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#!/usr/bin/python
#This is a program for count Gene on Ensemble data "process subsection",
#Author: Maurizio Polano, mauriziopolano@blu.it
#Last revision: 03/06/2014
import subprocess
import os,os.path
import sys
import time
import re
from optparse import OptionParser
import pysam
def main():
# select inupt
pars... | bioinfo-dirty-jobs/Scriptechunks | Search_encompass_reads.py | Python | mit | 6,064 | [
"pysam"
] | 33b8d2a3b768a6caa0f0d47774fbeaae5769c8d19163253cd9c7a9f2a2a2bf98 |
import os
import re
import collections
import logging
log = logging.getLogger(__name__)
import MooseDocs
class MooseInfoBase(object):
"""
Base information for Actions and MooseObjects.
"""
STUB_HEADER = '<!-- MOOSE Documentation Stub: Remove this when content is added. -->\n'
def __init__(self, no... | stimpsonsg/moose | python/MooseDocs/MooseApplicationSyntax.py | Python | lgpl-2.1 | 14,022 | [
"MOOSE"
] | d84d08d3c25e78fc96051acae189b970ff3718ab8c0f42eac56e5be9e51ba12f |
#!/usr/bin/env python
# This program generates a line/table with all Atom-Atom contributions to the Lennard Jones Energy between two fragments
#
# The atom order for each fragment is read from the .rtf file
# The Atom types are obtained either from the .rtf file or from the .lpun file
# The number of fragments and the ... | MMunibas/FittingWizard | scripts/lj-fit/src/fit.lj/LJ_Tab_gen.py | Python | bsd-3-clause | 7,502 | [
"CHARMM"
] | 538852ef05e4238704b8dc5d8564abad86882dd430f1ec998e255533e73836e9 |
# coding=utf-8
# --------------------------------------------------------------------------
# Copyright (c) Microsoft Corporation. All rights reserved.
# Licensed under the MIT License. See License.txt in the project root for
# license information.
#
# Code generated by Microsoft (R) AutoRest Code Generator.
# Changes ... | Azure/azure-sdk-for-python | sdk/cognitiveservices/azure-cognitiveservices-vision-customvision/azure/cognitiveservices/vision/customvision/training/models/_models.py | Python | mit | 83,177 | [
"VisIt"
] | 19aae5d30a62c8f705e819ae0063e07561aef194f4c04178d25908b3c91745ed |
# -*- coding: utf-8 -*-
"""
Example of creating an operator that acts as a linear transformation.
"""
# Imports for common Python 2/3 codebase
from __future__ import print_function, division, absolute_import
from future import standard_library
standard_library.install_aliases()
from builtins import super
import odl
i... | odlgroup/odl-examples | linear_deformation.py | Python | gpl-3.0 | 2,764 | [
"Gaussian"
] | f228ad43610225ca36b627acb9431399cda26137f9e3cecd5b310daf5c540d7c |
import numpy as np
size = 10*np.array([45.0,
55.0,
65.0,
75.0,
85.0,
95.0,
105.0,
110.0,
120.0,
135.0,
145.0,
155.0,
160.0,
170.0,
185.0,
195.0,
205.0,
215.0,
225.0])
timing_LowFreq = np.array([ 18.684,
31.671,
57.522,
72.086,
107.04,
139.11,
177.29,
213.87,
287.15,
315.41,
646.75,
490.08,
599.22,
776.20,
864.50,
943... | dinrker/Ray_FEM | Plots/python_scripts/paper1/plot_scaling_fast_solver_low_freq.py | Python | mit | 2,600 | [
"Gaussian"
] | 409fc982b7d0f6238d9bb2286b68f61fbb21064b609dd35cd68e3419f3a15c75 |
# Copyright 2014-2018 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
#
# Unless required by appl... | gkc1000/pyscf | pyscf/nao/m_spline_interp.py | Python | apache-2.0 | 1,804 | [
"PySCF"
] | f85fa25081b4153d1c4759285ce8380dce8edca54e09fdd4a9ea324e61204eae |
"""
# Copyright (C) 2007 Rob King (rob@re-mu.org)
#
# This library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free Software Foundation; either
# version 2.1 of the License, or (at your option) any later version.
#
#... | dotCID/Graduation | Ableton/LiveOSC/LiveOSCCallbacks.py | Python | gpl-2.0 | 49,848 | [
"VisIt"
] | 0ee1aae660e1a5f3e34f78bf12cef4b434f7ea645b01925f2142e6f235b94e10 |
from __future__ import print_function, division, absolute_import #, unicode_literals
import sys
import os
import imp
import platform
import re
from tests.pymods.termcolor import cprint
# Handle py2, py3k differences.
py2 = sys.version_info[0] <= 2
if py2:
import cPickle as pickle
from cStringIO import String... | jmbeuken/abinit | tests/__init__.py | Python | gpl-3.0 | 34,292 | [
"ABINIT",
"NetCDF",
"VASP",
"Wannier90"
] | 57ef6c0c453e19681f00c4604bd1d6fd985f425503af16716642fe7ccef79618 |
# commands.py - command processing for mercurial
#
# Copyright 2005-2007 Matt Mackall <mpm@selenic.com>
#
# This software may be used and distributed according to the terms
# of the GNU General Public License, incorporated herein by reference.
from node import hex, nullid, nullrev, short
from repo import RepoError, No... | carlgao/lenga | images/lenny64-peon/usr/share/python-support/mercurial-common/mercurial/commands.py | Python | mit | 121,214 | [
"VisIt"
] | 326f7fea60f0aa7dc86452723206067ef7468b1823bca1bfbabfb09ff69c7007 |
# -*- coding: utf-8 -*-
# emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
# vi: set ft = python sts = 4 ts = 4 sw = 4 et:
"""AFNI utility interfaces
Examples
--------
See the docstrings of the individual classes for examples.
.. testsetup::
# Change directory to provide relative paths for... | mick-d/nipype | nipype/interfaces/afni/utils.py | Python | bsd-3-clause | 98,199 | [
"Gaussian"
] | 9f319344f01aa374fb2aae2f8c0a458f0f4b4c9f25b060268ccfd28182c2626b |
import Pyro5
import sys
sys.path.append('../..')
sys.path.append('..')
import models
from mupif import *
import mupif as mp
import logging
log = logging.getLogger()
class Example06(workflow.Workflow):
def __init__(self, metadata={}):
"""
Initializes the workflow.
"""
MD = {
... | mupif/mupif | examples/Example06-stacTM-local/Example06.py | Python | lgpl-3.0 | 4,640 | [
"VTK"
] | a2823bd632017ee3b1dbd8a2ff78b96ca1b9da2c3c358fbbc747f24bf26aecf6 |
"""Guess the MIME type of a file.
This module defines two useful functions:
guess_type(url, strict=1) -- guess the MIME type and encoding of a URL.
guess_extension(type, strict=1) -- guess the extension for a given MIME type.
It also contains the following, for tuning the behavior:
Data:
knownfiles -- list of fil... | zephyrplugins/zephyr | zephyr.plugin.jython/jython2.5.2rc3/Lib/mimetypes.py | Python | epl-1.0 | 18,690 | [
"NetCDF"
] | 365fccb6a945eadd6da73c1b5b0e2c8b7a9578bfb921596a9fb958ce60ff5a31 |
"""Some test functions for bivariate interpolation.
Most of these have been yoinked from ACM TOMS 792.
http://netlib.org/toms/792
"""
from __future__ import print_function
import numpy as np
from triangulate import Triangulation
class TestData(dict):
def __init__(self, *args, **kwds):
dict.__init__(sel... | cactusbin/nyt | matplotlib/lib/matplotlib/delaunay/testfuncs.py | Python | unlicense | 21,048 | [
"Gaussian"
] | ef25d34a731f27a89ab390316de99bc6dbe32d3f1a7eb7eff4c50856f6e621c3 |
"""This demo program solves Poisson's equation with a delta dirac point source
- div grad u(x, y) = f(x, y)*dirac
on the unit square with source f given by
f(x, y) = 0.4
and boundary conditions given by
u(x, y) = 0 for x = 0 or x = 1
du/dn(x, y) = A*sin(5*x) for y = 0 or y = 1
"""
# Copyright... | MiroK/dolfin | demo/undocumented/point-integral/python/demo_point-integral.py | Python | gpl-3.0 | 2,095 | [
"DIRAC",
"VTK"
] | 1638843aebb3d3d103f16f9027790cfc33f27dede19083c034e3909f201faee1 |
import _pp_conf
from pandas import read_sql
"""
CATALOG - class structure for dealing with astronomical catalogs,
FITS_LDAC files, and sqlite databases.
version 0.9, 2016-01-27, mommermiscience@gmail.com
"""
# Photometry Pipeline
# Copyright (C) 2016-2018 Michael Mommert, mommermiscience@gmail.com
# This ... | mommermi/photometrypipeline | catalog.py | Python | gpl-3.0 | 75,300 | [
"Gaussian"
] | 46511fcb2e286c0ba1498acc70a3d0293b1f8419c1a497c8ab95b7f8b5733730 |
# -*- coding: utf8 -*-
# SXRD_Collect - GUI program for collection single crystal X-ray diffraction data
# Copyright (C) 2015 Clemens Prescher (clemens.prescher@gmail.com)
# GSECARS, University of Chicago
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of t... | Luindil/SXRD_Collect | playground/data_test/compareStepToWide.py | Python | gpl-3.0 | 1,917 | [
"CRYSTAL"
] | c3acea8ec1822384151c821ec025be6fa784808a1356d791a82553c4692d01f7 |
########################################################################
# $HeadURL$
########################################################################
""" :mod: DataLoggingDB
===================
.. module: DataLoggingDB
:synopsis: front-end to the Data Logging database
The following methods ar... | avedaee/DIRAC | DataManagementSystem/DB/DataLoggingDB.py | Python | gpl-3.0 | 7,827 | [
"DIRAC"
] | 2deab8ff937a645c9ce9f57b5487df3d9cf1ead9a259706657e896c2147daded |
# Copyright (c) 2016 Ansible, Inc.
# All Rights Reserved.
# Python
import logging
import threading
import contextlib
import re
# Django
from django.db import models, transaction, connection
from django.contrib.contenttypes.models import ContentType
from django.contrib.contenttypes.fields import GenericForeignKey
from... | GoogleCloudPlatform/sap-deployment-automation | third_party/github.com/ansible/awx/awx/main/models/rbac.py | Python | apache-2.0 | 21,872 | [
"VisIt"
] | bd054bd0cae865f0938bd110fb81d7c19e5b29baf0d7b0dc35bd5da1c1a052fa |
import vtk
import h5py
"""
read the transform from slicer and apply it to a surface mesh
"""
file_path1 = "/home/ksansom/caseFiles/mri/VWI_proj/case1/dsa/case1_vmtk_decimate_trim_cap.vtp"
out_path = "/home/ksansom/caseFiles/mri/VWI_proj/case1/registration_2/dsa2mra_trans.vtp"
print('Reading vtp surface file.'... | kayarre/Tools | vtk/transform_dsa2vwi.py | Python | bsd-2-clause | 2,656 | [
"VTK"
] | aa26d762bf241825a4e04ffb2cbbc6df41defda3536a27370a0bd2d2ab7956ca |
########################################################################
# $Header: /var/local/cvsroot/4Suite/Ft/Lib/DistExt/__init__.py,v 1.19.2.5 2006/10/30 20:39:16 jkloth Exp $
"""
Extensions to distutils to support building, installing, packaging 4Suite
Copyright 2005 Fourthought, Inc. (USA).
Detailed license and... | Pikecillo/genna | external/4Suite-XML-1.0.2/Ft/Lib/DistExt/__init__.py | Python | gpl-2.0 | 6,041 | [
"Jaguar"
] | a3576c5ad080304ba44c28da0a381f37ee8fe56ee6a438a1d80d1a65c97afa61 |
"""
Normalization Wikipedia: https://en.wikipedia.org/wiki/Normalization
Normalization is the process of converting numerical data to a standard range of values.
This range is typically between [0, 1] or [-1, 1]. The equation for normalization is
x_norm = (x - x_min)/(x_max - x_min) where x_norm is the normalized value... | TheAlgorithms/Python | machine_learning/data_transformations.py | Python | mit | 2,849 | [
"Gaussian"
] | 0f04b5c22233ef1b8aff5608bb8ab567a5b50339ac3cc48e8780478c22c1c543 |
# -*- coding: utf-8 -*-
#
# Copyright (C) 2007-2013 by Erwin Marsi and TST-Centrale
#
# This file is part of the DAESO Framework.
#
# The DAESO Framework 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 ... | emsrc/daeso-dutch | lib/daeso_nl/ga/matcher.py | Python | gpl-3.0 | 7,501 | [
"Brian"
] | 2dbe0c02b133b8922264ce4166d78398bb8995b58ab8ff4334410df3b56212e0 |
# -*- coding: utf-8 -*-
from south.utils import datetime_utils as datetime
from south.db import db
from south.v2 import SchemaMigration
from django.db import models
class Migration(SchemaMigration):
def forwards(self, orm):
# Adding field 'Clinic.lga_temp'
db.add_column(u'clinics_clinic', 'lga_te... | myvoice-nigeria/myvoice | myvoice/clinics/migrations/0038_auto__add_field_clinic_lga_temp.py | Python | bsd-2-clause | 13,150 | [
"VisIt"
] | 8e27feedfeee07e18c1db9e90061b8f5fcfa19a51500bea24ff9c211dc646659 |
import ast, collections, dis, types, sys
from functools import reduce
from itertools import chain
from check_subset import check_conformity
def assemble(assembly):
return bytes(iter(assembly.encode(0, dict(assembly.resolve(0)))))
def plumb_depths(assembly):
depths = [0]
assembly.plumb(depths)
return ma... | darius/tailbiter | article-code/tailbiter2_py35.py | Python | mit | 17,894 | [
"VisIt"
] | e6faeb198824498abac6d83db2b944a8c57a6e7df27ededca00343974775eef1 |
# -*- coding: utf-8 -*-
def VtkLoadLineas(setName):
eSet= preprocessor.getSets.getSet(setName)
print "nombre set: ",eSet.nombre
print "num. lineas: ",eSet.getNumLineas
# Cargamos las celdas en vtk
ugrid.insert_next_cell(getVtkCellType,getVertices)
| lcpt/xc | python_modules/postprocess/xcVtk/CAD_model/vtk_load_lines.py | Python | gpl-3.0 | 259 | [
"VTK"
] | b5234c8a5986653d907317a5cc2fe866c3d0f88137a1e14978442b6bb6612399 |
""" Utilities for WMS
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
import io
import os
import sys
import json
import six
from DIRAC import gConfig, gLogger, S_OK
from DIRAC.Core.Utilities.File import mkDir
def createJobWrapper(jobID, jobParams, res... | yujikato/DIRAC | src/DIRAC/WorkloadManagementSystem/Utilities/Utils.py | Python | gpl-3.0 | 5,243 | [
"DIRAC"
] | 4f9f28f3e579a7d0df20d87f338c0b8bad9c87667f2ef773a2899c475900a473 |
from yamtbx import util
from yamtbx.dataproc.xds.xds_ascii import XDS_ASCII
from yamtbx.dataproc.auto import resolution_cutoff
from yamtbx.dataproc.dataset import find_existing_files_in_template
from yamtbx.dataproc import pointless
import cPickle as pickle
import json
import os
from cctbx import sgtbx
from cctbx impor... | keitaroyam/yamtbx | yamtbx/dataproc/dials/command_line/run_dials_auto.py | Python | bsd-3-clause | 9,267 | [
"CRYSTAL"
] | 271f40e77f0137714bf58ba46ab4df3e9ef42ce73155d751f4ee72e908f480a4 |
#!/usr/bin/env python
# Numenta Platform for Intelligent Computing (NuPIC)
# Copyright (C) 2018, Numenta, Inc. Unless you have an agreement
# with Numenta, Inc., for a separate license for this software code, the
# following terms and conditions apply:
#
# This program is free software: you can redistribute it and/or ... | neuroidss/nupic.research | projects/high_order_cell_assembly/sparsity_over_trial.py | Python | agpl-3.0 | 5,391 | [
"NEURON"
] | e61abbf56b549939f3b39c231f63f5af13d4af2438bb5b2a67ce0f3aa94a3796 |
# coding=UTF-8
"""Copyleft 2010-2015 Forrest Sheng Bao http://fsbao.net
Copyleft 2010 Xin Liu
Copyleft 2014-2015 Borzou Alipour Fard
PyEEG, a Python module to extract EEG feature.
Project homepage: http://pyeeg.org
**Data structure**
PyEEG only uses standard Python and numpy data structures,
so you need to i... | mattja/nsim | nsim/analyses1/pyeeg.py | Python | gpl-3.0 | 32,305 | [
"VisIt"
] | 3e94930dd4fb656008662a40275531e5604fcc175166d9b0b3ca73ea6cd10d48 |
# PyVision License
#
# Copyright (c) 2006-2008 David S. Bolme
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions
# are met:
#
# 1. Redistributions of source code must retain the above copyright
# notice, thi... | svohara/pyvision | src/pyvision/point/DetectorCorner.py | Python | bsd-3-clause | 7,912 | [
"Gaussian"
] | 82d9fe59e16ae3c3995a7118c6488a67583b6af3c2248c40a1395d84279717c4 |
# This tests calculates the force on the atoms of a
# slightly distorted Silicon primitive cell.
#
# If the test fails, set the fd boolean below to enable a (costly) finite
# difference check.
import numpy as np
from ase import Atoms
from gpaw import GPAW
from gpaw.atom.basis import BasisMaker
from gpaw.test import eq... | robwarm/gpaw-symm | gpaw/test/guc_force.py | Python | gpl-3.0 | 1,852 | [
"ASE",
"GPAW"
] | b868c4b30fbe9535f91771f0e95240b9de682a6bc0a9e4168b4b9386a110656e |
import sys,os
import pandas
from Bio import SeqIO
"""
Converter script for Percolator output to create Fido-readable files.
By Jose Fernandez Navarro,
SLIGHTLY MODIFIED BY WILLIAM BARSHOP (LABORATORY OF JAMES A WOHLSCHLEGEL)
These modifications allow input of multiple tab delimited peptide-level percolator outputs. ... | wohllab/milkyway_proteomics | galaxy_milkyway_files/tools/wohl-proteomics/MSGFcrux/tab_percolator_to_fido.py | Python | mit | 12,712 | [
"Galaxy"
] | 0d9890e45cc684495bd92852b5dc0b14e031aba839fbc458b398b59dc929b1af |
"""This file contains code for use with "Think Stats" and
"Think Bayes", both by Allen B. Downey, available from greenteapress.com
Copyright 2014 Allen B. Downey
License: GNU GPLv3 http://www.gnu.org/licenses/gpl.html
"""
from __future__ import print_function, division
"""This file contains class definitions for:
H... | OyamaZemi/ThinkStats2Notebooks | thinkstats2.py | Python | gpl-3.0 | 68,825 | [
"Gaussian"
] | a7b5e8534b330ff6a51030c6643cf28cf8e059204b837c3143b58a4ef94bf51c |
""" SystemAdministrator service is a tool to control and monitor the DIRAC services and agents
"""
import socket
import os
import re
import commands
import getpass
import importlib
import shutil
from datetime import datetime, timedelta
from distutils.version import LooseVersion #pylint: disable=no-name-in-module,impor... | Andrew-McNab-UK/DIRAC | FrameworkSystem/Service/SystemAdministratorHandler.py | Python | gpl-3.0 | 28,447 | [
"DIRAC"
] | ddfd24824403982f6d643ab5652dfcca9433af4315c3018564255d625a9bcbd2 |
from __future__ import print_function, division
import unittest, numpy as np
from pyscf import gto, scf
from pyscf.nao import gw as gw_c
mol = gto.M( verbose = 1,
atom = '''Be 0.0 0.0 0.269654; H 0.0 0.0 -1.078616''',
basis = 'cc-pvdz', spin = 1, )
gto_mf_uhf = scf.UHF(mol)
e_tot = gto_mf_uhf.kernel()
class ... | gkc1000/pyscf | pyscf/nao/test/test_0088_beh_gw.py | Python | apache-2.0 | 1,050 | [
"PySCF"
] | fe08165fd22ee53de7f5bd885876ba2650a75984b3e97e24fcd611a4e6f56ba4 |
# Copyright (C) 2012,2013
# Max Planck Institute for Polymer Research
# Copyright (C) 2008,2009,2010,2011
# Max-Planck-Institute for Polymer Research & Fraunhofer SCAI
#
# This file is part of ESPResSo++.
#
# ESPResSo++ is free software: you can redistribute it and/or modify
# it under the terms of t... | BackupTheBerlios/espressopp | src/FixedQuadrupleAngleList.py | Python | gpl-3.0 | 3,356 | [
"ESPResSo"
] | 53dfcc211e2ca5cda1e949884287f2e9e556070fcb11d7a2d9df9c1b5417f3cb |
# $Id$
#
# Copyright (c) 2003-2010 Greg Landrum and Rational Discovery LLC
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
from __future__ impor... | soerendip42/rdkit | rdkit/TestRunner.py | Python | bsd-3-clause | 5,737 | [
"RDKit"
] | 3efefae6b1644827fb031525a223836fb886fa57b1ad798676ba3815b8b171d8 |
#
# Copyright (c) 2003-2010 Greg Landrum and Rational Discovery LLC
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
import os
import sys
import ... | bp-kelley/rdkit | rdkit/TestRunner.py | Python | bsd-3-clause | 9,353 | [
"RDKit"
] | ed5de800e460da37e25dd2cb5c494693d0850709dd054250a9b88dbbbe459bb0 |
# -*- coding: utf-8 -*-
##############################################################################
#
# OpenERP, Open Source Management Solution
# Copyright (C) 2004-2009 Tiny SPRL (<http://tiny.be>).
# Copyright (C) 2010-2014 OpenERP s.a. (<http://openerp.com>).
#
# This program is free software: you ca... | danielharbor/openerp | openerp/tools/misc.py | Python | agpl-3.0 | 45,003 | [
"VisIt"
] | c7903498b4d639e30bcc9a14e8ac88fd540cb15500d49d63b567f91b31469409 |
#!/usr/bin/env python
# Copyright 2014-2018 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... | gkc1000/pyscf | pyscf/mcscf/mc1step_symm.py | Python | apache-2.0 | 6,381 | [
"PySCF"
] | 61905778fa4dc7f9ccacbc678aa37f1dcf84988dd88f2e43c7158d8ef32f68e3 |
# -*- coding: utf-8 -*-
# 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 Apach... | heiths/allura | Allura/allura/lib/helpers.py | Python | apache-2.0 | 42,752 | [
"VisIt"
] | e29b9af113bbdb3964e0c80f5a9ccc1bf6dcb20d4eb08d2476f191e144134f10 |
"""
Acceptance tests for Studio.
"""
import uuid
from selenium.webdriver.common.keys import Keys
from base_studio_test import StudioCourseTest
from common.test.acceptance.fixtures.course import CourseFixture, XBlockFixtureDesc
from common.test.acceptance.pages.common.auto_auth import AutoAuthPage
from common.test.acc... | a-parhom/edx-platform | common/test/acceptance/tests/studio/test_studio_general.py | Python | agpl-3.0 | 12,803 | [
"VisIt"
] | d4e1b954e281bb2a60838aad334f5fa9dbd323bc6f32c04e85221f6788a02eee |
# Copyright (c) 2012 The Chromium Authors. All rights reserved.
# Use of this source code is governed by a BSD-style license that can be
# found in the LICENSE file.
"""Top-level presubmit script for Chromium.
See http://dev.chromium.org/developers/how-tos/depottools/presubmit-scripts
for more details about the presu... | espadrine/opera | chromium/src/PRESUBMIT.py | Python | bsd-3-clause | 36,931 | [
"VisIt"
] | 49a21a9f60967ab48ee93d43677e8c814309c849c5a470cd2333b7954728d179 |
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
from gym.spaces import Box
import numpy as np
import ray
import ray.experimental.tf_utils
from ray.rllib.agents.dqn.dqn_policy import (_huber_loss, _minimize_and_clip,
... | atumanov/ray | python/ray/rllib/agents/ddpg/ddpg_policy.py | Python | apache-2.0 | 28,703 | [
"Gaussian"
] | 95b2afaba674e2da7b094eff109070431df164763c76a7842c0fbd3aa813a7b9 |
# Licensed to the Apache Software Foundation (ASF) under one
# or more contributor license agreements. See the NOTICE file
# distributed with this work for additional information
# regarding copyright ownership. The ASF licenses this file
# to you under the Apache License, Version 2.0 (the
# "License"); you may not u... | Laurawly/tvm-1 | python/tvm/relay/testing/init.py | Python | apache-2.0 | 5,593 | [
"Gaussian"
] | d4a2d88d2f21374e495334af41d67e164736fbbb19efd1f0d8c9c57d40c1c364 |
# -*- coding: utf-8 -*-
"""
Created on Thu Mar 08 08:29:00 2018
@author: tih
"""
import netCDF4
import os
import osr
import gdal
import pandas as pd
import numpy as np
import wa.General.raster_conversions as RC
import wa.General.data_conversions as DC
########################### Start SurfWAT input file creator ###... | wateraccounting/wa | Models/SurfWAT/Create_input_nc.py | Python | apache-2.0 | 10,181 | [
"NetCDF"
] | 0dd4c15f24128045d0ef5aea461c4839ecbff138db0e34be76b475a91a275891 |
# coding: utf-8
# Copyright 2014-2015 Álvaro Justen <https://github.com/turicas/rows/>
#
# 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 yo... | RhenanBartels/rows | tests/tests_utils.py | Python | gpl-3.0 | 1,842 | [
"MOE"
] | 2757a8c68188d0a0ac41750039fc94f4e954aa7f9f5945a1391bf6912ca420e8 |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Jul 31 13:31:18 2017
@author: kasperipalkama
"""
from neural_network.multilayer_perceptron import initialize, feed_forward, backpropagate, update_weights
import unittest
class Tests(unittest.TestCase):
def test_initialize(self):
# Tests n... | kapalk/feedforward-multilayer-perceptron | neural_network/tests/tests.py | Python | mit | 5,622 | [
"NEURON"
] | 7de9b2e9aa8a4be1ac8a3d205e45f43aa04aec977085ddbd918128c13509f249 |
#
# Copyright (C) 2013-2018 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later... | hmenke/espresso | testsuite/python/interactions_bond_angle.py | Python | gpl-3.0 | 5,102 | [
"ESPResSo"
] | 5fae4c14431af16d14447c488cbf3543dfad725431de8829b685d04430df1869 |
import math
import numpy as np
import scipy as sp
from scipy import special
from copy import deepcopy
"""
Functions to provide Gausssuan type filter coefficients to be used
in filters;.
"""
def gauss_pulse(sps = 32, BT = 0.5):
""" Generate a standard Gaussian pulse with the specified parameters """
... | phase4ground/DVB-receiver | modem/python/library/gauss_pulse.py | Python | gpl-3.0 | 2,338 | [
"Gaussian"
] | 8647beb207e08d7ad3b0b6dd645765a22ddcacebe7fdbffc60686598acd9201c |
#!/usr/bin/env python
from math import sqrt
import gtk
from ase.gui.languages import translate as _
from ase.gui.widgets import pack, Help
class Constraints(gtk.Window):
def __init__(self, gui):
gtk.Window.__init__(self)
self.set_title(_('Constraints'))
vbox = gtk.VBox()
b = pack... | slabanja/ase | ase/gui/constraints.py | Python | gpl-2.0 | 1,528 | [
"ASE"
] | 7d8e5051b1542a7adb12aece09eb80b9aa4cc96090f8c7b732bb14abf54db8d0 |
"""
This software is an implementation of
Deep MRI brain extraction: A 3D convolutional neural network for skull stripping
You can download the paper at http://dx.doi.org/10.1016/j.neuroimage.2016.01.024
If you use this software for your projects please cite:
Kleesiek and Urban et al, Deep MRI brain extraction: A 3... | GUR9000/Deep_MRI_brain_extraction | utils/Segmentation_predictor.py | Python | mit | 15,201 | [
"NEURON"
] | abece599bb1dffea71d4dd318cf9f6e356ed067b053e7a76eaa73a0b40ab9811 |
from collections import namedtuple
class CPH_Help:
quickstart = """<html>
<strong>The quicksave and quickload functionality (see buttons above) persist through<br>
reloading not only the extension, but Burp Suite entirely. All values of each existing<br>
configuration tab will be saved, along with the... | elespike/burp-cph | CPH_Help.py | Python | mit | 5,303 | [
"VisIt"
] | 40717e2c2de1fcc5fcd76b075bc1a7e86e4b27b9963bd18ba7b018e1c1c06b78 |
import ast
import inspect
from ast import (
Assign, Call, Continue, Load, Name, Num, Store, Tuple, While
)
from functools import wraps
def deindent(source):
if source.startswith(" "):
lines = source.split("\n")
level = len(filter(lambda s: not s, lines[0].split(" ")))
return "\n".join... | Bogdanp/tcopy | tcopy/tco.py | Python | mit | 4,395 | [
"VisIt"
] | 6fab8497719e495cb6506145e1fe3955516bc4eebd6b1bbbd24e7a9cdadbb61d |
# Copyright (C) 2016-2019 The ESPResSo project
# Copyright (C) 2014 Olaf Lenz
#
# 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... | KaiSzuttor/espresso | src/python/espressomd/gen_pxiconfig.py | Python | gpl-3.0 | 1,845 | [
"ESPResSo"
] | 7545bbc76cd4c77b8e265271966e4c43ea4e3ff566bd471ecb07a123317b40bf |
#! /usr/bin/env python
# -*- coding: utf-8 -*-
###############################################################################
## ##
## Copyright 2010-2012, Neil Wallace <neil@openmolar.com> ##
## ... | rowinggolfer/openmolar2 | src/lib_openmolar/admin/db_orm/admin_users.py | Python | gpl-3.0 | 8,185 | [
"CRYSTAL"
] | 733929be1c0ba784478ef580ccb821869ac10d5e5fb66b835f8fcd5074b1bbf5 |
"""
THE KNIGHT'S TOUR
Starting from any initial position, use a knight to visit all the squares of a
chessboard exactly once.
Copyright 2017 George Boukeas (boukeas@gmail.com)
Licensed under the MIT License:
Permission is hereby granted, free of charge, to any person obtaining a copy
of this software and associate... | boukeas/searchtoy | examples/knight-tour/knight.py | Python | mit | 8,167 | [
"VisIt"
] | 33d05607b8d21c9d67e756798341f713d8efee09033a8db8e86a765f004fc10d |
# -*- coding: utf-8 -*-
"""This module tests various ways how to set up the provisioning using the provisioning dialog."""
from datetime import datetime, timedelta
import fauxfactory
import pytest
import re
from widgetastic.utils import partial_match
from cfme import test_requirements
from cfme.base.login import Base... | jkandasa/integration_tests | cfme/tests/infrastructure/test_provisioning_dialog.py | Python | gpl-2.0 | 11,178 | [
"VisIt"
] | 5afeb4e490d719ebf64989b8a85ec2554ad6b08808b6552546729263da2a5387 |
# This Source Code Form is subject to the terms of the Mozilla Public
# License, v. 2.0. If a copy of the MPL was not distributed with this
# file, You can obtain one at http://mozilla.org/MPL/2.0/.
import os, re, sys
from copy import deepcopy
import ipdl.ast
from ipdl.cxx.ast import *
from ipdl.type import ActorType... | sergecodd/FireFox-OS | B2G/gecko/ipc/ipdl/ipdl/lower.py | Python | apache-2.0 | 194,004 | [
"VisIt"
] | 7d04887216afe3cd507c02314a0d34f0e7c5bda4091a5a469b2bc15a7aa42b7f |
#!/usr/bin/env python
# Copyright 2014-2018 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... | gkc1000/pyscf | pyscf/cc/test/test_rccsd_lambda.py | Python | apache-2.0 | 12,951 | [
"PySCF"
] | 63fec4f50c39c31a4ab690bc79e16a15f40c16c45a6689d1260a14f91e006f83 |
# -*- coding: utf-8 -*-
"""
Created on Mon Jan 7 13:49:24 2019
@author: butenko
"""
import h5py
import os
import neuron as n
import numpy as np
from pandas import read_csv
import matplotlib.pyplot as plt
import time as tm
import multiprocessing as mp
from Axon_files.axon import Axon
from Axon_files.Parameter_inserti... | andreashorn/lead_dbs | ext_libs/OSS-DBS/OSS_platform/Axon_files/NEURON_direct_run.py | Python | gpl-3.0 | 21,587 | [
"NEURON"
] | 09b484d946a48db50f49d0e3ef4f81ace39664d8157ca892d3385b137fb782d0 |
# -*- coding: utf-8 -*-
# ***********************************************************************
# Copyright (C) 2016 - 2017 Oscar Gerardo Lazo Arjona *
# <oscar.lazoarjona@physics.ox.ac.uk> *
# ***********************************************************************
... | oscarlazoarjona/quantum_memories | examples/hyperfine_orca/simple_example.py | Python | gpl-3.0 | 1,936 | [
"ORCA"
] | 68681f80f58ce0620783bb784770aded40cbab60fa57c19816df3a404b5f5941 |
import bpy
import math
import random
import heapq
import numpy
from .. import pam_vis
from .. import model
from .. import pam
from .. import mesh
from . import data
from . import anim_spikes
from . import anim_functions
from .helper import *
import traceback
import logging
logger = logging.getLogger(__package__)
#... | MartinPyka/Parametric-Anatomical-Modeling | pam/pam_anim/pam_anim.py | Python | gpl-2.0 | 36,893 | [
"NEURON"
] | 97100fecd0dafe45e38b60193cc69026b99262ffccc3bc879d56cdf5de35d9c2 |
# Tutorial2.py
# Author : Jose Guzman
# Mail : jose.guzman __at__ physiologie.uni-freiburg.de
#! /usr/bin/env python
import neuron
import nrn
from neuron import h
# load Neuron graphical user interface
#if not ( h('load_file("nrngui.hoc")')):
# print "Error, cannot open NEURON gui"
# create soma object
soma = nr... | nmsutton/MemoryModule | python_version/examples/Tutorial2.py | Python | mit | 960 | [
"NEURON"
] | 1ac2442a5a997c84e56c3d3f3d2870a2f283c54a91ecf2cd7fbd4ae75991f997 |
import math
from PyQt4.QtCore import pyqtSlot
import numpy as np
import random
import pyqtgraph as pg
from pyqtgraph.Qt import QtGui, QtCore
from worker import Worker
import time
from multiprocessing import Queue
import sys
class AlgoGen(QtCore.QThread):
triggerUpdate = QtCore.pyqtSignal()
"""Genetic algorithm ... | bchappet/dnfpy | src/dnfpyUtils/optimisation/ag.py | Python | gpl-2.0 | 12,953 | [
"Gaussian"
] | e9da6f3a924ba5eb73c6f24744086179f819ce89c0f121c1576347f9c09b0ea6 |
# -*- coding: utf-8 -*-
from __future__ import unicode_literals
from django.conf import settings
from django.conf.urls import include, url
from django.conf.urls.static import static
from django.contrib import admin
from django.views.generic import TemplateView
from django.views import defaults as default_views
urlpat... | dfirst/django_cv | config/urls.py | Python | mit | 1,433 | [
"VisIt"
] | 0f0ca43eda95cbd681145feb171fb7be2c76772ccbc87a09b6090e6832276a1f |
from __future__ import print_function
from six import iteritems
from six.moves import range
import os
from collections import defaultdict
import vtk
from vtk import vtkTriangle, vtkTetra
from pyNastran.converters.fast.fgrid_reader import FGridReader
class FastIO(object):
def __init__(self):
pass
de... | saullocastro/pyNastran | pyNastran/converters/fast/fast_io.py | Python | lgpl-3.0 | 6,249 | [
"VTK"
] | ed10cfd04676e9da9675a1b1a042f9bc67791f45ca8e45f163bcfb8a2d5094a8 |
# (c) 2012-2014, Michael DeHaan <michael.dehaan@gmail.com>
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) an... | ravibhure/ansible | lib/ansible/playbook/conditional.py | Python | gpl-3.0 | 10,078 | [
"VisIt"
] | b97706b1b06c3756b6e42468643a1cac5d4686bbb1636c9c13ff9285c24b87ee |
#!/usr/bin/env python
#coding:utf-8
from gi.repository import Gtk
class LinkButtonWindow(Gtk.Window):
def __init__(self):
Gtk.Window.__init__(self, title='LinkButton Demo')
self.set_border_width(10)
button = Gtk.LinkButton('http://www.gtk.org', 'Visit Gtk+ homepage')
self.add(but... | qytz/qytz-notes | source/tech/PyGObject-Tutorial/examples/linkbutton_example.py | Python | mit | 423 | [
"VisIt"
] | 49eb9e8f0520530bf92650af1d132027df9e8c1df25a9632f20f39e1e400eb8e |
# -*- coding: utf-8 -*-
"""
***************************************************************************
GrassAlgorithm.py
---------------------
Date : August 2012
Copyright : (C) 2012 by Victor Olaya
Email : volayaf at gmail dot com
************************... | SebDieBln/QGIS | python/plugins/processing/algs/grass/GrassAlgorithm.py | Python | gpl-2.0 | 22,814 | [
"NetCDF"
] | 750ef21d0b442d4224ce3f9688854667adf2669c0cdb330be7d5e3b667d5b217 |
#!/usr/bin/env python3
'''Glob through files in current directory looking for */*_ligand.sdf and */*.gninatypes (assuming PDBbind layout).
Calculate the distance between centers. If types files are passed, create versions with this information,
optionally filtering.
'''
import sys,glob,argparse,os
import numpy as n... | gnina/scripts | calccenters.py | Python | bsd-3-clause | 1,799 | [
"Pybel"
] | 70619f4351c7beb6553f07d587840590a07970a0d962082f7d8006bde800e55b |
# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
class Phyluce(PythonPackage):
"""phyluce (phy-loo-chee) is a software package that was initially... | LLNL/spack | var/spack/repos/builtin/packages/phyluce/package.py | Python | lgpl-2.1 | 1,610 | [
"BWA",
"Biopython"
] | cc20e2793b6bc011cd20b3b77406f3c18267e3bf889413986502e60c37cabbf1 |
# This file is vendored from Autorelease
import os
import ast
import sys
import fnmatch # Py 2
from setuptools import setup
def _glob_glob_recursive(directory, pattern):
# python 2 glob.glob doesn't have a recursive keyword
# this implements for the specific case that we want an exact match
# See also h... | choderalab/openpathsampling | setup.py | Python | lgpl-2.1 | 4,759 | [
"VisIt"
] | 415c29f808dde86deb60d795057fe37febd145c8ffaf24ad5a8b37dd27688d64 |
#!/usr/bin/env python
#coding:utf-8
# File: pre_process_snlp.py
# Author: Dr. Ivan S. Zapreev
# Purpose: Pre-processor helper for the source text based on Stanford Core NLP output
# This script requires three parameters:
# ${1} - is the input file name with Stanford CoreNLP processed UTF-8 text... | ivan-zapreev/Distributed-Translation-Infrastructure | script/text/pre_process_snlp.py | Python | gpl-2.0 | 7,797 | [
"VisIt"
] | bdcc176ed46b5666b1e4f559ec665967341071b9972d269e45821af5ab481578 |
# 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... | jart/tensorflow | tensorflow/contrib/autograph/pyct/cfg_test.py | Python | apache-2.0 | 24,299 | [
"VisIt"
] | 46e1a8fec1d5476a7c2241289fa39943c0d83a83f0968d52da9303b814ba17c0 |
import unittest
import io
import sys
from strategy.ducks import MallardDuck, ModelDuck
from strategy.fly_behaviours import FlyRocketPowered
from observer.weather_data import WeatherData
from observer.observers import CurrentConditionsDisplay
from decorator.beverages import Espresso, DarkRoast
from decorator.condimen... | ajbrzoz/Head-First-Design-Patterns | tests/test_patterns.py | Python | mit | 4,067 | [
"ESPResSo"
] | 5ff16edf86a3cae72b30b3c6444166c342b3be7e69e6d005ad503792dc7f23d0 |
# Copyright (c) 2008 Brian Zimmer <bzimmer@ziclix.com>
#
# Permission is hereby granted, free of charge, to any person obtaining a copy of
# this software and associated documentation files (the "Software"), to deal in
# the Software without restriction, including without limitation the rights to
# use, copy, modify, m... | bzimmer/pysmug | pysmug/__init__.py | Python | mit | 3,543 | [
"Brian"
] | c6d303caf62ef44c1928bd6998c00b0017c661061e417988a71ad82d5e877b42 |
#!/usr/bin/env python
from setuptools import setup, find_packages
import re
import os
# There is an issue with building python packages in a shared vagrant directory because of how setuptools works
# in python < 2.7.9. We solve this by deleting the filesystem hardlinking capability during build.
# See: http://stackove... | tobyoxborrow/gitlint | setup.py | Python | mit | 2,831 | [
"VisIt"
] | f50708bdcd4120359da7466a56d961c8fbb79b7d706a8127588a7f1250a86126 |
from math import sqrt
import numpy as np
from pymicro.view.scene3d import Scene3D
from pymicro.view.vtk_utils import *
from pymicro.crystal.lattice import HklPlane
from pymicro.crystal.microstructure import Orientation
'''
Create a 3d scene with a hexagonal crystal lattice.
The usual hexagonal prism is displayed with ... | heprom/pymicro | examples/3d_visualisation/hcp_crystal_3d.py | Python | mit | 2,860 | [
"CRYSTAL",
"VTK"
] | c4cbf1aa2ce4c86f27253e20279f92321d0e639ddfc576e655be6da9fb98cb98 |
"""
@name: Modules/Core/Mqtt/mqtt_util.py
@author: D. Brian Kimmel
@contact: D.BrianKimmel@gmail.com
@copyright: (c) 2015-2020 by D. Brian Kimmel
@license: MIT License
@note: Created on Jul 13, 2015
@Summary:
"""
__updated__ = '2020-01-19'
# Import system type stuff
# Import PyMh files and module... | DBrianKimmel/PyHouse | Project/src/Modules/Core/Mqtt/mqtt_util.py | Python | mit | 3,273 | [
"Brian"
] | 9eb60a68e2c3f0f7e544b27f16ae0f33f143f89d8d4a099fdde74862cfc51753 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
'''
freeseer - vga/presentation capture software
Copyright (C) 2011 Free and Open Source Software Learning Centre
http://fosslc.org
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 ... | Freeseer/freeseer | src/freeseer/frontend/configtool/AVWidget.py | Python | gpl-3.0 | 9,939 | [
"VisIt"
] | 19c6a01a2aae686a709013429c21c7662a14abf66dca4a8e0fc6f98fce5999a3 |
#
# Copyright (C) 2013 Stanislav Bohm
#
# This file is part of Kaira.
#
# Kaira 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, version 3 of the License, or
# (at your option) any later versi... | Kobzol/kaira | gui/cconfig.py | Python | gpl-3.0 | 10,258 | [
"FLEUR"
] | 0f5312715df909c8e3de55307a37e36ffdd4ff602d37590d50e18099db837326 |
# Copyright 2013-2014 Mitchell Stanton-Cook Licensed under the
# Educational Community 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.osedu.org/licenses/ECL-2.0
#
# Unless required by ... | jling90/SeqFindR | SeqFindr/blast.py | Python | apache-2.0 | 7,539 | [
"BLAST"
] | 9352bd1fb32f71b44827a1b62aca857648cb92c0f8c289b211278d81e21e2d05 |
# -*- coding: utf-8 -*-
#
# GSL documentation build configuration file, created by
# sphinx-quickstart on Mon Feb 27 15:17:27 2017.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this
# autogenerated file.
#
# All c... | BrianGladman/GSL | doc/conf.py | Python | gpl-3.0 | 6,512 | [
"Brian"
] | bc4cfbce97f324ef1dd5d71c9d2a8a0895576bedcf3dc8b83238f9b3118b8783 |
#* This file is part of the MOOSE framework
#* https://www.mooseframework.org
#*
#* All rights reserved, see COPYRIGHT for full restrictions
#* https://github.com/idaholab/moose/blob/master/COPYRIGHT
#*
#* Licensed under LGPL 2.1, please see LICENSE for details
#* https://www.gnu.org/licenses/lgpl-2.1.html
"""Tools fo... | nuclear-wizard/moose | python/MooseDocs/common/build_class_database.py | Python | lgpl-2.1 | 3,544 | [
"MOOSE"
] | aa7afacd7238134e9836f450c7fb1a0347892633379c513db9ee2f71d209ec4a |
'''
Code for Fast k-Nearest Neighbour Search via Prioritized DCI
This code implements the method described in the Prioritized DCI paper,
which can be found at https://arxiv.org/abs/1703.00440
This file is a part of the Dynamic Continuous Indexing reference
implementation.
This Source Code Form is subject to the t... | ke-li/dci-knn | examples/example_tf.py | Python | mpl-2.0 | 13,285 | [
"VisIt"
] | 8723d5ca9e618953671712f2872f48bbbb8a28a41df3ad033f2b38e213302888 |
from time import time
import sys
import numpy as np
from gpaw import parsize, parsize_bands
from gpaw.band_descriptor import BandDescriptor
from gpaw.grid_descriptor import GridDescriptor
from gpaw.kohnsham_layouts import BandLayouts
from gpaw.mpi import world, distribute_cpus
from gpaw.utilities import gcd
from gpaw.u... | qsnake/gpaw | gpaw/test/parallel/hamiltonian.py | Python | gpl-3.0 | 3,449 | [
"GPAW"
] | 0a9aa2849f9f47232464b4c2c2f9fb1bbd43c9c89019be838ee39006fe79696a |
# Copyright (c) 2012, GPy authors (see AUTHORS.txt).
# Licensed under the BSD 3-clause license (see LICENSE.txt)
from __future__ import division
import unittest
import numpy as np
import GPy
class MiscTests(unittest.TestCase):
def setUp(self):
self.N = 20
self.N_new = 50
self.D = 1
... | esiivola/GPYgradients | GPy/testing/model_tests.py | Python | bsd-3-clause | 52,590 | [
"Gaussian"
] | f7e9841a52c467274704c1886d2d312bbd51f4aef873226963def442f39a2e05 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from .calculations import *
from .netcdf import *
from .pseudos import *
from .tasks import *
from .works import *
| matk86/pymatgen | pymatgen/io/abinit/__init__.py | Python | mit | 226 | [
"NetCDF",
"pymatgen"
] | 1e0b7f594ed463b31a6b1f3b45a4d484132f6339207620ecd078c3e29355d9f3 |
"""
Here we test the FDR algorithm using two maps with pure Gaussian noise.
In one map the pixels are not spatially correlated, in the other one they
are. In fact, the second map has been made by convolving a map similar to
the first with the dirty beam of a certain VLA observation.
Analysis shows that the pixel val... | mkuiack/tkp | tests/test_sourcefinder/test_FDR.py | Python | bsd-2-clause | 4,451 | [
"Gaussian"
] | f49ee6330a1c388f36a3d2fc10d2be4a3b1ea114579b0514192f1cd5b20d1015 |
#!/usr/bin/env python
###############################################################################
#
# __get_inter_phyla_transfers.Trackm__.py - Description!
#
###############################################################################
# #
# This program is free software: you can redistribute it and/or modify #
... | JoshDaly/scriptShed | get_inter_phyla_transfers.Trackm.py | Python | gpl-2.0 | 14,510 | [
"Biopython"
] | f1b011b70939e38939e7cb1eb426774f6867461d0406012bfe2996c80214d23a |
##############################################################################
# MDTraj: A Python Library for Loading, Saving, and Manipulating
# Molecular Dynamics Trajectories.
# Copyright 2012-2013 Stanford University and the Authors
#
# Authors: Robert McGibbon
# Contributors: Kyle A Beauchamp
#
# MDTraj is... | casawa/mdtraj | mdtraj/testing/testing.py | Python | lgpl-2.1 | 8,290 | [
"MDTraj"
] | 54e9842707f36b7dd5fc4040c2c8da12edcde2c7241d53d4e8aaed295f17e6fd |
# (C) British Crown Copyright 2010 - 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... | ghislainp/iris | lib/iris/tests/test_grib_save.py | Python | gpl-3.0 | 10,458 | [
"NetCDF"
] | 7a4fa487d1bd148a88f5f7b59d3a32e1e2ad836a1e6ed76b0b1ea2fe22806abb |
#!/usr/bin/env python
import vtk
from vtk.test import Testing
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
lut = vtk.vtkLookupTable()
lut.SetHueRange(0.6, 0)
lut.SetSaturationRange(1.0, 0)
lut.SetValueRange(0.5, 1.0)
# Read the data: a height field results
demReader = vtk.vtkD... | hlzz/dotfiles | graphics/VTK-7.0.0/Rendering/Core/Testing/Python/TestCameraInterpolator.py | Python | bsd-3-clause | 3,441 | [
"VTK"
] | f0bb28c0c21b45cb82baa10428a36e140e70a6d95c0de8448a93b8d53d70536a |
# -*- coding: iso-8859-1 -*-
#
# Bicycle Repair Man - the Python Refactoring Browser
# Copyright (C) 2001-2006 Phil Dawes <phil@phildawes.net>
# All rights reserved.
#
# This software is licensed as described in the file COPYING, which
# you should have received as part of this distribution.
#!/usr/bin/env python
impo... | lebauce/artub | bike/parsing/test_fastparser.py | Python | gpl-2.0 | 4,594 | [
"VisIt"
] | 4a3439eff5101c3eef2dd07a76be7e222205d7f670e67b9fe05be168b3975031 |
# -*- coding: utf-8 -*-
import moose
foo = moose.Pool('/foo1', 500)
bar = moose.vec('/foo1')
assert len(bar) == 500
| dharmasam9/moose-core | tests/python/test_vec.py | Python | gpl-3.0 | 116 | [
"MOOSE"
] | 42845e86d15a4271626c81f5193e10740ee9793a29b49547eecab15bcf2e804b |
"""
Find the k-th min of a binary search tree.
Bonus: find the k-th max.
"""
import unittest
class BST(object):
def __init__(self, value):
self.value = value
self.left, self.right = None, None
def build_bst():
_4 = BST(4)
_8 = BST(8)
_10 = BST(10)
_12 = BST(12)
_14 = BST(14)... | kratorius/ads | python/interviewquestions/bst_kth_min.py | Python | mit | 2,847 | [
"VisIt"
] | 65b8ec4c7d6de33f0f16af91fe24e4498496e7363692c5ebfa0d8788abbc11d6 |
# Hidden Markov Model Implementation
import math
import pylab as pyl
import numpy as np
import matplotlib.pyplot as pp
import matplotlib.cm as cm
#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 tf
#impo... | tapomayukh/projects_in_python | rapid_categorization/fixed_length_training_data/hmm_force_motion_10_states_scaled_wrt_all_data.py | Python | mit | 13,096 | [
"Gaussian",
"Mayavi"
] | 3b13e5ac1be7e5d3a5fe42caad5a61133e86bd434001003082abb4a555c12bc6 |
"""HTTPS module based on the GFAL2_StorageBase class."""
# from DIRAC
from DIRAC.Resources.Storage.GFAL2_StorageBase import GFAL2_StorageBase
from DIRAC import gLogger
class GFAL2_HTTPSStorage( GFAL2_StorageBase ):
""" .. class:: GFAL2_HTTPSStorage
HTTP interface to StorageElement using gfal2
"""
_INPUT_P... | petricm/DIRAC | Resources/Storage/GFAL2_HTTPSStorage.py | Python | gpl-3.0 | 797 | [
"DIRAC"
] | 61bee87557375ebda074c844d9a52fa1a831029b73a2b51f7a51847fcd86a495 |
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