | bsd-3-clause | 34,427 | [
"Gaussian"
] | 529e51960817ad12bdc34595063d42015f9dca03acbeccaeea7fcd9a60319611 |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2002-2007 Donald N. Allingham
# Copyright (C) 2007-2008 Brian G. Matherly
# Copyright (C) 2011 Tim G L Lyons
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as publ... | pmghalvorsen/gramps_branch | gramps/gen/filters/rules/family/__init__.py | Python | gpl-2.0 | 2,872 | [
"Brian"
] | fd3694fc7d60453c8e17e1a5f6aa769a56663f906027ff9802b67b44581f04c1 |
#!/usr/bin/env python
# -*- coding: utf8 -*-
# *****************************************************************
# ** PTS -- Python Toolkit for working with SKIRT **
# ** © Astronomical Observatory, Ghent University **
# *****************************************************************
##... | Stargrazer82301/CAAPR | CAAPR/CAAPR_AstroMagic/PTS/pts/magic/sources/starfinder.py | Python | mit | 38,170 | [
"Galaxy",
"Gaussian"
] | 745c59e9be0e1d8b7fd1acdaf80428b2e629130e1d3864e15339387c9c5c6066 |
# -*- coding: utf-8 -*-
from __future__ import print_function, division, absolute_import, unicode_literals
from builtins import * # noqa
from past.builtins import basestring
import logging
import os
from gmusicapi.utils import utils
from future.utils import with_metaclass
from oauth2client.client import OAuth2WebSe... | vially/googlemusic-xbmc | resources/Lib/gmusicapi/clients/shared.py | Python | gpl-3.0 | 7,024 | [
"VisIt"
] | 9df2049a3992df8d86ddd81ee86241c8008e86371c5b599f7df51ea178e34162 |
"""Integration with Galaxy nglims.
"""
from __future__ import print_function
import collections
import copy
import glob
import operator
import os
import subprocess
import joblib
import six
import yaml
from bcbio import utils
from bcbio.distributed.transaction import file_transaction
from bcbio.galaxy.api import Galax... | a113n/bcbio-nextgen | bcbio/galaxy/nglims.py | Python | mit | 8,015 | [
"BWA",
"Galaxy"
] | 69dbb2408a6cea557f9af98787fa4b8bd2ad3c9e9afaa4e246e190e2e98b3b7f |
# Copyright 2000 by Jeffrey Chang. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
"""Code to access resources at ExPASy over the WWW.
See http://www.expasy.ch/
Functions:
-... | zjuchenyuan/BioWeb | Lib/Bio/ExPASy/__init__.py | Python | mit | 3,735 | [
"Biopython"
] | c1d873aea96ecfb1e3d9677868810d7e935db367771fe96b110129cd3756d94b |
#
# Copyright (c) 2014, 2017, Oracle and/or its affiliates. All rights reserved.
# DO NOT ALTER OR REMOVE COPYRIGHT NOTICES OR THIS FILE HEADER.
#
# This code is free software; you can redistribute it and/or modify it
# under the terms of the GNU General Public License version 2 only, as
# published by the Free Softwar... | akunft/fastr | mx.fastr/suite.py | Python | gpl-2.0 | 12,341 | [
"VisIt"
] | 0fbca47a54daec9ca6c3aec8f923d06e008c9a52ea1d3f56e15d2917e63a368e |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2009 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 Software F... | andrebellafronte/stoq | stoqlib/gui/dialogs/renegotiationdetails.py | Python | gpl-2.0 | 7,090 | [
"VisIt"
] | 72b880574d117037fe4d818d5bd69b605573684d8518e41e5846f1e70de0d8df |
import datetime
import unittest
import urllib
from msschem.download import CAMSRegDownload, SilamDownload
import msschem_settings
class TestCAMSRegDownload(unittest.TestCase):
def test_construct_urls_single(self):
required_urls = ['http://download.regional.atmosphere.copernicus.eu/services/CAMS50?&toke... | andreas-h/mss-chem | tests/test_download.py | Python | mit | 4,941 | [
"NetCDF"
] | 10d89a62eb12791aacd4a5ee2080f7948298cc022c0496aef684c3c4b00e52db |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import division, print_function, unicode_literals, \
absolute_import
import os
import unittest
import numpy as np
from pymatgen.io.lammps.data import LammpsData
from pymatgen.core.structu... | xhqu1981/pymatgen | pymatgen/io/lammps/tests/test_lammps_data.py | Python | mit | 6,665 | [
"LAMMPS",
"pymatgen"
] | 41c3bcea1a98efb89242e2c377cc9a6de4fc61ad4cd2ff8565abcfbfeefd3bb8 |
import os
import logging
from functools import partial
from capture_gui.vendor.Qt import QtCore, QtWidgets
from capture_gui import plugin, lib
from capture_gui import tokens
log = logging.getLogger("IO")
class IoAction(QtWidgets.QAction):
def __init__(self, parent, filepath):
super(IoAction, self).__in... | Colorbleed/maya-capture-gui | capture_gui/plugins/ioplugin.py | Python | mit | 8,212 | [
"BLAST"
] | 82ee979e29ec5b978994da1f828936c4077da9f555154e603f5a626c1754b409 |
# Taken from:
# https://github.com/lennax/biopython/blob/f_loc5/Bio/SeqUtils/Mapper/__init__.py
# Copyright 2012 Lenna X. Peterson <arklenna@gmail.com>
# CoordinateMapper.py originally written by Reece Hart
# Older revisions may be found in this gist:
# https://gist.github.com/3172753
# This code is part of the B... | kantale/MutationInfo | biopython_mapper/__init__.py | Python | mit | 824 | [
"Biopython"
] | e3786031d74b740c47fe99414f6675e31141d21111728f71dea66c6710eeb6b3 |
from setuptools import setup, find_packages
from codecs import open
from os import path
here = path.abspath(path.dirname(__file__))
# Get the long description from the README file
with open(path.join(here, 'README.md'), encoding='utf-8') as f:
long_description = f.read()
setup(name='FitELP',
version='0.1.0',... | daniel-muthukrishna/GiantStarFormingRegions | setup.py | Python | mit | 3,465 | [
"Gaussian"
] | d38cbf94e32022e442166d4bd94242b922322da652f6ff049127285a1cc7df48 |
# Copyright 2021 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... | google-research/crafty | util.py | Python | apache-2.0 | 4,481 | [
"Gaussian"
] | 7ba12ab84393be58bd8471b3a96872cfaa4cb65598f7fa5d5ab929a1b2b3e7ed |
#!/usr/bin/python
###############################################################################
#
# This script prepares multiple files of coordination output from MDAnalysis
# coordination output scripts in order to facilitate numerous 1D distributions,
# graph building, and state splitting. This script performs a v... | cing/ChannelAnalysis | ChannelAnalysis/CoordAnalysis/Preprocessor.py | Python | mit | 23,912 | [
"MDAnalysis"
] | 3d575be0933b0c711b737c4392a0c53d214553f7aed43be6623be4c97ad27479 |
# definitions
def strip_chars(inputString):
WANTED = '*'
guardCnt = 1
while (True):
try:
index = inputString.rindex(WANTED)
except ValueError:
break
inputString = remove_chars(inputString, index)
guardCnt += 1
if (guardCnt == 3):... | kszynter/DailyChallenges | Challenge111_easy_star-delete/solution_brute_force.py | Python | mit | 2,305 | [
"ADF"
] | 9f90f84a4b4d23bf584f032529c61f12d15732da1a00aed21c576a395d933db2 |
# Copyright The Cloud Custodian Authors.
# SPDX-License-Identifier: Apache-2.0
import os
from pathlib import Path
from c7n_terraform.parser import TerraformVisitor, Parser, VariableResolver
data_dir = Path(__file__).parent / "data"
def setup_tf(tmp_path, file_map=None):
file_map = file_map or {}
for k, v ... | thisisshi/cloud-custodian | tools/c7n_terraform/tests_terraform/tf_common.py | Python | apache-2.0 | 871 | [
"VisIt"
] | dbe53478e15ff3ddc5f7f5984bf74517243a261ce6303b00b5f9b3f95f36c6ec |
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import os
import unittest
from pymatgen.io.qchem.sets import *
from pymatgen.util.testing import PymatgenTest
__author__ = "Samuel Blau, Brandon Wood, Shyam Dwaraknath, Evan Spotte-Smith"
__copyright__ = "Copyright 2018, Th... | vorwerkc/pymatgen | pymatgen/io/qchem/tests/test_sets.py | Python | mit | 29,555 | [
"pymatgen"
] | 21134180e328af24bc017f4a937b508978d439c9f67739b7bf4aa80e075892a4 |
import unittest
from sqlalchemy import create_engine
from sqlalchemy.orm import sessionmaker
from meerkat_abacus.config import config
from meerkat_abacus import model
from meerkat_abacus.pipeline_worker.process_steps import to_data_type
from meerkat_abacus.consumer.database_setup import create_db
class TestToDataType... | who-emro/meerkat_abacus | meerkat_abacus/pipeline_worker/tests/test_to_data_type.py | Python | mit | 2,384 | [
"VisIt"
] | 1931a3021f9ade493a604d73eb89ec0135e56735b5586a3ab778d4b2175dd6f3 |
#!/usr/bin/env python
##############################################################################################
#
#
# regrid_emissions_N96e.py
#
#
# Requirements:
# Iris 1.10, time, cf_units, numpy
#
#
# This Python script has been written by N.L. Abraham as part of the UKCA Tutorials:
# http://www.ukca.ac.u... | acsis-project/emissions | emissions/python/timeseries_1950-2020/regrid_BC_biofuel_emissions_n96e_360d.py | Python | gpl-3.0 | 19,110 | [
"NetCDF"
] | bfe39d05ba1d4f64651855fb86f5c29abc50da7d903d3fad183bbcf9ae60e0ef |
"""Quality control and summary metrics for next-gen alignments and analysis.
"""
import collections
import contextlib
import csv
import os
import glob
import shutil
import subprocess
import pandas as pd
import lxml.html
import yaml
from datetime import datetime
from collections import defaultdict
# allow graceful duri... | guillermo-carrasco/bcbio-nextgen | bcbio/pipeline/qcsummary.py | Python | mit | 49,963 | [
"pysam"
] | dc74a034db9e35ed30d4312f9125bfb02b61899fda9b1a87fa9364551a9a99e9 |
##
# Copyright 2009-2013 Ghent University
#
# This file is part of EasyBuild,
# originally created by the HPC team of Ghent University (http://ugent.be/hpc/en),
# with support of Ghent University (http://ugent.be/hpc),
# the Flemish Supercomputer Centre (VSC) (https://vscentrum.be/nl/en),
# the Hercules foundation (htt... | hajgato/easybuild-easyblocks | easybuild/easyblocks/q/quantumespresso.py | Python | gpl-2.0 | 14,480 | [
"ESPResSo",
"Quantum ESPRESSO",
"Wannier90",
"Yambo"
] | d714b402a609b148ab3f1f4d637da0c8af01d1e63d44d5cbb06b53dbb28825aa |
# encoding: utf-8
import datetime
from south.db import db
from south.v2 import SchemaMigration
from django.db import models
class Migration(SchemaMigration):
def forwards(self, orm):
# Adding M2M table for field ephys_props on 'DataTable'
db.create_table('neuroelectro_datatable... | neuroelectro/neuroelectro_org | neuroelectro/south_migrations/0015_auto.py | Python | gpl-2.0 | 10,875 | [
"NEURON"
] | fc3b7ffc79e253cc2803d6c7a49bc96bb7f4cdb6d3fd58ef4bfe545865762891 |
# -*- coding: utf-8 -*-
#
# Copyright (C) 2008-2011 Red Hat, Inc.
# This file is part of python-fedora
#
# python-fedora is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free Software Foundation; either
# version 2.1 of the Lice... | vivekanand1101/python-fedora | fedora/wsgi/faswho/faswhoplugin.py | Python | gpl-2.0 | 15,588 | [
"VisIt"
] | d66e1da22d02de10c6235edc25cbc606cb6289039241dfe8e8643867e7b71fbb |
#!/usr/bin/env python2.7
import os, sys
from numpy import *
import numpy.random
### Runs replica exchange with gREM (fix grem) for unlimited number of replicas on a set number of processors. This script is inefficient, but necessary if wanting to run with hundreds of replicas on relatively few number of procs.
### ... | ovilab/atomify | libs/lammps/examples/USER/misc/grem/lj-6rep/double-re-short.py | Python | gpl-3.0 | 6,218 | [
"LAMMPS"
] | ef7b6c14848224ca83aea346da8746cb3389a0f48c2a9db8170235966d7ffde9 |
'''
Created on 23/11/2009
@author: brian
'''
from scipysim.actors import Channel, CompositeActor
from scipysim.actors.display.bundlePlotter import BundlePlotter
from scipysim.actors.io import Bundle
from scipysim.actors.signal import Ramp, RandomSource
from scipysim.actors.math import Summer
import logging
logging.b... | hardbyte/scipy-sim | scipysim/models/noisy_ramp_plot.py | Python | gpl-3.0 | 1,197 | [
"Brian"
] | d064641529b9136de3b2db5dfa4ea949e2a2c023f722f06addb35586b6e6efbe |
# Copyright 2009 Brian Quinlan. All Rights Reserved.
# Licensed to PSF under a Contributor Agreement.
"""Execute computations asynchronously using threads or processes."""
__author__ = 'Brian Quinlan (brian@sweetapp.com)'
from third_party.py.concurrent.futures._base import (FIRST_COMPLETED,
... | juhalindfors/bazel-patches | third_party/py/concurrent/futures/__init__.py | Python | apache-2.0 | 965 | [
"Brian"
] | 0e1c9c969ddcc99c5414d881774336f64f82b23c3e8d1c9aaaf69f25a1884b98 |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4 fileencoding=utf-8
#
# 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)
#
... | kain88-de/mdanalysis | package/MDAnalysis/core/topology.py | Python | gpl-2.0 | 17,617 | [
"MDAnalysis"
] | 7f18398d5d16d35c8dbaf7bc859bb712f12a6280f4afe573255341b77b4a917b |
import math
import collections
class Database(object):
# single points defining the 'centre' of an object or room that nodes will travel to
POINTS = {
'cupboard': (-3.6, 4.0),
'bedroom': (-3.6, 2.1),
'bathroom': (-3.6, -3.7),
'hallway_top': (-1.5, 1.9),
'hallway_mid': (-1.5, 0.45),
'hallway_bot': (-1.5,... | swanndri/ROS-Healthcare-Simulator | se306/src/package1/scripts/database.py | Python | mit | 11,787 | [
"VisIt"
] | 917ee44ec1e845b4b96474a90914c9be8cf3b32fadc6556f801f656f9f493902 |
"""
Joint IDL semantic graph
"""
from collections import deque
import binascii
import copy
import itertools
import os
from .IdlParser import IdlParser
MYPY = False
if MYPY:
import typing
from typing import cast
else:
def cast(type_, obj):
return obj
if not hasattr(__builtins__, 'xrange'):
... | koplyarov/joint | joint-gen/joint/SemanticGraph.py | Python | isc | 16,894 | [
"VisIt"
] | 7934e0f2ceb3d641a6ddc8174cb361d9d7e45cfb2c036822fe1f92ccccc285c8 |
#__docformat__ = "restructuredtext en"
# ******NOTICE***************
# optimize.py module by Travis E. Oliphant
#
# You may copy and use this module as you see fit with no
# guarantee implied provided you keep this notice in all copies.
# *****END NOTICE************
# A collection of optimization algorithms. Version ... | chatcannon/scipy | scipy/optimize/optimize.py | Python | bsd-3-clause | 96,767 | [
"Gaussian"
] | a0778a818832eb12433448927bd82d89cd906de68cf5bd76a305d61192d45c7c |
# -*- coding: utf-8 -*-
#
# Copyright (c) 2017, the cclib development team
#
# This file is part of cclib (http://cclib.github.io) and is distributed under
# the terms of the BSD 3-Clause License.
"""Test unrestrictied single point logfiles in cclib"""
import os
import unittest
import numpy
from skip ... | cclib/cclib | test/data/testSPun.py | Python | bsd-3-clause | 9,713 | [
"Dalton",
"Jaguar",
"MOLCAS",
"Molpro",
"ORCA",
"TURBOMOLE",
"cclib"
] | 38dde66487d5539f6f029358f2abac47c1ab9c9268e94b91b965d5ff2a2fe9f5 |
###############################
# This file is part of PyLaDa.
#
# Copyright (C) 2013 National Renewable Energy Lab
#
# PyLaDa is a high throughput computational platform for Physics. It aims to make it easier to submit
# large numbers of jobs on supercomputers. It provides a python interface to physical input, suc... | pylada/pylada-light | src/pylada/config/mpi.py | Python | gpl-3.0 | 11,266 | [
"CRYSTAL",
"VASP"
] | f37698b4784f83ba3c7df442e0feaa476ba5fede3ee2ed32640f53766cc7046e |
# encoding: utf-8
"""
nrnpython implementation of the PyNN API.
:copyright: Copyright 2006-2016 by the PyNN team, see AUTHORS.
:license: CeCILL, see LICENSE for details.
"""
import numpy
import logging
from pyNN import common
from pyNN.parameters import Sequence, ParameterSpace, simplify
from pyNN.standardmodels imp... | anupkdas-nus/global_synapses | pyNN-dispackgaes/neuron/populations.py | Python | gpl-3.0 | 5,219 | [
"NEURON"
] | b7d8635e8f6b16789c445c9d9cd275aa2bc420a0b9cc33af0b29f2302f4e64af |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
Script to visualize the model coordination environments
"""
__author__ = "David Waroquiers"
__copyright__ = "Copyright 2012, The Materials Project"
__version__ = "2.0"
__maintainer__ = "David Waroquiers"
_... | tschaume/pymatgen | dev_scripts/chemenv/view_environment.py | Python | mit | 5,049 | [
"pymatgen"
] | add249f4d999d13c673ae4aa190d1bd836f85ced3fe81f4fcaa68b589edc9c5a |
#!usr/bin/python
import matplotlib.pyplot as plt
import matplotlib.widgets as widgets
from mpl_toolkits.mplot3d import Axes3D
import numpy as np
import e_field_gen as e_field
import odeint_solve as ode
import sys as sys
ELEC_MASS = 9.10938356E-31
ELEC_CHARGE = -1.60217662E-19
FUND_FREQ = 3.7474057E14
SP_LI... | KavuriG/classical-calc-three-color | tester.py | Python | gpl-3.0 | 6,151 | [
"Gaussian"
] | 78792c508fd136aec9f37d1ead7535142562fd85516e9d46483f9da6d780c091 |
# (c) 2012-2014, Michael DeHaan <michael.dehaan@gmail.com>
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) an... | qvicksilver/ansible | lib/ansible/utils/__init__.py | Python | gpl-3.0 | 55,670 | [
"VisIt"
] | e8788d3534ca4bd101bb362705b559d8796f06c777aa5710282c0d08e60d5390 |
'''
SYNBIOCHEM-DB (c) University of Manchester 2015
SYNBIOCHEM-DB is licensed under the MIT License.
To view a copy of this license, visit <http://opensource.org/licenses/MIT/>.
@author: neilswainston
'''
import os
import sys
import tarfile
import tempfile
import urllib
__NCBITAXONOMY_URL = 'ftp://ftp.ncbi.nih.go... | synbiochem/biochem4j | sbcdb/ncbi_taxonomy_utils.py | Python | mit | 2,520 | [
"VisIt"
] | 28d74ba2284e11d035946c89d0d5714972a26b5c6308b5eb0623aa80dfec8294 |
from keras.models import load_model
from os import listdir
from os.path import join
import cv2
import numpy as np
import matplotlib.pyplot as plt
import settings
from scipy.misc import imresize
from skimage.segmentation import active_contour
from skimage.filters import gaussian
def read(path, size=settings.INPUT_SHAP... | Rignak/Scripts-Python | DeepLearning/AutoEncoder/Saliency_test.py | Python | gpl-3.0 | 3,955 | [
"Gaussian"
] | c62cef23bc005311ece0403bd5155c94b48b9556cd5e934463148259b9d2246a |
# -*- coding: utf-8 -*-
# Part of Odoo. See LICENSE file for full copyright and licensing details.
from datetime import datetime, date
from lxml import etree
import time
from openerp import api
from openerp import SUPERUSER_ID
from openerp import tools
from openerp.osv import fields, osv
from openerp.tools.translate ... | AyoubZahid/odoo | addons/project/project.py | Python | gpl-3.0 | 53,608 | [
"VisIt"
] | 36e1211b8b78600e1eea54d66e5bccd3bea6502d4a024226271146749b54d210 |
# 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 ... | jimbobhickville/libcloud | libcloud/common/google.py | Python | apache-2.0 | 29,589 | [
"VisIt"
] | f2e912863d9f7581b341fc05d5f91de4a05057790deb4e20945c68eb5618211b |
from .. import nengo as nengo
## This example demonstrates how to create a neuronal ensemble containing a single neuron.
##
## Network diagram:
##
## [Input] ---> (Neuron)
##
##
## Network behaviour:
## A = Input
##
# Create the nengo model
model = nengo.Model('Single Neuron') # Create the network
... | jaberg/nengo | examples/singleneuron.py | Python | mit | 1,505 | [
"NEURON"
] | 67641a9a2e82d9cddf0c4740bf7c45c8ac303202d0e61b887d60ac0146f491ec |
##############################################################################
# MDTraj: A Python Library for Loading, Saving, and Manipulating
# Molecular Dynamics Trajectories.
# Copyright 2012-2013 Stanford University and the Authors
#
# Authors: Kyle A. Beauchamp
# Contributors: Robert McGibbon, John D. Cho... | tcmoore3/mdtraj | mdtraj/formats/mol2.py | Python | lgpl-2.1 | 8,106 | [
"MDTraj",
"OpenMM"
] | dcac72a720b46d72ec7262991e1ae4c3114d13184ac87734177d00dbc6d9a302 |
#!/usr/bin/env python
##############################################################################
#
# Usage example for the procedure PPXF, which
# implements the Penalized Pixel-Fitting (pPXF) method by
# Cappellari M., & Emsellem E., 2004, PASP, 116, 138.
# The example also shows how to include a library of templa... | cebarbosa/fossilgroups | ppxf/ppxf_kinematics_example_sdss.py | Python | gpl-3.0 | 9,679 | [
"Galaxy",
"Gaussian"
] | 98d10a77b72f6368e9fa1855a02083435133a680a5b096a92178af29b517a0cc |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
from module_base import ModuleBase
from module_mixins import NoConfigModuleMixin
import vtk
class VTKtoITKF3(NoConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(se... | nagyistoce/devide | modules/insight/VTKtoITKF3.py | Python | bsd-3-clause | 2,339 | [
"VTK"
] | 8375b5fc1fb2200d93da5c6dc62d369d3c5380fa483e011eab74b151310d8493 |
import logging
from abc import ABCMeta
from abc import abstractmethod
from io import BytesIO
from string import Template
from urllib.parse import urlencode, urljoin
from galaxy.util import unicodify
from .util import copy_to_path
log = logging.getLogger(__name__)
class PulsarInterface(metaclass=ABCMeta):
"""
... | galaxyproject/pulsar | pulsar/client/server_interface.py | Python | apache-2.0 | 6,188 | [
"Galaxy"
] | 668919d78545db03453c9e04c8ec6218397e121766f4e77232a6cf4e0af11f63 |
from aiida.parsers.parser import Parser
from aiida.parsers.exceptions import OutputParsingError
from aiida.orm.data.array import ArrayData
from aiida.orm.data.structure import StructureData
from aiida.orm.data.parameter import ParameterData
import numpy as np
def read_log_file(logfile):
f = open(logfile, 'r')
... | abelcarreras/aiida_extensions | plugins/parsers/lammps/optimize.py | Python | mit | 6,836 | [
"LAMMPS"
] | a2f8df56e36f3b1ebdea1dc2e76fd4b3dc6ff43ca5bcbfe58941c232aacfd326 |
# File:
# rectilinear_contour_xarray.py
#
# Synopsis:
# Demonstrate the use of xarray to read a netCDF file.
# Create a contour plot.
#
# Category:
# xarray
# netCDF
# contour
#
# Author:
# Karin Meier-Fleischer
#
# Date of initial publication:
# January, 2019
#
# Description:
# Demon... | KMFleischer/PyEarthScience | Visualization/PyNGL/contour_plot_rectilinear_xarray.py | Python | mit | 6,438 | [
"NetCDF"
] | 2d5bb599ce1a3d05f4d23cdb4411360378b8c6111a7722c07d133b84816a566d |
import numpy as np
import skimage
from PIL import Image, ImageEnhance
from scipy.ndimage.filters import gaussian_filter
from scipy.ndimage.interpolation import map_coordinates
from skimage import color, exposure, filters
from skimage.util import random_noise
def _elastic_transform_2d(img, sigma=6, alpha=36, random=Fa... | Swall0w/clib | clib/transforms/imageprocessing.py | Python | mit | 2,373 | [
"Gaussian"
] | b889e526de9039b0685d6cbe47a8996825d0c79026428d5a7c15284c0dc05833 |
#!/usr/bin/env python
import vtk
from vtk.test import Testing
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
# this test covers a lot of the code in vtkAbstractTransform that
# is not covered elsewhere
# create a rendering window
renWin = vtk.vtkRenderWindow()
renWin.SetMultiSamples(0)
renWi... | HopeFOAM/HopeFOAM | ThirdParty-0.1/ParaView-5.0.1/VTK/Rendering/Core/Testing/Python/TransformCoverage.py | Python | gpl-3.0 | 7,494 | [
"VTK"
] | be0d3c2ef07306ea644e6b5ef0ed3acce4ab602a61e53991b7680039ee83ac89 |
from __future__ import print_function
import numpy as np
from math import sqrt, exp
def tri2full(H_nn, UL='L'):
"""Fill in values of hermitian matrix.
Fill values in lower or upper triangle of H_nn based on the opposite
triangle, such that the resulting matrix is symmetric/hermitian.
UL='U' will copy... | suttond/MODOI | ase/transport/tools.py | Python | lgpl-3.0 | 14,465 | [
"Gaussian"
] | 2abb984cc2cbedcfe6eb0ffff6cb8d629e127900fd38833c374335dd2f1c0af8 |
########################################################################
# $HeadURL$
# File : SSHComputingElement.py
# Author : Dumitru Laurentiu, A.T.
########################################################################
""" SSH (Virtual) Computing Element: For a given IP/host it will send jobs directly through ... | rajanandakumar/DIRAC | Resources/Computing/SSHComputingElement.py | Python | gpl-3.0 | 24,521 | [
"DIRAC"
] | ccf241ada80db430381c75678881dce02c0cfb3a1eeb2d1c7644ad9ce9a71f73 |
"""
==========================================================
Compute point-spread functions (PSFs) for MNE/dSPM/sLORETA
==========================================================
PSFs are computed for four labels in the MNE sample data set
for linear inverse operators (MNE, dSPM, sLORETA).
PSFs describe the spread o... | adykstra/mne-python | examples/inverse/plot_mne_point_spread_function.py | Python | bsd-3-clause | 3,134 | [
"Mayavi"
] | 3202c45848a8aece8580c5dfc1ec9e0a70c7a407f87acfce35c1b8631f84bbae |
# -*- coding: utf-8 -*-
"""
Kay framework.
:Copyright: (c) 2009 Accense Technology, Inc.
Takashi Matsuo <tmatsuo@candit.jp>,
Ian Lewis <IanMLewis@gmail.com>
All rights reserved.
:license: BSD, see LICENSE for more details.
"""
import os
import sys
impor... | Letractively/kay-framework | kay/__init__.py | Python | bsd-3-clause | 7,280 | [
"VisIt"
] | d6eec0376ad436b3692143f4579f0dc2fb36450782e700340caf93d9538c8c74 |
import matplotlib.pyplot as plt
import matplotlib.image as mpimg
import numpy as np
import cv2
image = mpimg.imread('exit-ramp.jpg')
gray = cv2.cvtColor(image, cv2.COLOR_RGB2GRAY) #grayscale conversion
# Define a kernel size for Gaussian smoothing / blurring
# Note: this step is optional as cv2.Canny() applies a 5x5... | DavidObando/carnd | Term1/Project1/Other Material/exitramp.py | Python | apache-2.0 | 2,407 | [
"Gaussian"
] | 28dd4fbc345b004e7a6ea2bc228443f78a209477d507ab51c3bd6b1e24238c17 |
# [1] https://www.sciencedirect.com/science/article/pii/S0166128098004758
# https://doi.org/10.1016/S0166-1280(98)00475-8
# Dapprich, Frisch, 1998
# [2] https://onlinelibrary.wiley.com/doi/abs/10.1002/9783527629213.ch2
# Clemente, Frisch, 2010
#
# Not implemented in pysisyphus
#
# [2] https://aip.scitation.... | eljost/pysisyphus | pysisyphus/calculators/ONIOMv2.py | Python | gpl-3.0 | 34,889 | [
"Jmol",
"ORCA",
"OpenMolcas",
"Psi4",
"PySCF",
"TURBOMOLE",
"xTB"
] | d25f3bf7a0bd0344e70f222f554cb9272e229c72ee1cbd9e10e9ba062f8967ea |
#!/usr/bin/env python
'''
Optimize the geometry of excited states using CASSCF or CASCI
Note when optiming the excited states, states may flip and this may cause
convergence issue in geometry optimizer.
'''
from pyscf import gto
from pyscf import scf, mcscf
mol = gto.Mole()
mol.atom="N; N 1, 1.1"
mol.basis= "6-31g"... | sunqm/pyscf | examples/geomopt/12-mcscf_excited_states.py | Python | apache-2.0 | 2,328 | [
"PySCF"
] | 7733152497246db6d39a97297c5b44dc0b0e730a16ba75c7616d158901588eb0 |
#!/usr/bin/env python
'''
This program takes a list of module files and creates a (possibly disjoint)
directed graph of the modules and their dependencies. Arrows on the
directed graph point to the dependent module.
Typical usage would be as follows:
VisualizeModuleDependencies.py VTKSourceDir vtkFiltersSources,vtkI... | sumedhasingla/VTK | Utilities/Maintenance/VisualizeModuleDependencies.py | Python | bsd-3-clause | 11,041 | [
"VTK"
] | 1b1a2acf42871b654041c0e4b628594b7cbc94ed8e82f8f7f376a8ea88dc6504 |
# Copyright 2013-2020 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
import glob
import os
import tempfile
class Ncl(Package):
"""NCL is an interpreted language desi... | rspavel/spack | var/spack/repos/builtin/packages/ncl/package.py | Python | lgpl-2.1 | 10,773 | [
"NetCDF"
] | f0237e6ffbd4ce06a5be2c9460e6aa664b88134589f6bc1ae1ac50bdde7febf4 |
#!/usr/bin/python
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU Library General Public License as published by
# the Free Software Foundation; version 2 only
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without... | kholia/pyrpm | scripts/oldpyrpm.py | Python | gpl-2.0 | 281,247 | [
"VisIt"
] | 8c7f4911b893e5757b2a348be30be2ca6b880831a835549dbfda401708ab38ba |
#
# @BEGIN LICENSE
#
# QCDB: quantum chemistry common driver and databases
#
# Copyright (c) 2011-2017 The QCDB Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of QCDB.
#
# QCDB is free software; you can redistribute it and/or modify
# it ... | loriab/qcdb | qcdb/periodictable.py | Python | lgpl-3.0 | 78,250 | [
"CFOUR",
"Psi4"
] | b704bacb4d34099d5318dbdb8d6f5a0aa1e35578d38e6a9d1d406bd0d95d5f37 |
#!/usr/bin/env python
from setuptools import setup
__version__ = '0.1'
setup(
name = 'kraller',
version = __version__,
description = 'A little application to allow signups with keys for accounts on a server',
author = 'Brian Stack',
author_email = 'bis12@case.edu',
url = 'http://github.com/hacsoc/kraller... | hacsoc/kraller | setup.py | Python | bsd-2-clause | 728 | [
"Brian"
] | aeb47b37984c12589c03878942f13eeb08a7de6d0039d91a5c48d912dc934170 |
# -*- 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-pubsub | tests/unit/gapic/pubsub_v1/test_subscriber.py | Python | apache-2.0 | 195,501 | [
"Octopus"
] | d761556ddcfb740042fc51cecb3b2a6fc23dc36d5585444283c4375e4f511d03 |
POPULAR_PREFIXES = {}
PREFIX_SCORES = {}
POPULAR_PREFIXES[2] = """
ma
ca
se
co
ba
sa
lo
pa
re
th
ho
ha
mo
sh
bi
be
te
la
ne
fi
me
ch
in
al
li
bo
go
po
to
st
so
ta
fa
mi
da
tr
do
le
vi
bu
my
no
su
di
si
ra
wa
an
ar
ga
he
ro
fo
jo
wi
pr
pe
de
pi
gr
ge
ki
as
na
ka
cl
hi
fl
ti
dr
sp
fu
ad
yo
on
bl
wo
ke
us
ea
pl
wh
am
ri
... | jcrocholl/nxdom | prefixes/popular.py | Python | mit | 298,933 | [
"ADF",
"ASE",
"Amber",
"BLAST",
"Brian",
"CASINO",
"CDK",
"Elk",
"Galaxy",
"Jaguar",
"MOE",
"MOOSE",
"ORCA",
"VisIt"
] | 84bda6c550ac53ff9edcef893314e1fb28230171ce05b2c3b5ecd763ededb30a |
# ============================================================================
#
# Copyright (C) 2007-2012 Conceptive Engineering bvba. All rights reserved.
# www.conceptive.be / project-camelot@conceptive.be
#
# This file is part of the Camelot Library.
#
# This file may be used under the terms of the GNU General... | jeroendierckx/Camelot | camelot/view/model_thread/signal_slot_model_thread.py | Python | gpl-2.0 | 10,093 | [
"VisIt"
] | beaf197ff57c1d3042b7f0dbf4921a388751f1688c6914c940edeaccd22cd80d |
#!/usr/bin/python
import os, glob, shutil
import model_param as mc
def transfer(filename):
path, name = os.path.split(filename)
f = name.split('_')
print "Transferring... " + name
# netCDF file destination base folder
d... | lorenghoh/ent_analysis | conversion/nc_transfer.py | Python | mit | 602 | [
"NetCDF"
] | dbd5a6d4c90fa7dab8cdf0154148a0cbd641699f957420574e08dee7a8f5d5f6 |
# only pull once per stock
# urllib2 opens http urls (authentication, redirections, cookies, etc.)
import urllib2
# timer not to overload sites
import time
import os, sys
stockToPull = 'AAPL' # AAPL, FB, UAA
stockRange = '1y' # 1y, 10d
def pullData(stock):
try:
# one time creation of stock's data to be stored here... | Darthone/bug-free-octo-parakeet | technical-analysis/2-get-stock-prices.py | Python | mit | 1,368 | [
"VisIt"
] | 6440e77eab91e78e0dae04bb93051bf64f3b9f4ddda92ac954fd9938abc6bf49 |
from ase import Atoms
from ase.structure import molecule
from ase.visualize import view
from gpaw import GPAW
from gpaw.wannier import Wannier
calc = GPAW(nbands=5)
atoms = molecule('CO')
atoms.center(vacuum=3.)
atoms.set_calculator(calc)
atoms.get_potential_energy()
# Initialize the Wannier class
w = Wannier(calc)
w... | robwarm/gpaw-symm | doc/exercises/wannier/wannier-co.py | Python | gpl-3.0 | 411 | [
"ASE",
"GPAW"
] | db228a1df4e6fbc6b3e22fbb32fff01804c88449d0b8d975a3a95ae2cf3e98b8 |
# (C) British Crown Copyright 2010 - 2016, Met Office
#
# This file is part of Iris.
#
# Iris is free software: you can redistribute it and/or modify it under
# the terms of the GNU Lesser General Public License as published by the
# Free Software Foundation, either version 3 of the License, or
# (at your option) any l... | SusanJL/iris | lib/iris/cube.py | Python | gpl-3.0 | 158,463 | [
"NetCDF"
] | 3f86ff19647816f6a5d176a99bb928a6931d8edc1afa9784ee93aec3f0d80926 |
"""
Tests on the repository activation/deactivation functions
"""
from octopus.modules.es.testindex import ESTestCase
from service import control, models
import time
class TestModels(ESTestCase):
def setUp(self):
super(TestModels, self).setUp()
def tearDown(self):
super(TestModels, self).tear... | JiscPER/jper-sword-out | service/tests/unit/test_control.py | Python | apache-2.0 | 1,105 | [
"Octopus"
] | bf9623dcdf8290c9fd13c1ba67411d4b305fa3ff7ada52aec608c6e9ef6d61a7 |
"""
Unit tests for calculation of lattice Green function for diffusion
"""
__author__ = 'Dallas R. Trinkle'
import unittest
import numpy as np
from scipy import special
import onsager.GFcalc as GFcalc
import onsager.crystal as crystal
def poleFT(di, u, pm, erfupm=-1):
"""
Calculates the pole FT (excluding t... | DallasTrinkle/Onsager | test/test_GFcalc.py | Python | mit | 12,215 | [
"CRYSTAL",
"Gaussian"
] | 98cc63dec1f85b89ab86c11bec8679f742231b2ee91ddd93f6de793b65876317 |
import os
import sys
import copy
import cPickle
import numpy as np
seed = np.random.randint(2**16)
# seed = 2958
# seed = 60017
if "DISPLAY" not in os.environ:
import matplotlib
matplotlib.use('Agg')
import matplotlib.pyplot as plt
from optofit.cneuron.compartment import Compartment, SquidCompartment
from o... | HIPS/optofit | examples/two_gp_demo.py | Python | gpl-2.0 | 21,174 | [
"Gaussian",
"NEURON"
] | 8141f95523d973a1274aa41a46328bc953adcd03a38cddcba80543f819bad7f2 |
# -*- coding: utf-8 -*-
"""
Created on Thu Mar 20 08:58:56 2014
Script to generate intro-example.odml
@author: zehl
"""
import odml
import datetime
odmlrepo = 'http://portal.g-node.org/odml/terminologies/v1.0/terminologies.xml'
# CREATE A DOCUMENT
doc = odml.Document(author="D. N. Adams",
date=... | carloscanova/python-odml | doc/example_odMLs/thgttg.py | Python | bsd-3-clause | 11,921 | [
"Galaxy"
] | 3043ac62ce4bf6fcf10553aa031c65db5bd0ff05c0f2b80c359dd747d0126a2e |
#How to extract histogram: http://stackoverflow.com/questions/22159160/python-calculate-histogram-of-image
from __future__ import division, print_function, absolute_import
import tflearn
from tflearn.data_utils import shuffle, to_categorical
from tflearn.layers.core import input_data, dropout, fully_connected
from tfl... | jmrozanec/white-bkg-classification | scripts/05-histogram-random-forest.py | Python | apache-2.0 | 5,046 | [
"Gaussian"
] | 1723bd91365e199fe3932da971014a092f7e10870da1451659af7b700309c665 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Abinit Post Process Application
author: Martin Alexandre
last edited: May 2013
"""
import sys,os,commands,threading
import string, math, re
#GUI
import gui.graph as Graph
import gui.md as MD
import gui.gs as GS
import gui.elasticConstant as ElasticConstant
import g... | SamKChang/abinit-7.10.5_multipole | scripts/post_processing/appa/gui/main_frame.py | Python | gpl-3.0 | 11,569 | [
"ABINIT",
"NetCDF"
] | 1ad3cadcf801918235b771ccde74e3ed724ede8b82b61ae812f21812938b6e95 |
#!/usr/bin/env python
""" update local cfg
"""
from __future__ import print_function
from __future__ import absolute_import
from __future__ import division
import os
from diraccfg import CFG
from DIRAC.Core.Base import Script
Script.setUsageMessage('\n'.join([__doc__.split('\n')[1],
... | yujikato/DIRAC | tests/Jenkins/dirac-cfg-update.py | Python | gpl-3.0 | 2,689 | [
"DIRAC"
] | ac702c3833c0ef124243b12f1486bef88eb3a60bd591a389cb086003994d5cb8 |
"""Takes in grades from the user then prints out relavent data.
Written By: Brian O'Dell, October 2017
The program will take in grades from the user until they enter '-1'.
Once that occurs the while loop will break out, and the frequency of each
category will be displayed. The categories are defined by [x0 - x9] wher... | brian-o/CS-CourseWork | CS471/ExceptionHandling/exceptionInPython.py | Python | gpl-3.0 | 2,495 | [
"Brian"
] | c3568eac445fd6d0e358d740435e0a595a264727d0d93243e5745db035ac6db1 |
from __future__ import unicode_literals
import sys
sys.path = sys.path[1:]
from .forms import ParameterForm, PeakTableForm, MixtureForm, PowerTableForm, PowerForm
from .models import NeuropowerModel
from .utils import get_url, get_neuropower_steps, get_db_entries, get_session_id, create_local_copy, get_neurovault_form
... | neuropower/neuropower | neuropower/apps/neuropowertoolbox/views.py | Python | mit | 17,244 | [
"VisIt"
] | b29ba2dbf5114fee8435441aed09eba4fa9decfbd0bb16aebd614591ebb2330c |
from __future__ import unicode_literals
import sys
import spotipy
from pytify.history import history
from spotipy.oauth2 import SpotifyClientCredentials
# Fetch songs with spotify api
class Pytifylib:
# hold songs
_songs = {}
# limit output songs
_limit = 15
def _spotify(self):
return se... | bjarneo/Pytify | pytify/pytifylib.py | Python | mit | 3,312 | [
"VisIt"
] | ad93200e7995177c5290cf771e3637e5a208dd30020000780bf98212e0c723ee |
from __future__ import unicode_literals
import re
import random
import string
from unittest.mock import patch
from datetime import datetime
# from django.conf import settings
from django.contrib.contenttypes.models import ContentType
from django.contrib.sites.models import Site
from django.contrib.auth.models import ... | danirus/django-comments-xtd | django_comments_xtd/tests/test_views.py | Python | bsd-2-clause | 21,327 | [
"VisIt"
] | 74a9220b5a8c9f983424c86d71633504adc279c700f1357e5b16fe2acda38271 |
"""
The Phi DSL is all about creating and combining functions in useful ways, enabling a declarative approach that can improve clarity, readability and lead to shorter code. Its has two main functionalities
1. The lambdas capabilities which let quickly create readable functions.
2. The `Expression` combinator methods ... | cgarciae/phi | phi/dsl.py | Python | mit | 41,557 | [
"VisIt"
] | d67d088f9306eca9530393811f62ce91f70994d9b384c980d91131e096a2b2a4 |
from ovito.io import import_file
from ovito.data import CutoffNeighborFinder
# Load input simulation file.
node = import_file("simulation.dump")
data = node.source
# Initialize neighbor finder object:
cutoff = 3.5
finder = CutoffNeighborFinder(cutoff, data)
# Loop over all input particles:
for index in range(data.nu... | srinath-chakravarthy/ovito | doc/python/example_snippets/cutoff_neighbor_finder.py | Python | gpl-3.0 | 554 | [
"OVITO"
] | 173f49f5599c533956944795e2cccc7a490115bf7f474e35cc67fecc73fe1713 |
from django.conf import settings
from django.conf.urls.static import static
from django.contrib import admin
{%- if cookiecutter.use_async == 'y' %}
from django.contrib.staticfiles.urls import staticfiles_urlpatterns
{%- endif %}
from django.urls import include, path
from django.views import defaults as default_views
f... | trungdong/cookiecutter-django | {{cookiecutter.project_slug}}/config/urls.py | Python | bsd-3-clause | 2,353 | [
"VisIt"
] | 7268e0d85891b890ec164ed12ce35f676ec4e353c4b378686425f1626eb9cc0b |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2007 Donald N. Allingham
# Copyright (C) 2002 Gary Shao
# Copyright (C) 2007 Brian G. Matherly
# Copyright (C) 2009 Benny Malengier
# Copyright (C) 2009 Gary Burton
#
# This program is free software; you can redistribute i... | Forage/Gramps | gramps/gen/plug/docgen/tablestyle.py | Python | gpl-2.0 | 6,977 | [
"Brian"
] | f50d33fc06d844a295f0661b90e4709a959abe51a89b11b53440c35e5365454b |
# 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... | ghchinoy/tensorflow | tensorflow/python/ops/image_ops_test.py | Python | apache-2.0 | 202,288 | [
"Gaussian"
] | 1d2a94725a61d62325eb1d666637b839e0421a481968c080b6640e1c8dc48a3d |
"""
Acceptance tests for Studio related to the container page.
The container page is used both for displaying units, and
for displaying containers within units.
"""
import datetime
import ddt
from base_studio_test import ContainerBase
from common.test.acceptance.fixtures.course import XBlockFixtureDesc
from common.te... | jolyonb/edx-platform | common/test/acceptance/tests/studio/test_studio_container.py | Python | agpl-3.0 | 68,525 | [
"VisIt"
] | a9789ceb62decaf4ad41acc79cd2fc29adc5be3bd922c1929421763a52a53fea |
from django.contrib.auth import get_user_model
from core.tests.base import BaseTestCase
class UserModelTestCase(BaseTestCase):
def setUp(self):
super(UserModelTestCase, self).setUp()
# Create sample diaries
self.user.diary_set.create(
datetime="2016/07/02",
conte... | jupiny/EnglishDiary | english_diary/users/tests/test_models.py | Python | mit | 4,425 | [
"exciting"
] | 86a9e5f2dffdaa6d3533eba976880aa0667ccd024db547e6b75d39f271a73e45 |
#
# A file that opens the neuroConstruct project LarkumEtAl2009 run the cell model LarkumPyr (used by the teststim.py script)
#
# Author: Matteo Farinella
from sys import *
from java.io import File
from java.lang import System
from java.util import ArrayList
from ucl.physiol.neuroconstruct.project import... | pgleeson/TestArea | models/LarkumEtAl2009/testmodel.py | Python | gpl-2.0 | 5,240 | [
"NEURON"
] | e7354600c32e979caab4725124adf61a54737f698b0c3f6b080cf39d41072e27 |
# -*- coding: utf-8 -*-
"""
Display cryptocurrency data.
The site we retrieve cryptocurrency data from offer various types of data such as
name, symbol, price, volume, percentage change, total supply, et cetera for a wide
range of cryptocurrencies and the prices can be obtained in a different currency
along with USD c... | alexoneill/py3status | py3status/modules/coin_market.py | Python | bsd-3-clause | 8,379 | [
"VisIt"
] | f6bc20ca9909827277c72230d07a4fcfcaeb7f9eb8eae0052f80e0ea6ecd7cc9 |
"""This module implements an scanerless Earley parser.
The core Earley algorithm used here is based on Elizabeth Scott's implementation, here:
https://www.sciencedirect.com/science/article/pii/S1571066108001497
That is probably the best reference for understanding the algorithm here.
The Earley parser outputs an... | python-poetry/poetry-core | src/poetry/core/_vendor/lark/parsers/earley.py | Python | mit | 14,853 | [
"VisIt"
] | 0ee49890c1373beb491f14a7cdd88b4ea988880a458ddd8888efa0d9aadc1453 |
from pymol import cmd
#from glob import glob
#import build_seq
#import seq_convert
#files = glob.glob("/afs/pdc.kth.se/home/s/syazdi/Disc2/PROJECT/Scripts/sequences/*")
#for file in glob("sekwencje/*"):
#file="AA"
#runbuildseq='run /home/wiktor/Zabawki/pymol_scripts/lib/build_seq.py'
#cmd.do(runbuildseq)
#cmd.do('run... | wjurkowski/tmdrug | peptide_builder/pymol_create_sequence.py | Python | apache-2.0 | 2,508 | [
"PyMOL"
] | 3e2e05eca907844e932b354ee884b5c0a9ca7ef9d0964a9a6b4b9696094a84b1 |
#!/usr/bin/env python
import os
import sys
import string
import argparse
import subprocess
import tempfile
parser = argparse.ArgumentParser(description='Android system files extractor')
parser.add_argument("-p", "--prefix", metavar="NAME", required=True,
help="Prefix for stored files, e.g. galaxy... | Teaonly/easyLearning.js | TensorExpress/aten/src/ATen/cpu/cpuinfo/scripts/android-filesystem-dump.py | Python | mit | 13,760 | [
"Galaxy"
] | d145a0a2abe0f07f99defca9ceaf03bc521a73a494d5f408dcf332be1e6fead6 |
"""
Test backend attachment
"""
__RCSID__ = "$Id$"
import pytest
from DIRAC.FrameworkSystem.private.standardLogging.test.TestLogUtilities import gLogger, gLoggerReset, cleaningLog
def getContentFromFilename(backendOptions):
"""Get content from the file attached to a given backend and erase the content from the... | ic-hep/DIRAC | src/DIRAC/FrameworkSystem/private/standardLogging/test/Test_Logging_Backends.py | Python | gpl-3.0 | 5,140 | [
"DIRAC"
] | fc97e939af37e726f19d60a195c1494d92ed99793372f8adf234979abf59d0c6 |
import logging
from sms import SMSSender
class BaseBot(object):
"""Base class for bot classes"""
def __init__(self, browser, config, planets):
# Authenticate and get browser instance
self.browser = browser
self.config = config
# Get logger
self.logger = logging.getLog... | winiciuscota/OG-Bot | ogbot/core/base.py | Python | mit | 2,566 | [
"Galaxy"
] | e99cfc39fde5b6124f3b9962fd5bc977062599f031ca0df7f6650b1f0725ec90 |
import numpy as np
from .control import model_setup
from .cp_confocal import threed
from .cp_triplet import trip
def CF_Gxyz_blink(parms, tau):
u""" Three-dimanesional free diffusion with a Gaussian laser profile
(eliptical), including a triplet component.
The triplet factor takes into account a ... | paulmueller/PyCorrFit | pycorrfit/models/model_confocal_t_3d.py | Python | gpl-2.0 | 2,628 | [
"Gaussian"
] | c3b2833d6443a448f1c7a6da09190a4837587504d791c3a2845a768bd0c28286 |
# -*- coding: utf-8 -*-
"""Release data for the IPython project."""
#-----------------------------------------------------------------------------
# Copyright (c) 2008, IPython Development Team.
# Copyright (c) 2001, Fernando Perez <fernando.perez@colorado.edu>
# Copyright (c) 2001, Janko Hauser <jhauser@zscout.de>... | lancezlin/ml_template_py | lib/python2.7/site-packages/IPython/core/release.py | Python | mit | 4,386 | [
"Brian"
] | ab985e17f5b104735f89f394fe67a512e55dce7ee226a6cbd4b6f99aa24e6526 |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2007-2008 Brian G. Matherly
# Copyright (C) 2008 Stephane Charette <stephanecharette@gmail.com>
# Contribution 2009 by Bob Ham <rah@bash.sh>
# Copyright (C) 2010 Jakim Friant
# Copyright (C) 2013-2014 Paul Franklin
# Copyright (C) 2015 ... | prculley/gramps | gramps/plugins/graph/gvhourglass.py | Python | gpl-2.0 | 16,020 | [
"Brian"
] | 2c241246ba0848080284a35bb6e8cf966720e8cd9bda734ee9f58aeee0233873 |
#!/usr/bin/python
"""Test of label guess functionality."""
from macaroon.playback import *
import utils
sequence = MacroSequence()
#sequence.append(WaitForDocLoad())
sequence.append(PauseAction(5000))
sequence.append(PauseAction(3000))
sequence.append(KeyComboAction("<Control>Home"))
sequence.append(utils.StartRec... | chrys87/orca-beep | test/keystrokes/firefox/label_inference_mailman.py | Python | lgpl-2.1 | 6,487 | [
"VisIt"
] | a2e2c8142e791677583bbc3b89ccbecd0263e53ddfd8f7d1fdf28e647336f0dd |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.