text stringlengths 12 1.05M | repo_name stringlengths 5 86 | path stringlengths 4 191 | language stringclasses 1
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"""Each ElkM1 area will be created as a separate alarm_control_panel."""
from elkm1_lib.const import AlarmState, ArmedStatus, ArmLevel, ArmUpState
from elkm1_lib.util import username
import voluptuous as vol
from homeassistant.components.alarm_control_panel import (
ATTR_CHANGED_BY,
FORMAT_NUMBER,
AlarmCon... | aronsky/home-assistant | homeassistant/components/elkm1/alarm_control_panel.py | Python | apache-2.0 | 9,817 | [
"Elk"
] | 6b2cce55663419197498f04c542c31cbf714bfc694b263f040ab8da04b1bfae7 |
# -*- coding: utf-8 -*-
''' Used for processing FPCA requests'''
#
# Copyright © 2008 Ricky Zhou
# Copyright © 2008-2009 Red Hat, Inc.
#
# This copyrighted material is made available to anyone wishing to use, modify,
# copy, or redistribute it subject to the terms and conditions of the GNU
# General Public License v.2... | chensuchun/fas | fas/fpca.py | Python | gpl-2.0 | 15,159 | [
"VisIt"
] | f6c144f1282e0801b6a3208d30f4eacb27efec54d3a36c5abcf08d98bdc433af |
# Copyright (c) 2009 Greg Pintilie - pintilie@mit.edu
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to use, copy, modify, me... | gregdp/segger | Segger/extract_region_dialog.py | Python | mit | 72,373 | [
"Gaussian"
] | 73c97469f3f91d01c156477a3deb00a0f2369924f2cd4388819ee983a8bb4187 |
"""A dialog box for displaying help text."""
# Copyright (C) 2009, Thomas Leonard
# See the README file for details, or visit http://0install.net.
import gtk
import sys
class HelpBox(object):
"""A dialog for showing longish help texts.
The GTK widget is not created until L{display} is called.
"""
box = None
titl... | rammstein/0install | zeroinstall/gtkui/help_box.py | Python | lgpl-2.1 | 2,105 | [
"VisIt"
] | 450b6ac7b4d3e669dcbcb1f9ca3ec2993ea693813cada081ba4c5c17a1c8669e |
"""
This module contains classes for reading trajectories into a Frame instance.
Multiple readers are defined, allowing different underlying trajectory libraries to be used.
This module is tightly coupled with the frame.py module, so shares a set of unit tests.
"""
import os
import abc
import itertools
import logging... | jag1g13/pycgtool | pycgtool/framereader.py | Python | gpl-3.0 | 9,879 | [
"Gromacs",
"MDAnalysis",
"MDTraj"
] | 62182c4eb3ff8ddc1fc17471321ce9ff46c4fc5d4140585801d319d5a280cfce |
# -*- coding: utf-8 -*-
# vim: autoindent shiftwidth=4 expandtab textwidth=120 tabstop=4 softtabstop=4
###############################################################################
# OpenLP - Open Source Lyrics Projection #
# ------------------------------------------------------... | marmyshev/transitions | openlp/core/lib/pluginmanager.py | Python | gpl-2.0 | 9,368 | [
"Brian"
] | f6d52045f08739c4d999a03cf7713d5a9a31c4d989b939ef5ccc32b4a7918581 |
#
# ENVISIoN
#
# Copyright (c) 2017-2019 Daniel Thomas
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are met:
#
# 1. Redistributions of source code must retain the above copyright notice, this
# l... | rartino/ENVISIoN | unit_testing/test_electrondensity_parsing.py | Python | bsd-2-clause | 2,758 | [
"VASP"
] | ebf7b361cdc7b79dc6fa385ee9a69c8b5dfc6ff4a99480945e45946c399a7222 |
#!/usr/bin/env python3
import sys, os.path, os, time, stat, struct, ctypes, io, subprocess, math, random, difflib
import ply, re, traceback
import argparse, base64, json
from js_lex import plexer
from js_global import glob, Glob
from js_ast import *
from js_parse import parser, print_err
from js_preprocessor import p... | joeedh/webblender | tools/extjs_cc/js_cc.py | Python | apache-2.0 | 27,075 | [
"VisIt"
] | c4d9c76bc3bdb45ccf1eca268b9306ac4ef093610893ecf829b772863dbc8147 |
from __init__ import ToolAction
from galaxy.datatypes.metadata import JobExternalOutputMetadataWrapper
import logging
log = logging.getLogger( __name__ )
class SetMetadataToolAction( ToolAction ):
"""Tool action used for setting external metadata on an existing dataset"""
def execute( self, tool, trans, ... | volpino/Yeps-EURAC | lib/galaxy/tools/actions/metadata.py | Python | mit | 3,763 | [
"Galaxy"
] | 76822bef1a48e6e15d47a887cce1acacda82890781ded2d41483d6a069513c68 |
#
# Copyright (C) 2000 greg Landrum
#
""" handles doing cross validation with decision trees
This is, perhaps, a little misleading. For the purposes of this module,
cross validation == evaluating the accuracy of a tree.
"""
from rdkit.ML.DecTree import ID3
from rdkit.ML.Data import SplitData
import numpy
from rdk... | rdkit/rdkit-orig | rdkit/ML/DecTree/CrossValidate.py | Python | bsd-3-clause | 7,247 | [
"RDKit"
] | 4a1ac7b21eb1a7663b875e5453bc2c20c3d71846d91c94500992b32f7edf8663 |
import json
import requests
from dateutil import parser
import time
from unittest import skip
from django.test import override_settings
from rest_framework import status
from hs_core.hydroshare.utils import get_resource_by_shortkey
from .base import HSRESTTestCase
class TestCreateResource(HSRESTTestCase):
@over... | ResearchSoftwareInstitute/MyHPOM | hs_core/tests/api/rest/test_create_resource.py | Python | bsd-3-clause | 22,373 | [
"NetCDF"
] | d5f6f17e0c3022b55c35885b6954e7699a16b78f6a6a94d46f9ef890ed8cbdd9 |
# setdiscovery.py - improved discovery of common nodeset for mercurial
#
# Copyright 2010 Benoit Boissinot <bboissin@gmail.com>
# and Peter Arrenbrecht <peter@arrenbrecht.ch>
#
# This software may be used and distributed according to the terms of the
# GNU General Public License version 2 or any later version.
from no... | spraints/for-example | mercurial/setdiscovery.py | Python | gpl-2.0 | 6,900 | [
"VisIt"
] | 622f4d48dfd6af53b458c33ac11893d0f60ec382f07b3dab3ff27e9946301d3f |
"""
Module to create topo and qinit data files for this example.
"""
from pyclaw.geotools import topotools
from numpy import *
def maketopo():
"""
Output topography file for the entire domain
"""
nxpoints = 201
nypoints = 201
xlower = -100.e0
xupper = 100.e0
yupper = 100.e0
ylower... | clawpack/clawpack-4.x | apps/tsunami/bowl-radial/maketopo.py | Python | bsd-3-clause | 1,169 | [
"Gaussian"
] | 958368e1973a41772d43d75f512ba0e8df9ef2c5b7378561f9f79891f13a1a57 |
""" test for RFIO plugin
"""
# FIXME: doesn't work ATM
from __future__ import print_function
from __future__ import absolute_import
from __future__ import division
import unittest
import time
import os
import shutil
import mock
from DIRAC import S_OK
from DIRAC.Resources.Storage.test.Test_FilePlugin import mock_St... | yujikato/DIRAC | src/DIRAC/Resources/Storage/test/FIXME_Test_RFIOPlugIn.py | Python | gpl-3.0 | 30,619 | [
"DIRAC"
] | 6de167945ea4cca00ff686108f37e3ccd8e13d3a5c58215a82b816e7666090c5 |
from selenium import webdriver
from selenium.webdriver.common.keys import Keys
import unittest
import time
class NewVisitorTest(unittest.TestCase):
def setUp(self):
self.browser = webdriver.Firefox()
# TODO: fill in the name of the use case
def test_nameOfUC(self):
# Open the browser and ... | tony-hong/roleo | test/functional_tests.py | Python | gpl-3.0 | 4,810 | [
"VisIt"
] | 3a63c7a6cc2b558fc7d00fd6bbcc8f39d5f14c9c054e105470492a02b3279243 |
#!/usr/bin/python
# trafficLight.py
# loops through red, yellow, green like a traffic light
# Author : Zachary Igielman
import RPi.GPIO as GPIO, time, sys
GPIO.setmode(GPIO.BOARD)
GPIO.setup(11, GPIO.OUT) #red
GPIO.setup(13, GPIO.OUT) #amber
GPIO.setup(21, GPIO.OUT) #green
GPIO.output(11, GPIO.LOW)
GPIO.output(13, ... | soslug/projects | rpi/python_resources/smstext-and mypifi-code/trafficLight.py | Python | gpl-3.0 | 669 | [
"Amber"
] | ca70754a993195d09cb2e14d796c9554c96c49fd2072f83f7dd6d02a52fdb875 |
tests=[
("python","UnitTestParser.py",{}),
("python","UnitTestMolDescriptors.py",{}),
("python","UnitTestDescriptors.py",{}),
]
longTests=[
]
if __name__=='__main__':
import sys
from rdkit import TestRunner
failed,tests = TestRunner.RunScript('test_list.py',0,1)
sys.exit(len(failed))
| adalke/rdkit | rdkit/ML/Descriptors/test_list.py | Python | bsd-3-clause | 311 | [
"RDKit"
] | bcbbc1c927fff0a6c06ee5919fbb2c427d959fc7082e45aa00373d02ec2ce057 |
#!/usr/bin/env python3
from subprocess import check_output
import json, re, os.path, time
cache_filename = 'up-output.cache'
def yes_or_no(question):
reply = str(input(question+' (y/n): ')).lower().strip()
if len(reply) > 0 and reply[0] == 'y':
return True
if len(reply) > 0 and reply[0] == '... | weex/up | browser.py | Python | mit | 3,201 | [
"VisIt"
] | 799cf5f2f8510aa11a9447ff3bf14435f16b2acc73d25506354ae906a02f1aba |
import tempfile
import unittest
import os
import numpy as np
from deepchem.utils import rdkit_utils
class TestRdkitUtil(unittest.TestCase):
def setUp(self):
# TODO test more formats for ligand
current_dir = os.path.dirname(os.path.realpath(__file__))
self.protein_file = os.path.join(
current_... | lilleswing/deepchem | deepchem/utils/test/test_rdkit_utils.py | Python | mit | 6,287 | [
"RDKit"
] | 4f12cd05117f4b28da95e1475fd8907ba0cd92d9db082e6c6188235d0d4f1b92 |
#!/usr/bin/python
# Static Code Checker - static_code
# Written by bwhunan
#
# 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 3 of the License, or
# (at your option) an... | bwhunan/IffyCode | static_code.py | Python | gpl-2.0 | 8,236 | [
"VisIt"
] | c16eb1d371ff327d80c97ce1f4d1f82d9b70428fb4b0bf2ca094504bd6c480b2 |
##############################################################################
# adaptiveMD: A Python Framework to Run Adaptive Molecular Dynamics (MD)
# Simulations on HPC Resources
# Copyright 2017 FU Berlin and the Authors
#
# Authors: Jan-Hendrik Prinz
# Contributors:
#
# `adaptiveMD` is free software: ... | thempel/adaptivemd | adaptivemd/brain.py | Python | lgpl-2.1 | 2,025 | [
"MDTraj"
] | a40b874a9eebea200d9cb9732e2f6056e770c6e8ce4d5f4be34d0f8025bd5eb8 |
"""setuptools.command.bdist_egg
Build .egg distributions"""
from distutils.dir_util import remove_tree, mkpath
from distutils import log
from types import CodeType
import sys
import os
import re
import textwrap
import marshal
from pkg_resources import get_build_platform, Distribution
from setuptools.extension import... | pypa/setuptools | setuptools/command/bdist_egg.py | Python | mit | 16,623 | [
"VisIt"
] | 40422ed409204b4da3e9e8e89c963b9301a9e8b3717cc798677b3191de797ed0 |
import enum
import logging
import os
from paleomix.common.command import InputFile
from paleomix.common.fileutils import swap_ext
from paleomix.common.layout import Layout
from paleomix.nodes.adapterremoval import IdentifyAdaptersNode
from paleomix.nodes.bwa import BWAAlgorithmNode, BWAIndexNode, BWAMem2IndexNode
from... | MikkelSchubert/paleomix | paleomix/pipelines/ngs/pipeline.py | Python | mit | 30,915 | [
"BWA"
] | d7d95c0a14b10134cd91ddf15384849d0eac4743aa763e52c3a5fad0e5ef0721 |
# -*- 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
import pytest
from .fake_webapp import EXAMPLE_APP
from .base import WebDriverTests, get_browser
class Fir... | cobrateam/splinter | tests/test_webdriver_firefox.py | Python | bsd-3-clause | 2,466 | [
"VisIt"
] | 03f7714e22826188ab0f049195f453793a5a2b9ed59315420c6982170e242791 |
from galaxy import Galaxy | IDragonfire/modular-client | src/galacticWar/galaxy/__init__.py | Python | gpl-3.0 | 25 | [
"Galaxy"
] | 82675750a80800da0ca13f464b23d6430d4035ed46814a8d1fb593a5b374eead |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2017 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of ... | kratman/psi4public | psi4/share/psi4/databases/S22.py | Python | gpl-2.0 | 43,443 | [
"Psi4"
] | da2a4b2040f105a10131893ad57c508d8704870d80e500b7aed4cd1c84ba9bdc |
import os, sys
import numpy as np
import argparse
import glob
import types
import matplotlib
matplotlib.use('Agg')
import matplotlib.pyplot as plt
from matplotlib.backends.backend_pdf import PdfPages
import tensorflow as tf
import data
import model
from util import *
def get_results_self(args, ds_src, ds_tar, ide... | googleinterns/intern2020_cocal | uncertainty/plots/plot_why_self.py | Python | apache-2.0 | 9,063 | [
"Gaussian"
] | b4b3ea580b3249aef560dcee109f5275ed4f652a541339c22e19072330fdace9 |
# emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
# vi: set ft=python sts=4 ts=4 sw=4 et:
"""The freesurfer module provides basic functions for interfacing with
freesurfer tools.
Change directory to provide relative paths for doctests
>>> import os
>>> filepath = os.path.dirname( os... | FredLoney/nipype | nipype/interfaces/freesurfer/model.py | Python | bsd-3-clause | 42,315 | [
"Gaussian"
] | 15c18e7fea3c4b1f879a3ad68c3f1b9f20e5c57f8ca693ccbddd081c6a2a838d |
import logging
import subprocess
import threading
from kalliope.core.NeuronModule import NeuronModule, MissingParameterException
logging.basicConfig()
logger = logging.getLogger("kalliope")
class AsyncShell(threading.Thread):
"""
Class used to run an asynchrone Shell command
.. notes:: Impossible to get... | kalliope-project/kalliope | kalliope/neurons/shell/shell.py | Python | gpl-3.0 | 2,296 | [
"NEURON"
] | 17d91790ecc7d1e219e32f328b3109d0e126f3a88eccf956d032efce2ba829a9 |
'''refining and describing'''
from db import database as D
from db.utils import text as tU
from db.knowledge import drinking as drK
import pandas as pd
import numpy as np
from sklearn.neighbors import KernelDensity
from datetime import datetime as dt
from numbers import Number
from collections import Counter
impo... | HBNLdev/DataStore | db/meta.py | Python | gpl-3.0 | 8,321 | [
"Gaussian"
] | 0bc69f8c0689be5c1e523b0f1d2b6c4e8751b2465c63f55a916ce5731c5253f6 |
import sys
import os.path
import logging
from galaxy import eggs
eggs.require( "SQLAlchemy" )
eggs.require( "decorator" ) # Required by sqlalchemy-migrate
eggs.require( "Tempita " ) # Required by sqlalchemy-migrate
eggs.require( "sqlalchemy-migrate" )
from sqlalchemy import *
from sqlalchemy.exc import NoSuchTableE... | mikel-egana-aranguren/SADI-Galaxy-Docker | galaxy-dist/lib/galaxy/model/tool_shed_install/migrate/check.py | Python | gpl-3.0 | 4,397 | [
"Galaxy"
] | 20399ad06d4b971836cb00732ef449bd605e9d97d25b587cb6a19425503a0fd9 |
"""Builds the network.
Summary of available functions:
# Compute input images and labels for training. If you would like to run
# evaluations, use inputs() instead.
inputs, labels = distorted_inputs()
# Compute inference on the model inputs to make a prediction.
predictions = inference(inputs)
# Compute the tota... | sridhar912/Udacity_SDC_Challenge | code/predict_steering.py | Python | mit | 22,483 | [
"Gaussian"
] | 5fbb105f4104d677ac730a1a2c35873e45a2ed2acd0c53658ef993d3851c8745 |
#!/usr/bin/env python
from rdkit import Chem
from rdkit.Chem import Descriptors, rdMolDescriptors
def parseSDF ( filename ):
obj={}
with open(filename,'r') as f:
num=0
previousLine='$$$$'
block=''
for line in f:
if previousLine.startswith('$$$$'):
num += 1
obj[num]={'title': ... | sunghunbae/pubchem | parseSDF.py | Python | mit | 1,078 | [
"RDKit"
] | e8d556618f3aa0d472e7ca5c44ee609c86a59b2f5afc8ecc37e227baf6f0f17f |
# coding: utf-8
""" Astropy coordinate class for the Sagittarius coordinate system """
from __future__ import division, print_function
__author__ = "adrn <adrn@astro.columbia.edu>"
# Third-party
import numpy as np
from numpy import cos, sin
from astropy.coordinates import frame_transform_graph
from astropy.coordin... | abonaca/gary | gary/coordinates/sgr.py | Python | mit | 3,849 | [
"Galaxy"
] | 102f407b6182c528e720644d1490546f356652ad0dcbd5dbeb58687d3c0048a4 |
#!/usr/bin/env python
########################################################################
# File : dirac-wms-job-get-output
# Author : Stuart Paterson
########################################################################
"""
Retrieve output sandbox for a DIRAC job
"""
import DIRAC
from DIRAC.Core.Base impo... | andresailer/DIRAC | Interfaces/scripts/dirac-wms-job-get-output.py | Python | gpl-3.0 | 3,348 | [
"DIRAC"
] | 2c858f0927ecfe9660c52d5cee184919d7417bde8b6d941441887070b43bd599 |
"""PyDota - A tiny Python wrapper for the Dota 2 Steam Web API.
Visit https://steamcommunity.com/dev for more information.
"""
import requests
import urllib
STEAM_API_URL = "https://api.steampowered.com/"
class PyDotaError(Exception):
def __init__(self, msg):
self.msg = msg
def __st... | Catgroove/dotaninja | app/pydota.py | Python | gpl-3.0 | 5,215 | [
"VisIt"
] | 2a23f2dc1b243a6b9b1b0c6c83a0f645dc00d86c3da997321fe51fb23b2dc075 |
import ast
import re
from itertools import chain
import pycodestyle
from flake8_import_order import ImportVisitor, NewLine
from flake8_import_order.styles import lookup_entry_point
DEFAULT_IMPORT_ORDER_STYLE = 'cryptography'
NOQA_INLINE_REGEXP = re.compile(
# We're looking for items that look like this:
# ``... | PyCQA/flake8-import-order | flake8_import_order/checker.py | Python | lgpl-3.0 | 3,301 | [
"VisIt"
] | 16923aafec81287e1a98f030225f16eaa3eb45b4510be4b4eb1245732e652896 |
""" manage PyTables query interface via Expressions """
import ast
from functools import partial
import numpy as np
from pandas._libs.tslibs import Timedelta, Timestamp
from pandas.compat.chainmap import DeepChainMap
from pandas.core.dtypes.common import is_list_like
import pandas as pd
from pandas.core.base impor... | cbertinato/pandas | pandas/core/computation/pytables.py | Python | bsd-3-clause | 19,248 | [
"VisIt"
] | d90fb196f9a34df27ea065c4d0ddc79a800aeb6f634c9480eb71ff0449047026 |
'''
Wrap modules' top-level exprs in an anonymous function.
'''
from ..util.dispatch import method_store, multimethod
from .. import node
class ModuleFunction(object):
_store = method_store()
def __init__(self):
self.definition = None
self.module = None
@multimethod(_store)
def recu... | dacjames/mara-lang | bootstrap/mara/passes/module_function.py | Python | mit | 893 | [
"VisIt"
] | 27f0a54d92e273aa501929b13f93fdd2b5512dbc75b1a945bc9d5c0db9cf0bc9 |
# -*- coding: utf-8 -*-
"""
wakatime.dependencies.html
~~~~~~~~~~~~~~~~~~~~~~~~~~
Parse dependencies from HTML.
:copyright: (c) 2014 Alan Hamlett.
:license: BSD, see LICENSE for more details.
"""
from . import TokenParser
from ..compat import u
""" If these keywords are found in the source file... | wakatime/wakatime | wakatime/dependencies/html.py | Python | bsd-3-clause | 4,112 | [
"ESPResSo",
"GULP"
] | e2dfbec2c6dc8cdbb774db57fc4c537ff8ef9b35aa4c1e1a867dbfffb4cc59eb |
import json
from .. import util
def load_msgpack(blob, **kwargs):
"""
Load a dict packed with msgpack into kwargs for
a Trimesh constructor
Parameters
----------
blob : bytes
msgpack packed dict containing
keys 'vertices' and 'faces'
Returns
----------
loaded : dict
... | dajusc/trimesh | trimesh/exchange/misc.py | Python | mit | 4,482 | [
"VTK"
] | 76e6aec2478a288cb4fdf799b5e4de6937075899a16a5c8e791c92df10d6350e |
# 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 *
class PyAtropos(PythonPackage):
"""Atropos is tool for specific, sensitive, and speedy trimming ... | iulian787/spack | var/spack/repos/builtin/packages/py-atropos/package.py | Python | lgpl-2.1 | 1,111 | [
"pysam"
] | 363f60c6e07f94bfc44e426a478fa4633ba1f313e6b8fbe72b2e7f3ce2a862b3 |
import vtk
import vtk.test.Testing
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
# Slat points into a cube
math = vtk.vtkMath()
points = vtk.vtkPoints()
i = 0
while i < 100000:
points.InsertPoint(i,math.Random(0,1),math.Random(0,1),math.Random(0,1))
i = i + 1
profile... | hlzz/dotfiles | graphics/VTK-7.0.0/Imaging/Hybrid/Testing/Python/TestCheckerboardSplatter.py | Python | bsd-3-clause | 1,810 | [
"VTK"
] | d1ee70c54d745433a19ab9a1a31c7a640c98293a7a005e604ff77ef600367314 |
from numpy import sign, dot, around, exp, array, seterr, minimum, abs, full, count_nonzero, amin, amax, double
from numpy.random import RandomState
from numpy.linalg import norm
from pypuf.learner.base import Learner
from pypuf.simulation.arbiter_based.ltfarray import LTFArray
from pypuf.tools import compare_functions
... | nicostephan/pypuf | pypuf/learner/regression/logistic_regression.py | Python | gpl-3.0 | 10,263 | [
"Gaussian"
] | ae815d82a76b071a17d6cb1d9eb8f72e2415c866dde500a75b394221e581a10d |
import esprit
from esprit import mappings
from octopus.core import app
import json as jsonlib
from datetime import datetime
import dateutil.relativedelta as relativedelta
import os, threading
from octopus.lib import plugin
from octopus.modules.es.initialise import put_mappings, put_example
class ESDAO(esprit.dao.Domai... | JiscPER/magnificent-octopus | octopus/modules/es/dao.py | Python | apache-2.0 | 17,642 | [
"Octopus"
] | 47e0ef4c00583b911e3217df0b76efed8c7cbc0c19b75f51ff13dcc01d3ada0c |
#!/usr/bin/env python2.7
#Usage: read in a catalog and cut cylinders around each cluster
import numpy as np
from array import array
import math
import random
import matplotlib
matplotlib.use('Agg')
import matplotlib.pyplot as plt
from bisect import bisect_left
from scipy.stats import skew
from scipy.stats import kur... | maho3/gal-ML | old/cutCyl.py | Python | mit | 49,949 | [
"Galaxy"
] | 62827de607d9eaa521301645c8bd1e45701eca9b3c0bd1c02d39c0be84c773c1 |
from math import pi
import numpy as np
from ase import Atoms
from ase.units import Hartree, Bohr
from gpaw import GPAW
from gpaw.xc import XC
from gpaw.xc.kernel import XCNull
from gpaw.test import equal
class NoInteractionPoissonSolver:
relax_method = 0
nn = 1
def get_method(self):
return 'No i... | qsnake/gpaw | gpaw/test/harmonic.py | Python | gpl-3.0 | 1,299 | [
"ASE",
"GPAW"
] | a7b014aba68f1c449d23bf58a4bbe8939a3aa8275bf9f066fdda2d76c22eb8e4 |
import sys, os, atexit
from galaxy import config, db, jobs, util, tools, web
import galaxy.model.mapping
from galaxy.interfaces import root, tool_runner, proxy, async, admin, user, error
from galaxy.web import middleware
from galaxy.app import UniverseApplication
def app_factory( global_conf, **kwargs ):
"""
... | jmchilton/galaxy-central | universe_wsgi.py | Python | mit | 1,778 | [
"Galaxy"
] | 9a069fb66fe8c23491618d5fe8fc4e4dbdc526c68467ac854e74e161fd55c0b6 |
import os
import numpy as np
import periodictable
class GaussianInput:
def __init__(self, link0, routes,
atom_symbols, atom_coords,
charge=0, multiplicity=1,
title="Title Card Required", extras=None):
self.link0 = link0
self.routes = routes
... | jincheng95/charges-tools | chargetools/gaussian.py | Python | mit | 4,290 | [
"Gaussian",
"cclib"
] | 5fcbcb5a3396ce0bb2f25a254596375621b532c5694c69288cfd0f8cbb3fb3d6 |
import os, sys
from shutil import copyfile
class PythonWrapper:
def __init__(self, arg1, arg2, arg3, arg4, arg5, arg6, arg7, arg8, arg9, arg10, arg11, arg12):
workingdir = os.getcwd() + '/'
print workingdir
copyfile('/home/jonas/galaxy/tools/straintracer/InputComp.class', workingdir + "/InputComp.class")
isol... | jeezes/Straintracer | InputWrapper.py | Python | bsd-3-clause | 1,228 | [
"Galaxy"
] | e57e4aafb3baddf9daa8a1c61352833b437b7ea9905d658d5ed2775d7f61a904 |
# -*- coding: utf-8 -*-
# SPDX-FileCopyrightText: 2016-2019 The Atlite Authors
#
# SPDX-License-Identifier: GPL-3.0-or-later
"""
All functions for converting weather data into energy system model data.
"""
import xarray as xr
import numpy as np
import pandas as pd
import geopandas as gpd
import datetime as dt
from o... | FRESNA/atlite | atlite/convert.py | Python | gpl-3.0 | 20,717 | [
"Gaussian"
] | 86133abbb4498011f7cca8abff3a7cc30febe075eb177e50ece49f8b69d5172b |
# -*- coding: utf-8 -*-
# Copyright 2007-2022 The HyperSpy developers
#
# This file is part of HyperSpy.
#
# HyperSpy is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at y... | jat255/hyperspy | hyperspy/tests/component/test_components.py | Python | gpl-3.0 | 24,335 | [
"Gaussian"
] | 91f22c3297b5d67e9afee060885c23edab103c1798bea2d56a349957a70f7111 |
from edc_visit_schedule.site_visit_schedules import site_visit_schedules
from .rule import Rule
class VisitScheduleRule(Rule):
visit_schedule_name = None
schedule_name = None
visit_codes = None
def __init__(self, visit_schedule_name=None, schedule_name=None,
visit_codes=None, **kwa... | botswana-harvard/edc-rule-groups | edc_rule_groups/crf_rule.py | Python | gpl-2.0 | 1,227 | [
"VisIt"
] | 32840aa3edaa341e979a81dc5567c1faa299acc7939746681ca87c585eb12b22 |
""" Helper for the CS Resources section
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
__RCSID__ = "$Id$"
from urllib import parse
from distutils.version import LooseVersion # pylint: disable=no-name-in-module,import-error
from DIRAC import S_OK, S_E... | ic-hep/DIRAC | src/DIRAC/ConfigurationSystem/Client/Helpers/Resources.py | Python | gpl-3.0 | 23,983 | [
"DIRAC"
] | 56144f91835e4102790a97c8de4981131189b7c4067553f71883025dde55b825 |
import os
from app.readers import xml as basereader
def specfn_quant_generator(specfiles, quantfiles, tag, ignore_tags):
"""Generates tuples of specfile and quant element for general formats"""
for specfn, qfn in zip(specfiles, quantfiles):
for quant_el in basereader.generate_xmltags(qfn, tag, ignore_... | glormph/msstitch | src/app/readers/openms.py | Python | mit | 1,860 | [
"OpenMS"
] | e4db5eeae096be2a045955457479d072583eabbf63f0d89f0a14d447db228d08 |
# as normal_numbers1.py, but non-vectorized drawing of random numbers
import sys
N = int(sys.argv[1])
m = float(sys.argv[2])
s = float(sys.argv[3])
import numpy as np
import random
random.seed(12)
samples = [random.normalvariate(m, s) for i in range(N)]
print np.mean(samples), np.std(samples)
import scitools.std as s... | qilicun/python | python3/src/random/normal_numbers2.py | Python | gpl-3.0 | 491 | [
"Gaussian"
] | a22a5582021afc6ac2f608abaa48ca8c4c28b213e659fb7c544aa08ee4408a63 |
# coding: utf-8
# pylint: disable=line-too-long
"""Provides the necessary class to profile BAM files."""
import gc
import os
import sys
import copy
import shutil
import argparse
import numpy as np
import multiprocessing
from collections import OrderedDict
import anvio
import anvio.tables as t
import anvio.dbops as d... | meren/anvio | anvio/profiler.py | Python | gpl-3.0 | 68,859 | [
"pysam"
] | 9c43a5d3d423b4541d175013e601619f95df9d45c48d02246a3d0404efc1d8ab |
# This file is part of ArcJail.
#
# ArcJail is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# ArcJail is distributed in the hope that... | KirillMysnik/ArcJail | srcds/addons/source-python/plugins/arcjail/modules/games/game_classes/survival_flashbang_arena.py | Python | gpl-3.0 | 8,695 | [
"BLAST"
] | 30b6a4b1f9168dde7e020089d48efcd8261f8cb4800798ab3f51d704375816b6 |
# -*- coding=utf-8 -*-
from __future__ import absolute_import, print_function, unicode_literals
import unittest
import copy
import numpy as np
from chemfiles import Residue, ChemfilesError
from _utils import remove_warnings
class TestResidue(unittest.TestCase):
def test_repr(self):
residue = Residue("ALA... | Luthaf/Chemharp-python | tests/residue.py | Python | mpl-2.0 | 2,908 | [
"Chemfiles"
] | 72a7d920709ac2f2b90dddc919fa549c9ccb61ebf2a64a77a508d9fdef23e263 |
# -*- coding: UTF-8 -*-
__revision__ = '$Id$'
# Copyright (c) 2005-2009 Vasco Nunes, Piotr Ożarowski
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at... | marcin1j/griffith | lib/plugins/movie/PluginMovieE-Pipoca.py | Python | gpl-2.0 | 11,389 | [
"Brian"
] | 9367df48d4271b3ef57152c6ca09527f3afce9f81883ff107747176b24ce605e |
"""
Package for interacting on the network at a high level.
Copyright (c) 2014 Brian Muller
Copyright (c) 2015 OpenBazaar
"""
import pickle
import httplib
from binascii import hexlify
from twisted.internet.task import LoopingCall
from twisted.internet import defer, reactor, task
import nacl.signing
import nacl.hash
... | eXcomm/OpenBazaar-Server | dht/network.py | Python | mit | 14,227 | [
"Brian"
] | 6c7cc309cb58ba63459e2df291ced7eeaa1a25c4f5f47b39ee287227c0a40106 |
import itertools
import json
import os
import pymongo
import pysam
import gzip
from parsing import *
import logging
import lookups
import random
import sys
import requests
from tqdm import tqdm
from utils import *
import warnings
from flask.exthook import ExtDeprecationWarning
warnings.simplefilter('ignore', ExtDeprec... | macarthur-lab/gnomad_browser | exac.py | Python | mit | 52,951 | [
"pysam"
] | 1ad98e72bfe59afaf7cf20874983c4882f194cfce5f557a4832c41fb7c26fd59 |
"""
UnshadowParameters prevents the shadow parameter phenomenon
"""
from pythran.analyses import Identifiers
from pythran.passmanager import Transformation
import ast
class UnshadowParameters(Transformation):
'''
Prevents parameter shadowing by creating new variable.
>>> import ast
>>> from pythran... | artas360/pythran | pythran/transformations/unshadow_parameters.py | Python | bsd-3-clause | 1,990 | [
"VisIt"
] | 5b54b9d8a12e84e7efc3fa7adc0d2062a2eb26372b6b4dc0d0fe6792ab438025 |
# proxy module
from __future__ import absolute_import
from mayavi.filters.set_active_attribute import *
| enthought/etsproxy | enthought/mayavi/filters/set_active_attribute.py | Python | bsd-3-clause | 104 | [
"Mayavi"
] | fc428f25b8c9cbf6e66bc29214f389666a070cf07c71f4775bba7b6b66270b9e |
'''
Created on Nov 18, 2014
@author: rene
'''
import autopep8
from docformatter import format_code
from generator import generate_epw, generate_testclass
from iddparser import IDDParser
if __name__ == '__main__':
parser = IDDParser()
objs = parser.parse("epw.idd")
source_file = generate_epw(objs)
s... | rbuffat/pyepw | generator/main.py | Python | apache-2.0 | 1,339 | [
"EPW"
] | b481a5e444bb3921e65eea1f0a5ebfa2f9e96d9a5981175f714d083e8761aafc |
"""
Kernel Density Estimation
-------------------------
"""
# Author: Jake Vanderplas <jakevdp@cs.washington.edu>
import numpy as np
from scipy.special import gammainc
from ..base import BaseEstimator
from ..utils import check_array, check_random_state
from ..utils.validation import _check_sample_weight, check_is_fitt... | xuewei4d/scikit-learn | sklearn/neighbors/_kde.py | Python | bsd-3-clause | 10,831 | [
"Gaussian"
] | a32c74e7a8d6102d33226e01c6f9d414b936900eecf6c5a028865ff775d0af5b |
"""
Views related to the Custom Courses feature.
"""
import csv
import datetime
import functools
import json
import logging
import pytz
from copy import deepcopy
from cStringIO import StringIO
from django.conf import settings
from django.core.urlresolvers import reverse
from django.http import (
HttpResponse,
... | analyseuc3m/ANALYSE-v1 | lms/djangoapps/ccx/views.py | Python | agpl-3.0 | 20,095 | [
"VisIt"
] | 1bfbeb6623c58f8cb10e547c682494752d7621601b92524490be269f74915d79 |
# Copyright (C) 2010-2018 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later v... | hmenke/espresso | src/python/espressomd/io/mpiio.py | Python | gpl-3.0 | 3,846 | [
"ESPResSo"
] | 893eeead7dfbdaf4f1345946ada31bc161da9fc2d43576f0f84cc33a5b04c439 |
from __future__ import print_function
import numpy as np
import xarray as xr
import os
import copy
import matplotlib.pyplot as plt
#import xarray as xr
import cartopy.crs as ccrs
import cartopy.feature as cfeature
import cartopy.io.shapereader as shapereader
import seaborn as sns
#import shapely.geometry as sgeom
#fr... | pirkkao/OpenEPS | bin/plot_modules.py | Python | apache-2.0 | 13,650 | [
"NetCDF"
] | 6cd1dd64537c1aaccdf8db996dd37208ef8fc716535285e30f5c57dae6f3cce4 |
#!/usr/bin/python2
import optparse
import os
import shutil
import stat
import subprocess
import sys
from builds.GpBuild import GpBuild
INSTALL_DIR = "/usr/local/gpdb"
DEPENDENCY_INSTALL_DIR = "/usr/local"
def copy_installed(output_dir):
if os.path.normpath(INSTALL_DIR) != os.path.normpath(output_dir):
... | Chibin/gpdb | concourse/scripts/build_gpdb.py | Python | apache-2.0 | 5,274 | [
"ORCA"
] | e4ff26cad564149ab99f2f4109d6be6a8a99f108cb8c3b4e38594ae606deed61 |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2016 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of ... | kannon92/psi4 | psi4/driver/inputparser.py | Python | gpl-2.0 | 30,550 | [
"CFOUR",
"Psi4"
] | 17c7dc2f0714c02a726d9c375596c34fc96f0a7d234461306328c270b726dcc4 |
"""
========================================
Special functions (:mod:`scipy.special`)
========================================
.. module:: scipy.special
Nearly all of the functions below are universal functions and follow
broadcasting and automatic array-looping rules. Exceptions are noted.
Error handling
==========... | chatcannon/scipy | scipy/special/__init__.py | Python | bsd-3-clause | 22,866 | [
"Gaussian"
] | f2402b7ad78a14f27e82dcb6321e786f42fa519f08f62d8bf74dab4759b7cf56 |
# Orca
#
# Copyright 2014 Igalia, S.L.
#
# Author: Joanmarie Diggs <jdiggs@igalia.com>
#
# This library 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 License, or (at your o... | ruibarreira/linuxtrail | usr/lib/python3/dist-packages/orca/scripts/apps/epiphany/script.py | Python | gpl-3.0 | 1,654 | [
"ORCA"
] | d4dcf0a67949861583871aada3e64e23719a033712d4b2487dc5f729d8dd4f1e |
r"""
Laplace equation with Dirichlet boundary conditions given by a sine function
and constants.
Find :math:`t` such that:
.. math::
\int_{\Omega} c \nabla s \cdot \nabla t
= 0
\;, \quad \forall s \;.
The :class:`sfepy.discrete.fem.meshio.UserMeshIO` class is used to refine the
original two-element mesh ... | rc/sfepy | examples/diffusion/sinbc.py | Python | bsd-3-clause | 4,736 | [
"VTK"
] | 38371b86c6bc380e13d59994224df399656ff88cb54e7e541866a6a1e67d6baf |
import os
import tempfile
import shutil
from django.test import TransactionTestCase
from django.core.exceptions import ValidationError
from django.core.files.uploadedfile import UploadedFile
from django.contrib.auth.models import Group
from django.db import IntegrityError
from hs_core import hydroshare
from hs_core.h... | FescueFungiShare/hydroshare | hs_app_netCDF/tests/test_netcdf_metadata.py | Python | bsd-3-clause | 25,899 | [
"NetCDF"
] | 054815df9b0a8966531ccb42ab6957bdc3b590d49c39a4c910660a9c9eecea29 |
from electrum_ppc.util import print_error
import httplib, urllib
import socket
import threading
import hashlib
import json
from urlparse import urlparse, parse_qs
try:
import PyQt4
except Exception:
sys.exit("Error: Could not import PyQt4 on Linux systems, you may try 'sudo apt-get install python-qt4'")
from ... | testalt/electrum-ppc | plugins/labels.py | Python | gpl-3.0 | 9,164 | [
"VisIt"
] | 00bd8f36f7dc54350454434b093589c71e7e5441ad3bb14e44e798a77338502b |
# This file is part of Radicale Server - Calendar Server
# Copyright © 2008 Nicolas Kandel
# Copyright © 2008 Pascal Halter
# Copyright © 2008-2015 Guillaume Ayoub
#
# This library 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 S... | jaesivsm/Radicale | radicale/xmlutils.py | Python | gpl-3.0 | 50,882 | [
"VisIt"
] | fc7c59e2694c2fe1cafa696c73dc0e060edd04cb41847a6a8a13189130f53ad7 |
# -*- coding: utf-8 -*-
"""Exceptions for input/output."""
from typing import Tuple
from ..exceptions import PyBELWarning
import_version_message_fmt = "Tried importing from PyBEL v{}. Need at least v{}"
class ImportVersionWarning(PyBELWarning, ValueError):
"""Raised when trying to import data from an old vers... | pybel/pybel | src/pybel/io/exc.py | Python | mit | 917 | [
"Pybel"
] | 62686e393a81c1419f958a188847a4773d97be59f8b8fa16f4f3bc491261c510 |
"""
Acceptance tests for Studio related to the split_test module.
"""
import json
import os
from unittest import skip, skipUnless
from xmodule.partitions.partitions import Group, UserPartition
from bok_choy.promise import Promise
from ..fixtures.course import CourseFixture, XBlockFixtureDesc
from ..pages.studio.comp... | wwj718/murp-edx | common/test/acceptance/tests/test_studio_split_test.py | Python | agpl-3.0 | 12,617 | [
"VisIt"
] | e079412ffbb8527b0e50a8957cfd3508b14a3f4b9b9d77c4954b45d134c80f4f |
# class generated by DeVIDE::createDeVIDEModuleFromVTKObject
from module_kits.vtk_kit.mixins import SimpleVTKClassModuleBase
import vtk
class vtkImageSpatialFilter(SimpleVTKClassModuleBase):
def __init__(self, module_manager):
SimpleVTKClassModuleBase.__init__(
self, module_manager,
... | nagyistoce/devide | modules/vtk_basic/vtkImageSpatialFilter.py | Python | bsd-3-clause | 499 | [
"VTK"
] | 6825599d98c062715867d2362d43bd5c9ea84e88cceccb39132fe69b2171b59f |
""" A test DB in DIRAC, using MySQL as backend
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
from DIRAC.Core.Base.DB import DB
class AtomDB(DB):
def __init__(self):
DB.__init__(self, 'AtomDB', 'Test/AtomDB')
retVal = self.__initializeDB()
... | yujikato/DIRAC | docs/source/DeveloperGuide/AddingNewComponents/DevelopingDatabases/AtomDB.py | Python | gpl-3.0 | 1,026 | [
"DIRAC"
] | 619478fad63c2fa6a4a9748673913a90d6017999d597f7c5e6c58b792487a907 |
#!/usr/bin/python
import getopt, sys
from bloatitstats.parser.logparser import logparser
from bloatitstats.commun.database import database
from bloatitstats.parser.entry_processor import entry_processor
version = '0.1'
def parse_file(dbname, logfile):
parser = logparser(logfile)
base = database(dbname)
... | BloatIt/bloatit | stats/src/bloatitstats/filldb.py | Python | agpl-3.0 | 3,264 | [
"VisIt"
] | f4e920c26e79dd7bc800f74fd185a79d8566a3920488492dc57edaf2d1169c02 |
#!/usr/bin/env python
__author__ = 'Brian McKenna'
from nose.plugins.attrib import attr
from unittest import SkipTest
from mock import Mock, patch, ANY
from pyon.util.int_test import IonIntegrationTestCase
from pyon.util.unit_test import IonUnitTestCase
from pyon.datastore.datastore_query import DatastoreQueryBuil... | mkl-/scioncc | src/pyon/datastore/postgresql/test/test_pg_query.py | Python | bsd-2-clause | 2,733 | [
"Brian"
] | de1c0fc04cadb7eaac037674b853d584d4e62597ef009d793e0cf2f300098e08 |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2012 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 General Public License as published by
## the Free Software Foundati... | andrebellafronte/stoq | stoqlib/gui/test/test_salepaymentseditor.py | Python | gpl-2.0 | 3,079 | [
"VisIt"
] | 89d3ce10223dd1b5abd63b33f5c02dba9b95f8c53b8fff48e589da16d8872364 |
###GeneSetDownloader
#Copyright 2005-2008 J. David Gladstone Institutes, San Francisco California
#Author Nathan Salomonis - nsalomonis@gmail.com
#Permission is hereby granted, free of charge, to any person obtaining a copy
#of this software and associated documentation files (the "Software"), to deal
#in the ... | nsalomonis/AltAnalyze | build_scripts/GeneSetDownloader.py | Python | apache-2.0 | 66,428 | [
"Cytoscape"
] | 4e6873d6136d0b24330361384e74841e5fed57f7f6ec046150360f5ada18d695 |
# Copyright (C) 2010-2019 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later v... | KaiSzuttor/espresso | testsuite/python/dawaanr-and-dds-gpu.py | Python | gpl-3.0 | 5,536 | [
"ESPResSo"
] | 3c5b23fe47d4f0d4fac1763f03531f9eba33e6a87bc879ffec7b3cb65ba39651 |
from scipy import signal
import h5py
import numpy as np
import cv2
import math
"""
parameters:
matrix = (n, m) binary matrix
applies sobel kernel to highlight edges/areas of high contrast
returns:
resulting (n, m) binary matrix
"""
def contourise(matrix):
sobelX = np.array([[-1, 0, 1], [-2, 0, 2], [-1, 0, ... | mdlaskey/DeepLfD | src/deep_lfd/rgbd/basic_imaging.py | Python | gpl-3.0 | 4,012 | [
"Gaussian"
] | f6b5ee699317cb593610d860ac6f05d6525d62912bc0f6c86a8a4deb4a6961fd |
#!/usr/bin/env python
# ===============================================================
# date : 30 novembre 2016
# author : fmv
# decription : convert POSFF (mdff) to POSCAR (vasp)
# ===============================================================
import datetime
import argparse
from config import Config
fr... | FilipeVasconcelos/mdff | bin/fftocar.py | Python | gpl-2.0 | 1,230 | [
"VASP"
] | e8799b30ef53263e5515e75dfa57228afc886af555d30af430b26b37df664b8d |
"""
Service interface adapted to work with tornado, must be used only by tornado service handlers
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
__RCSID__ = "$Id$"
from tornado import gen
from tornado.ioloop import IOLoop
from DIRAC.ConfigurationSys... | yujikato/DIRAC | src/DIRAC/ConfigurationSystem/private/ServiceInterfaceTornado.py | Python | gpl-3.0 | 1,429 | [
"DIRAC"
] | 3b6bffc4ecb0235b5bf77f85dafbc211e750c773ee9b29fe04088653cd1d4c93 |
"""Fetches and parses the BioASQ dataset from 2018.
Parses and splits according to (using 2017/2018 for test instead of 2014/2015):
Jinseok Nam, Eneldo Loza Mencía, Hyunwoo J. Kim, Johannes Fürnkranz
Maximizing Subset Accuracy with Recurrent Neural Networks in
Multi-label Classification.
NIPS 2017: 541... | jpbottaro/anna | anna/data/dataset/bioasq.py | Python | mit | 3,360 | [
"VisIt"
] | 82bcda89b4c1351fd71dd184aba7f150d0b731417381a342f677baeb30acf0e8 |
########################################################################
# File : Utilities.py
# Author : Federico Stagni
########################################################################
"""
Utilities for Transformation system
"""
from __future__ import absolute_import
from __future__ import division
from __fu... | ic-hep/DIRAC | src/DIRAC/TransformationSystem/Client/Utilities.py | Python | gpl-3.0 | 20,089 | [
"DIRAC"
] | a39bb945d2b7b870d8935eee5b5af91a3500c2066d58b7ab2cc6ae8d9c566c55 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# --- BEGIN_HEADER ---
#
# wc - [insert a few words of module description on this line]
# Copyright (C) 2003-2009 The MiG Project lead by Brian Vinter
#
# This file is part of MiG.
#
# MiG is free software: you can redistribute it and/or modify
# it under the terms of the GN... | heromod/migrid | mig/cgi-bin/wc.py | Python | gpl-2.0 | 1,092 | [
"Brian"
] | 3ce3ba09ab1c3684d999002a4c90d10246efc1fd3040256c7a0cd13ba181431b |
import neo.core
import quantities as pq
import numpy as np
import elephant.conditions as conditions
def time_axis(tstart, tstop, h):
""" Create a time axis
"""
return np.arange(tstart, tstop, h)
def bin_spiketrain(spiketrain, h):
""" Create a binned spike train from a neo object.
Documenta... | SPP1665DataAnalysisCourse/elephant | elephant/rep.py | Python | bsd-3-clause | 46,952 | [
"NEURON"
] | 94a66cf346dc3cca463f28d8ea9c4eed22d54fafa282bb6b0a534c6e5077d0b9 |
# -*- coding: utf-8 -*-
# ------------------------------------------------------------
# streamondemand.- XBMC Plugin
# Canal para asiansubita
# http://blog.tvalacarta.info/plugin-xbmc/streamondemand.
# ------------------------------------------------------------
import re
import urlparse
from core import logger
from ... | dentaku65/plugin.video.sod | channels/asiansubita.py | Python | gpl-3.0 | 5,816 | [
"ADF"
] | f20904e87f4becf02bc3b55cc217a94cbcbdb52bc37f2289f354984237ba7ad4 |
from __future__ import division, print_function, absolute_import
import numpy as np
from numpy import array
from numpy.testing import (assert_array_almost_equal, assert_array_equal,
assert_, run_module_suite)
from scipy import signal
window_funcs = [
('boxcar', ()),
('triang', ())... | GbalsaC/bitnamiP | venv/lib/python2.7/site-packages/scipy/signal/tests/test_windows.py | Python | agpl-3.0 | 3,753 | [
"Gaussian"
] | f041bfe6bce8645f512ec49b91eaae2ea3dc866c6ed07b39888e487463d5411d |
"""
@author David W.H. Swenson
@author Jan-Hendrik Prinz
"""
from __future__ import absolute_import
from builtins import zip
from builtins import range
from builtins import object
import os
import pytest
from nose.tools import (assert_equal)
import openpathsampling as paths
import openpathsampling.engines.openmm as... | openpathsampling/openpathsampling | openpathsampling/tests/test_storage.py | Python | mit | 13,683 | [
"MDTraj",
"OpenMM"
] | cb463f874c6edc4840319393bb8f4fa55730bb72f7daab7e201ce8d052a9a10a |
""" :mod: GFAL2_StorageBase
=================
.. module: python
:synopsis: GFAL2 class from StorageElement using gfal2. Other modules can inherit from this use the gfal2 methods.
"""
# pylint: disable=arguments-differ
# # imports
import os
import datetime
import errno
from stat import S_ISREG, S_ISDIR,... | chaen/DIRAC | Resources/Storage/GFAL2_StorageBase.py | Python | gpl-3.0 | 65,583 | [
"DIRAC"
] | 2b85c2a0befcb4904756794a78c814a4c9e9cde7346a3f344478363a13e06c65 |
#!/usr/bin/env python
# test_cursor.py - unit test for cursor attributes
#
# Copyright (C) 2010-2011 Daniele Varrazzo <daniele.varrazzo@gmail.com>
#
# psycopg2 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 Foun... | wildchildyn/autism-website | yanni_env/lib/python3.6/site-packages/psycopg2/tests/test_cursor.py | Python | gpl-3.0 | 22,791 | [
"GULP"
] | 759055239503dc549eefc36e82fd71617ca1e37ba2d28634fc17a047401b150f |
"""
Global Average Annual Temperature Plot
======================================
Produces a time-series plot of North American temperature forecasts for 2
different emission scenarios. Constraining data to a limited spatial area also
features in this example.
The data used comes from the HadGEM2-AO model simulations... | SciTools/iris | docs/gallery_code/meteorology/plot_COP_1d.py | Python | lgpl-3.0 | 3,953 | [
"NetCDF"
] | ff499fb6c6e5a1e530fbcafcb4462b3d548fca1d501cb16d591f9706ed6d911d |
# ----------------------------------------------------------------------
# Copyright (c) 2016, The Regents of the University of California All
# rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are
# met:
#
# ... | drichmond/tinker | python/Interface.py | Python | bsd-3-clause | 7,958 | [
"TINKER"
] | 86f57d4853ac1572c8fe154a1303fcd21b01091fb751f04020e2849fa82b4cdf |
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