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"""
Tests for building models for parameter selection
"""
from collections import OrderedDict
import symengine
from pycalphad import variables as v
from espei.parameter_selection.model_building import build_feature_sets, build_candidate_models
from espei.sublattice_tools import generate_symmetric_group, sorted_inter... | PhasesResearchLab/ESPEI | tests/test_model_building.py | Python | mit | 9,390 | [
"pycalphad"
] | 53f02aa9a222e69a21130e2418733c9762a4f79d45208bd657c006a59f81e461 |
import os
import pandas as pd
import pdb
import math
import time
from sqlalchemy import create_engine
from sqlalchemy.orm import sessionmaker
from models import AD_View
from sklearn import svm
from sklearn.model_selection import train_test_split
from sklearn import ensemble
from sklearn import metrics
import numpy as n... | bhzunami/Immo | immo/scikit/scripts/anomaly_detection.py | Python | mit | 6,624 | [
"Gaussian"
] | f553130dbe6d7a3d18967695bc1ff06a5b506cb0ddb6743f37228728e4b38277 |
# !usr/bin/env python2
# -*- coding: utf-8 -*-
#
# Licensed under a 3-clause BSD license.
#
# @Author: Brian Cherinka
# @Date: 2016-09-15 14:50:00
# @Last modified by: Brian Cherinka
# @Last Modified time: 2017-02-10 17:54:00
from __future__ import print_function, division, absolute_import
import distutils
import... | bretthandrews/marvin | python/marvin/tools/modelcube.py | Python | bsd-3-clause | 18,903 | [
"Brian"
] | a96d0b76eee667bfe319e64fd705c4f4ca22743109f50009e1dcb198ebf13932 |
# -*- Mode: Python; coding: utf-8; indent-tabs-mode: nil; tab-width: 4 -*-
### BEGIN LICENSE
# Copyright (C) 2014 Brian Douglass bhdouglass@gmail.com
# This program is free software: you can redistribute it and/or modify it
# under the terms of the GNU General Public License version 3, as published
# by the Free Softwa... | bhdouglass/remindor | remindor/scheduler.py | Python | gpl-3.0 | 2,615 | [
"Brian"
] | ebf2966372728d06996314b70f69785cab7fd7fa69666132fcdb96b886602b17 |
##
# Copyright 2013 Ghent University
#
# This file is part of EasyBuild,
# originally created by the HPC team of Ghent University (http://ugent.be/hpc/en),
# with support of Ghent University (http://ugent.be/hpc),
# the Flemish Supercomputer Centre (VSC) (https://vscentrum.be/nl/en),
# the Hercules foundation (http://w... | valtandor/easybuild-easyblocks | easybuild/easyblocks/e/esmf.py | Python | gpl-2.0 | 4,293 | [
"NetCDF"
] | 1adbf9001f951741c42df624eeba550a36dcfac0290ce77689bc631a5d27fd29 |
# -*- coding: utf-8
# pylint: disable=line-too-long
"""
Classes to define and work with anvi'o pangenomics workflows.
"""
import os
import anvio
import anvio.terminal as terminal
from anvio.errors import ConfigError
from anvio.workflows import WorkflowSuperClass
from anvio.workflows.contigs import ContigsDBWorkf... | meren/anvio | anvio/workflows/pangenomics/__init__.py | Python | gpl-3.0 | 7,684 | [
"BLAST"
] | 3c4748cd5996de78e4ea74a2b27db608480ccb95c17effcf7c29a61951930321 |
# Copyright 2018 Amazon.com, Inc. or its affiliates. All Rights Reserved.
# SPDX-License-Identifier: Apache-2.0
from typing import List, Optional, Tuple
import numpy as np
from scipy.special import erf
from ...quadrature.interfaces.standard_kernels import IRBF
from ...quadrature.kernels.bounds import BoxBounds
from... | EmuKit/emukit | emukit/quadrature/kernels/quadrature_rbf.py | Python | apache-2.0 | 14,186 | [
"Gaussian"
] | 86c9f600e3c855f4a4c738a213b71439703156cb93d1c3ad9da243a419afc7c4 |
from __future__ import print_function, division
from sympy.core import S, C, sympify
from sympy.core.function import Function, ArgumentIndexError
from sympy.core.logic import fuzzy_and
from sympy.ntheory import sieve
from math import sqrt as _sqrt
from sympy.core.compatibility import reduce, as_int, xrange
from sympy... | cccfran/sympy | sympy/functions/combinatorial/factorials.py | Python | bsd-3-clause | 17,750 | [
"VisIt"
] | 0617ab74061e60f346628bf4c92a49cdb32064f8bbc51b377e9bb478369a7186 |
"""Support for package tracking sensors from 17track.net."""
import logging
from datetime import timedelta
import voluptuous as vol
from homeassistant.components.sensor import PLATFORM_SCHEMA
from homeassistant.const import (
ATTR_ATTRIBUTION,
ATTR_LOCATION,
CONF_PASSWORD,
CONF_SCAN_INTERVAL,
CONF... | Cinntax/home-assistant | homeassistant/components/seventeentrack/sensor.py | Python | apache-2.0 | 10,865 | [
"VisIt"
] | 9feea18c0e8931859e7230ec6bd222e42df0897bc9395ee606e196f880f05376 |
__author__ = 'Elahe'
import ephem
import numpy as np
import json
from operator import attrgetter
from numpy import *
import time
''' Constants '''
inf = 1e10
eps = 1e-10
#temp variable
AllF = np.zeros((4206,7))
class Data(object):
def __init__(self, date, site):
self.Date = date
self.Site =... | elahesadatnaghib/feature-based-scheduler | FBDE.py | Python | mit | 27,590 | [
"VisIt"
] | 3dc1e93f8ad8208f538d4c0f2b6aaffd7ba9006428e1442ae05175e9ece651ac |
#!/usr/bin/env python
# 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/licenses/LICENSE-2.0
#
# U... | sunqm/pyscf | pyscf/cc/gccsd_rdm.py | Python | apache-2.0 | 10,624 | [
"PySCF"
] | 10ceb99a91e6e5d0f6a1a38baac3c2902f82fcf443da972e63aec3468342f8ba |
""" Module that contains simple client access to Matcher service
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
__RCSID__ = "$Id$"
from DIRAC.Core.Base.Client import Client, createClient
from DIRAC.Core.Utilities.DEncode import ignoreEncodeWarning
from... | yujikato/DIRAC | src/DIRAC/WorkloadManagementSystem/Client/MatcherClient.py | Python | gpl-3.0 | 1,451 | [
"DIRAC"
] | f2fd51fc608a0d79e128e846d737f590207d57988ca53b6f8c13a11b6ad8a1fc |
# vim: ft=python fileencoding=utf-8 sts=4 sw=4 et:
# Copyright 2014-2016 Florian Bruhin (The Compiler) <mail@qutebrowser.org>
#
# This file is part of qutebrowser.
#
# qutebrowser is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free S... | Konubinix/qutebrowser | scripts/dev/pylint_checkers/qute_pylint/config.py | Python | gpl-3.0 | 3,009 | [
"VisIt"
] | 5eedb43f8ad05da882dd6b93de99bd88b0b2ea6cde094be67eba119a24cf2086 |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
#
# MDAnalysis --- http://www.mdanalysis.org
# Copyright (c) 2006-2016 The MDAnalysis Development Team and contributors
# (see the file AUTHORS for the full list of names)
#
# Released under t... | alejob/mdanalysis | package/MDAnalysis/lib/__init__.py | Python | gpl-2.0 | 1,457 | [
"MDAnalysis"
] | 493f5ddea1ba308ec2ac2ae9cd6960fe258f6ce37365f369e3bbdab15cf89851 |
#!/usr/bin/python
import sys
import argparse
from CSPBrowser import *
parser = argparse.ArgumentParser(description="Auto-visit target URLs")
parser.add_argument('-p', '--port', metavar='num', type=int, help='Port to listen on', dest='port')
parser.add_argument('-d', '--domain', metavar='d', help='IP address/hostname ... | Kennysan/CSPTools | browser/run.py | Python | mit | 617 | [
"VisIt"
] | d0e18334a7806b10de872610936073cbae25dbd937a626f621205665dae4ad65 |
# Hidden Markov Model Implementation
import pylab as pyl
import numpy as np
import matplotlib.pyplot as pp
#from enthought.mayavi import mlab
import scipy as scp
import scipy.ndimage as ni
import roslib; roslib.load_manifest('sandbox_tapo_darpa_m3')
import rospy
#import hrl_lib.mayavi2_util as mu
import hrl_lib.viz ... | tapomayukh/projects_in_python | classification/Classification_with_HMM/Single_Contact_Classification/area_codes/time_window/hmm_crossvalidation_area_800ms.py | Python | mit | 16,122 | [
"Gaussian",
"Mayavi"
] | 713c5f9a0122b56e7232c8917501cfb8649a0e8a7e72d4b5bec221fb8b69e1be |
"""
Tests for regressiom based dispersion tests (Cameron & Trivedi, 2013)
Cameron, Colin A. & Trivedi, Pravin K. (2013) Regression Analysis of Count Data.
Camridge University Press: New York, New York.
"""
__author__ = 'Taylor Oshan tayoshan@gmail.com'
import unittest
import numpy as np
import libpysal
from sp... | TaylorOshan/spint | spint/tests/test_dispersion.py | Python | bsd-3-clause | 1,507 | [
"COLUMBUS"
] | 19ccf758cd8027afeb1f3dd259224b50f6d0cf9069a7411a47f9f39e97c88b07 |
"""
=================================
Map data to a normal distribution
=================================
.. currentmodule:: sklearn.preprocessing
This example demonstrates the use of the Box-Cox and Yeo-Johnson transforms
through :class:`~PowerTransformer` to map data from various
distributions to a normal distribut... | manhhomienbienthuy/scikit-learn | examples/preprocessing/plot_map_data_to_normal.py | Python | bsd-3-clause | 4,665 | [
"Gaussian"
] | 6a11e70c05b5fbd481255b6aa21defd1438d325592c0da57bd9a0d1ffe0fdf4d |
#!/usr/bin/env python
"""
dirac-my-great-script
This script prints out how great is it, shows raw queries and sets the
number of pings.
Usage:
dirac-my-great-script [option|cfgfile] <Arguments>
Arguments:
<service1> [<service2> ...]
"""
from DIRAC import S_OK, S_ERROR, gLogger... | DIRACGrid/DIRACDocs | source/DeveloperGuide/AddingNewComponents/DevelopingCommands/dirac-my-great-script.py | Python | gpl-3.0 | 2,711 | [
"DIRAC"
] | 06befd9ee2f9e0b201f852e24700bdca4e5e126cd6dfc3b78968ed478ce6eab6 |
../../../../../../../share/pyshared/orca/scripts/apps/notify-osd/script.py | Alberto-Beralix/Beralix | i386-squashfs-root/usr/lib/python2.7/dist-packages/orca/scripts/apps/notify-osd/script.py | Python | gpl-3.0 | 74 | [
"ORCA"
] | b663627d7ef9cf2f45099cfa4c71e627a66757205383fd802a129155658b617a |
from collections import OrderedDict
from scipy.signal.signaltools import convolve2d
from scipy.interpolate.interpolate import interp1d
from scipy.optimize import nnls
from numpy import power, max, square, ones, arange, exp, zeros, transpose, diag, linalg, dot, outer, empty, ceil
# Reddening law from CCM89 # TODO Re... | Delosari/dazer | bin/lib/Astro_Libraries/spectrum_fitting/starContinuum_functions.py | Python | mit | 3,244 | [
"Gaussian"
] | 07e58c49a5961fc0e4a34218e7d82b20ab08e8725b87d80cd13d94c1e032a966 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# Copyright (c) 2016, Akamai Technologies
# Author: Daniel Garcia
"""
Usage:
c2e [options]
c2e -h | --help
c2e --version
Options:
-h, --help Print this help
--version Show version number
-v, --verbose Print ... | dagarcia-akamai/c2e | c2e/c2e.py | Python | bsd-3-clause | 8,530 | [
"VisIt"
] | 0d41015bf40b95c13424fa570ddb8c5b32d5656a63ca52d26a8f3d9867b21256 |
#!/usr/bin/env python
import sys
import os
import unittest
import glob
import shutil
import vtk
import time
from PyQt5 import QtWidgets
import chigger
from peacock.ExodusViewer.plugins.VTKWindowPlugin import main
from peacock.utils import Testing
class TestVTKWindowPlugin(Testing.PeacockImageTestCase):
"""
T... | liuwenf/moose | python/peacock/tests/exodus_tab/test_VTKWindowPlugin.py | Python | lgpl-2.1 | 6,082 | [
"VTK"
] | bc4d0d505a8c2e792c60954b8b43e6409bab6d9b3e04c250196eb9aa233e6f45 |
# coding: utf-8
"""
Generators of Firework workflows
"""
import logging
import sys
import abc
import os
import six
import datetime
import json
import numpy as np
import abipy.abio.input_tags as atags
import traceback
from collections import defaultdict
from abipy.abio.factories import HybridOneShotFromGsFactory, ScfFa... | davidwaroquiers/abiflows | abiflows/fireworks/workflows/abinit_workflows.py | Python | gpl-2.0 | 154,521 | [
"ABINIT"
] | f3ac8b3d6a2b138bd0413e9e7dc766cfb07dd646fadad2571517ab67c34ab5ef |
"""Redis Key Commands Mixin"""
from tornado import concurrent
# Python 2 support for ascii()
if 'ascii' not in dir(__builtins__): # pragma: nocover
from tredis.compat import ascii
class KeysMixin(object):
"""Redis Key Commands Mixin"""
def delete(self, *keys):
"""Removes the specified keys. A k... | gmr/tredis | tredis/keys.py | Python | bsd-3-clause | 26,277 | [
"VisIt"
] | 47a669fd705fa8627606b9555acef04bd249886ff878f030523f339875a00d97 |
from __future__ import print_function
"""Function-like object creating hexagonal lattices.
The following lattice creators are defined:
* Hexagonal
* HexagonalClosedPacked
* Graphite
* Graphene
Example for using Graphene to create atoms object gra::
from ase.lattice.hexagonal import *
import ase.io as io
... | suttond/MODOI | ase/lattice/hexagonal.py | Python | lgpl-3.0 | 4,016 | [
"ASE",
"CRYSTAL"
] | 5095577322089b4b6bcdafd551cd7a557f02406bcf53a1884aef2d2e99700e37 |
tests=[
("python","testMatricCalc.py",{}),
]
longTests=[]
if __name__=='__main__':
import sys
from rdkit import TestRunner
failed,tests = TestRunner.RunScript('test_list.py',0,1)
sys.exit(len(failed))
| adalke/rdkit | Code/DataManip/MetricMatrixCalc/Wrap/test_list.py | Python | bsd-3-clause | 220 | [
"RDKit"
] | f1265bed919ad40c1f99e0150f5b7c59f1e085318e63adc49c90136d6aaf29fa |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
#
# title : scanco.py
# description : provides support for Scanco (TM) files
# copyright : (c) 2017 I3MTO laboratory. All Rights Reserved
# author(s) : Thomas Janvier
# creation : 01 December 2017
# modification : 19 December 2017
#
# TO... | Bone-Imaging-ToolKit/BItk | bitk/io/scanco.py | Python | gpl-3.0 | 12,859 | [
"VTK"
] | b3c726e8d2c43ff821fb533c2652291eb8647129b64a767b61b6bec15bc25c59 |
#coding:utf-8
import os, sys
import timeit
import numpy, math
import scipy.spatial.distance as sp
import common_functions
################################################
# Parameters
################################################
# define the default parameters
train = "DR1"
test = "DR2"
lesions = ["exsudato-duro... | piresramon/pires.ramon.msc | source/mid_level_script.py | Python | gpl-3.0 | 8,459 | [
"Gaussian"
] | 93364d079a00892c29a3e4c412835b2897329ecb23b477419fcefe42c2ddff64 |
#!/usr/bin/env python
'''
This tool installs the macports package management infrastructure in a
custom directory which allows you to create a USB or portable drive
with your favorite macports tools. It also makes removal easier because
no system directories are affected.
It has a couple of important features.
1. ... | jlinoff/mpinstall | mpinstall.py | Python | mit | 18,426 | [
"VisIt"
] | 05fe3af57af4706d08e8870269cbc8237e0c8b148d1e29e38eb1969642a4d9ec |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import numpy as np
from fractions import Fraction
from math import gcd, floor, cos
from functools import reduce
from pymatgen import Structure, Lattice
from pymatgen.core.sites import PeriodicSite
from monty.fr... | tschaume/pymatgen | pymatgen/analysis/gb/grain.py | Python | mit | 117,508 | [
"CRYSTAL",
"pymatgen"
] | e0b0c3e0d2dec6b3328e98f925e5cebc0b7367baa5ace1e72e34b0ce47795b99 |
try:
from vtk.qt4.QVTKRenderWindowInteractor import QVTKRenderWindowInteractor
from PyQt4 import QtGui, QtCore
import pyqtgraph as QtGraph
except ImportError:
QtGui = type("vtk, PyQt, or pyqtgraph missing. functionality unavailable!",
(), {"QWidget": object, "QMainWindow": object})
fro... | RodericDay/MiniPNM | minipnm/gui/__init__.py | Python | mit | 387 | [
"VTK"
] | 887c6b518f22477fa4a5041208f54dd822da14740c0e7fcc1a0ebc1066807fba |
##############################################################################
# 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-genefilter/package.py | Python | lgpl-2.1 | 1,882 | [
"Bioconductor"
] | 03a291ff9db69782a908e5a69adabf6a37f6cb9739a428f9953ab6a8630299f8 |
import numpy
import sklearn.cluster
import time
import scipy
import os
from . import audioFeatureExtraction as aF
from . import audioTrainTest as aT
from . import audioBasicIO
import matplotlib.pyplot as plt
from scipy.spatial import distance
import matplotlib.pyplot as plt
import matplotlib.cm as cm
import sklearn.dis... | belkinsky/SFXbot | src/pyAudioAnalysis/audioSegmentation.py | Python | mit | 46,836 | [
"Gaussian"
] | 0f72788c6e9b717043dd389b7c3b8c8bf215fe35afca91721581ee2ab372ec44 |
#! /usr/bin/env python
# Copyright 2014 Miguel Martinez de Aguirre
# See LICENSE for details
from StringIO import StringIO
import sys
from PIL import Image, ImageTk
import Tkinter
from tkSimpleDialog import Dialog
from twisted.cred import credentials
from twisted.internet import reactor, tksupport
from twisted.prot... | mmdeas/path-game | client.py | Python | mit | 11,523 | [
"exciting"
] | c871c3a0dfd255e2208391e4e9b96254d57e2af5f584d97e23a8d109f839eedf |
import json
import platform
import unittest
import xapian
from gi.repository import GLib
from mock import patch
from piston_mini_client import PistonResponseObject
from tests.utils import (
get_test_pkg_info,
setup_test_env,
ObjectWithSignals,
)
setup_test_env()
from softwarecenter.enums import (
App... | mortenpi/ubuntu-software-center | tests/test_reinstall_purchased.py | Python | gpl-3.0 | 17,776 | [
"BLAST"
] | 3676901c86b799337d53ba070cb62387ea2dca6b995583ae26317147e6d46eef |
#!/usr/bin/env python
""" The dirac-pilot.py script is a steering script to execute a series of
pilot commands. The commands may be provided in the pilot input sandbox, and are coded in
the pilotCommands.py module or in any <EXTENSION>Commands.py module.
The pilot script defines two switches in order to ch... | Sbalbp/DIRAC | WorkloadManagementSystem/PilotAgent/dirac-pilot.py | Python | gpl-3.0 | 2,136 | [
"DIRAC"
] | 5999c75a8ce1aa7e0b4197ffddabead73facf160b18b5f406e213f0cb50b8d07 |
# Copyright (c) 2012, 2013, 2014 James Hensman
# Licensed under the GPL v3 (see LICENSE.txt)
import numpy as np
from .collapsed_mixture import CollapsedMixture
import GPy
from GPy.util.linalg import mdot, pdinv, backsub_both_sides, dpotrs, jitchol, dtrtrs
from GPy.util.linalg import tdot_numpy as tdot
class OMGP(Coll... | jameshensman/GPclust | GPclust/OMGP.py | Python | gpl-3.0 | 8,106 | [
"Gaussian"
] | 18f6398c0b805d686f929c50edb7b74c14274ab04fb7abde25a063cf36b34266 |
# GenCumulativeSkyMtx
#
# Ladybug: A Plugin for Environmental Analysis (GPL) started by Mostapha Sadeghipour Roudsari
#
# This file is part of Ladybug.
#
# Copyright (c) 2013-2015, Mostapha Sadeghipour Roudsari <Sadeghipour@gmail.com>
# Ladybug is free software; you can redistribute it and/or modify
# it under the ... | samuto/ladybug | src/Ladybug_GenCumulativeSkyMtx.py | Python | gpl-3.0 | 16,430 | [
"EPW"
] | 8371a25172952e773e18dfddd80815433c64a1be7d35112640549897d6873845 |
# macs2 python wrapper
# based on http://toolshed.g2.bx.psu.edu/view/modencode-dcc/macs2
import sys, subprocess, tempfile, shutil, glob, os, os.path, gzip
from galaxy import eggs
import json
CHUNK_SIZE = 1024
#==========================================================================================
#functions
#====... | stemcellcommons/macs2 | macs2_wrapper.py | Python | mit | 9,144 | [
"Galaxy"
] | 5b6289db9f182c49c5c3d662679723b04c75134f8b36525cd9131934e7aa2e39 |
#ryangc ATSYMBOL mail.med.upenn.edu ryan.g.coleman ATSYMBOL gmail.com
#Ryan G Coleman, Kim Sharp http://crystal.med.upenn.edu
#contains lots of grid primitives, there is not a grid class
import math
import geometry
def getIndices(mins, gridSize, pt):
'''helper function to find the box a point is in'''
xIndex = in... | ryancoleman/traveldistance | src/grid.py | Python | gpl-2.0 | 18,159 | [
"CRYSTAL"
] | eba491d005b770f6652781c7ccc243fadf84a227a344d9e37fc08636d5c91bec |
# Compute the audio novelty features of a song
import sys
import numpy as np
import scipy
from ..utils import RMS_energy
def novelty(song, k=64, wlen_ms=100, start=0, duration=None, nchangepoints=5, feature="rms"):
"""Return points of high "novelty" in a song
(e.g., significant musical transitions)
:pa... | ucbvislab/radiotool | radiotool/algorithms/novelty.py | Python | isc | 5,195 | [
"Gaussian",
"exciting"
] | 5bcb7ce9466e303cddf4d6935d3cc8d6911b3aab69b561996485d23eae2a8e7e |
# rdesignerProtos.py ---
#
# Filename: rdesignerProtos.py
# Description:
# Author: Subhasis Ray, Upi Bhalla
# Maintainer:
# Created: Tue May 7 12:11:22 2013 (+0530)
# Version:
# Last-Updated: Wed Dec 30 13:01:00 2015 (+0530)
# By: Upi
# URL:
# Keywords:
# Compatibility:
#
#
# Commentary:
#
#
#
#
# Change l... | subhacom/moose-core | python/rdesigneur/rdesigneurProtos.py | Python | gpl-3.0 | 15,090 | [
"MOOSE",
"NEURON"
] | 2e40e3a0d4ed828f61bf4c69fbc80b52735aef11bb8076126f7201349c4731f6 |
# -*- coding: utf-8 -*-
"""
Functions relevant for photometric calibration
Table of contents:
1. Available response functions
2. Adding filters on the fly
- Defining a new filter
- Temporarily modifying an existing filter
3. Adding filters permanently
Section 1. Available response functio... | MarieVdS/ComboCode | cc/ivs/sed/filters.py | Python | gpl-3.0 | 26,787 | [
"Gaussian"
] | 6222f44a4ea6e456832a7c04bd33d3f75ae8d9b5da2c4db24410e552025f0b82 |
#!/usr/bin/python
# Python name convention : http://stackoverflow.com/questions/159720/what-is-the-naming-convention-in-python-for-variable-and-function-names
import csv
import os
import math
import numpy
from Bio import PDB, pairwise2
from Bio.SeqUtils import seq1
'''
Created on 17 nov. 2015
@author: 0mi... | maxdy/BioTools | PyRAT/main.py | Python | mit | 18,402 | [
"Biopython"
] | bd029a5f2720a2719020b26c0c2fd33e20eff7a305bec6e3e9cba5d3c1cb84fb |
#
# 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... | dbtsai/spark | python/pyspark/mllib/util.py | Python | apache-2.0 | 19,536 | [
"Gaussian"
] | 7f88a7dec45f42edd1af4d75d06b41c3c6c69f08d540385833ace2d5ab54be5e |
from ase.atoms import string2symbols
abinitio_energies = {
'CO_gas': -626.611970497,
'H2_gas': -32.9625308725,
'CH4_gas': -231.60983421,
'H2O_gas': -496.411394229,
'CO_111': -115390.445596,
'C_111': -114926.212205,
'O_111': -115225.106527,
'H_111': -114779.038569,
'CH_111': -114943.... | charlietsai/catmap | tutorials/1-generating_input_file/generate_input.py | Python | gpl-3.0 | 4,903 | [
"ASE"
] | aa576f17edb4210b32024be136dc356a782e1e7ae7a32a3c4aa9717ee6c6119c |
# -*- coding: utf-8 -*-
"""
Created on Wed Jul 08 16:12:29 2015
@author: winsemi
$Id: wflow_flood_lib.py $
$Date: 2016-04-07 12:05:38 +0200 (Thu, 7 Apr 2016) $
$Author: winsemi $
$Revision: $
$HeadURL: $
$Keywords: $
"""
import sys
import os
import configparser
import logging
import logging.handlers
import numpy ... | openstreams/wflow | Scripts/wflow_flood_lib.py | Python | gpl-3.0 | 28,442 | [
"NetCDF"
] | 6f4137b4593071927c4404d577c3ba5936f11dcca4b297b08243e7e82942700f |
#!/usr/bin/env python
"""
FCKeditor - The text editor for internet
Copyright (C) 2003-2005 Frederico Caldeira Knabben
Licensed under the terms of the GNU Lesser General Public License:
http://www.opensource.org/licenses/lgpl-license.php
For further information visit:
http://www.fckeditor.net/
"Suppo... | dapfru/gladiators | parsek/cls/editor/_samples/py/sample01.py | Python | gpl-2.0 | 1,935 | [
"VisIt"
] | 28ce32ecd606fbc671d0a8380b7e332469d48a93cf06dc33d0db496036a11101 |
# Copyright (C) 2015-2020 The Software Heritage developers
# See the AUTHORS file at the top-level directory of this distribution
# License: GNU Affero General Public License version 3, or any later version
# See top-level LICENSE file for more information
import random
from hypothesis import given
from swh.model.h... | SoftwareHeritage/swh-web-ui | swh/web/tests/api/test_utils.py | Python | agpl-3.0 | 18,364 | [
"VisIt"
] | b069a07f6a04c4ed0c979a7394125c21383f00506ee82d1ca49bc12a48cf86b2 |
from __future__ import division, print_function, absolute_import
import math
import warnings
from collections import namedtuple
import numpy as np
from numpy import (isscalar, r_, log, around, unique, asarray,
zeros, arange, sort, amin, amax, any, atleast_1d,
sqrt, ceil, floor, a... | bkendzior/scipy | scipy/stats/morestats.py | Python | bsd-3-clause | 95,258 | [
"Gaussian"
] | 7c0d0dd04489459b91a1f3f75abb7a420a7299820a15fca8b905bfb7d276be1e |
# Orca
#
# Copyright 2018-2019 Igalia, S.L.
#
# Author: Joanmarie Diggs <jdiggs@igalia.com>
#
# This library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free Software Foundation; either
# version 2.1 of the License, or (at y... | GNOME/orca | src/orca/scripts/toolkits/Chromium/braille_generator.py | Python | lgpl-2.1 | 2,248 | [
"ORCA"
] | 63bb6e434f6d35e61267f51ddf539451061f72f013571a8d478e958465ff87ed |
# Licensed under a 3-clause BSD style license - see LICENSE.rst
""" sextractor.py:
Classes to read SExtractor table format
Built on daophot.py:
:Copyright: Smithsonian Astrophysical Observatory (2011)
:Author: Tom Aldcroft (aldcroft@head.cfa.harvard.edu)
"""
import re
from . import core
class SExtractorHeader(c... | StuartLittlefair/astropy | astropy/io/ascii/sextractor.py | Python | bsd-3-clause | 6,346 | [
"Galaxy"
] | 033d6fd3b1ed191d2adcaa9d39833c9e4a47cf3c04b119a70359534084a969f4 |
from vtk import vtkRenderer, vtkConeSource, vtkPolyDataMapper, vtkActor, \
vtkImplicitPlaneWidget2, vtkImplicitPlaneRepresentation, \
vtkObject, vtkPNGReader, vtkImageActor, QVTKWidget2, \
vtkRenderWindow, vtkOrientationMarkerWidget, vtkAxesActor, \
vtkTra... | ilastik/ilastik-0.5 | ilastik/gui/view3d.py | Python | bsd-2-clause | 17,552 | [
"VTK"
] | 3ffa58f0bc089256362fef91f9f78ffca4c7c0bd471f222bfb163d267a123083 |
# Copyright (c) 2001-2009 Twisted Matrix Laboratories.
# See LICENSE for details.
from itertools import count
import re, os, cStringIO, time, cgi, string, urlparse
from xml.dom import minidom as dom
from xml.sax.handler import ErrorHandler, feature_validation
from xml.dom.pulldom import SAX2DOM
from xml.sax import ma... | movmov/cc | vendor/Twisted-10.0.0/twisted/lore/tree.py | Python | apache-2.0 | 40,056 | [
"VisIt"
] | 77d2a505e830f5589e2fad4e240bf0b4457613c6823bc968bc83017b5bc9929f |
# Copyright (C) 2013, Walter Bender - Raul Gutierrez Segales
#
# 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.
#
# This ... | icarito/sugar | extensions/cpsection/webaccount/view.py | Python | gpl-3.0 | 4,477 | [
"VisIt"
] | 6e8a43360437a254874521423aa6e88ad865db04d83b2c96e4846b128f2d3994 |
import os
from os import path
import numpy as np
from netCDF4 import Dataset
import pyproj
from shapely.ops import transform
from shapely.geometry import MultiPoint, Polygon, MultiPolygon
from shapely.prepared import prep
from functools import partial
from shyft import api
from shyft import shyftdata_dir
from .. import... | felixmatt/shyft | shyft/repository/netcdf/arome_concat_data_repository.py | Python | lgpl-3.0 | 27,396 | [
"NetCDF"
] | 52725118553d19b4bf1c76a927791f5b201bda4abc77754e6f61a316b469577c |
# -*- coding: utf-8 -*-
##############################################################################
#
# OpenERP, Open Source Management Solution
# Copyright (C) 2004-today OpenERP SA (<http://www.openerp.com>)
#
# This program is free software: you can redistribute it and/or modify
# it under the terms o... | factorlibre/OCB | addons/project/project.py | Python | agpl-3.0 | 70,511 | [
"VisIt"
] | a7c632d17447a2b573e458db1e7dec1aea7a1abe9be4e67a71640e91fc8f0ed0 |
#
# Copyright (C) 2013,2014,2015,2016 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option)... | tbereau/espresso | samples/python/minimal-charged-particles.py | Python | gpl-3.0 | 3,219 | [
"ESPResSo"
] | cbc6dd00cfb2b3b317ca367e5b35d32e5187cf150b99e1872d49df52a5baeb5f |
"""
scikit-learn style implementation of Relevance Vector Machine
based regression plus helper functions and example.
Eric Schmidt
e.schmidt@cantab.net
2017-10-12
"""
from __future__ import print_function
from sklearn import linear_model, utils, preprocessing
import sklearn
import numpy as np
from scipy import stats... | Hamstard/RVMs | linear_model.py | Python | mit | 72,466 | [
"Gaussian"
] | 7401469f91978f58482add6be0e5a71dbfaa9cc89166380a65485baeed16c156 |
import fileinput
import random
def weighted_choice(items): # [(key, count)]
total = sum(x[1] for x in items)
index = random.randint(0, total - 1)
offset = 0
for key, count in items:
offset += count
if index < offset:
return key
class Node(object):
def __init__(self):
... | UIKit0/MisterQueen | scripts/parser.py | Python | mit | 3,540 | [
"VisIt"
] | 596b2c5cd923ec3cb697ac25551bf1c88b72ae06b509b1f436f7ec546e6daf56 |
import numpy as np
def makeGaussian(size, fwhm = 3, center=None):
""" Make a square gaussian kernel.
size is the length of a side of the square
fwhm is full-width-half-maximum, which
can be thought of as an effective radius.
"""
x = np.arange(0, size, 1, float)
y = x[:,np.newaxis]
if... | Josue-Martinez-Moreno/trackeddy | trackeddy/utils/gaussian_field_functions.py | Python | mit | 691 | [
"Gaussian"
] | 97960824dc7841060e6bac84d49980d9945c615486ee7b6d0befb4d0aa765143 |
import datetime
import json
import logging
import time
from typing import Tuple, Any, Set
import random
import requests
import yaml
logging.basicConfig(format='%(levelname)s:%(message)s', level=logging.DEBUG)
from src.session import Session
URL = {
'root': 'https://www.instagram.com/',
'login': 'https://www... | vinitkumar/instabote | src/instabot.py | Python | mit | 11,863 | [
"Gaussian"
] | 2c94396da0aec1aaef25d00fc4c821b58fc86c3c9d7c0a8b05d101ff6c68d001 |
# Nemubot is a smart and modulable IM bot.
# Copyright (C) 2012-2015 Mercier Pierre-Olivier
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU Affero General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at yo... | nbr23/nemubot | nemubot/message/visitor.py | Python | agpl-3.0 | 958 | [
"VisIt"
] | 1a5170dbd417c31137f51f85334e9466092113be426b4d96d7e4edbcd0910930 |
# 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 | pyvisi/renderers/vtk/offset_plot.py | Python | gpl-2.0 | 12,830 | [
"VTK"
] | 77d625e9d4f858355dc61e83a12ed73cf1fa84d01b85391c1007c23c02865feb |
from os import path
from collections import OrderedDict
from IPython.display import display, clear_output
from matplotlib import pyplot as plt
from matplotlib import transforms
from matplotlib import rcParams
from numpy import linspace
import ipywidgets as widgets
from pysces import ModelMap
from pysces import output_... | exe0cdc/PyscesToolbox | psctb/utils/plotting/_plotting.py | Python | bsd-3-clause | 44,476 | [
"PySCeS"
] | 5a90b8fd880a4ec4b60a73d31a9b83fb901661df19aca1914f8b99c09e446e44 |
"""
Course Outline page in Studio.
"""
import datetime
from bok_choy.page_object import PageObject
from bok_choy.promise import EmptyPromise
from selenium.webdriver.support.ui import Select
from selenium.webdriver.common.keys import Keys
from selenium.webdriver.common.action_chains import ActionChains
from .course_p... | olexiim/edx-platform | common/test/acceptance/pages/studio/overview.py | Python | agpl-3.0 | 23,236 | [
"VisIt"
] | c4106d421deb2c2d29f6f09837a40177cc4ebcc41570a9cd628843a3a06331d4 |
"""Tests for distutils.dist."""
import os
import io
import sys
import unittest
import warnings
import textwrap
from unittest import mock
from distutils.dist import Distribution, fix_help_options
from distutils.cmd import Command
from test.support import (
captured_stdout, captured_stderr, run_unittest
)
from .p... | iproduct/course-social-robotics | 11-dnn-keras/venv/Lib/site-packages/setuptools/_distutils/tests/test_dist.py | Python | gpl-2.0 | 19,274 | [
"Brian"
] | a9c41f278eba480f65cbc0ebed009dccbf6054915aca3c8fe1d0e74cbc41854f |
"""Synthesize a MIDI file, chiptunes-style! (using pure numpy and scipy)
Includes functions for synthesizing different drum types, bass instruments, and
all other instruments. Also for auto-arpeggiating chords.
"""
import numpy as np
import scipy.signal
import scipy.io.wavfile
import pretty_midi
import argparse
impo... | douglaseck/pretty-midi | examples/chiptunes.py | Python | mit | 11,000 | [
"Gaussian"
] | 6015bedeaa9f8fadeeae2afba8d0001473a4a48e5a8ef6ff9fbb7daf7d944c7d |
#
# 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... | markflyhigh/incubator-beam | sdks/python/apache_beam/pipeline.py | Python | apache-2.0 | 39,747 | [
"VisIt"
] | 7934395c3910852d0184e718056e3732004dea73265610f79eef3ba594c1db23 |
"""
# Notes:
- This simulation seeks to emulate the CUBA benchmark simulations of (Brette
et al. 2007) using the Brian2 simulator for speed benchmark comparison to
DynaSim. However, this simulation does NOT include synapses, for better
comparison to Figure 5 of (Goodman and Brette, 2008).
- The time taken to si... | asoplata/dynasim-benchmark-brette-2007 | output/Brian2/brian2_benchmark_CUBA_nosyn_1000/brian2_benchmark_CUBA_nosyn_1000.py | Python | gpl-3.0 | 2,006 | [
"Brian"
] | 92085f37842bd4fd31ec6bfe69e1e7e96d75e52c7990d8261435b102ec293af4 |
#!/usr/bin/env python
import argparse
from Bio import AlignIO
from Bio.Alphabet import IUPAC, Gapped
# A simple converter from Phylip to fasta format using BioPython.
# Matt Gitzendanner
# University of Florida
parser = argparse.ArgumentParser()
parser.add_argument("-i", help="input Phylip formatted file")
parser.ad... | magitz/ToolBox | converters/phy_to_fasta.py | Python | mit | 982 | [
"Biopython"
] | f9563d2aada6651caea3954a6a472245709709f6bb58bb0b26e666961b956145 |
###############################################################################
# lazyflow: data flow based lazy parallel computation framework
#
# Copyright (C) 2011-2014, the ilastik developers
# <team@ilastik.org>
#
# This program is free software; you can redistribute it and/o... | stuarteberg/lazyflow | tests/broken/testOpTrainRandomForest.py | Python | lgpl-3.0 | 5,487 | [
"Gaussian"
] | 5762510fb618c92b3304ce11647be2e3c260177764ca63211948d83c013c8452 |
#!/usr/bin/env python
# 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.Wise contains modules for running and processing the output of
# some of the models in the Wise2 package by Ewan Birney av... | BlogomaticProject/Blogomatic | opt/blog-o-matic/usr/lib/python/Bio/Wise/dnal.py | Python | gpl-2.0 | 4,323 | [
"Biopython"
] | 8e18e52ff1e2b869a137f9760f08c32d1196e16cc4094f18a389a66b65b9f04c |
# Copyright 2018 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... | kevin-coder/tensorflow-fork | tensorflow/python/autograph/converters/directives.py | Python | apache-2.0 | 6,115 | [
"VisIt"
] | fcf7783091e429d3efc2617f285bf242fd380d098cf35830d066446d79395e8f |
from .gaussian import *
from .voigt import *
| adrn/GaiaPairsFollowup | comoving_rv/longslit/fitting/__init__.py | Python | mit | 45 | [
"Gaussian"
] | b4e058bc5f1f943fbd1b797d3f564e1f99bf3ea1e687d71977128b807b59f7f5 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
This module implements functions to perform various useful operations on
entries, such as grouping entries by structure.
"""
__author__ = "Shyue Ping Ong"
__copyright__ = "Copyright 2012, The Materials Pr... | gVallverdu/pymatgen | pymatgen/entries/entry_tools.py | Python | mit | 11,247 | [
"pymatgen"
] | b97fd253449ba3e522788c697150374f45f3a57b957d791c2e3b016ca8e2db2b |
# -*- coding: utf-8 -*-
# Copyright (c) 2006-2011, 2013-2014 LOGILAB S.A. (Paris, FRANCE) <contact@logilab.fr>
# Copyright (c) 2011-2014 Google, Inc.
# Copyright (c) 2012 Tim Hatch <tim@timhatch.com>
# Copyright (c) 2013-2018 Claudiu Popa <pcmanticore@gmail.com>
# Copyright (c) 2014 Brett Cannon <brett@python.org>
# Co... | kczapla/pylint | pylint/checkers/exceptions.py | Python | gpl-2.0 | 20,193 | [
"VisIt"
] | 7bb88d814ad0e0ea4939508b6a958daa18fc4f0adffc1fd450fae75f25db7e9f |
#
# Copyright (C) 2018-2019 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later... | espressomd/espresso | testsuite/python/actor.py | Python | gpl-3.0 | 5,507 | [
"ESPResSo"
] | 7d7b3faa70a324708a7ee1f4e104971cf2c557bce0c792d5579252d2f3c8e8e3 |
# (C) British Crown Copyright 2013 - 2015, Met Office
#
# This file is part of Iris.
#
# Iris is free software: you can redistribute it and/or modify it under
# the terms of the GNU Lesser General Public License as published by the
# Free Software Foundation, either version 3 of the License, or
# (at your option) any l... | Jozhogg/iris | lib/iris/tests/unit/fileformats/netcdf/test_Saver.py | Python | lgpl-3.0 | 11,728 | [
"NetCDF"
] | c8933e8c52a463825c9b31c59c276d34d7b30f0e2169e7669f64d5090b9eaa78 |
# Copyright 2016 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 applicable law or a... | shishaochen/TensorFlow-0.8-Win | tensorflow/contrib/distributions/python/ops/gaussian.py | Python | apache-2.0 | 6,920 | [
"Gaussian"
] | 76020ea999cd54d1b51d8a14c1c7841e7078a300f5755ef5af7d9217651f38a5 |
"""
Gaussian Model of functional data
moduleauthor:: Derek Tucker <dtucker@stat.fsu.edu>
"""
import numpy as np
import fdasrsf.utility_functions as uf
import collections
def gauss_model(fn, time, qn, gam, n=1, sort_samples=False):
"""
This function models the functional data using a Gaussian model
extra... | glemaitre/fdasrsf | fdasrsf/gauss_model.py | Python | gpl-3.0 | 3,546 | [
"Gaussian"
] | 75c8854073c5a74070033cbf9b314c7dbdf850ba1e05717994729ed603380073 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# TAMkin is a post-processing toolkit for normal mode analysis, thermochemistry
# and reaction kinetics.
# Copyright (C) 2008-2012 Toon Verstraelen <Toon.Verstraelen@UGent.be>, An Ghysels
# <An.Ghysels@UGent.be> and Matthias Vandichel <Matthias.Vandichel@UGent.be>
# Center ... | molmod/tamkin | tamkin/examples/009_ethyl_ethene/cutter.py | Python | gpl-3.0 | 2,220 | [
"Gaussian"
] | 6b0547af82aa8a4616ea6bcf4edab70a2015b8e5ccad89db4ac25249a89fc4a0 |
#
# This source file is part of appleseed.
# Visit https://appleseedhq.net/ for additional information and resources.
#
# This software is released under the MIT license.
#
# Copyright (c) 2019 Jonathan Dent, The appleseedhq Organization
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
#... | dictoon/blenderseed | ui/render.py | Python | mit | 21,990 | [
"VisIt"
] | cf6464ab26355b77d2247c2e4ba8721472e32dc072703e0cb237287efb3093a0 |
# 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.
#
"""KD tree data structure for searching N-dimensional vectors.
The KD tree data structure can be used for all kinds of searches that
involve N-dimen... | Ambuj-UF/ConCat-1.0 | src/Utils/Bio/KDTree/__init__.py | Python | gpl-2.0 | 701 | [
"Biopython"
] | 4908d96328e005c4c2e408d9e5241c4f0956e72efb808d083bf69a9a86d732ca |
#!/usr/bin/python
"""
Copyright 2012 Paul Willworth <ioscode@gmail.com>
This file is part of Galaxy Harvester.
Galaxy Harvester is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of th... | clreinki/GalaxyHarvester | ghStats.py | Python | agpl-3.0 | 1,848 | [
"Galaxy"
] | 246fa680bfbb378556ba9eabf9a3f7c5cc2efc391e68357d00f6836796e16c64 |
# -*- coding: utf-8 -*-
from itertools import chain
import pytest
from ..util.testing import requires
from ..util.parsing import parsing_library
from ..units import default_units, units_library, allclose
from ..chemistry import Substance, Reaction
from ..reactionsystem import ReactionSystem
@requires(parsing_libra... | bjodah/aqchem | chempy/tests/test_reactionsystem.py | Python | bsd-2-clause | 15,621 | [
"ChemPy"
] | 7e99b4f6028ee04499d9f473a06189e1cefdbc4e93ce39fc07cf73cb0f452b93 |
# Jython Database Specification API 2.0
#
# Copyright (c) 2001 brian zimmer <bzimmer@ziclix.com>
"""
To run the tests, simply invoke this script from the commandline:
jython runner.py <xml config file> [vendor, ...]
If no vendors are given, then all vendors will be tested. If a
vendor is given, then only that vend... | ofermend/medicare-demo | socialite/jython/Lib/test/zxjdbc/runner.py | Python | apache-2.0 | 5,996 | [
"Brian"
] | 240e5f3d665fcf6e5b5103b72b762944b5aa539fb0f2633860ef697b42228985 |
# -*- coding: utf-8 -*-
# Copyright (c) 2006-2016 LOGILAB S.A. (Paris, FRANCE) <contact@logilab.fr>
# Copyright (c) 2010 Daniel Harding <dharding@gmail.com>
# Copyright (c) 2012-2014 Google, Inc.
# Copyright (c) 2013-2018 Claudiu Popa <pcmanticore@gmail.com>
# Copyright (c) 2014 Brett Cannon <brett@python.org>
# Copyri... | kczapla/pylint | pylint/checkers/base.py | Python | gpl-2.0 | 84,804 | [
"VisIt"
] | 63085a7f78dd0502674c676427acb6d881fa3a9fc4cf0383e4eae36a14fe61a7 |
#!/usr/bin/env python
########################################################################
# File : dirac-admin-get-CAs
# Author : Ricardo Graciani
########################################################################
"""Refresh the local copy of the CA certificates and revocation lists.
Connects to the Bun... | fstagni/DIRAC | FrameworkSystem/scripts/dirac-admin-get-CAs.py | Python | gpl-3.0 | 1,320 | [
"DIRAC"
] | 1a2e0b6ec4a9e314d464b951401736d8ca9d0b17a6c4f20cb39c3b9c853a1c60 |
########################################################################
# $HeadURL$
########################################################################
""" DIRAC FileCatalog mix-in class to manage directory metadata
"""
__RCSID__ = "$Id$"
import os, types
from DIRAC import S_OK, S_ERROR
from DIRAC.Core.Utiliti... | Andrew-McNab-UK/DIRAC | DataManagementSystem/DB/FileCatalogComponents/DirectoryMetadata.py | Python | gpl-3.0 | 28,658 | [
"DIRAC"
] | d994edf9d56442b6d530ebd1ed94346755e25b842c2a59eda44c0d2aeb44bac1 |
"""
Extract a 20 by 20 km grid based on x-y coordinates from a netCDF file containing data on the xgeo-grid.
"""
# Input
INFILE = r"/mnt/grid/metdata/config/xgeo_dem.nc" # "/mnt/grid/metdata/prognosis/meps/det/archive/2022/meps_det_1km_20220207T00Z.nc"
VAR = "xgeo_dem_2" # "air_temperature_2m"
IX = 9 # number betwee... | kmunve/APS | aps/data/met_obs_grid/ncks_command_miniregion.py | Python | mit | 2,062 | [
"NetCDF"
] | d5daeba0f660dfc93dbcf62db08a61e11b7983e2e0912feda06bbf6c1620ba08 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Jitter Explorer
===============
Application to explore orientation angle and angular dispersity.
From the command line::
# Show docs
python -m sasmodels.jitter --help
# Guyou projection jitter, uniform over 20 degree theta and 10 in phi
python -m sas... | SasView/sasmodels | sasmodels/jitter.py | Python | bsd-3-clause | 55,967 | [
"CRYSTAL",
"Gaussian"
] | dd70e3e03f7a64b9006123fe0abfebe47961dfd5ff9f03ef8a93f1c49edcb35b |
import subprocess
import sys
import os
import json
def get_jobs():
p = subprocess.Popen(["./galaxy","jobs"], stdout=subprocess.PIPE)
out, err = p.communicate()
if err:
print "fail to list jobs"
sys.exit(-1)
lines = out.splitlines()
# job id and job name pair
jobs = {}
for lin... | imotai/galaxy | optools/preempt.py | Python | bsd-3-clause | 3,345 | [
"Galaxy"
] | 65462e2a7e5d0835cfda04775ef7745252b10125016fadddf7a0b5976e0bd4a3 |
# Base node
class SourceElement(object):
'''
A SourceElement is the base class for all elements that occur in a Java
file parsed by plyj.
'''
def __init__(self):
super(SourceElement, self).__init__()
self._fields = []
def __repr__(self):
equals = ("{0}={1!r}".format(k, ... | RealTimeWeb/program-analyzer | plyj/model.py | Python | apache-2.0 | 23,359 | [
"VisIt"
] | 56408813c2eb58f9dc0ac6d22db10558b050b602d63a8dedaac3b291b815eb7f |
# -*- coding: utf-8 -*-
'''
Created on 21 Oct 2015
@author: Kimon Tsitsikas
Copyright © 2014 Kimon Tsitsikas, Delmic
This file is part of Odemis.
Odemis is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License version 2 as published by the Free Software Foundation... | gstiebler/odemis | src/odemis/util/test/peak_test.py | Python | gpl-2.0 | 2,985 | [
"Gaussian"
] | 4b15bafaccacdff193bab18ee2381955f8f47263460d8bb99c96fc3d53430a87 |
import numpy as np
from types import FloatType
from ase.parallel import rank
import _gpaw
from gpaw.xc import XC
from gpaw.xc.kernel import XCKernel
from gpaw.xc.libxc import LibXC
from gpaw.xc.vdw import FFTVDWFunctional
from gpaw import debug
class BEE1(XCKernel):
"""GGA exchange expanded in a PBE-like basis."... | robwarm/gpaw-symm | gpaw/xc/bee.py | Python | gpl-3.0 | 11,238 | [
"ASE",
"GPAW"
] | 0034bc511c4c36ae231a1d06cd642279738dc75149d318cb19ded1a5bb79ab62 |
from django.conf import settings
BIGQUERY_CONFIG = {
"reference_config": {
"project_name": "isb-cgc",
"dataset_name": "platform_reference"
},
"supported_genomic_builds": ['hg19', 'hg38'],
"tables": [
{
"table_id": "{}:TCGA_hg19_data_v0.RNAseq_Gene_Expression_UNC_RSEM... | isb-cgc/ISB-CGC-Webapp | bq_data_access/data_types/gexp.py | Python | apache-2.0 | 1,638 | [
"HTSeq"
] | b28ce1364a2674a9fcb33d547789c9f255516877b952d128b823a1186534717c |
# -*- coding: utf-8 -*-
"""
pysteps.nowcasts.steps
======================
Implementation of the STEPS stochastic nowcasting method as described in
:cite:`Seed2003`, :cite:`BPS2006` and :cite:`SPN2013`.
.. autosummary::
:toctree: ../generated/
forecast
"""
import numpy as np
import scipy.ndimage
import time
... | pySTEPS/pysteps | pysteps/nowcasts/steps.py | Python | bsd-3-clause | 33,095 | [
"Gaussian"
] | 23887325f7c57a54f6e7417c14dfcf6e8a1f66911161b3e833e1fa9afe4c4cae |
"""Test case for autocomplete implementations."""
import os
import uuid
from django import VERSION
from django.contrib.contenttypes.models import ContentType
from django.contrib.staticfiles.testing import StaticLiveServerTestCase
try:
from django.urls import reverse
except ImportError:
from django.core.urlres... | shubhamdipt/django-autocomplete-light | src/dal/test/case.py | Python | mit | 3,484 | [
"VisIt"
] | e639991e7b98ba1b97a9b57447a3901bc7a82343fb849794271ed3f4f8a074c1 |
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