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# -*- coding: utf-8 -*-
"""
pint.util
~~~~~~~~~
Miscellaneous functions for pint.
:copyright: 2013 by Pint Authors, see AUTHORS for more details.
:license: BSD, see LICENSE for more details.
"""
from __future__ import division, unicode_literals, print_function, absolute_import
import re
import o... | pouyana/satgen | pint/util.py | Python | mit | 13,196 | [
"Gaussian"
] | 7dbf32c8522e9991f16394c751cb932c61fcacd9ce7cfc788a61fabcb5afeb25 |
# GromacsWrapper: test_amber03star.py
# Copyright (c) 2009 Oliver Beckstein <orbeckst@gmail.com>
# Released under the GNU Public License 3 (or higher, your choice)
# See the file COPYING for details.
from __future__ import division, absolute_import, print_function
import pytest
from gromacs.exceptions import Gromacs... | jandom/GromacsWrapper | gromacs/tests/fileformats/top/test_amber03star.py | Python | gpl-3.0 | 1,066 | [
"Gromacs"
] | 2ba5122a1c152739dc813a6f1528ad85f69f9de41a832d9af59b5da5d1e669d6 |
# -*- coding: utf-8 -*-
#!/usr/bin/python
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2007 Donald N. Allingham
# Copyright (C) 2007 Johan Gonqvist <johan.gronqvist@gmail.com>
# Copyright (C) 2007 Gary Burton <gary.burton@zen.co.uk>
# Copyright (C) 2007-2009 Stephane Charette <... | pmghalvorsen/gramps_branch | gramps/plugins/lib/libhtmlconst.py | Python | gpl-2.0 | 4,656 | [
"Brian"
] | 896702568206ed202c23f1ad9e3a12ec4cc825f01a0cbf4c9a9873e4c4d7f74c |
#!/usr/bin/env python
#
#----------------------------------------------------------------------------
# Copyright 2016 Florian Schumacher (Ruhr-Universitaet Bochum, Germany)
#
# This file is part of ASKI version 1.2.
#
# ASKI version 1.2 is free software: you can redistribute it and/or modify
# it under the ter... | seismology-RUB/ASKI | devel/create_gmt_shore_lines.py | Python | gpl-2.0 | 19,370 | [
"NetCDF",
"VTK"
] | 65428c0d7da6940dc28beaf76d245d2b7b0ca76c93a5fb2bbee091baf101eff5 |
class BrowserHistory:
def __init__(self, homepage: str):
self.history=[homepage]
self.index=0
def visit(self, url: str) -> None:
if self.index<len(self.history)+1:
self.history=self.history[:self.index+1]
self.history.append(url)
self.ind... | jianjunz/online-judge-solutions | leetcode/1582-design-browser-history.py | Python | mit | 861 | [
"VisIt"
] | 37e127289a5013568d112ded86fe0360819b4c7d3542c906476d1e4fec99fe70 |
# rfc1751.py : Converts between 128-bit strings and a human-readable
# sequence of words, as defined in RFC1751: "A Convention for
# Human-Readable 128-bit Keys", by Daniel L. McDonald.
#
# Part of the Python Cryptography Toolkit
#
# Written by Andrew M. Kuchling and others
#
# =========================================... | mchristopher/PokemonGo-DesktopMap | app/pylibs/osx64/Cryptodome/Util/RFC1751.py | Python | mit | 21,190 | [
"Elk",
"MOE"
] | b0e8dfe0fd3012703b0c596e856ddc9d84c58635d0449a003bf23d940e70753a |
""" This code is snagged from Brad Chapman almost wholesale """
import bcbio.utils as utils
from bipy.utils import (replace_suffix, append_stem, build_results_dir)
import os
import subprocess
import csv
from bipy.log import logger
HEADER_FIELDS = ('qseqid sseqid pident length mismatch gapopen qstart qend '
... | roryk/bipy | bipy/toolbox/blastn.py | Python | mit | 5,578 | [
"BLAST"
] | f5dfe08485b5073d1a302b47df3e7e1a1c5e19c44c01bad1e4dd3c46d9ba901b |
import itertools
import sys
import re
import numpy as np
import matplotlib as mpl
import matplotlib.pyplot as plt
from cycler import cycler
from matplotlib.ticker import MultipleLocator
from scipy.stats import norm
from scipy.interpolate import interp1d
from visnav.algo import tools
from visnav.iotools.readlog impor... | oknuutti/visnav-py | visnav/plots/analyze-log-v2.py | Python | mit | 16,839 | [
"Gaussian"
] | 5a6b6e2937d1bc969b2a7a03e762886bd80c28a2bd1846734356e752c5181a14 |
"""
Get information about a neuron from the database.
In this case we are getting a list of neurons associated with each neuron type.
Note how the attributes of a neuron are accessed: `list(neuron.attribute())`
where attribute is one of the attributes outlined in the neuron API.
Also note that, for attributes with on... | gsarma/PyOpenWorm | examples/NeuronBasicInfo.py | Python | mit | 2,085 | [
"NEURON"
] | 17e17a2e266e3299c0c22c6e1a94651bf9ef108ee0bf4463445e4f84fde1dfe4 |
# -*- Mode: Python; coding: utf-8; indent-tabs-mode: nil; tab-width: 4 -*-
### BEGIN LICENSE
# Copyright (C) 2013 Brian Douglass bhdouglass@gmail.com
# This program is free software: you can redistribute it and/or modify it
# under the terms of the GNU General Public License version 3, as published
# by the Free Softwa... | bhdouglass/remindor-qt | remindor_qt/SimpleDialog.py | Python | gpl-3.0 | 3,085 | [
"Brian"
] | 9c8427f2fae6fac8dc3111b97d5ee96e23c07121c84b7ede1d8c4fd73ef96ae8 |
"""
The B{0install download} command-line interface.
"""
# Copyright (C) 2011, Thomas Leonard
# See the README file for details, or visit http://0install.net.
from __future__ import print_function
import sys
from zeroinstall import SafeException, _
from zeroinstall.injector import model, requirements
from zeroinsta... | timdiels/0install | zeroinstall/cmd/update.py | Python | lgpl-2.1 | 3,393 | [
"VisIt"
] | 81ecd419860b2758bc284d6b2cbe16496cb372d467f0a5470a4da36a1a9554c7 |
import contextlib
import itertools
import math
import os.path
import pickle
import shutil
import sys
import tempfile
import warnings
from contextlib import ExitStack
from io import BytesIO
from pathlib import Path
from typing import Optional
import numpy as np
import pandas as pd
import pytest
import xarray as xr
fro... | shoyer/xray | xarray/tests/test_backends.py | Python | apache-2.0 | 170,423 | [
"NetCDF"
] | c9af966ce700c62cfb16228588f2e3274972c4b8923f7d98fc2b04f3514b224a |
# -*- coding: utf-8 -*-
"""
Created on Tue Aug 22 19:20:21 2017
@author: Mike
prune if proposed BNN not DAG by prob)
"""
import pandas as pd
import numpy as np
import random
import time
from keras.models import Sequential
from keras.layers import Dense
from keras.layers import Dropout
from keras.layers import Flatt... | MikeDT/CNN_2_BBN | CNN_2_BBN.py | Python | apache-2.0 | 17,406 | [
"Amber"
] | 66d7b06ed81ca94f0643c68dbaf5dde3ee103e8ca634986c943e4f2f24cb150d |
#!/usr/bin/env python
from __future__ import print_function
import sys
import os
import argparse
from lib_mean import create_output_file, calc_monthly_mean, update_file_history
"""
What this script does:
Calculate monthly means over a number of years from CICE output.
How to run this script:
./cice_monthly_mean.... | CWSL/access-cm-tools | analyse/cice_monthly_mean.py | Python | apache-2.0 | 1,741 | [
"NetCDF"
] | ed28c9d7031dcf708541b10e1c68f5e38b1096b9578333384b1a498ccf1e11c1 |
# Copyright (C) 2004-2008 Paul Cochrane
#
# 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 your option) any later version.
#
# This program is distribut... | paultcochrane/pyvisi | examples/scatterPlot.py | Python | gpl-2.0 | 2,271 | [
"VTK"
] | 90543f4b051940cc23d8e5bce1d89e00e740ac026515e0be28121a4567797287 |
import code
import os
import readline
import sys
from octopus.shell.completer.octopus_rlcompleter import OctopusShellCompleter
class OctopusInteractiveConsole(code.InteractiveConsole):
def __init__(self, octopus_shell, locals=None):
super().__init__(locals=locals, filename="<console>")
self.octop... | octopus-platform/bjoern | python/octopus-tools/octopus/shell/octopus_console.py | Python | gpl-3.0 | 2,755 | [
"Octopus"
] | dd2a77e56974069cde0471fd3cc1b2ed288aa0146f80b9f96edccbbc9015d760 |
# -*- coding: utf-8 -*-
"""
Tests the "preview" selector in the LMS that allows changing between Staff, Student, and Content Groups.
"""
from nose.plugins.attrib import attr
from common.test.acceptance.tests.helpers import UniqueCourseTest, create_user_partition_json
from common.test.acceptance.pages.studio.auto_aut... | synergeticsedx/deployment-wipro | common/test/acceptance/tests/lms/test_lms_user_preview.py | Python | agpl-3.0 | 17,053 | [
"VisIt"
] | bc5694fcfba46bbffdf2832cc508a28f182d9fbd8884df8eecfbba5c5e1a101c |
import ast
class RemovePass(ast.NodeTransformer):
"""
Remove Pass keywords from source
If a statement is syntactically necessary, use an empty expression instead
"""
def __call__(self, node):
return self.visit(node)
def visit_ClassDef(self, node):
node.body = self.suite(node... | listyque/TACTIC-Handler | thlib/side/python_minifier/transforms/remove_pass.py | Python | epl-1.0 | 1,991 | [
"VisIt"
] | 2571da8cf76428d1c57f8fcecf05745e4d40244b116447f8a1cc96379abafb4e |
import numpy as np
from mayavi import mlab
from BDSpace.Coordinates import Cartesian
from BDSpace.Curve.Parametric import Helix
from BDSpace.Pathfinder import line_between_two_points, helix_between_two_points, arc_between_two_points
import BDSpaceVis as Visual
coordinate_system = Cartesian()
coordinate_system.rotate_... | bond-anton/Space_visualization | demo/04_pathfinder_demo.py | Python | apache-2.0 | 2,085 | [
"Mayavi"
] | c3e89f6e735f49130cc185761af50525cfbcb30d379ce8d9b8c9e4e0e1d8469e |
# -*- coding: utf-8 -*-
# pylint: disable=import-outside-toplevel,unbalanced-tuple-unpacking
"""Utility functions for pyIEM package
This module contains utility functions used by various parts of the codebase.
"""
from contextlib import contextmanager
import os
import sys
import time
import random
import logging
from ... | akrherz/pyIEM | src/pyiem/util.py | Python | mit | 23,511 | [
"NetCDF"
] | d049c62c695da7e2533f6fb1b398baf74a3c7ed611968e313636f795c66acf92 |
from celery.schedules import crontab
from celery.task import periodic_task
import datetime
from casexml.apps.stock.models import StockTransaction
from corehq.apps.commtrack.models import SupplyPointCase, StockState
from corehq.apps.locations.dbaccessors import get_users_by_location_id
from corehq.apps.locations.models ... | puttarajubr/commcare-hq | custom/ewsghana/alerts/alerts.py | Python | bsd-3-clause | 16,788 | [
"VisIt"
] | 0d68220d5fdf36dedba6ad46df155d748afb46e9f25996d4a68763d3027a50ee |
# Copyright (C) 2012-2014 W. Trevor King <wking@tremily.us>
#
# This file is part of rss2email.
#
# rss2email 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... | sciunto/rss2email | rss2email/__init__.py | Python | gpl-2.0 | 1,666 | [
"Brian"
] | 263534df06f2485765148a5d253c8b5be24508a5d2e2984514374ebfa3273f63 |
#!/usr/bin/env python -i
# preceding line should have path for Python on your machine
# plot.py
# Purpose: plot Temp of running LAMMPS simulation via GnuPlot in Pizza.py
# Syntax: plot.py in.lammps Nfreq Nsteps compute-ID
# in.lammps = LAMMPS input script
# Nfreq = plot data point every this many st... | akohlmey/lammps | python/examples/plot.py | Python | gpl-2.0 | 1,951 | [
"LAMMPS"
] | 1db3d0f6a6dc9612387b2c9c3a8ed526343e86de218ad94f9b1863d3a50317e8 |
# Date : 29th July
# Author : Alexander Baker
import sys
from pylab import figure, show, clf, savefig, cm
from numpy.fft import fft, fft2, ifft, ifft2, fftshift
from optparse import OptionParser
from numpy import *
def generateResolution(n):
return 2**n, (2**n)-1
def store_value(option, opt_str, value, parser):
... | ActiveState/code | recipes/Python/533148_Split_Step/recipe-533148.py | Python | mit | 6,940 | [
"Gaussian"
] | c1567ae02770d2675dca83f664d1107228f32e59cd55858ef2296ccbe32f69a1 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# ------------------------------------------------------------------------------
#
# Author: Gabriele Girelli
# Email: gigi.ga90@gmail.com
# Version: 1.2.1
# Date: 20170724
# Project: RNA FISH oligo design
# Description: filter BLASTN output based on:
# - homology (#... | ggirelli/potpourri | blast-filter/blast_filter.py | Python | mit | 10,188 | [
"BLAST"
] | 59a720a54ec0290896d79694dec049c21082867078eae5036107e791bf63efe4 |
""" MPF plugin which enables the Backbox Control Protocol (BCP) v1.0alpha"""
# bcp.py
# Mission Pinball Framework
# Written by Brian Madden & Gabe Knuth
# Released under the MIT License. (See license info at the end of this file.)
# The Backbox Control Protocol was conceived and developed by:
# Quinn Capen
# Kevin Kel... | jabdoa2/mpf | mpf/system/bcp.py | Python | mit | 35,241 | [
"Brian"
] | ac276c244c84b7489d1b39bafe2f745f3990696b4b36ea1001239e4b1fe9f3f7 |
"""This file contains code used in "Think DSP",
by Allen B. Downey, available from greenteapress.com
Copyright 2013 Allen B. Downey
License: GNU GPLv3 http://www.gnu.org/licenses/gpl.html
"""
from __future__ import print_function, division
import array
import copy
import math
import numpy as np
import random
import... | flake123p/ProjectH | DSP/ThinkDSP/ws/thinkdsp.py | Python | gpl-3.0 | 45,208 | [
"Gaussian"
] | 4e16e727e48185e7fe47498f309f2fbc2d8d36eddcecfe94a43265fff4a747b8 |
# Copyright 2000 by Jeffrey Chang, Brad Chapman. All rights reserved.
# Copyright 2006-2016 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.
"""Code to work wit... | zjuchenyuan/BioWeb | Lib/Bio/GenBank/__init__.py | Python | mit | 59,453 | [
"BioPerl",
"Biopython"
] | 2f31051645c815c0ba9f503c5aeb945802b76045adef4be00d24e06532f48aa4 |
# Copyright (c) 2018, Henrique Miranda
# All rights reserved.
#
# This file is part of the yambopy project
#
import numpy as np
def abs2(x):
return x.real**2 + x.imag**2
def lorentzian(x,x0,g):
height=1./(np.pi*g)
return height*(g**2)/((x-x0)**2+g**2)
def gaussian(x,x0,s,max_exp=50.,min_exp=-100.):
... | alexmoratalla/yambopy | yambopy/tools/funcs.py | Python | bsd-3-clause | 503 | [
"Gaussian"
] | ae8ac0f988ec361c8e8427ec1c9ddaa192308efc2076976887242ea71a8b2a44 |
import sys
sys.path.insert(1,"../../../")
import h2o
from tests import pyunit_utils
import random
def random_attack():
def attack(train, valid, x, y):
kwargs = {}
# randomly select parameters and their corresponding values
if random.randint(0,1): kwargs['mtries'] = random.ran... | madmax983/h2o-3 | h2o-py/tests/testdir_algos/rf/pyunit_DEPRECATED_random_attack_medium.py | Python | apache-2.0 | 3,533 | [
"Gaussian"
] | 9dbe9070902f3a5bf6838dbc5217b8a34cf6600015822b05bb1f8af3b3dd2004 |
#!/usr/bin/env python
# version is the same as ipyrad
from ipyrad import __version__
# analysis tools will have a class object that is upper case, which is
# called by a convenience function which is lower case, and has the
# same name as the module (file), such that when we import the function
# it clobbers the fi... | dereneaton/ipyrad | ipyrad/analysis/__init__.py | Python | gpl-3.0 | 2,093 | [
"Bioconda"
] | a7c498a1d92ca3d65fc0b00ec777db3279fc2d0063e4493569a9a7a4fe9db158 |
# SYSTEM LIBS
from matplotlib.colors import LogNorm
import matplotlib.pyplot as plt; plt.ion();
import matplotlib
import numpy as np
import pandas as pd
# from root_pandas import read_root
import sys
from itertools import islice
from scipy import signal # To find peaks, for edge-detecting the crystal
from scipy.optimiz... | f-forcher/crystal-channeling-analysis | channeling_efficiency_wavelet.py | Python | gpl-3.0 | 12,559 | [
"CRYSTAL",
"Gaussian"
] | ebaffaa8782563a76ea814eacab2b5ed822f4d4476f96a85caca1219c81cb585 |
# -*- coding: utf-8 -*-
"""
Output Plugin for Microsoft Riff-WAVE.
Copyright (c) 2006-2008 by Nyaochi
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... | rinrinne/cueproc-alternative | src/ce_wave.py | Python | gpl-2.0 | 1,437 | [
"VisIt"
] | 7ba472cd6f64b9ba56115ee94c3f8af4057b2ab2f39ec3948f2990945323b76c |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import unicode_literals
import abc
from monty.json import MSONable, MontyDecoder
import six
"""
Defines an abstract base class contract for Transformation object.
"""
__author__ = "Shyue Ping... | xhqu1981/pymatgen | pymatgen/transformations/transformation_abc.py | Python | mit | 2,734 | [
"pymatgen"
] | d1bee6760ad2c4091585c9e6c0a3a93eddf546d78691e74c196b65f1ad1b2ab3 |
from dnfpy.core.map2D import Map2D
import random
import sys
import numpy as np
from dnfpy.cellular.hardlib import HardLib
class BsRsdnfMap(Map2D):
"""
Map to handle the CellBsRsdnf in hardlib.
This map use a standard XY routing scheme with 4 router by cell
A spike is interpreted as a ... | bchappet/dnfpy | src/dnfpy/cellular/bsRsdnfMap.py | Python | gpl-2.0 | 5,287 | [
"NEURON"
] | 3655df01b36824a4a9cd5eb439273f3d8be61a7bc1610210dc210b548c259337 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Logging Facility
"""
import logging
import datetime
def print_msg(msg):
curtime = datetime.datetime.now()
mytime = "%s/%s/%s:%s.%s.%s" % \
(str(curtime.month), str(curtime.day), str(curtime.year),
str(curtime.hour), str(curtime.minute), str(c... | bdastur/utils | pystats/pystats_log.py | Python | apache-2.0 | 2,680 | [
"Brian"
] | 179bc80d1bb1fcfa93618286ea3e2bcf8ca86599c3222d92999d2d956ce6b9d1 |
from vtk import *
from vtk import *
source = vtkRandomGraphSource()
source.SetNumberOfVertices(25)
source.SetStartWithTree(True)
source.SetIncludeEdgeWeights(True)
view1 = vtkGraphLayoutView()
view1.AddRepresentationFromInputConnection(source.GetOutputPort())
view1.SetColorVertices(True)
view1.SetEdgeColorArrayName(... | collects/VTK | Examples/Infovis/Python/simple_selection.py | Python | bsd-3-clause | 1,259 | [
"VTK"
] | 4d0018a3eecabc16d05d83778908283943d963abe02b91df754f0582cf7dd28c |
#!/usr/bin/env python
# B a r a K u d a
#
# Compare time-series between some experiments!
#
# L. Brodeau, 2013
import sys
import os
import numpy as nmp
from netCDF4 import Dataset
import barakuda_ncio as bn
import barakuda_orca as bo
import barakuda_plot as bp
import barakuda_tool as bt
DEFAULT_LEG... | brodeau/barakuda | python/exec/compare_time_series.py | Python | gpl-2.0 | 16,307 | [
"NetCDF"
] | ba7350d735046fffd8e52ad2f3b4f1fe56e687bfe536038e35fbaa2eb2b4eecd |
#
# Author: Travis Oliphant 2002-2011 with contributions from
# SciPy Developers 2004-2011
#
from scipy._lib._util import getfullargspec_no_self as _getfullargspec
import sys
import keyword
import re
import types
import warnings
import inspect
from itertools import zip_longest
from scipy._lib import doccer... | andyfaff/scipy | scipy/stats/_distn_infrastructure.py | Python | bsd-3-clause | 137,917 | [
"Gaussian"
] | f3147a9849c48dc1ee2ba6095217ac9277e3e396b1dc694d43fd95c7a3f6db4c |
#!/usr/bin/python
# PySubSync
# A small utility that takes a file .srt of subtitles and changes
# the chronology and/or re-numbers the subtitles
#
#
# Copyright (C) 2015, Andrea Mentrelli <andrea.mentrelli@unibo.it>
#
# This program is free software: you can redistribute it and/or modify
# it under... | mentrelli/pysubsync | pysubsync.py | Python | gpl-3.0 | 14,815 | [
"Brian"
] | d85a2393f1ef830ab4aa2b49313b42bae394654ec412c7f4414eea37b5aae3e9 |
__author__ = 'cos'
import cPickle as pickle
import os
class Galaxy(object):
'''
Holds the information of the different planets available and their display.
'''
_dir = "maps/"
_extension = ".gal"
_planetInfoFile = "gui/planets/planetInfo.txt"
def __init__(self, name="default"):
s... | conan747/fallen-heaven | scripts/galaxy.py | Python | gpl-2.0 | 4,369 | [
"Galaxy"
] | e29fabcfd85468415abf4a673b8cf903858db663807b77d0b8d155766e83d468 |
from __main__ import vtk, qt, ctk, slicer
#
# LabelStatistics
#
class BenderLabelStatistics:
def __init__(self, parent):
import string
parent.title = "Bender Label Statistics"
parent.categories = ["Quantification"]
parent.contributors = ["Steve Pieper (Isomics), Johan Andruejol (Kitware)"]
paren... | ricortiz/BenderCraniosynostosis | Modules/Scripted/BenderLabelStatistics/BenderLabelStatistics.py | Python | apache-2.0 | 18,051 | [
"VTK"
] | 0e915a17d0941afa9afdcaf2fab6f3440d5c284773dce22bf8ab012f45f1d44b |
from __future__ import absolute_import
import logging
import os
import time
from celery import shared_task
from celery.contrib import rdb
from dj_experiment.models import Case as ModCase
from dj_experiment.models import Experiment as ModExperiment
from dj_experiment.models import FieldGroup as ModFieldGroup
from dj_e... | francbartoli/dj-experiment | dj_experiment/tasks/tasks.py | Python | mit | 4,736 | [
"NetCDF"
] | b55e95025ac0b02ab7a225a506baf51e457e725c7805f2d7ee72c0b414ab0b21 |
# Copyright cf-units contributors
#
# This file is part of cf-units and is released under the LGPL license.
# See COPYING and COPYING.LESSER in the root of the repository for full
# licensing details.
import cf_units._udunits2_parser.graph as graph # noqa: E402
from cf_units._udunits2_parser import parse as _parse #... | SciTools/cf_units | cf_units/tex.py | Python | lgpl-3.0 | 1,325 | [
"VisIt"
] | 619ac8913d97fd5bdc571a5fe5086eb792e66f23cc279e7eef5e364822c71953 |
# -*- coding: utf-8 -*-
{
"A location that specifies the geographic area for this region. This can be a location from the location hierarchy, or a 'group location', or a location that has a boundary for the area.": "Uma localização que especifica a área geográfica para esta região. Pode ser uma localização da hierarq... | sahana/Turkey | languages/pt.py | Python | mit | 207,853 | [
"VisIt"
] | c25b1722d97c4900307b261388d77f5d3848875404e1c928d6a004b4f5218855 |
from pywrap.ast import (Ast, Enum, Typedef, Function, Clazz, Constructor,
Method, Field, Param, TemplateMethod, TemplateClass,
TemplateFunction)
from pywrap.utils import lines
from nose.tools import assert_equal, assert_multi_line_equal
def test_empty_ast_string():
... | AlexanderFabisch/cythonwrapper | pywrap/test/test_ast.py | Python | bsd-3-clause | 5,315 | [
"VisIt"
] | 59de13aeb124f5ebee91baf62a9e0c4952ceed86f506b9c81ed6060dd93c0725 |
#! /usr/bin/env python
# -*- coding: utf8 -*-
#===============================================================================
# Author: Walapa Muangjeen
#===============================================================================
__version__ = '2.0'
import sys
import os
import codecs
import Config... | yang1fan2/nematus | mosesdecoder-master/contrib/makemteval/makemteval.py | Python | bsd-3-clause | 8,012 | [
"Jaguar"
] | 79c6ea65d01900dcef3b807d9db1968d1d587b800e57f6f68af9f4d2efd7e4ec |
'''
Driver method to run the sld_mol module
'''
import sys
import string
import os
import shutil
import time
import sassie.calculate.sld_mol.sld_mol as sld_mol
#import sld_mol as sld_mol
import sassie.interface.input_filter as input_filter
import sassie.interface.sld_mol.sld_mol_filter as sld_mol_filter
#import sld_m... | madscatt/zazzie | src_2.7/sassie/calculate/sld_mol/gui_mimic_sld_mol.py | Python | gpl-3.0 | 7,405 | [
"Gaussian"
] | 167ef7dd2ff1423565bd8225bda88f52c2f453bdf9f73b5cae6206a322a9cac4 |
# coding: utf-8
# Copyright 2013 Google Inc. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by ap... | dgerod/cb4oeu | tests/functional/tests.py | Python | apache-2.0 | 49,000 | [
"VisIt"
] | 5dbf2ffa53d83dcba8573a6931f3ee382a18b0c80e9fb7fbf29d447deb497e1d |
# iCraft is Copyright 2010 both
#
# The Archives team:
# <Adam Guy> adam@adam-guy.com AKA "Adam01"
# <Andrew Godwin> andrew@aeracode.org AKA "Aera"
# <Dylan Lukes> lukes.dylan@gmail.com AKA "revenant"
# <Gareth Coles> colesgareth2@hotmail.com... | TheArchives/Nexus | core/entities/giant.py | Python | bsd-2-clause | 7,791 | [
"VisIt"
] | 6762eb288ab2bcefd26ff51c9a7ead3f1540b805157217f5ea2a5d64e548acfd |
import numpy as np
from gpaw.test import wrap_pylab
wrap_pylab()
import pylab as pl
def plot_EELS(head):
# plot EELS spectra
pl.figure(figsize=(4,7))
d = np.loadtxt(head + '_q_list')
q = d[:,0]
ndata = q.shape[0] + 1
w = np.zeros(ndata)
w2 = np.zeros(ndata)
for i in range(1,ndata):
... | robwarm/gpaw-symm | gpaw/test/big/response/plot_spectra.py | Python | gpl-3.0 | 1,488 | [
"GPAW"
] | ee1dea6ab7efbe6c6ed92cd84865c675da856d274cd1b7ce903b57429fa59f55 |
""":func:`~pandas.eval` parsers
"""
import ast
import tokenize
from functools import partial
import pandas as pd
from pandas import compat
from pandas.compat import StringIO, lmap, zip, reduce, string_types
from pandas.core.base import StringMixin
from pandas.core import common as com
from pandas.tools.util import c... | pjryan126/solid-start-careers | store/api/zillow/venv/lib/python2.7/site-packages/pandas/computation/expr.py | Python | gpl-2.0 | 25,480 | [
"VisIt"
] | 84bbd0d764687c2cf072e8b9abfe77fa0684532a89d5ebaaa68d72a30722db16 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import division, unicode_literals
import unittest
import pickle
import warnings
from pymatgen.util.testing import PymatgenTest
from pymatgen.core.periodic_table import Element, Specie, DummySp... | johnson1228/pymatgen | pymatgen/core/tests/test_periodic_table.py | Python | mit | 13,092 | [
"pymatgen"
] | 83e3e6367ed1c1de1790cb220a0d983d89f5235e02e1b70bad325568713ef42e |
import logging, re, os, select, signal
try:
import autotest.common as common
except ImportError:
import common
from autotest.client import utils, os_dep
from autotest.client.shared import error
from autotest.client.shared.base_utils import VersionableClass
class ServiceManagerInterface(VersionableClass):
... | spcui/autotest | client/shared/openvswitch.py | Python | gpl-2.0 | 18,597 | [
"ASE"
] | d1a1b6ed6809202ce23e551c4b55865c423e767418b3a01305407227a6a577f9 |
from diagnostic import unitroot_adf
import scikits.statsmodels.datasets.macrodata.data as macro
macrod = macro.load().data
print macro.NOTE
print macrod.dtype.names
datatrendli = [
('realgdp', 1),
('realcons', 1),
('realinv', 1),
('realgovt', 1),
... | wesm/statsmodels | scikits/statsmodels/sandbox/stats/ex_newtests.py | Python | bsd-3-clause | 781 | [
"ADF"
] | c98062ba7224c13e555c514c0f14719e00c12417677109cda7c6eeacae2fec84 |
import sys
sys.path.insert(1, "../../../")
import h2o
from tests import pyunit_utils
import pandas as pd
from h2o.estimators.gbm import H2OGradientBoostingEstimator
from h2o.utils.distributions import CustomDistributionGaussian
def prepare_date(data, date_column):
data[date_column] = pd.to_datetime(data[date_... | h2oai/h2o-3 | h2o-py/tests/testdir_algos/gbm/pyunit_PUBDEV_4076_custom_distribution_demo.py | Python | apache-2.0 | 4,614 | [
"Gaussian"
] | 718f9e40310d69e451bc0f3d280165ebea90bd2c3bc79e9f2b6cd50d323b538f |
# tests 19991 weighted paths of Wnt pathway
plRead = open("Wnt-weighted-paths-pathlinker.txt", "r")
csRead = open("Wnt-weighted-paths-cytoscape.txt", "r")
# dict that stores path: weight
pl = {}
epsilon = 0.0001
def sameFloat(a, b):
return abs(a - b) <= epsilon
for line in plRead:
words = line.split( )
weight =... | tmmurali/PathLinker | data/Wnt/test-files/Wnt-NLT-weighted-paths-comparison.py | Python | gpl-3.0 | 658 | [
"Cytoscape"
] | 28be328a73cf05814f5db729ae64713808385fd0303520c2ed5c63bcd1dfe97b |
#!/usr/bin/python
#
# @author: Gaurav Rastogi (grastogi@avinetworks.com)
# Eric Anderson (eanderson@avinetworks.com)
# module_check: supported
#
# Copyright: (c) 2017 Gaurav Rastogi, <grastogi@avinetworks.com>
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
#
ANSIB... | alexlo03/ansible | lib/ansible/modules/network/avi/avi_trafficcloneprofile.py | Python | gpl-3.0 | 4,161 | [
"VisIt"
] | 714f7754234ad800eb7d02d0fa6f69a7bce3ca3bfec7899bf5859cd4a77c913e |
""" The StalledJobAgent hunts for stalled jobs in the Job database. Jobs in "running"
state not receiving a heart beat signal for more than stalledTime
seconds will be assigned the "Stalled" state.
.. literalinclude:: ../ConfigTemplate.cfg
:start-after: ##BEGIN StalledJobAgent
:end-before: ##END
:dedent... | DIRACGrid/DIRAC | src/DIRAC/WorkloadManagementSystem/Agent/StalledJobAgent.py | Python | gpl-3.0 | 25,223 | [
"DIRAC"
] | 8933cbd83d0018fe8ae8c8b57c3e52640cf4e8729dd01145dc5c3baf22e7dbcb |
# !/usr/bin/env python
import vtk
def get_program_parameters():
import argparse
description = 'Highlighting a selected object with a silhouette.'
epilogue = '''
Click on the object to highlight it.
The selected object is highlighted with a silhouette.
'''
parser = argparse.ArgumentParser(descript... | lorensen/VTKExamples | src/Python/Picking/HighlightWithSilhouette.py | Python | apache-2.0 | 4,453 | [
"VTK"
] | 5d463c29de543c3b684e170e0644c37c28b6150e261550e0438dffd0a236fb74 |
import sys
import os
import psycopg2
import xml.etree.ElementTree as ET
from lxml import etree
import math
from collections import Counter
from operator import itemgetter
import datetime
import nltk
import random
import collections
#For use in reading LGL test sets
def block(ch):
'''
Return the Unicode block... | grantdelozier/TopoCluster | experimental/TestResolverV6_Pop.py | Python | apache-2.0 | 34,936 | [
"FEFF"
] | 4c256e11e4a3015e5e4f76553f9aac6f1c7a9979c3d06fd1e411488c0c4feb02 |
#
# @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 file is part of Psi4.
#
# Psi4 is free software; you can redistribute it and/or modify
#... | rmcgibbo/psi4public | psi4/driver/qcdb/cfour.py | Python | lgpl-3.0 | 46,031 | [
"CFOUR",
"Psi4"
] | 8a116c864447157dc845bbf16e3a4aa41e3a9bf274dd17d4a4aaad02f3392399 |
# ----------------------------------------------------------------------
# LAMMPS - Large-scale Atomic/Molecular Massively Parallel Simulator
# http://lammps.sandia.gov, Sandia National Laboratories
# Steve Plimpton, sjplimp@sandia.gov
#
# Copyright (2003) Sandia Corporation. Under the terms of Contract
# DE... | rbberger/lammps | python/lammps/constants.py | Python | gpl-2.0 | 1,394 | [
"LAMMPS"
] | 2d2a0ff60b4e28e7a0b4f6439075753dffc910e3901e24535c1c8a206b7f4b5c |
"""
bct v0.01
Bitcoin Trade Simulatorf
Copyright 2011 Brian Monkaba
This file is part of ga-bitbot.
ga-bitbot is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
... | Pascal66/ga-bitbot | bct_alt.py | Python | gpl-3.0 | 39,130 | [
"Brian"
] | ef14bd7f7151b65130de930673155aa3168c7ef5cd6a7bf69f525d4a44784a9d |
# Collection of adjectives
# September 19 2014
# Christian Bauer
d = { }
drev = { }
num = 0
def ins(x):
global num,d,drev
d[num] = x
drev[x] = num
num = num + 1
ins('abandoned')
ins('able')
ins('absolute')
ins('adorable')
ins('adventurous')
ins('academic')
ins('acceptable')
ins('acclaimed')
ins('acco... | cjbauer/brainphrase | adjectives.py | Python | agpl-3.0 | 20,322 | [
"exciting"
] | 22740d63309a8ade8673dfdeef3a0cff58c5a1e1939afb74c5767a8f54aa2871 |
# vim: ai ts=2 sts=2 et sw=2
from django.contrib.auth.models import User
from django.core.exceptions import ValidationError
from django.test import TestCase
from game.models import Bond, Charter, Exchange, Player, Territory, Resources
def create_test_game():
usernames = ['arthur', 'brian', 'blacknight', 'caesar', '... | jimmyskull/ironandblood | ironandblood/game/tests.py | Python | mit | 45,483 | [
"Brian"
] | 7fc30c79575ba4acc89086fcbd87f34d231e7da8e09dc45ce97bf703f1d8f813 |
from __future__ import print_function
"""
To add another bonded force interacton in one of the existing categories:
1. Add the force name to the appropriate forcelist
2. Define the parameters. Order should reflect the most common order.
Different orderers are specified by providing a parameterlist with
the sa... | shirtsgroup/InterMol | intermol/forces/forcedata.py | Python | mit | 18,422 | [
"Desmond",
"Gromacs",
"LAMMPS"
] | 0ac9d54cf294852b4e5d76b85cd6bf3e40fab247ef314ec2161ec879e7d9d24b |
#!/usr/bin/env python
# This file is part of Androguard.
#
# Copyright (c) 2012 Geoffroy Gueguen <geoffroy.gueguen@gmail.com>
# All Rights Reserved.
#
# Androguard 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 Fo... | xysec/androguard | demos/dad_emul.py | Python | apache-2.0 | 5,289 | [
"VisIt"
] | 93a214033c2cc622d6cceb789268a12b3781249e0510cd968f775fcfae8a1dda |
# -*- coding: utf-8 -*-
"""
Example 1 for acoular library
demonstrates different features of acoular,
uses measured data in file example_data.h5
calibration in file example_calib.xml
microphone geometry in array_56.xml (part of acoular)
Copyright (c) 2006-2015 The Acoular developers.
All rights reserved.
... | waynezv/ANN | example.py | Python | mit | 7,342 | [
"VisIt"
] | 223223b7998cbe251b66fa5750db54005e1fbd98f63140e05ffef68bcf87ac5d |
'''
Central/Satellite galaxy assembly biased model
'''
import numpy as np
import os.path as path
from halo_utils import load_project_halocat
from Corrfunc.theory.wp import wp
from halotools.sim_manager import CachedHaloCatalog
from halotools.empirical_models import HodModelFactory
from halotools.empirical_models impo... | mjvakili/gambly | code/biased_hod.py | Python | mit | 4,117 | [
"Galaxy"
] | 9832f47b0db051dac5ab614ddd12773256859ddfc782d8b2ed59f284689426ef |
input_name = '../examples/diffusion/subdomains.py'
output_name = 'test_subdomains.vtk'
from testsBasic import TestInput
class Test( TestInput ):
pass
| olivierverdier/sfepy | tests/test_input_subdomains.py | Python | bsd-3-clause | 155 | [
"VTK"
] | 8ecb7ec6e32574b686a49496a107320e1c17d23baebac01893934e484745137f |
# -*- coding: utf-8 -*-
"""
codegen
~~~~~~~
Extension to ast that allow ast -> python code generation.
:copyright: Copyright 2008 by Armin Ronacher.
:license: BSD.
"""
from attest.ast import (BINOP_SYMBOLS, BOOLOP_SYMBOLS, CMPOP_SYMBOLS,
UNARYOP_SYMBOLS, NodeVisitor)
def ... | dag/attest | attest/codegen.py | Python | bsd-2-clause | 16,297 | [
"VisIt"
] | de5b5cc6588c43e968cd7a6caf10ce2c24a20bf98eb0d873c8e4f2609942eb8f |
#
# Copyright (c) 2015 nexB Inc. and others. All rights reserved.
# http://nexb.com and https://github.com/nexB/scancode-toolkit/
# The ScanCode software is licensed under the Apache License version 2.0.
# Data generated with ScanCode require an acknowledgment.
# ScanCode is a trademark of nexB Inc.
#
# You may not use... | yashdsaraf/scancode-toolkit | src/commoncode/filetype.py | Python | apache-2.0 | 7,706 | [
"VisIt"
] | 19442a2bacef49cae959238270d7a2bac5a886b1feb5bd150e2ed05722c3f6db |
"""
@name: Modules/Core/__init__.py
@author: D. Brian Kimmel
@contact: D.BrianKimmel@gmail.com
@copyright: (c) 2014-2020 by D. Brian Kimmel
@note: Created on Mar 1, 2014
@license: MIT License
Core is the main portion of every PyHouse node.
It is always present.
"""
__updated__ = '2020-02-18'
__versio... | DBrianKimmel/PyHouse | Project/src/Modules/Core/__init__.py | Python | mit | 2,033 | [
"Brian"
] | 13bffd7b52252556c4c941ce17633b9a5a411a6397cd763721715c5ace7af6f2 |
#!/usr/bin/env python2
# encoding: utf-8
__license__ = 'GPL v3'
__copyright__ = '2008, Kovid Goyal kovid@kovidgoyal.net'
__docformat__ = 'restructuredtext en'
'''
A parser for search queries with a syntax very similar to that used by
the Google search engine.
For details on the search query syntax see :class:`Sear... | elssar/calibre | src/calibre/utils/search_query_parser.py | Python | gpl-3.0 | 30,993 | [
"Brian"
] | 5431aca0ef6b146aef2c37d3c18ff16ccbc420d55b092eba5c6df119383f752f |
from hic import *
import networkx as nx
import datetime as dt
import os.path
import argparse
import logging
import pysam
import vcf
import sys
# log config
logging.basicConfig(filename='snpNetwork.log',level=logging.DEBUG)
#
# Read base and quality
#
def read_base_and_quality(alignedRead, pos):
return alignedRea... | koadman/proxigenomics | graph/src/snpNetwork.py | Python | gpl-2.0 | 8,497 | [
"pysam"
] | 92d5a2dac30ad4f6d271bd8e02b86ed4d7a24b73b08a884e67f660e62390b6d1 |
#!/usr/bin/env python3
import os, re, sys
from glob import glob
from argparse import ArgumentParser
parser = ArgumentParser(prog='check-packages.py',
description="Check package table completeness")
parser.add_argument("-v", "--verbose",
action='store_true',
... | rbberger/lammps | doc/utils/check-packages.py | Python | gpl-2.0 | 2,949 | [
"LAMMPS"
] | 005e4b6500f4bab3dfba5a7e9df38147a48497ea3b02a8446abca4b291176ae3 |
# -*- coding: utf-8 -*-
import collections
import datetime
import hashlib
import json
import os
import stat
import tarfile
from copy import deepcopy
from tempfile import mkdtemp
from django.conf import settings
from django.core import mail
from django.core.files.storage import default_storage as storage
from django.co... | andymckay/zamboni | mkt/webapps/tests/test_tasks.py | Python | bsd-3-clause | 32,416 | [
"exciting"
] | fa7eb20a7b05b5e39f3bc890ac01b6199ff00a26c80279f5700354fa458e7223 |
import pytest
from pysisyphus.helpers import geom_loader
from pysisyphus.run import run_from_dict
from pysisyphus.testing import using
@using("xtb")
def test_opt_coord_type(this_dir):
preopt_ct, tsopt_ct, endopt_ct = ("dlc", "redund", "tric")
run_dict = {
"geom": {
"type": "cart",
... | eljost/pysisyphus | tests/test_opt_coord_types/test_opt_coord_types.py | Python | gpl-3.0 | 1,412 | [
"xTB"
] | 608179dd83b08ebc27ad70dc6010a426055d2ef2bf44c0e68600d5c79360f383 |
""" DIRAC Workload Management System utility module to get available memory and processors from mjf
"""
import os
import urllib2
__RCSID__ = "$Id$"
def getJobFeatures():
features = {}
if 'JOBFEATURES' not in os.environ:
return features
for item in ( 'allocated_cpu', 'hs06_job', 'shutdowntime_job', 'grace_s... | Andrew-McNab-UK/DIRAC | WorkloadManagementSystem/Utilities/JobParameters.py | Python | gpl-3.0 | 1,041 | [
"DIRAC"
] | c9b7c70399c499a701ca5285eae8bb63b052b6eade40e551429ba2ad14b84613 |
# Copyright (C) 2002, Thomas Hamelryck (thamelry@binf.ku.dk)
# 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.
"""Output of PDB files."""
from Bio._py3k import basestring
from Bio.PDB.StructureBuilde... | zjuchenyuan/BioWeb | Lib/Bio/PDB/PDBIO.py | Python | mit | 8,320 | [
"Biopython"
] | d2c76b8a99d68095cfd5baf53ab2d9d539d0d50214d53149ada0a7709f483778 |
import requests
from slackclient import SlackClient
from kalliope import Utils
from kalliope.core.NeuronModule import NeuronModule, MissingParameterException
Slack_Actions = (
"POST",
"READ",
"USERS"
)
class Slack(NeuronModule):
def __init__(self, **kwargs):
super(Slack, self).__init__(**k... | kalliope-project/kalliope_neuron_slack | slack.py | Python | mit | 7,287 | [
"NEURON"
] | ff917aa1f2c6038b538dafec63408d3f99b6875af5e710ecdf78292c10cae861 |
# Copyright 2017 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | tensorflow/tensorflow | tensorflow/python/autograph/pyct/transformer.py | Python | apache-2.0 | 16,916 | [
"VisIt"
] | f915d763ca06f0a9be7ee90b627e088b385c9f3333bdba9e7ede148783dbb6b2 |
from base import AbstractLogicalFile, AbstractFileMetaData # noqa
from generic import GenericFileMetaData, GenericLogicalFile # noqa
from raster import GeoRasterFileMetaData, GeoRasterLogicalFile # noqa
from netcdf import NetCDFFileMetaData, NetCDFLogicalFile # noqa
from geofeature import GeoFeatureFil... | ResearchSoftwareInstitute/MyHPOM | hs_file_types/models/__init__.py | Python | bsd-3-clause | 530 | [
"NetCDF"
] | b70e3b192620a07f5ee674e671e922857725f3cf78f371171f6df55e208f8fc4 |
# Copyright (c) Anand Patil, 2007
__docformat__ = 'reStructuredText'
__all__ = ['GaussianProcess','GPEvaluation','GPSubmodel']
import pymc as pm
import copy
import numpy as np
from Realization import Realization
__all__ = ['GaussianProcess', 'GPEvaluation', 'GPSubmodel']
def gp_logp(x, M, C, mesh, f_eval, M_obs, ... | matthew-brett/pymc | pymc/gp/gp_submodel.py | Python | mit | 7,914 | [
"Gaussian"
] | 5896ce5b460728919c619d4e359d00c95ee7c486b56a13ce2cf64f84956f8616 |
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import json
import os
import unittest
import warnings
from pymatgen.core import SETTINGS
from pymatgen.alchemy.filters import ContainsSpecieFilter
from pymatgen.alchemy.materials import TransformedStructure
from pymatgen.core... | vorwerkc/pymatgen | pymatgen/alchemy/tests/test_materials.py | Python | mit | 5,417 | [
"VASP",
"pymatgen"
] | 427dafd4fbf31c0f617f27fdeb474fbdac95df7a0a58fb3c48cc52f409b85cec |
"""
Generate samples of synthetic data sets.
"""
# Authors: B. Thirion, G. Varoquaux, A. Gramfort, V. Michel, O. Grisel,
# G. Louppe, J. Nothman
# License: BSD 3 clause
import numbers
import array
from collections.abc import Iterable
import numpy as np
from scipy import linalg
import scipy.sparse as sp
fro... | glemaitre/scikit-learn | sklearn/datasets/_samples_generator.py | Python | bsd-3-clause | 61,271 | [
"Gaussian"
] | 1131fb416e7955c2f58621dcce1458cb212e5f564e42e3d4e3f42b7e91027817 |
import numpy as np
from numpy.testing import assert_array_equal
from landlab import RasterModelGrid
from landlab.io.netcdf import write_raster_netcdf
try:
import netCDF4 as nc
except ImportError:
pass
def test_append_with_time(tmpdir):
field = RasterModelGrid((4, 3))
field.add_field("topographic__el... | cmshobe/landlab | tests/io/netcdf/test_write_raster_netcdf.py | Python | mit | 8,104 | [
"NetCDF"
] | bc067343505057fa8bf7fb8dc5b49c56da197fa696fdee183248ed5c22f029d9 |
"""
Module responsible for translating variant data into GA4GH native
objects.
"""
from __future__ import division
from __future__ import print_function
from __future__ import unicode_literals
import datetime
import glob
import hashlib
import json
import os
import random
import re
import pysam
import ga4gh.server.ex... | saupchurch/server | ga4gh/server/datamodel/variants.py | Python | apache-2.0 | 52,894 | [
"pysam"
] | 03466d8c2edee4e2420e8bb23e8053ba9648354570216ff238bc67cd0fd6094d |
from bs4 import BeautifulSoup
import urllib
from scraper import *
import re
class Galaxy(Scraper):
def get_planets(self, galaxy, system):
"""
Get planets in the given galaxy and system
"""
self.logger.info('Getting data from system %s:%s' % (galaxy, system))
url = self.url_... | winiciuscota/OG-Bot | ogbot/scraping/galaxy.py | Python | mit | 3,748 | [
"Galaxy"
] | a93765f02c55cf404e14400c7078c1faeac488a82cdd56cffa22b2320c82c918 |
# coding=utf-8
# Copyright 2022 The Google Research Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicab... | google-research/google-research | dac/utils.py | Python | apache-2.0 | 4,206 | [
"Gaussian"
] | f5b239c760fea3d8aa046521727eb838fc00125eccb9bdb8d7257a2c5ea00378 |
# mutagengui.py: GTK based file tagger.
# Copyright (C) 2009 Stephen Fairchild (s-fairchild@users.sourceforge.net)
#
# 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... | leofiore/idjc | python/mutagentagger.py | Python | gpl-2.0 | 26,690 | [
"VisIt"
] | 275bf59b06f704f106317cf87e3509c0f53bd1f16ab849ab30c845b0479eb3c6 |
#!/usr/bin/env python
from __future__ import division, print_function
from collections import defaultdict
import sys
# OpenMM Imports
import simtk.openmm as mm
import simtk.openmm.app as app
import parmed as pmd
# ParmEd Imports
from parmed import load_file, unit as u
from parmed.charmm import CharmmParameterSet
from... | leelasd/OPLS-AAM_for_Gromacs | GMX_TEST/PARMED_vs_GROMACS/ARGININE/test.py | Python | mit | 1,552 | [
"CHARMM",
"OpenMM"
] | 1b947d93d0aafd8f32ab8ede4b12d3a97bc11097337cbfe446c4060ae84cbc6e |
# -*- coding: utf-8 -*-
"""
End-to-end tests for the LMS registration flow.
"""
import re
import requests
from bok_choy.web_app_test import WebAppTest
from lms.envs.ga_bok_choy import EMAIL_FILE_PATH
from ...fixtures.course import CourseFixture
from ...pages.lms import BASE_URL
from ...pages.lms.account_settings impor... | nttks/edx-platform | common/test/acceptance/tests/lms/test_ga_register.py | Python | agpl-3.0 | 8,935 | [
"VisIt"
] | fa3184674d079f72760b5313d799ad06c74b1ebcd8bb3825c8342f6a91aca025 |
"""
Does the following:
1. Generates and saves random secret key
2. Removes the taskapp if celery isn't going to be used
3. Removes the .idea directory if PyCharm isn't going to be used
4. Copy files from /docs/ to {{ cookiecutter.project_slug }}/docs/
TODO: this might have to be moved to a pre_gen_hook
A portio... | webyneter/cookiecutter-django | hooks/post_gen_project.py | Python | bsd-3-clause | 9,773 | [
"GULP"
] | 8296737d81671cd6f55f2a6359344ed427f8a3ef540a90eb730d9a94bd7fd761 |
#! /usr/bin/python
# -*- coding: utf-8 -*-
from __future__ import print_function
# import funkcí z jiného adresáře
import sys
import os.path
import unittest
import scipy
import numpy as np
import logging
logger = logging.getLogger(__name__)
path_to_script = os.path.dirname(os.path.abspath(__file__))
sys.path.appen... | mjirik/pyseg_base | tests/graph_test.py | Python | bsd-3-clause | 9,941 | [
"VTK"
] | 1fccdc47bc29c238bb763cb59624b93f0f5828592dd78bcefbf88aeeebd7fcff |
"""
Copyright (c) 2014 Brian Muller
Copyright (c) 2015 OpenBazaar
"""
import random
from twisted.internet import defer
from zope.interface import implements
import nacl.signing
from rpcudp import RPCProtocol
from dht.node import Node
from dht.routing import RoutingTable
from log import Logger
from interfaces imp... | jorik041/Network | dht/protocol.py | Python | mit | 6,596 | [
"Brian"
] | 780f40b5441948dcadb6c400720034273cca79e7ffc50a4d6fc386d6deb7ef6f |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
This module implements representations of slabs and surfaces, as well as
algorithms for generating them. If you use this module, please consider
citing the following work::
R. Tran, Z. Xu, B. Radhakris... | davidwaroquiers/pymatgen | pymatgen/core/surface.py | Python | mit | 87,214 | [
"pymatgen"
] | 3a9e11b843e2aa6bc7b8da4a6ed06fa7bf261c72c788043e5030e626d41fa6dc |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
'''
Hybrid LFP scheme example script, applying the methodology with the model of:
Potjans, T. and Diesmann, M. "The Cell-Type Specific Cortical Microcircuit:
Relating Structure and Activity in a Full-Scale Spiking Network Model".
Cereb. Cortex (2014) 24 (3): 785-806.
doi: ... | espenhgn/hybridLFPy | examples/Hagen_et_al_2016_cercor/cellsim16pops_modified_spontan.py | Python | gpl-3.0 | 6,661 | [
"NEURON"
] | 1191275b012b85b3a9ad35bd016848c627c2428d4f8f9e87f27459fa3e5b85e4 |
"""
Window functions (:mod:`scipy.signal.windows`)
==============================================
The suite of window functions for filtering and spectral estimation.
.. currentmodule:: scipy.signal.windows
.. autosummary::
:toctree: generated/
get_window -- Return a window of a given length and type.
... | lhilt/scipy | scipy/signal/windows/__init__.py | Python | bsd-3-clause | 1,772 | [
"Gaussian"
] | d48e521f461b35dfa1e67eb76305c824e535ab62ae3376ce33cf1fe64b2cf9cf |
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