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#!/usr/bin/env python
#
# threat_note v4.0 #
# Developed By: Brian Warehime #
# Defense Point Security (defpoint.com) #
# October 26, 2015 #
#
import argparse
import os.path
from app import app
if __na... | alxhrck/threat_note | run.py | Python | apache-2.0 | 1,225 | [
"Brian"
] | 69b174db7a1d90a999b8a28b9be6c7d06d644e99d8e99ef17e911528ae58d545 |
#!/usr/bin/env python
import os
import sys
import argparse
from xml.dom.minidom import Document
class Tool():
def __init__( self, ap_parser, **kwargs ):
self.ap_parser = ap_parser
self.name = parser.prog
self.id = parser.prog
self.version = kwargs.get('version', None) or str(parse... | bgruening/argparse2galaxy | argparse2galaxy.py | Python | mit | 14,043 | [
"Galaxy"
] | 4c653aceae27320a419eeac5f769d2c3c125b9d693e4aad87cf363058602d111 |
# !/usr/bin/env python
# coding: utf-8
"""
pyvse
~~~~~
A high-level API designed for MarketWatch Virtual Stock Exchange games.
Author: Kevin Chen
Email: kvchen@berkeley.edu
Contributor: Andrew Han
Email: handrew@stanford.edu
"""
import requests
import re
import json
from datetime import ... | kvchen/pyvse | pyvse2.py | Python | mit | 10,590 | [
"VisIt"
] | ce7cafb3e34df3bbe75057eda69599136d4eae0d816f06811e5ca8633dc87d7b |
# -*- coding: utf-8 -*-
#
# abstar documentation build configuration file, created by
# sphinx-quickstart on Mon Apr 11 12:45:25 2016.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this
# autogenerated file.
#
# Al... | briney/abstar | docs/source/conf.py | Python | mit | 10,545 | [
"BLAST",
"Biopython",
"scikit-bio"
] | 1bc47f483b09e5a1cf3a92e939a162caeaf847f9afb209afbc77acc7a5295442 |
import sys,os,unittest,ctypes
from lammps import lammps, LMP_VAR_ATOM, LMP_STYLE_GLOBAL, LMP_TYPE_VECTOR, LAMMPS_DOUBLE_2D, LAMMPS_AUTODETECT
has_manybody=False
try:
machine=None
if 'LAMMPS_MACHINE_NAME' in os.environ:
machine=os.environ['LAMMPS_MACHINE_NAME']
lmp=lammps(name=machine)
has_many... | akohlmey/lammps | unittest/python/python-commands.py | Python | gpl-2.0 | 21,064 | [
"LAMMPS"
] | 219a1d57bd38e16637c142431291c138ffb4ad1b7fdd8b9c8994c7408adc4e81 |
# This file is part of DmpBbo, a set of libraries and programs for the
# black-box optimization of dynamical movement primitives.
# Copyright (C) 2018 Freek Stulp
#
# DmpBbo 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... | stulp/dmpbbo | python/functionapproximators/tests/testParameterizable.py | Python | lgpl-2.1 | 4,550 | [
"Gaussian"
] | 30a394293685fda33f161bae6b94756eac01dc9e809a319742d19473bd577f56 |
import os
from os.path import splitext
import lsc
import numpy as np
import matplotlib.pyplot as plt
from mpl_toolkits.mplot3d import Axes3D
from pyraf import iraf
from glob import glob
import datetime
import astropy.units as u
from astropy.io import fits
from astropy.wcs import WCS
from astropy.table import Table, vst... | svalenti/lcogtsnpipe | trunk/src/lsc/myloopdef.py | Python | mit | 97,882 | [
"Gaussian"
] | 844d29b991ee9c4efb3d647e45f1e76e8bfe48371d46b8c0668a194c7977eff6 |
import unittest
from test.support import (verbose, refcount_test, run_unittest,
strip_python_stderr, cpython_only, start_threads,
temp_dir, requires_type_collecting)
from test.support.script_helper import assert_python_ok, make_script
import sys
import time
import gc... | batermj/algorithm-challenger | code-analysis/programming_anguage/python/source_codes/Python3.5.9/Python-3.5.9/Lib/test/test_gc.py | Python | apache-2.0 | 34,167 | [
"VisIt"
] | 8923cb530f154fcb1a53f90168e299d7ce07fef28385c2d5d1e641fe3eb7d9ab |
# -*- coding: utf-8 -*-
#
# clopath_synapse_small_network.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 ... | sdiazpier/nest-simulator | pynest/examples/clopath_synapse_small_network.py | Python | gpl-2.0 | 7,481 | [
"Gaussian",
"NEURON"
] | 3b0878d2f229ced0dd7675cf9b8b1898fc50337fd9361efa2ca70c4431c44914 |
# This file is part of the Fluggo Media Library for high-quality
# video and audio processing.
#
# Copyright 2010-1 Brian J. Crowell <brian@fluggo.com>
#
# 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 Foun... | fluggo/Canvas | fluggo/editor/model/items.py | Python | gpl-3.0 | 22,350 | [
"Brian"
] | 2f48d3dcffcd4210a03025d315ae5b21c46b5c6519f1f79216e5776b55b22e12 |
#!/usr/bin/env python
# -*- 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.
import argparse
import logging
import os.path
import sys
from cclib.parser import ccData
from cclib... | berquist/cclib | cclib/scripts/ccwrite.py | Python | bsd-3-clause | 3,590 | [
"cclib"
] | be262ce75ac24ba455d4d604a8936b72b8e5d2bd68ebf11aa9e95d8b741ffe75 |
#!/usr/bin/env python
"""
obsgen.py
State Estimation and Analysis for PYthon
Module to process observations:
obsgen : class to convert from raw to ROMS observations using
specific subclasses
Written by Brian Powell on 08/15/15
Copyright (c)2017 University of Hawaii under the BSD-License.
"... | dalepartridge/seapy | roms/obsgen.py | Python | mit | 46,813 | [
"Brian",
"NetCDF"
] | 4271138112dc40ef5c094a0d859b72be24482556b1daa352f3543b7a056002a7 |
#
# 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 us... | rangadi/beam | sdks/python/apache_beam/runners/interactive/interactive_runner.py | Python | apache-2.0 | 8,330 | [
"VisIt"
] | f83f5105cf0e34da2c2a1cb39693628e8e2e2837d53caf4d01974e9231af5a15 |
"""
Statistical Cluster Model Similarity class. A Gaussian representation
of a song. The distance between two models is computed with the
symmetrized Kullback Leibler Divergence.
"""
import numpy
from numpy import log
from decoder import AudioDecoder, init_gstreamer
from filter import Filter
import scipy.sparse
cl... | JohannesBuchner/PyMirage | pymirage/analyse.py | Python | gpl-2.0 | 3,397 | [
"Gaussian"
] | 1624e8112da6fa63498ab5255da6038ccdb72a9710708654d5525e7b19e9ecd5 |
import argparse, os
from paraview import simple
from paraview import data_exploration as wx
try:
simple.LoadDistributedPlugin('RGBZView', ns=globals())
except:
print 'Unable to load RGBZView plugin'
def generateData(datasetPath, outputDir) :
if not os.path.exists(outputDir):
os.makedirs(outputDi... | Kitware/cinema | scripts/data_generation/generateDiskOutRefData.py | Python | bsd-3-clause | 7,202 | [
"ParaView"
] | 88bd43c3c8b35b6031bfefe61186d65543a60e847bf6074be7ece98c3f3ee176 |
from asyncio import gather, Lock, Semaphore, sleep, CancelledError
from collections import deque
from time import time, monotonic
from queue import Empty
from itertools import cycle
from sys import exit
from distutils.version import StrictVersion
from aiopogo import PGoApi, HashServer, json_loads, exceptions as ex
fro... | sebast1219/Monocle | monocle/worker.py | Python | mit | 64,053 | [
"VisIt"
] | 163f78cd063b7c8274ad056b425504a0dbe70f76fe9f3dd8add41078c8b2f533 |
# User registration view.
#
# Bonneville Power Adminstration Front-End
# Copyright (C) 2015 Shu Ping Chu
#
# 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... | jialij-pdx/bpe_capstone | registration/views.py | Python | gpl-2.0 | 5,435 | [
"VisIt"
] | 3d930860ca5b69ca58a3f8402784d1b4a19a148ea6894b65ae023d5b63c05886 |
# $Id$
#
# Copyright (C) 2003-2008 Greg Landrum and Rational Discovery LLC
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
""" Definitions for 2D... | jandom/rdkit | rdkit/Chem/Pharm2D/Gobbi_Pharm2D.py | Python | bsd-3-clause | 1,931 | [
"RDKit"
] | f2234b29c70330a63616abd1679a0acbb07a51aefa92c3d54d189a9b813f41ba |
###############################################################################
# TransientLogSpiralPotential: a transient spiral potential
###############################################################################
import numpy
from ..util import conversion
from .planarPotential import planarPotential
_degtorad=... | jobovy/galpy | galpy/potential/TransientLogSpiralPotential.py | Python | bsd-3-clause | 4,764 | [
"Gaussian"
] | 75f937be93091fd77d553e815446ee0ca6b5d28a8f58da468d10cfe4922ac28d |
import numpy as np
import inspect
from cStringIO import StringIO
from _to_native_converter import to_native_class_converter
from _inference_parameter_injector import \
_injectGenericInferenceParameterInterface
from _inference_injector import _injectGenericInferenceInterface
from _misc import defaultAccumulator
imp... | ilastikdev/opengm | src/interfaces/python/opengm/_inference_interface_generator.py | Python | mit | 29,835 | [
"VisIt"
] | 784766aec1171970edb539ba9b6ee4d94180545475548cdcda3c14fbe699776b |
import vtk
import time
import numpy as np
from ddapp.timercallback import TimerCallback
class OrbitController(TimerCallback):
def __init__(self, view):
TimerCallback.__init__(self)
self.view = view
self.orbitTime = 20.0
def tick(self):
speed = 360.0 / self.orbitTime
de... | gizatt/director | src/python/ddapp/cameracontrol.py | Python | bsd-3-clause | 3,247 | [
"VTK"
] | e1d48274407bf932b5ec7078f74401ebe2e48221d2616dc8016aa9fbdd628076 |
# Standard library imports.
from os.path import isfile
# Enthought library imports.
from enthought.pyface import FileDialog, OK
# Local imports
from enthought.mayavi.script import get_imayavi
from enthought.mayavi.core.common import error
from enthought.mayavi.action.common import WorkbenchAction, get_imayavi
######... | geodynamics/citcoms | visual/Mayavi2/original_plugins/plugins/OpenCitcomSFILES.py | Python | gpl-2.0 | 2,756 | [
"Mayavi",
"VTK"
] | 3e0f4e5df63f837a62d54650771bee9c9891fcb49fb359ed4bcac69826e6c1ac |
# -*- coding: utf-8 -*-
from __future__ import unicode_literals
import time
# !! This is the configuration of Nikola. !! #
# !! You should edit it to your liking. !! #
# ! Some settings can be different in different languages.
# ! A comment stating (translatable) is used to denote those.
# ! There are two ways to... | sefk/sef-site | conf.py | Python | apache-2.0 | 40,645 | [
"VisIt"
] | 75584ca32436d53c46d5011f060871e723a820f358be07aef8e3f2bb818b726c |
"""
Project
FPGA-Imaging-Library
Design
RankFilter
Function
Local filter - Rank filter, it always used for denoising with preserving edge.
Module
Software simulation.
Version
1.0
Modified
2015-05-21
Copyright (C) 2015 Tianyu Dai (dtysky) <dtysky@outlook.com>
This library is free software; you can redistribute i... | hj3938/FPGA-Imaging-Library | LocalFilter/ThresholdLocal/SoftwareSim/RankFilter.py | Python | lgpl-2.1 | 1,298 | [
"MOE"
] | 9ea11f98b1152b6bd4fa0140c89427f5d5c48609b6620e01b1fc818e7fa0c384 |
## Copyright (c) 2015 Ryan Koesterer GNU General Public License v3
##
## 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) any l... | rmkoesterer/uga | uga/RunMerge.py | Python | gpl-3.0 | 10,695 | [
"pysam"
] | c767c7f372338a5f9102719db891e3db93b2a96a09e8dfe76566e69c5c883ca4 |
#---------written by Felix Oesterle (FSO)-----------------
#-DESCRIPTION:
# This is based on fabfile from Raincloud Project (simplified)
#
#-Last modified: Thu Jul 09, 2015 13:10
#@author Felix Oesterle
#-----------------------------------------------------------
from __future__ import with_statement, print_function... | jlandmann/oggm | deployment/fabfile.py | Python | gpl-3.0 | 41,370 | [
"NetCDF"
] | 8f9db7ca07a51372a6a6023b4532212da7ec89767ac1a2478a6e0483ded75fd7 |
from pymol import cmd
from pymol.cgo import *
# This example shows one way to create a plane behind the current
# molecule.
#
# Note that because PyMOL's ray-tracer doesn't currently support
# perspective, the plane will not look right if the edges are
# showing. Thus, it is best to zoom the image so that the edges ca... | gratefulfrog/lib | python/pymol/pymol_path/examples/devel/cgo_plane.py | Python | gpl-2.0 | 2,566 | [
"PyMOL"
] | d537117ee14f83a66ab500794a1816de86772b995002c72c723b307f5b2bec67 |
"""
========================================
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
==========... | Universal-Model-Converter/UMC3.0a | data/Python/x86/Lib/site-packages/scipy/special/__init__.py | Python | mit | 19,011 | [
"Gaussian"
] | 0fc37f3135fc5924bf5bcbddcf7be7a98d2fc0aba5e1f516d133b1988cac71f0 |
# -*- coding: utf-8 -*-
"""
ORCA Open Remote Control Application
Copyright (C) 2013-2020 Carsten Thielepape
Please contact me by : http://www.orca-remote.org/
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as publish... | thica/ORCA-Remote | src/ORCA/interfaces/BaseInterfaceSettings.py | Python | gpl-3.0 | 24,195 | [
"ORCA"
] | 3dc18bf9886be9b43b18dcc12e46ae32d02323a39172719e695dead2b70e87a0 |
import numpy as np
import matplotlib.pyplot as plt
from astropy.table import Table
# robust standard deviation
def sigG(arr):
return 0.741*(np.quantile(arr, 0.75)-np.quantile(arr, 0.25))
def printStats(arr):
print(' ', np.min(arr), np.mean(arr), np.median(arr), np.max(arr), np.size(arr))
retur... | Karuntg/SDSS_SSC | Analysis_2020/ZItools.py | Python | gpl-3.0 | 7,967 | [
"Gaussian"
] | 28b07fdf56b3ff6a9d4a17793040aedc96c5d07f065cee9e4c611915838250ee |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
################################################################################
#
# RMG - Reaction Mechanism Generator
#
# Copyright (c) 2002-2017 Prof. William H. Green (whgreen@mit.edu),
# Prof. Richard H. West (r.west@neu.edu) and the RMG Team (rmg_dev@mit.edu)
... | Molecular-Image-Recognition/Molecular-Image-Recognition | code/rmgpy/cantherm/gaussian.py | Python | mit | 17,734 | [
"Gaussian"
] | d0fc72995666c284cb23738d3726dc321d5b4c6e08bd8bf00267e8159d8b9b24 |
# -*- coding: utf-8 -*-
# HORTON: Helpful Open-source Research TOol for N-fermion systems.
# Copyright (C) 2011-2016 The HORTON Development Team
#
# This file is part of HORTON.
#
# HORTON is free software; you can redistribute it and/or
# modify it under the terms of the GNU General Public License
# as published by th... | crisely09/horton | horton/meanfield/test/common.py | Python | gpl-3.0 | 22,472 | [
"Gaussian"
] | acf2363ce1a100cb032b591b40fed56fd247b346e24dbdf26c016d1f2a8190c9 |
# -*- coding: UTF-8 -*-
from setuptools import setup, find_packages
import versioneer
setup(
name='bioconda-utils',
author="Johannes Köster, Ryan Dale, The Bioconda Team",
description="Utilities for building and managing conda packages",
license="MIT",
packages=find_packages(exclude=['test']),
... | bioconda/bioconda-utils | setup.py | Python | mit | 1,092 | [
"Bioconda"
] | d9d140bb378e1f6fad5c7687037ba4d08066742e80a64d8c2fa735c3dced2391 |
''' file name : convexhull.py
Description : This sample shows how to find the convex hull of contours
This is Python version of this tutorial : http://opencv.itseez.com/doc/tutorials/imgproc/shapedescriptors/hull/hull.html
Level : Beginner
Benefits : Learn to use cv2.convexHull()
Usage : python convexhull.py
Writ... | asrob-uc3m/rpc_rpi | src/python/opencv_python_tutorials/Official_Tutorial_Python_Codes/3_imgproc/convexhull.py | Python | gpl-3.0 | 1,437 | [
"VisIt"
] | 434eccac9809bf78cb624380b3203e0c82779f9b557cc108baedec0239c61d66 |
from __future__ import absolute_import, unicode_literals
from ..serialization import (
TembaObject, SimpleField, BooleanField, IntegerField, DatetimeField, ObjectListField, ObjectField
)
class Broadcast(TembaObject):
id = IntegerField()
urns = SimpleField()
contacts = SimpleField()
groups = Simpl... | system7-open-source/rapidpro-python | temba_client/v1/types.py | Python | bsd-3-clause | 4,759 | [
"VisIt"
] | 6f70dd151f89543cab40cc610475f0d782b44444f19d5d0a07b4e2501c269f92 |
import pandas as pd
from sklearn.ensemble import RandomForestRegressor
from sklearn.ensemble import BaggingRegressor
from sklearn.ensemble import ExtraTreesRegressor
from sklearn.ensemble import AdaBoostRegressor
from sklearn.ensemble import GradientBoostingRegressor
from sklearn.ensemble import RandomTreesEmbedding
fr... | rupakc/Kaggle-Compendium | World Cup 2010 - Take on Quants/cup-baseline.py | Python | mit | 3,608 | [
"Gaussian"
] | 45ae67ef9da024312bb1cdaab7a22def2fe52064e23bfccb76ba737ba76ef43f |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding: utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
""" Module: Profile
===============
"""
from __future__ import print_function
from .basic_observables import Number
from .intrinsic_distance import IntrinsicDistance
import numpy as np
fro... | Marcello-Sega/pytim | pytim/observables/profile.py | Python | gpl-3.0 | 13,430 | [
"MDAnalysis"
] | a34461562ee0aab8fd25ab7bb12d5760c5bb09a3a2e3f005d464fc1ba0178b31 |
"""
Spatial diagnostics module
"""
__author__ = "Luc Anselin luc.anselin@asu.edu, Daniel Arribas-Bel darribas@asu.edu"
from utils import spdot
from scipy.stats.stats import chisqprob
from scipy.stats import norm
import numpy as np
import numpy.linalg as la
__all__ = ['LMtests', 'MoranRes', 'AKtest']
class LMtests:
... | spreg-git/pysal | pysal/spreg/diagnostics_sp.py | Python | bsd-3-clause | 23,989 | [
"COLUMBUS"
] | 8bf4370d3f9820d9687a97b913da2a47c4cc93cee219f98140b5d03476a98b1b |
# This file is part of cclib (http://cclib.sf.net), a library for parsing
# and interpreting the results of computational chemistry packages.
#
# Copyright (C) 2006, the cclib development team
#
# The library is free software, distributed under the terms of
# the GNU Lesser General Public version 2.1 or later. Yo... | Clyde-fare/cclib_bak | src/cclib/method/population.py | Python | lgpl-2.1 | 3,224 | [
"cclib"
] | 2a83d8a195f26b9ad4d810087d9e42420bc745f81c9fb77f8407e36d43d99578 |
# coding=utf-8
from __future__ import division
import numpy as _np
import scipy.stats as _stats
from scipy.signal import gaussian as _gaussian, filtfilt as _filtfilt, filter_design as _filter_design, \
deconvolve as _deconvolve, firwin as _firwin, convolve as _convolve
from matplotlib.pyplot import plot as _plot
fr... | MPBA/pyHRV | pyphysio/filters/Filters.py | Python | gpl-3.0 | 20,241 | [
"Gaussian"
] | f5402789aa80d5029e7717cb30ad71f69a7db320cc8e3ca442ad921b8e2d52ec |
from __future__ import with_statement
import logging
import multiprocessing
import re
import sys
import threading
import time
import unittest
try:
from StringIO import StringIO
except ImportError:
from io import StringIO
try:
from test.test_support import run_unittest
except ImportError:
from test.sup... | santegoeds/pythonfutures | test_futures.py | Python | bsd-2-clause | 27,721 | [
"Brian"
] | 073654bcda284b0d4c72bafacdbbdaa3450cd4147b13e7712acb45e0710663c5 |
'''extractPairedReadsRegion.py
Usage:
extractPairedReadsRegion.py <region> <inbam> <outbam>
[--threads=<th>] [--memory=<mm>] [--nosort]
Options:
--threads=<th> Number of threads to use in sort [default: 1].
--memory=<mm> GB of memory per sort thread [default: 6].
--nosort Input B... | adam-rabinowitz/ngs_analysis | scripts/BAM/extractPairedReadsRegion.py | Python | gpl-2.0 | 3,523 | [
"pysam"
] | 1814015131af9a0c8745c97949a1e47991f0ccea5a801caab08076f06294b500 |
"""Perform a simultaneous fit to two frequency distributions
(= histograms) with common parameters with kafe2.MultiFit()
This example illustrates another common use-case for multifits,
where the same signal is measured under varying conditions,
e.g. in different detector regions with different resolutions
... | dsavoiu/kafe2 | examples/011_multifit/03_multifit2.py | Python | gpl-3.0 | 4,626 | [
"Gaussian"
] | 933501bfecc1ffdd726ff9f4045d699383bf5e5e748b2e8407646f030164d43b |
# -*- coding: utf-8 -*-
from __future__ import unicode_literals
from django.db import models, migrations
from django.conf import settings
class Migration(migrations.Migration):
dependencies = [
migrations.swappable_dependency(settings.AUTH_USER_MODEL),
]
operations = [
migrations.Create... | cheelee/ChannelWorm | channelworm/ion_channel/migrations/0001_initial.py | Python | mit | 15,404 | [
"NEURON"
] | 342cb0f43d8b04911ee25eea2597f1c7833ed9eefeba19fc817ab08ecee056cf |
###############################################################################
# Copyright 2016 - Climate Research Division
# Environment and Climate Change Canada
#
# This file is part of the "EC-CAS diags" package.
#
# "EC-CAS diags" is free software: you can redistribute it and/or modify
# it under... | neishm/EC-CAS-diags | eccas_diags/interfaces/geoschem_coards.py | Python | lgpl-3.0 | 10,919 | [
"NetCDF"
] | 54c2199fad05c8a4f2f9963de57ff8e0a6706b6091d6dd209e64c88f233367b3 |
"""
pysteps.blending.clim
=====================
Module with methods to read, write and compute past and climatological NWP model
skill scores. The module stores the average daily skill score for the past t days
and updates it every day. The resulting average climatological skill score is
the skill the NWP model skill ... | pySTEPS/pysteps | pysteps/blending/clim.py | Python | bsd-3-clause | 7,285 | [
"NetCDF"
] | dc4b3efae363680b15e1e94460ddd104a2d3e3bfe1198e68b498f69a89a6ee14 |
# -*- coding: utf-8 -*-
import inspect
import sys
from django.utils.translation import ugettext_lazy as _lazy
from mpconstants import countries
from mkt.constants import ratingsbodies
from mkt.constants.ratingsbodies import slugify_iarc_name
class REGION(object):
"""
A region is like a country but more con... | washort/zamboni | mkt/constants/regions.py | Python | bsd-3-clause | 14,156 | [
"BWA"
] | 2fc396c337a74573de82c31346ffb53f962a875c6f3219e0fb481e57dcf411ed |
import orca
def add_dependent_columns(base_dfname, new_dfname):
tbl = orca.get_table(new_dfname)
for col in tbl.columns:
print "Adding", col
orca.add_column(base_dfname, col, tbl[col])
| bhargavasana/activitysim | activitysim/defaults/models/util/misc.py | Python | agpl-3.0 | 211 | [
"ORCA"
] | c6c391bf70e556081797cb8b6efcf2014f160b491fb3b1bcc7da1771fc9461be |
#!/usr/bin/python
#-*- coding: utf-8 -*-
# Copyright (C) 2015, Nikolai Chernikov <nikolai.chernikov.ru@gmail.com>
#
# "convert2ugrid" is free software: you can redistribute it and/... | cdd1969/convert2ugrid | lib/process_mixed_data.py | Python | gpl-3.0 | 47,620 | [
"NetCDF"
] | 772d19d4b45205736f27435dcd5ef7fbb42a9ad2314a756614bb6ca25331e846 |
import collections
import contextlib
import os
import shutil
import subprocess
import pytest
import yaml
from bcbio.pipeline.config_utils import load_system_config
OUTPUT_DIR = "test_automated_output"
def default_workdir():
return os.path.join(os.path.dirname(__file__), OUTPUT_DIR)
@pytest.fixture
def data_d... | brainstorm/bcbio-nextgen | tests/conftest.py | Python | mit | 3,789 | [
"Galaxy"
] | 25d4d3924f317e79e362ae2b4110c779fef1ea196f0a7b5e5519d472fb6d4de9 |
# ----------------------------------------------------------------------
# Numenta Platform for Intelligent Computing (NuPIC)
# Copyright (C) 2013, Numenta, Inc. Unless you have an agreement
# with Numenta, Inc., for a separate license for this software code, the
# following terms and conditions apply:
#
# This progra... | 0x0all/nupic | py/regions/ImageSensorFilters/GaussianBlur.py | Python | gpl-3.0 | 1,766 | [
"Gaussian"
] | c61221614edb31808189d32a872c3efd22309efd414b6d842038842e5de9216b |
from __future__ import absolute_import, division, print_function
from textwrap import dedent
import _pytest._code
import py
import pytest
from _pytest.config import PytestPluginManager
from _pytest.main import EXIT_NOTESTSCOLLECTED, EXIT_USAGEERROR
@pytest.fixture(scope="module", params=["global", "inpackage"])
def ... | flub/pytest | testing/test_conftest.py | Python | mit | 15,885 | [
"VisIt"
] | 252357138c5f5ea7dd8c6dd8c7caf3fff672f023e71cebffc60efb8fb3fe6d11 |
import ovito
from ovito.io import *
from ovito.vis import *
import os
import sys
print("Hello, this is OVITO %i.%i.%i" % ovito.version)
rs = RenderSettings(
filename = '/tmp/image.png',
size = (640,480),
background_color = (1.0, 1.0, 1.0)
)
rs.renderer.antialiasing = True
def main():
in_dir = sys.ar... | jorgehog/Deux-kMC | scripts/extraneighbor_clusters/ovitoviz.py | Python | gpl-3.0 | 1,939 | [
"OVITO"
] | 1ebd87dbd20e45ec27757422e0823ec605def05ff98ade6f540752a36e648ac8 |
#!/usr/bin/env python
#
# Copyright 2007,2010 Free Software Foundation, Inc.
#
# This file is part of GNU Radio
#
# GNU Radio 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, or (at your opt... | levelrf/level_basestation | grextras/python/qa_noise_source.py | Python | gpl-3.0 | 1,991 | [
"Gaussian"
] | ad85d5fd220e1bdd0fe1b7d97e4ba1fa848a70af168029629a38a851323e7610 |
# Copyright (C) 2010 Matthew McGowan
#
# Authors:
# Matthew McGowan
#
# 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) any later version.
... | armikhael/software-center | softwarecenter/ui/gtk3/widgets/description.py | Python | gpl-3.0 | 48,326 | [
"ADF",
"DIRAC"
] | f2e8e39242d76d04dc110e046d47f293e85ea80dc79d4b42cdc3763545923675 |
# -*- coding:utf-8 -*-
#
# This file contains a class and main function to convert giellatekno xml
# formatted files to pure text
#
# 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, eit... | unhammer/gt-CorpusTools | corpustools/ccat.py | Python | gpl-3.0 | 21,390 | [
"VisIt"
] | ad2d00e9464eba3d1baac85d502aba061488cd42ee5cbe964752c535c557ae1a |
from __future__ import print_function
import sys
import os
from scipy.io import netcdf as nc
import numpy as np
import hashlib
import pytest
@pytest.mark.usefixtures('prepare_to_test')
class TestDiagnosticOutput:
def test_coverage(self, exp):
"""
Test that all available diagnostics can be dumped... | aidanheerdegen/MOM6-examples | tools/tests/test_diagnostic_output.py | Python | gpl-3.0 | 2,751 | [
"NetCDF"
] | ccbba5d69cd7c0ab0c303fba049d1165b1a9d1eb84a0e14a7a8dda9f15de771f |
#!/usr/bin/env python
__author__ = 'Manuel Holtgrewe <manuel.holtgrewe@fu-berlin.de>'
import os.path
import re
import clang.cindex as ci
RULE_NAMING_CONSTANT = 'naming.constant'
RULE_NAMING_STRUCT = 'naming.struct'
RULE_NAMING_UNION = 'naming.union'
RULE_NAMING_CLASS = 'naming.class'
RULE_NAMING_ENUM = 'naming.enum... | bkahlert/seqan-research | raw/workshop11/workshop2011-data-20110925/trunk/util/py_lib/seqan/pyclangcheck/rules.py | Python | mit | 6,359 | [
"VisIt"
] | 2f0c0907c0fb35aa04fc7b694cba0aa66331340ada32ae5fc2fcfc3649c4776e |
# class generated by DeVIDE::createDeVIDEModuleFromVTKObject
from module_kits.vtk_kit.mixins import SimpleVTKClassModuleBase
import vtk
class vtkExtractSelectedGraph(SimpleVTKClassModuleBase):
def __init__(self, module_manager):
SimpleVTKClassModuleBase.__init__(
self, module_manager,
... | nagyistoce/devide | modules/vtk_basic/vtkExtractSelectedGraph.py | Python | bsd-3-clause | 518 | [
"VTK"
] | c78d1fee237f12b3a15f687d3a84e57e667af6ca2b0553ed8d92033594a5f370 |
# gcompris - world_explore_template.py
#
# Copyright (C) 2012 Beth Hadley
#
# 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) any la... | keshashah/GCompris | src/explore-activity/explore.py | Python | gpl-2.0 | 20,482 | [
"VisIt"
] | d0234e17d48e9b92b6d1697bf96ec3f47388840405f4741f57af47a288d76f35 |
"""Helper module to query vtk cell sizes upon importing."""
try:
from vtkmodules import vtkCommonDataModel
except:
import vtk as vtkCommonDataModel
vtkcell_types = [
['VTK_EMPTY_CELL', 'vtkEmptyCell'],
['VTK_VERTEX', 'vtkVertex'],
['VTK_POLY_VERTEX', 'vtkPolyVertex'],
['VTK_LINE', 'vtkLine'],
... | akaszynski/vtkInterface | pyvista/utilities/cell_type_helper.py | Python | mit | 2,937 | [
"VTK"
] | ff8604ab02a6bd4233118fe27a2c5212d84a1501b668fc493a73b430c9705ab8 |
import os
from deployos import call_in_dir
from deploynpm import resolve_in_node_modules
def _gulp_in_dir(working_dir, args):
gulp_cmd = resolve_in_node_modules(working_dir, "gulp")
call_in_dir(working_dir, gulp_cmd, args)
def gulp(working_dir, *args):
_gulp_in_dir(working_dir, list(args))
| kostrse/coworkingmap | deploy/deploygulp.py | Python | mit | 307 | [
"GULP"
] | e28544283c8900e2b21fda88903e7519678b31a717754af6a6c845546b409b4f |
# $Id$
#
# Copyright (C) 2003-2006 greg Landrum and Rational Discovery LLC
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
""" unit testing code f... | ptosco/rdkit | rdkit/DataStructs/UnitTestBitEnsemble.py | Python | bsd-3-clause | 4,181 | [
"RDKit"
] | fe1ff6bac2d5dd60deac162b7840069f9bcf9faaa559ef7298a7db5db136f53a |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import re
from pymatgen.core.structure import Molecule
from monty.io import zopen
"""
Module implementing an XYZ file object class.
"""
__author__ = "Shyue Ping Ong"
__copyright__ = "Copyright 2012, The Mate... | dongsenfo/pymatgen | pymatgen/io/xyz.py | Python | mit | 4,144 | [
"pymatgen"
] | dd5eb554a2746f9d76e0217fafc3c43080348304517e639cbbd5f89c45a7eebf |
###
### This script can be run with pvpython rather than pvbatch, as it does not
### need mpi.
###
### Purpose:
###
### Generate a static image dataset of volume rendering on the ne cooling data
###
### Example usages (assumes you are in directory with this script):
###
### 1) To run on the coarse mesh with ... | Kitware/cinema | scripts/data_generation/ne-cooling/volume-vorticity.py | Python | bsd-3-clause | 9,252 | [
"ParaView",
"VTK"
] | 8d9a459bbd3a78f4a314273eff5b9e8f2b0b2e11b0fcc1b24a5102d9924d1088 |
# This file is part of the myhdl library, a Python package for using
# Python as a Hardware Description Language.
#
# Copyright (C) 2003-2008 Jan Decaluwe
#
# The myhdl 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 t... | gw0/myhdl | myhdl/conversion/_misc.py | Python | lgpl-2.1 | 7,168 | [
"VisIt"
] | f2a19faeca88b9e0305e83e58c95c6fb84b77ce698fe915495ef9d269351f125 |
#!/usr/bin/env python
'''
This example shows how to generate the 3-center integrals and the 2-center
integral metric for the density-fitting method.
'''
import scipy
from pyscf import gto, df, lib
mol = gto.Mole()
mol.atom = '''
C 0. 0. 0.
O 0. 0. 1.3
'''
mol.basis = 'ccpvdz'
mol.build()
# Defin... | gkc1000/pyscf | examples/df/10-access_df_integrals.py | Python | apache-2.0 | 1,545 | [
"PySCF"
] | 6eb24efabb3da1fe0c95dc023143b072351745c2cb96673af13145e631246986 |
#!/usr/bin/python
import os, sys # low level handling, such as command line stuff
import string # string methods available
import re # regular expressions
import getopt # comand line argument handling
from low import * # custom functions, written by myself
from Bio import SeqIO # biopython stuff, to parse fa... | lotharwissler/bioinformatics | python/openreadingframe/stats_predicted_orfs.py | Python | mit | 3,848 | [
"Biopython"
] | 2eefadbca7c95f20a4515ec728724a0a49cfca0e5b4d9e35951c1fc140e4460a |
#A* -------------------------------------------------------------------
#B* This file contains source code for the PyMOL computer program
#C* copyright 1998-2000 by Warren Lyford Delano of DeLano Scientific.
#D* -------------------------------------------------------------------
#E* It is unlawful to modify or remove ... | gratefulfrog/lib | python/chempy/gamess1.py | Python | gpl-2.0 | 22,588 | [
"Amber",
"ChemPy",
"GAMESS",
"PyMOL",
"TINKER"
] | 8339f69ac3b462be305997323cccbbcd3a6eca0e35a3cecb7e2bc6ea51405aea |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""Example script for an automatically created colorbar for multiple plots
This script is part of the nc2map Python module, version 0.0b.
The nc2map.CbarManager allows you to control the colorbar settings (color map,
bounds, etc.) for multiple plots at the same time. This ... | Chilipp/nc2map | demo/one_colorbar_demo.py | Python | gpl-2.0 | 3,173 | [
"NetCDF"
] | c56233d32478a2064d9747b70a6fb1167ed507f5c1b2ab24564a358478db81b5 |
__author__ = 'stephen'
import numpy as np
import mdtraj as md
import os, sys
def get_subindices(assignments=None, state=None, samples=10):
'''Get Subsamples assignments from same state'''
assignments = np.array(assignments)
if state is not None:
indices = np.where(np.array(assignments) == state)[0... | stephenliu1989/HK_DataMiner | hkdataminer/utils/utils.py | Python | apache-2.0 | 1,695 | [
"MDTraj"
] | 57b6c38bfdaf5ae04a34ee1a2e7cf60d3056a17afb987f951429858017bd19d2 |
#!/usr/bin/env python
# PySCUBA/src/PySCUBA/Tree_classes.py
# Author: Gregory Giecold for the GC Yuan Lab
# Affiliation: Harvard University
# Contact: g.giecold@gmail.com; ggiecold@jimmy.harvard.edu
"""Classes for flow or mass cytometry data processing, modified from the outdated 'fcm'
Python package by Jacob... | GGiecold/PySCUBA | src/PySCUBA/Tree_classes.py | Python | mit | 6,533 | [
"VisIt"
] | 6cccca314517c879b91e71252028a1ef91dfb39125626a374cef7971ed538309 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Example Bowtie App.
"""
from bowtie.control import Nouislider
from bowtie.visual import Plotly
import numpy as np
from numpy import random as rng
import plotlywrapper as pw
sigma = Nouislider(caption='Sigma', start=1, minimum=0.1, maximum=50)
mainplot = Plotly()
d... | softwaremechanic/Miscellaneous | bowtieEx.py | Python | gpl-2.0 | 711 | [
"Bowtie"
] | c2d74def93df659e58786094e81e1ec3581f44cd7901ec972b06372f3795a4dd |
"""Header value parser implementing various email-related RFC parsing rules.
The parsing methods defined in this module implement various email related
parsing rules. Principal among them is RFC 5322, which is the followon
to RFC 2822 and primarily a clarification of the former. It also implements
RFC 2047 encoded w... | yotchang4s/cafebabepy | src/main/python/email/_header_value_parser.py | Python | bsd-3-clause | 105,218 | [
"CRYSTAL"
] | 82b8bf3e3cd9c9a2fe9a123e17010b8ae0fef8e03fb3acc07ebc4ede20203f2b |
import cStringIO
import numpy as np
import theano.tensor as T
from theano.tests import disturb_mem
import warnings
from pylearn2.costs.cost import Cost, SumOfCosts, DefaultDataSpecsMixin
from pylearn2.devtools.record import Record, RecordMode
from pylearn2.datasets.dense_design_matrix import DenseDesignMatrix
from py... | KennethPierce/pylearnk | pylearn2/training_algorithms/tests/test_sgd.py | Python | bsd-3-clause | 46,250 | [
"VisIt"
] | 0d4c4369a451d318b06d1c63e88cd0ca79941d04a5171582fb8126a572887cd5 |
# Copyright 2007 by Michiel de Hoon. 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 work with the sprotXX.dat file from SwissProt.
http://www.expasy.ch/sprot/sprot-t... | updownlife/multipleK | dependencies/biopython-1.65/build/lib.linux-x86_64-2.7/Bio/SwissProt/__init__.py | Python | gpl-2.0 | 22,123 | [
"Biopython"
] | f347542906bb44db0f66cc199aa2d7584622118e25954b5beb15aa7b3906d049 |
# Licensed to the Apache Software Foundation (ASF) under one
# or more contributor license agreements. See the NOTICE file
# distributed with this work for additional information
# regarding copyright ownership. The ASF licenses this file
# to you under the Apache License, Version 2.0 (the
# "License"); you may not u... | dmlc/tvm | tests/python/contrib/test_arm_compute_lib/infrastructure.py | Python | apache-2.0 | 11,014 | [
"VisIt"
] | 6e6d22253ba3959ac44b5ba8afc030553a83ea8c0cd75d4c246efa2bde1e23d3 |
"""
This is only meant to add docs to objects defined in C-extension modules.
The purpose is to allow easier editing of the docstrings without
requiring a re-compile.
NOTE: Many of the methods of ndarray have corresponding functions.
If you update these docstrings, please keep also the ones in
core/fromnum... | dato-code/numpy | numpy/add_newdocs.py | Python | bsd-3-clause | 219,023 | [
"Brian"
] | da5c332998479770f6285eaa1f18e61505706e84e7c26ebceb94e87012f52e19 |
# -*- coding: utf-8 -*-
# module pyparsing.py
#
# Copyright (c) 2003-2019 Paul T. McGuire
#
# Permission is hereby granted, free of charge, to any person obtaining
# a copy of this software and associated documentation files (the
# "Software"), to deal in the Software without restriction, including
# without limitatio... | sserrot/champion_relationships | venv/Lib/site-packages/pyparsing.py | Python | mit | 273,365 | [
"VisIt"
] | a315ff64ecfcb7e7aba2cf94598ee726071d5200fead0e770a4d2aa7bfefdc88 |
"""
blast related classes and functions
"""
from .BlastTools import create_blast_map,get_blast_map
from .Blast import Blast
from .BlastMapper import BlastMapper
from .ParallelBlast import ParallelBlast
from .ParseBlast import ParseBlast
from .ParseParallelBlast import ParseParallelBlast
| ajrichards/htsint | htsint/blast/__init__.py | Python | bsd-3-clause | 290 | [
"BLAST"
] | 9e1323814760c00a39538f2de610be38cf1eef3925fd2d0c177a2f8921e6a00f |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Tue Jun 12 20:20:03 2018
@author: BallBlueMeercat
"""
import time
import dnest4
import numpy as np
import pandas as pd
import numpy.random as rng
import pickle
#from numba import jitclass, int32
import datasim
import results
import tools
#from scipy.special... | lefthandedroo/Cosmo-models | zprev versions/Models_py_backup/Models backup/Bfactor.py | Python | mit | 13,227 | [
"Gaussian"
] | 00d1e908a6ee0ab82585cf253620b977d71de43da7892367338380394029b61f |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
#
# Copyright (c), 2016-2017, Quantum Espresso Foundation and SISSA (Scuola
# Internazionale Superiore di Studi Avanzati). All rights reserved.
# This file is distributed under the terms of the LGPL-2.1 license. See the
# file 'LICENSE' in the root directory of the present... | QEF/postqe | tests/test_ase.py | Python | lgpl-2.1 | 1,643 | [
"ASE",
"Quantum ESPRESSO"
] | ae3b9cf63b2668ca4979ec203ec4b8880cb0bfb35306a4cff11d0ebb295a82f7 |
import logging
from pylons import request, response, session, tmpl_context as c
from zkpylons.lib.helpers import redirect_to
from pylons.decorators import validate
from pylons.decorators.rest import dispatch_on
from formencode import validators, htmlfill, ForEach, Invalid
from formencode.variabledecode import NestedV... | noisymime/zookeepr | zkpylons/controllers/person.py | Python | gpl-2.0 | 23,362 | [
"VisIt"
] | 5a591e4efdea17db58bf49b2b0cec0eaa8897cb548d62f41abf24cdee070e883 |
"""
Simple focus detection methods for use with holograms.
Change log:
2016/01/24 -- module started; nloomis@gmail.com
"""
__authors__ = ('nloomis@gmail.com',)
import digitalholography as dhi
import imageutils
import scipy.ndimage
try:
from skimage import filters
except ImportError:
# handles the case wher... | nickloomis/loomsci-examples | python/holofocus.py | Python | mit | 3,035 | [
"Gaussian"
] | b73581ff5b2af4d879da02a1bcf4e72dee3fa9644e4778182e5a82938e9abbdd |
##############################################################################
# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | skosukhin/spack | var/spack/repos/builtin/packages/r-affycontam/package.py | Python | lgpl-2.1 | 1,838 | [
"Bioconductor"
] | 0569942aef16cbc54a668bb1d6ad881cad93c461564c8d0b08ccfa20c4e95d20 |
# Copyright 2004, Magnus Hagdorn
#
# This file is part of GLIMMER.
#
# GLIMMER 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 your option) any later version.
#
# G... | glimmer-cism/PyCF | PyCF/CF_createfile.py | Python | gpl-2.0 | 5,333 | [
"NetCDF"
] | 662b2b011b5132b248ca672ddc3d73dd905770b9ee72902843eb1cf12747745c |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import division, unicode_literals, print_function
from pymatgen.util.testing import PymatgenTest
from pymatgen.core.periodic_table import Element, Specie
from pymatgen.core.composition import C... | tallakahath/pymatgen | pymatgen/core/tests/test_structure.py | Python | mit | 50,592 | [
"pymatgen"
] | 1b8ff834565d21c769970c7514e3d7b804b70971545062188d69c6cc83e40eb6 |
from pkg_resources import resource_string
from json import loads
# Error codes are provided as a convience to Galaxy API clients, but at this
# time they do represent part of the more stable interface. They can change
# without warning between releases.
UNKNOWN_ERROR_MESSAGE = "Unknown error occurred while processing ... | mikel-egana-aranguren/SADI-Galaxy-Docker | galaxy-dist/lib/galaxy/exceptions/error_codes.py | Python | gpl-3.0 | 1,064 | [
"Galaxy"
] | d561678c3543918083c6b9e01545c2c611fc99d78ec14cf95db9eb9a15f4d87a |
#
def cutout(infile,mag,color='red'):
import os, utilities
ppid = str(os.getppid())
print ppid + 'a'
#pylab.show()
outfile = raw_input('name of output file?')
color = raw_input('color of regions?')
limits = ['lower_mag','upper_mag','lower_diff','upper_diff']
lim_dic... | deapplegate/wtgpipeline | non_essentials/s1.py | Python | mit | 119,614 | [
"Galaxy"
] | e1391edaa1caba687b7ed4e9d8bcbfe21d0ffac02d8c15e8a2f298000d56c2b9 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# Copyright 2014-2021 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/li... | sunqm/pyscf | pyscf/dft/libxc.py | Python | apache-2.0 | 115,888 | [
"DIRAC",
"Gaussian",
"NWChem",
"Octopus",
"PySCF"
] | 441ed032ead085dd9cb61457208cc0953b7e85361f50e6c547b694c72a7b328c |
# -*- coding: utf-8 -*-
import re
from .xn_parser import XNParserBase, safe_int, get_attribute
from .xn_data import XNResourceBundle
from . import xn_logger
logger = xn_logger.get(__name__, debug=False)
__doc__ = '''
Almost every page directly related to planet contains the display of
planet's current resources and... | minlexx/xnovacmd | ui/xnova/xn_parser_planet_energy.py | Python | gpl-2.0 | 6,189 | [
"Galaxy"
] | eace020b5a2bb4aee9e9b0ca20bafecd284b9455c1599a01768505336ead5e10 |
# -*- 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.
"""A reader for XYZ (Cartesian coordinate) files."""
from cclib.io import filereader
from cclib.parser.data import ccData... | cclib/cclib | cclib/io/xyzreader.py | Python | bsd-3-clause | 2,436 | [
"cclib"
] | a2fe1b0707e66fbd69b494700811fb66fabc455794885bb24830c3a3cc8dd281 |
from __future__ import print_function
from __future__ import absolute_import
from __future__ import division
import sys
import time
from DIRAC import S_OK, S_ERROR
from DIRAC.Core.Base import Script
from DIRAC.Core.DISET.MessageClient import MessageClient
Script.parseCommandLine()
def sendPingMsg( msgClient, pingid =... | yujikato/DIRAC | docs/source/DeveloperGuide/Systems/Framework/stableconns/client.py | Python | gpl-3.0 | 1,533 | [
"DIRAC"
] | 46fe545cefad46d932681c0253eb72b3eb67599a4579ab729639ffe8111114fd |
# Copyright 2008-2010 by Peter Cock. 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.
"""Bio.SeqIO support for the "tab" (simple tab separated) file format.
You are expected to ... | BlogomaticProject/Blogomatic | opt/blog-o-matic/usr/lib/python/Bio/SeqIO/TabIO.py | Python | gpl-2.0 | 3,968 | [
"Biopython"
] | f62971d590f5bfb121ca54a60b2e4ecd600265b472edef87a28ec89ae273ec2b |
#!/usr/bin/env python
##################################################
## DEPENDENCIES
import sys
import os
import os.path
try:
import builtins as builtin
except ImportError:
import __builtin__ as builtin
from os.path import getmtime, exists
import time
import types
from Cheetah.Version import MinCompatib... | MOA-2011/enigma2-plugin-extensions-openwebif | plugin/controllers/views/web/epgsimilar.py | Python | gpl-2.0 | 7,547 | [
"VisIt"
] | 56acbe7ac2ae0b211061a5ebdea4cd100500409b2e3aff64a70be244bcd16a60 |
# -*- coding: utf-8 -*-
#
# © 2015-2016 Krux Digital, Inc.
#
#
# Standard libraries
#
from builtins import range
import string
from collections import Mapping
#
# Third party libraries
#
import boto.utils
from enum import Enum
#
# Internal libraries
#
from krux.logging import get_logger
class Error(Exception):
... | krux/python-krux-boto | krux_boto/util.py | Python | mit | 4,773 | [
"COLUMBUS"
] | 72cfe82176d3474c67f91258d527e23717f53d20dcd472db83991a8d94e0f5db |
#!/usr/bin/env python
# coding: utf-8
"""
This script identifies the boundaries of a given track using the Spectral
Clustering method published here:
Mcfee, B., & Ellis, D. P. W. (2014). Analyzing Song Structure with Spectral
Clustering. In Proc. of the 15th International Society for Music Information
Retr... | guiquanz/msaf | msaf/algorithms/scluster/segmenter.py | Python | mit | 3,487 | [
"Brian"
] | 4d1b786f5c8945c2c063b387ec0e050a8b2c7b95a26e4eb2f75057e02309e3c7 |
import lb_loader
import pandas as pd
import simtk.openmm.app as app
import numpy as np
import simtk.openmm as mm
from simtk import unit as u
from openmmtools import hmc_integrators, testsystems
pd.set_option('display.width', 1000)
collision_rate = 10000.0 / u.picoseconds
sysname = "ljbox"
system, positions, groups, ... | kyleabeauchamp/HMCNotes | code/correctness/old/test_hmc_correctness_ljbox_converger.py | Python | gpl-2.0 | 2,651 | [
"OpenMM"
] | 774fafb2768ebd1edcbfb5d8d3d94e6005505412f601b7785cab18eb1151b533 |
# -*- coding: latin-1 -*-
# Copyright (C) 2009-2014 CEA/DEN, EDF R&D
#
# 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 option) any later ... | FedoraScientific/salome-hexablock | src/TEST_PY/test_unit/test_perform.py | Python | lgpl-2.1 | 3,428 | [
"VTK"
] | e6988cab2124bd4c1e97fee076f52dcab39ffdffc4bd6404e24f897af16cdd4e |
"""
This is only meant to add docs to objects defined in C-extension modules.
The purpose is to allow easier editing of the docstrings without
requiring a re-compile.
NOTE: Many of the methods of ndarray have corresponding functions.
If you update these docstrings, please keep also the ones in
core/fromnum... | maniteja123/numpy | numpy/add_newdocs.py | Python | bsd-3-clause | 225,018 | [
"Brian"
] | bab90c311959076ce9230f7ed13270b94500816c0ec42830c5d306e5d8a18cf1 |
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