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#!/usr/bin/env python
# Copyright 2015 The Kubernetes Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by appli... | aledbf/kops | hack/boilerplate/boilerplate.py | Python | apache-2.0 | 6,239 | [
"VisIt"
] | 3e1362c6ead05f896d3567d909c15bc5e36839f54ee1839354d4d79f50b25487 |
# -*- coding: utf-8 -*-
# Copyright 2020 Google LLC
#
# 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... | googleads/google-ads-python | google/ads/googleads/v10/common/types/user_lists.py | Python | apache-2.0 | 21,362 | [
"VisIt"
] | 08d59835000d66cac08cb805c6b5d47cf730d9afd79b48bb8184a13044da1daf |
"""
This is Natural Evolution Strategies, designed to run on one computer and not a
cluster.
(c) May 2017 by Daniel Seita, though obviously based on OpenAI's work/idea.
"""
import gym
import logz
import numpy as np
import os
import pickle
import sys
import tensorflow as tf
import tensorflow.contrib.layers as layers
i... | DanielTakeshi/rl_algorithms | es/es.py | Python | mit | 15,529 | [
"Gaussian"
] | c20e64b04344d494c998fd3840433f89252edfd2c89677bf3211181e579f3e8b |
import numpy as np
from ase.parallel import world
try:
import json
except ImportError:
json = None
if json is None:
def dumps(obj):
if isinstance(obj, str):
return '"' + obj + '"'
if isinstance(obj, (int, float)):
return repr(obj)
if isinstance(obj, dict):... | grhawk/ASE | tools/ase/tasks/io.py | Python | gpl-2.0 | 1,499 | [
"ASE"
] | 693fd3a4505b56fd756ff74aa43106f8f59bddfa89158912b2325dbde2e6721b |
###########################################################
###########################################################
#### ####
#### SINGLE SLICE ROUTINE ####
#### ####
####################... | gnudo/grecoman | externals/singleSliceFunc.py | Python | gpl-3.0 | 10,951 | [
"Gaussian"
] | 0b7f25d241a37e4ceeec1a36243b17a3341f0be2c2ac3d92d944bf00208b2698 |
# Python test set -- part 1, grammar.
# This just tests whether the parser accepts them all.
# NOTE: When you run this test as a script from the command line, you
# get warnings about certain hex/oct constants. Since those are
# issued by the parser, you can't suppress them by adding a
# filterwarnings() call t... | tree-sitter/tree-sitter-python | examples/python2-grammar-crlf.py | Python | mit | 31,929 | [
"GULP"
] | 42e9014edfae60326c9e26568e1ce04ca266616410b81ac5bcf09ab1424649bd |
"""Module output.
Defines functions that write the results of source detection in a
variety of formats. These are then used as methods of Image objects
and/or are called by the outlist operation if output_all is True.
"""
from __future__ import print_function
from __future__ import absolute_import
from .image import ... | lofar-astron/PyBDSF | bdsf/output.py | Python | gpl-3.0 | 49,335 | [
"Gaussian"
] | df4c10197bc1bb7ae4874c563d2fbaf1744773cd27e10329191ba9337fe2acfb |
import json
import time
import uuid
import hashlib
import boto3
import botocore.exceptions
import sure # noqa # pylint: disable=unused-import
from botocore.exceptions import ClientError
from freezegun import freeze_time
from moto import mock_sqs, settings
from unittest import SkipTest, mock
import pytest
from moto.... | spulec/moto | tests/test_sqs/test_sqs.py | Python | apache-2.0 | 105,998 | [
"VisIt"
] | 2871fcc0899f0670a17bde5b687d7b355334419d6d3a288102b96d80e67dfefa |
#!/usr/bin/env python
#-*- coding:utf-8 -*-
#
# This file is part of Decoy Finder
#
# Copyright 2011-2012 Adrià Cereto Massagué <adrian.cereto@urv.cat>
#
# 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
# ... | URVnutrigenomica-CTNS/DecoyFinder | find_decoys.py | Python | agpl-3.0 | 24,708 | [
"CDK",
"Pybel",
"RDKit"
] | c653c4a86f83e42cda842eede36fa4b24bf32f90e5fe67cc35fc802ea4cea5c6 |
import os.path
import warnings
from glob import glob
from io import BytesIO
from numbers import Number
from pathlib import Path
from textwrap import dedent
from typing import (
TYPE_CHECKING,
Callable,
Dict,
Hashable,
Iterable,
Mapping,
Tuple,
Union,
)
import numpy as np
from .. import... | jhamman/xarray | xarray/backends/api.py | Python | apache-2.0 | 48,993 | [
"NetCDF"
] | 2f20bad091f47f6f0f6a802f2853c404699e0fc9594006e5694d17450fe0fa7d |
from qgis.core import QgsCoordinateReferenceSystem
from qgis.core import QgsCoordinateTransform
from qgis.core import QgsDataSourceUri
from qgis.core import QgsFeatureRequest
from qgis.core import QgsProject
from qgis.core import QgsWkbTypes
from qgis.gui import QgsRubberBand
from qgis.gui import QgsVertexMarker
from q... | nens/threedi-qgis-plugin | tool_graph/graph_view.py | Python | gpl-3.0 | 34,582 | [
"NetCDF"
] | 46f3db26731cae7cbadbdd7f4ba35fb5470db905856c517801e3f5c23a173782 |
#!/usr/bin/env python
############################################################################
# Copyright (c) 2015 Saint Petersburg State University
# Copyright (c) 2011-2014 Saint Petersburg Academic University
# All Rights Reserved
# See file LICENSE for details.
################################################... | B-UMMI/INNUca | src/SPAdes-3.11.1-Linux/bin/spades.py | Python | gpl-3.0 | 55,928 | [
"BWA"
] | 35346687cd8ce76760dea6bbb50051317b2ca9c7d1f9e75fb1f7088816401e14 |
# -*- coding: utf-8 -*-
"""
Copyright [2009-2020] EMBL-European Bioinformatics Institute
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... | RNAcentral/rnacentral-import-pipeline | rnacentral_pipeline/databases/ensembl/helpers.py | Python | apache-2.0 | 1,860 | [
"Biopython"
] | 1b3583ee252763d4aae09090396a53fd2cf57692dc060d27a6cf2362a251e2ed |
"""
# Majic
# Copyright (C) 2014 CEH
#
# 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 pr... | NERC-CEH/jules-jasmin | majic/joj/utils/constants.py | Python | gpl-2.0 | 14,862 | [
"NetCDF"
] | 5c59994dfaeae81b4be172f3be447231620cd80d0f9f1f1f3b1a32b1bedf742d |
"""
Tests configuration, e.g. proper paths, etc.
"""
import os
from django.conf import settings
from django.test import TestCase
from millstone_setup import download_tools
from conf import external_tool_registry
class TestConfiguration(TestCase):
def test_tool_download(self):
"""Runs millstone_setup.p... | woodymit/millstone | genome_designer/tests/configuration_tests/test_configuration.py | Python | mit | 1,204 | [
"BWA"
] | 7901cb8ee08ac45ed4497dc38472cb4c28df7ab5bdaa4414c6d48c117bb7312f |
'''code transformations to access global symbol bindings
'''
from __future__ import absolute_import
import .ir as I
from .scope import NameTranslation, Binding
from .walk import IRWalker
from ..runtime.symbol import get_symbol_cells_map
I.load_time_value(I.call(
callee=I.constant(get_symbol_cells_map),
kwd_... | matthagy/Jamenson | jamenson/compiler/Attic/globals.py | Python | apache-2.0 | 1,711 | [
"VisIt"
] | 39e1a9d4b40984f0bd850e8ae97c14cb6103d23ce41fc1a2cf5aeb957bb282e4 |
import numpy as np
import os
import shutil
from json import dump, load
from subprocess import call
from typing import List, Union
try:
from pymatgen.io.vasp.inputs import Poscar
from pymatgen.io.vasp.outputs import Vasprun
from pymatgen.io.vasp.sets import VaspInputSet
from pymatgen.core.periodic_tabl... | mir-group/flare | flare/dft_interface/vasp_util.py | Python | mit | 6,420 | [
"VASP",
"pymatgen"
] | 42cb9c9567bf75eddb1b0a3dcc4103f178ad37ce4e98ad90a63788d84b0fd54b |
"""MNIST Autoencoder. """
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
import os
# os.environ['TF_CPP_MIN_LOG_LEVEL'] = '3'
import numpy as np
import tensorflow as tf
import utils as ut
import input as inp
import visualization as vis
import matplotlib.py... | yselivonchyk/TensorFlow_DCIGN | autoencoder.py | Python | mit | 29,868 | [
"Gaussian"
] | fe45a1bf6a414c9e4cd0602c6df91fe15c499da1e5366f6111d70d2d805cf84f |
# Orca
#
# Copyright 2005-2008 Sun Microsystems Inc.
#
# 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.
#
# This... | Alberto-Beralix/Beralix | i386-squashfs-root/usr/share/pyshared/orca/scripts/toolkits/GAIL.py | Python | gpl-3.0 | 1,077 | [
"ORCA"
] | 8ee8ac31569bc818fcad4f8e9656bdf3433f2b8119ac97138715da4ec95c31c6 |
# Copyright 2016 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... | frreiss/tensorflow-fred | tensorflow/python/ops/distributions/distribution.py | Python | apache-2.0 | 46,676 | [
"Gaussian"
] | f5b52564711d508de5fba1895526ef82adc6561e6a32caba2ac36f9e9c945adc |
# -*- coding: utf-8 -*-
#
# This file is part of Invenio.
# Copyright (C) 2013, 2014, 2015 CERN.
#
# Invenio 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 optio... | jirikuncar/invenio-deposit | invenio_deposit/models.py | Python | gpl-2.0 | 48,632 | [
"VisIt"
] | 31ae9d4819d4a4832add552ae5fe1f2881bd45a14cd556e11f983e41887e36fc |
#! /usr/bin/env python
"""
Module with fake companion injection functions.
"""
__author__ = 'Carlos Alberto Gomez Gonzalez, Valentin Christiaens'
__all__ = ['collapse_psf_cube',
'normalize_psf',
'cube_inject_companions',
'generate_cube_copies_with_injections',
'frame_inject... | carlgogo/vip_exoplanets | vip_hci/metrics/fakecomp.py | Python | bsd-3-clause | 27,327 | [
"Gaussian"
] | fea1e87d56218f574f076fb465efe044a422249b172afc94bb6dc6f24acefd23 |
#!/usr/bin/env python
#Copyright (C) 2013 by Glenn Hickey
#
#Released under the MIT license, see LICENSE.txt
import unittest
import sys
import os
import argparse
import numpy as np
from teHmm.track import TrackData
from teHmm.hmm import MultitrackHmm
from teHmm.cfg import MultitrackCfg
from teHmm.modelIO import loadM... | glennhickey/teHmm | bin/teHmmView.py | Python | mit | 13,032 | [
"Gaussian"
] | b561349fe6a3ed166f48ab334f249a188ae9e50887631174500ab02d9a9b7629 |
"""
A Python implementation of the _bh_ Olden benchmark.
The Olden benchmark implements the Barnes-Hut benchmark
that is decribed in:
J. Barnes and P. Hut, "A hierarchical o(N log N) force-calculation algorithm",
Nature, 324:446-449, Dec. 1986
The original code in the Olden benchmark suite is derived from the... | shedskin/shedskin | examples/bh.py | Python | gpl-3.0 | 20,915 | [
"CRYSTAL"
] | 16db9c6ba87b1a3ceddc7de79492edca6b3adff19c27d14da4146a906afde6c8 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# Copyright (c) 2018 Satpy developers
#
# This file is part of satpy.
#
# satpy 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... | pytroll/satpy | satpy/tests/reader_tests/test_geocat.py | Python | gpl-3.0 | 8,746 | [
"NetCDF"
] | 516ebb781a564f4dc723e9c6243d1b79f566c9cafd1905389d563c3fd99bad06 |
# Copyright 2013-2020 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
class RAffyilm(RPackage):
"""Linear Model of background subtraction and the Langmuir isotherm.
... | iulian787/spack | var/spack/repos/builtin/packages/r-affyilm/package.py | Python | lgpl-2.1 | 1,354 | [
"Bioconductor"
] | ad71f9b65a4f0159dafca7765bbd05c3eba7a08d046c2d96f930231fc09ef533 |
import numpy as np
from ase.units import Hartree
from gpaw.transport.tools import aa1d, interpolate_array, \
collect_atomic_matrices, distribute_atomic_matrices
from gpaw.transport.io import Transport_IO
from gpaw.grid_descriptor import GridDescriptor
from gpaw import parsize_domain
from gpaw.... | robwarm/gpaw-symm | gpaw/transport/surrounding.py | Python | gpl-3.0 | 12,845 | [
"ASE",
"GPAW"
] | e299d9e68a89cadd8e5c560c1df039dcc707d9eeaa5cbbbce339ae4f73bdf4ea |
# Copyright (C) 2003-2005 Peter J. Verveer
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions
# are met:
#
# 1. Redistributions of source code must retain the above copyright
# notice, this list of conditions and the following ... | fxia22/ASM_xf | PythonD/site_python/numarray/nd_image/filters.py | Python | gpl-2.0 | 30,179 | [
"Gaussian"
] | b75be2c34429eb00265d9c251de9eb23499d8cea718c32280d10af82a88d5e3a |
#!/usr/bin/env python3
import sys
import LipidLibrary
import loos
import subprocess
import os
# @cond TOOLS_INTERNAL
class Segment:
"""
Class describing a segment of a PSF file. Contains the information
needed to write a psf, and to build this set ouf lipids.
The input value line is expected to loo... | GrossfieldLab/loos | Packages/OptimalMembraneGenerator/PSFGen.py | Python | gpl-3.0 | 9,229 | [
"NAMD"
] | 1f09a58dd168758a9e800e23c5e5932414a88bab0d4657817b293d7fc4a2f96a |
#! /usr/bin/env python
#
# Copyright (C) 2015-2016 Rich Lewis <rl403@cam.ac.uk>
# License: 3-clause BSD
import pytest
import numpy as np
import pandas as pd
from ...core import bond, Mol
from . import example_mol #provides 'm' fixture
@pytest.fixture(name='b')
def example_bond(m):
return m.bonds[0]
@pytest.f... | richlewis42/scikit-chem | skchem/test/test_core/test_bond.py | Python | bsd-3-clause | 3,412 | [
"RDKit"
] | 5aa299fa714bcd83184e3f57bba273f9c16b99288c60d417c6eee3a3de31d18d |
# 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 agreed to in writing, software
# distributed under t... | stackforge/python-openstacksdk | openstack/tests/unit/test_resource.py | Python | apache-2.0 | 107,968 | [
"Brian"
] | e0e89d6ee55b37524209f3f88cdae5475b0b94c81725ab62c2597715dd3e22a3 |
'''
synbiochem (c) University of Manchester 2015
synbiochem is licensed under the MIT License.
To view a copy of this license, visit <http://opensource.org/licenses/MIT/>.
@author: neilswainston
'''
from threading import Thread
import uuid
class JobThread(Thread):
'''Wraps a job into a thread, and fires event... | synbiochem/synbiochem-py | synbiochem/utils/job.py | Python | mit | 1,150 | [
"VisIt"
] | b29721708d650d3582abcdff741f30c4f3c34341311247f3eda627fcd12b2d8d |
"""
CountModel class for dispatching different types of count models and different
types of estimation technqiues.
"""
__author__ = "Taylor Oshan tayoshan@gmail.com"
import numpy as np
from pysal.contrib.glm.glm import GLM
from pysal.contrib.glm.family import Poisson, QuasiPoisson
class CountModel(object):
"""
... | ljwolf/pysal | pysal/contrib/spint/count_model.py | Python | bsd-3-clause | 7,191 | [
"COLUMBUS",
"Gaussian"
] | 0a9d84bb4f21bc2be038ca4bef5d85503e371830a07090194ad61e4f11d29f85 |
"""
.. versionadded:: v6r20
FTS3Agent implementation.
It is in charge of submitting and monitoring all the transfers. It can be duplicated.
.. literalinclude:: ../ConfigTemplate.cfg
:start-after: ##BEGIN FTS3Agent
:end-before: ##END FTS3Agent
:dedent: 2
:caption: FTS3Agent options
"""
from __future__ import... | ic-hep/DIRAC | src/DIRAC/DataManagementSystem/Agent/FTS3Agent.py | Python | gpl-3.0 | 22,923 | [
"DIRAC"
] | f40d8435d2f32815129411f12d73250351a67e08e305992aac283cc61c701d8a |
'''Generalized Linear Models
'''
import numpy as np
import statsmodels.api as sm
from scipy import stats
from matplotlib import pyplot as plt
#Example for using GLM on binomial response data
#the input response vector in this case is N by 2 (success, failure)
#This data is taken with permission from
#Jeff Gill (2000) ... | pprett/statsmodels | examples/example_glm.py | Python | bsd-3-clause | 5,264 | [
"Gaussian"
] | 4b6c321772311c0278e52c77b4e652faed3ce44fc719c775b9fca0430f7b0750 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import unittest
from monty.os.path import which
import warnings
from pymatgen.ext.cod import COD
"""
Created on Jun 9, 2012
"""
__author__ = "Shyue Ping Ong"
__copyright__ = "Copyright 2012, The Materials... | dongsenfo/pymatgen | pymatgen/ext/tests/test_cod.py | Python | mit | 1,295 | [
"pymatgen"
] | 76eccfcf8bab0446bbabc4e85d28b129ce8055b77e16add8e13ef6f31249cdfb |
#
# @file TestXMLNamespaces.py
# @brief XMLNamespaces unit tests
#
# @author Akiya Jouraku (Python conversion)
# @author Michael Hucka <mhucka@caltech.edu>
#
# ====== WARNING ===== WARNING ===== WARNING ===== WARNING ===== WARNING ======
#
# DO NOT EDIT THIS FILE.
#
# This file was generated automatically by c... | TheCoSMoCompany/biopredyn | Prototype/src/libsbml-5.10.0/src/bindings/python/test/xml/TestXMLNamespaces.py | Python | bsd-3-clause | 10,035 | [
"VisIt"
] | a25889ad6bb1df62f51ab3167615e7107ea2a4372b6af26263fd92488b0473f7 |
#!/usr/bin/env python
from submit.models import User, Session
from pyramid_mailer.mailer import Mailer
from pyramid_mailer.message import Message
from pyramid.paster import get_appsettings, setup_logging
from sqlalchemy import engine_from_config
import os
import sys
import transaction
import helper
def usage(argv):
... | ucsb-cs/submit | scripts/umail_merge.py | Python | bsd-2-clause | 2,500 | [
"VisIt"
] | 1aca0695c0358fb4919726c8651c7d80c5375fcea5858dc8db2a78519b4d7184 |
import calendar
from datetime import datetime, date
def cd(year,month,fdw,nwe):
""" Receive the year, month, fixed day of week of holiday (0:6), number of
weeks.
Returns day of the holiday for year in question."""
#Define first day of the month & number of days in month
fdm, ndm = calendar... | dssg/energywise | Code/holiday.py | Python | mit | 2,314 | [
"COLUMBUS"
] | e9539ef46389e7e7e32a7ef2cc878169a765bcc6821f239154e5f1739b551e61 |
#
# GMSK modulation and demodulation.
#
#
# Copyright 2005-2007,2012 Free Software Foundation, Inc.
#
# This file is part of GNU Radio
#
# GNU Radio is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either versi... | iohannez/gnuradio | gr-digital/python/digital/gmsk.py | Python | gpl-3.0 | 11,208 | [
"Gaussian"
] | 1087193b25595c9a0659189f771e00c0cb0ae8295b0dd63d16bc696ce9c6fbfb |
from uaperrors import StepError
import sys
import os
from logging import getLogger
from abstract_step import AbstractStep
logger = getLogger('uap_logger')
class BwaMem(AbstractStep):
'''
Align 70bp-1Mbp query sequences with the BWA-MEM algorithm. Briefly, the
algorithm works by seeding alignments with ma... | kmpf/uap | include/steps/bwa_mem.py | Python | gpl-3.0 | 12,136 | [
"BWA"
] | 9b96cf36db1d18b3bfa274b166285f63a25f920e23447f3c152ad34c51d53830 |
from vtk.util.colors import peacock, tomato, red, white, black
class PeacockActor:
def __init__(self, renderer):
self.renderer = renderer
self.visible = False
self.edges_visible = False
self.solid = True
self.color = white
''' Sync view options. The view options for self will match the passe... | gleicher27/Tardigrade | moose/gui/vtk/PeacockActor.py | Python | lgpl-2.1 | 1,578 | [
"VTK"
] | 0ac81a8ea3e6ba972ee9233a9576105abb9165e1e4a65f09c719a172a30d17d7 |
# coding: utf-8
# # Example soil moisture validation: ASCAT - ISMN
# This example shows how to setup the pytesmo validation framework to perform the validation either normal or using the parallel processing tool from ipython.
# In[ ]:
import os
import pytesmo.validation_framework.temporal_matchers as temporal_ma... | christophreimer/pytesmo | examples/setup_validation_ASCAT_ISMN.py | Python | bsd-3-clause | 3,862 | [
"NetCDF"
] | 6a065b9252cc26142eff2b2be9a4b62a295b52f0599c2d639ad19931d2962aed |
from octopus.server.shell_manager import ShellManager
from octopus.shell.octopus_shell import OctopusShellConnection
import time
DEFAULT_HOST = 'localhost'
DEFAULT_PORT = '2480'
DEFAULT_DATABASE_NAME = 'octopusDB'
class PythonShellInterface:
def __init__(self):
self._initializeDefaults()
def _initi... | octopus-platform/octopus | python/octopus-tools/octopus/server/python_shell_interface.py | Python | lgpl-3.0 | 3,711 | [
"Octopus"
] | 3f426baf3bca5b62568952d398c524caba11587a538434a42abd084bca69591a |
import unittest
import pam
import bpy
import numpy
import random
import pickle
import sys
SEED = 42
class TestAddon(unittest.TestCase):
def testAddonEnabled(self):
self.assertNotNone(pam.bl_info)
class TestPamAllMappings(unittest.TestCase):
def setUp(self):
# Seed the rng
random.seed(... | MartinPyka/Parametric-Anatomical-Modeling | tests/mapping/mapping.test.py | Python | gpl-2.0 | 2,330 | [
"NEURON"
] | 108c8f76f4aaefaaaebc0d18a8ad886a11870d88c5109253c52e97f509d66884 |
"""
This module handles initial database propagation, which is only run the first
time the game starts. It will create some default channels, objects, and
other things.
Everything starts at handle_setup()
"""
import django
from django.conf import settings
from django.utils.translation import ugettext as _
from evenni... | mrkulk/text-world | evennia/server/initial_setup.py | Python | bsd-3-clause | 7,067 | [
"VisIt"
] | 4f3bc49d70b162c252ca537cb415b0c6d54d0020207b1443952ad6f2283f0f9a |
# -*- coding: utf-8 -*-
#
# brunel_alpha_evolution_strategies.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either versio... | hakonsbm/nest-simulator | pynest/examples/brunel_alpha_evolution_strategies.py | Python | gpl-2.0 | 21,089 | [
"Gaussian",
"NEURON"
] | 00dddd0d85c127d6253ef3461574dac04c7908865171fcd01385800889050d30 |
#
# High-dimensional Gaussian log-pdf.
#
# This file is part of PINTS (https://github.com/pints-team/pints/) which is
# released under the BSD 3-clause license. See accompanying LICENSE.md for
# copyright notice and full license details.
#
import numpy as np
import scipy.stats
from . import ToyLogPDF
class HighDimen... | martinjrobins/hobo | pints/toy/_high_dimensional_gaussian.py | Python | bsd-3-clause | 5,501 | [
"Gaussian"
] | 4901a5b7e574309c6a88cbf053a955c2e5642d6d971db1b1a46469bd092f0eb6 |
import openpyxl, requests, bs4, threading
from bs4 import BeautifulSoup
from tkinter import *
from tkinter import ttk
from tkinter import filedialog
def ExcelToWeb():
websites = []
titles = []
# 1. fetch websites from excel
wb = openpyxl.load_workbook(dirPath.get())
sheet = wb.get_sheet_by_name('Sh... | zephyr1125/PythonTools | ExcelToWebsite/main.py | Python | gpl-3.0 | 1,803 | [
"VisIt"
] | 78e2e0d075dd8fa66eca251fadfc73ec2cfff0cf1a62d0d6f12d912ca48e9f6f |
# -*- coding: utf-8 -*-
# vim: autoindent shiftwidth=4 expandtab textwidth=120 tabstop=4 softtabstop=4
###############################################################################
# OpenLP - Open Source Lyrics Projection #
# ------------------------------------------------------... | marmyshev/transitions | openlp/core/ui/aboutdialog.py | Python | gpl-2.0 | 38,638 | [
"Brian"
] | 904c40b014d7829f89eedd20801157dcf1149007a588604d36e0e2f4832b4353 |
# -*- coding: utf-8 -*-
#
# Copyright (C) 2005-2020 Centre National d'Etudes Spatiales (CNES)
#
# This file is part of Orfeo Toolbox
#
# https://www.orfeo-toolbox.org/
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obt... | orfeotoolbox/OTB | Modules/Wrappers/SWIG/test/python/PythonSmoothingTest.py | Python | apache-2.0 | 1,248 | [
"Gaussian"
] | 39a84b8e9b17be2507b51cd006375778fb7dc75f9ca7a98baf4ee911f6a7e24e |
# -*- coding: utf-8 -*-
from piston.handler import BaseHandler
from piston.utils import rc, throttle
from django.conf import settings
from django.http import HttpResponse
from django.template.defaultfilters import slugify
from django.utils import simplejson
from django.utils.translation import ugettext as _
from django... | hfeeki/transifex | transifex/storage/api.py | Python | gpl-2.0 | 7,136 | [
"VisIt"
] | 1a4369a1efe2d132ea3cb6c8e1975a563fc04029bbba3589c9aaad7ed794b49c |
#!/usr/bin/env python3
# Copyright 2010-2021 Google LLC
# 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 ... | google/or-tools | examples/python/maze_escape_sat.py | Python | apache-2.0 | 5,494 | [
"VisIt"
] | 87745a89d206a312464dd079c123eb721604d6e9fc59c75c63944a2a04ea2062 |
import numpy as np
from cs231n.layers import *
from cs231n.fast_layers import *
from cs231n.layer_utils import *
class ThreeLayerConvNet(object):
"""
A three-layer convolutional network with the following architecture:
conv - relu - 2x2 max pool - affine - relu - affine - softmax
The network operates on mi... | Alexoner/mooc | cs231n/2016/assignment2/cs231n/classifiers/cnn.py | Python | apache-2.0 | 17,198 | [
"Gaussian"
] | d74246da1afec07bc870de6a00867bcb0fe92145c2370859cb43bf10f6b5c8f1 |
#!/usr/bin/env python2
# XXX: Refactor to a comand line tool and remove pylint disable
"""Create gene expression profiles."""
from __future__ import absolute_import, division, print_function
import argparse
import logging
import multiprocessing
import os
import biox
parser = argparse.ArgumentParser(description="Crea... | genialis/resolwe-bio | resolwe_bio/tools/mappability.py | Python | apache-2.0 | 4,036 | [
"Bowtie"
] | 6517d98f1f93d47c297f46557db008f09ba23bc693bec8a205c1f6d6ec6f7ed1 |
__author__ = 'Jaap'
'''
Experimental extension of the adaptive algorithm described below. This algorithm does not output coordinates to measure, but also reduces noise when appropriate by choosing the option with the highest gain in reducing the loss per interval.
Easy to use O(N) adaptive sampling algorithm, measures ... | GitJaap/Adaptive-Measurement | algorithm_adaptive_error.py | Python | gpl-2.0 | 7,770 | [
"Gaussian"
] | 004ac0e4f59587a8672f305363a8cfe9d79e7127a92dd1066e55cf5d2c601073 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Changes in version 0.4.4 6-11-2009.
- Improved index searching strategy.
- Fix XIO compatibility with pilatus det.
- Improve detector specific definitions in XIO exports.
Changes in version 0.4.3 28-10-2009.
- Fixe compatibility problems with Python2.2 and Python... | RAPD/RAPD | src/plugins/subcontractors/xdsme/new/xdsme-0.4.9/XDS/XDS.py | Python | agpl-3.0 | 63,599 | [
"CRYSTAL"
] | 462086ff4c867c743babcc581f9aade8a68e4af1aad585745d3c788eb9450c15 |
# Copyright 2021 Google LLC.
#
# 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 agreed to in writing, ... | google-research/vmoe | vmoe/nn/external.py | Python | apache-2.0 | 1,661 | [
"MOE"
] | d78a49dd7d8b14f45714806d9d3e9f862dbe32770c74ee8e164a7cc63dd754e3 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import division, unicode_literals
"""
This module contains classes to wrap Python VTK to make nice molecular plots.
"""
__author__ = "Shyue Ping Ong"
__copyright__ = "Copyright 2011, The Mate... | sonium0/pymatgen | pymatgen/vis/structure_vtk.py | Python | mit | 34,037 | [
"Jmol",
"VTK",
"pymatgen"
] | ca9c0aa4439732571356ffb5ea7a31f750e1258f8f6f67e4926de50116a24c20 |
'''
Copyright 2020 The Rook 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 applicable law or agreed to... | rook/rook | deploy/examples/create-external-cluster-resources.py | Python | apache-2.0 | 64,504 | [
"Octopus"
] | 8966223c3ec378d744638d742cb5a4478e9c57357648c865d1f81c808caef55f |
from __future__ import absolute_import
#
# 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, Ver... | wprice/qpid-proton | tests/python/proton_tests/messenger.py | Python | apache-2.0 | 30,158 | [
"Galaxy"
] | cde4e82eadc5e68c7a1ec62c74fa706713f2900b3a17ee27c8ecb626e80583ad |
#!/usr/bin/python2.4
# Copyright (c) 2006-2008 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.
"""SiteCompare component to handle bulk scrapes.
Invokes a list of browsers and sends them to a list of URLs,
saving the rende... | Crystalnix/house-of-life-chromium | tools/site_compare/site_compare.py | Python | bsd-3-clause | 6,489 | [
"VisIt"
] | 315edec51907cc5098aceaf78ab1014ed429917910d984ac821a25f02886723f |
# Numenta Platform for Intelligent Computing (NuPIC)
# Copyright (C) 2020, 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 modify
# it unde... | mrcslws/nupic.research | projects/visual_recognition_grid_cells/python2_htm_docker/docker_dir/train_and_eval_GridCellNet.py | Python | agpl-3.0 | 21,634 | [
"Gaussian"
] | 78b65ad7bc81a7853f713a8dec80f09e3488f22a8e296db30e536965f87f168b |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import division, unicode_literals
"""
Development script to test the algorithms of a given model coordination environments
"""
__author__ = "David Waroquiers"
__copyright__ = "Copyright 2012, ... | richardtran415/pymatgen | dev_scripts/chemenv/test_algos.py | Python | mit | 3,439 | [
"pymatgen"
] | a172c6e3bef9052d59e44ca1c6c1604acc9e755978bf14d9a69165f64cc782c5 |
#!/usr/bin/env python2
import sys
sys.path.append('../../../src/')
import cgmap as cg
import mdtraj as md
import md_check as check
############################### config #####################################
input_traj = "dppc.trr"
input_top = "dppc.pdb"
input_maps = ["mapping_bead_1_dppc",
"mapping_... | uchicago-voth/cgmap | test/molecular_map_test/same_molecules_shared_map_com/test_same_molecules_shared_map_com.py | Python | apache-2.0 | 2,337 | [
"MDTraj"
] | 70e52cd8496708afa925cb268650362e0e495400ea67141350f467774d1d9e3b |
#!/usr/bin/env python
# coding: utf-8
"""3D display of floating body with VTK."""
# Copyright (C) 2017-2019 Matthieu Ancellin
# See LICENSE file at <https://github.com/mancellin/capytaine>
from capytaine.tools.optional_imports import import_optional_dependency
from capytaine.ui.vtk.mesh_viewer import MeshViewer
vtk =... | mancellin/capytaine | capytaine/ui/vtk/body_viewer.py | Python | gpl-3.0 | 981 | [
"VTK"
] | 012ea951ac7b9f4061ad95a7197ac1d1d16b169ad1ff3d99258399d256b5ea42 |
styles = {
'darkgreen': {
'name': 'darkgreen',
'background': '#000000',
'foreground': '#007700',
'lines': '#001100',
'border': '#001100',
'info': '#007700',
'font': 'DejaVu Sans Mono',
'fontsize': 12,
'padding': 6,
'size': [0.6, 0.95],
... | genewoo/pyroom | styles.py | Python | gpl-3.0 | 2,605 | [
"Amber"
] | 36a1fe807246ca04489e04a2c587de1b005d1d3ba6f7a0edda2134c6420c2b4e |
""" Cache
This module provides a generic Cache extended to be used on RSS, RSSCache.
This cache features a lazy update method. It will only be updated if it is
empty and there is a new query. If not, it will remain in its previous state.
However, Cache class internal cache: DictCache sets a validity to its entries.
Af... | arrabito/DIRAC | ResourceStatusSystem/Utilities/RSSCacheNoThread.py | Python | gpl-3.0 | 12,428 | [
"DIRAC"
] | 6c6f6e4d96c121af2eb5c0125036bd3d663c7be235a509fee9302168d90dc487 |
import sys, os
sys.path.insert(1, os.path.join("..","..",".."))
import h2o
from tests import pyunit_utils
def weights_and_distributions():
htable = h2o.upload_file(pyunit_utils.locate("smalldata/gbm_test/moppe.csv"))
htable["premiekl"] = htable["premiekl"].asfactor()
htable["moptva"] = htable["moptva"].... | madmax983/h2o-3 | h2o-py/tests/testdir_algos/deeplearning/pyunit_DEPRECATED_weights_and_distributionsDeeplearning.py | Python | apache-2.0 | 1,223 | [
"Gaussian"
] | f3a4ba118db13d0488bbfe6840f4fdef60dc50980b432e050dbf3de83758576d |
#!/usr/bin/env python
''' script for filtering insertions vs. the mouse reference genome mm10 '''
''' may be useful as a template for extension to other species '''
import pysam
import sys
import os
import logging
import argparse
import align
import numpy as np
import subprocess
from uuid import uuid4
ver... | adamewing/tebreak | scripts/misc/filter_mm10.py | Python | mit | 14,146 | [
"pysam"
] | 3c165772dca638f9daa188419b1a717d4aad09ec8901cbf2f462f6283eedf7e6 |
#Import necessary modules for movie animation
from scipy.io.netcdf import *
import numpy as np
import pylab as p
import matplotlib.animation as an
#Open NETCF file and read in data as file f
f=netcdf_file('trajectory.nc','r')
position=f.variables['position'][:]
time=f.variables['timepoints'][:]
#Create an FFMPEG w... | ricardoharripaul/PlottingwithPython | lessons/PlottinginPythonwithMatplotlib/hwk3.2.py | Python | apache-2.0 | 934 | [
"NetCDF"
] | 34a84112a3d5efe51efc4961c62a2b8fcbe4f4a4f287bd61e2325786944a9219 |
# 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... | apache/climate | RCMES/statistical_downscaling/run_statistical_downscaling.py | Python | apache-2.0 | 10,268 | [
"NetCDF"
] | 95ea69d862df22a324bd060d01dc7570c7c325a0e6b871ad602532ee7f59788d |
"""
Course Outline page in Studio.
"""
from bok_choy.page_object import PageObject
from bok_choy.promise import EmptyPromise
from .course_page import CoursePage
from .unit import UnitPage
class CourseOutlineContainer(object):
"""
A mixin to a CourseOutline page object that adds the ability to load
a chil... | TangXT/edx-platform | common/test/acceptance/pages/studio/overview.py | Python | agpl-3.0 | 6,061 | [
"VisIt"
] | 8fd04540766ad4451e2ec1e0006df8d8354221f3bdbdebf67c28cb9af80a1062 |
# -*- coding: utf-8 -*-
# Part of Odoo. See LICENSE file for full copyright and licensing details.
import datetime
import random
import re
import string
from lxml import html
from urllib2 import urlopen
from urlparse import urljoin
from urlparse import urlparse
from werkzeug import url_encode, unescape
from odoo imp... | hip-odoo/odoo | addons/link_tracker/models/link_tracker.py | Python | agpl-3.0 | 10,126 | [
"VisIt"
] | 1e69e3d882ac95e449c67fbc88fb61f037dea6dbcd3c4b8ed67d8258db1516d2 |
from __future__ import division, print_function, absolute_import
from scipy import stats
import numpy as np
from numpy.testing import (assert_almost_equal, assert_,
assert_array_almost_equal, assert_array_almost_equal_nulp)
from pytest import raises as assert_raises
def test_kde_1d():
#some basic tests compa... | mbayon/TFG-MachineLearning | venv/lib/python3.6/site-packages/scipy/stats/tests/test_kdeoth.py | Python | mit | 7,923 | [
"Gaussian"
] | 917b3e2a3bc00fb82ba146fca9e5b79a87923d56acc5b006f8b303614ec34c1c |
#!python
# coding=utf-8
import os
import shutil
from glob import glob
import pytest
from gutils.nc import create_dataset
from gutils.slocum import SlocumMerger, SlocumReader
from gutils.tests import setup_testing_logger, resource
import logging
L = logging.getLogger(__name__) # noqa
@pytest.mark.long
@pytest.mark... | SECOORA/GUTILS | gutils/tests/test_real.py | Python | mit | 1,650 | [
"NetCDF"
] | 7f7fcde3ab25e0b28ee9284cc01dc7e31aa9fd9ada526acbdd196764f1233371 |
"""
Holds information about what the user asked for (which program, version constraints, etc).
"""
# Copyright (C) 2012, Thomas Leonard
# See the README file for details, or visit http://0install.net.
from zeroinstall import SafeException
class Requirements(object):
"""
Holds information about what the user asked ... | michel-slm/0install | zeroinstall/injector/requirements.py | Python | lgpl-2.1 | 4,510 | [
"VisIt"
] | 95f6b20dee64a4eb58d047d4ef9456a9eecaefdca6e1627a161fdf54de2b26cc |
#!/usr/bin/env python
##################################################
## DEPENDENCIES
import sys
import os
import os.path
try:
import builtins as builtin
except ImportError:
import __builtin__ as builtin
from os.path import getmtime, exists
import time
import types
from Cheetah.Version import MinCompatib... | MOA-2011/e2openplugin-OpenWebif | plugin/controllers/views/web/epgnownext.py | Python | gpl-2.0 | 7,512 | [
"VisIt"
] | 784abed65330ec95ed323fa7177433048898d5bc54469b5099245e45fe5e07d1 |
# 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... | frreiss/tensorflow-fred | tensorflow/python/data/experimental/benchmarks/rejection_resample_benchmark.py | Python | apache-2.0 | 2,589 | [
"DIRAC"
] | d4c7e90dc9df53fca55fafbe4255db88346f1602a813084c26a05c1a278d1f35 |
#!/usr/bin/env python
# CREATED:2013-03-08 15:25:18 by Brian McFee <brm2132@columbia.edu>
# unit tests for librosa core (__init__.py)
#
# Run me as follows:
# cd tests/
# nosetests -v --with-coverage --cover-package=librosa
#
from __future__ import print_function
# Disable cache
import os
try:
os.environ.pop(... | ruohoruotsi/librosa | tests/test_core.py | Python | isc | 36,218 | [
"Brian"
] | f320702a9384b0de0f871220d5d88017708b40bdb0085c2ea0a7f3e3b1652709 |
# (c) 2012-2018, Ansible by Red Hat
#
# This file is part of Ansible Galaxy
#
# Ansible Galaxy is free software: you can redistribute it and/or modify
# it under the terms of the Apache License as published by
# the Apache Software Foundation, either version 2 of the License, or
# (at your option) any later version.
#
... | chouseknecht/galaxy | galaxy/main/celerytasks/elastic_tasks.py | Python | apache-2.0 | 10,015 | [
"Galaxy"
] | bc6f09fc120827a79e00000e80ed3cdc4d1b79e5d25b3314bad0d41a75366f4f |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2005 Donald N. Allingham
# Copyright (C) 2008 Brian G. Matherly
# Copyright (C) 2009 Benny Malengier
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as pu... | arunkgupta/gramps | gramps/gen/plug/_manager.py | Python | gpl-2.0 | 21,448 | [
"Brian"
] | 571392fbe624fa152bd94232ca70d31136a3b126ffcf5b1057700f11ebf84bfa |
'''Attach generally useful information, not specific to any package.
Copyright (C) 2009 Canonical Ltd.
Authors: Matt Zimmerman <mdz@canonical.com>,
Brian Murray <brian@ubuntu.com>
This program is free software; you can redistribute it and/or modify it
under the terms of the GNU General Public License as publ... | Alberto-Beralix/Beralix | i386-squashfs-root/usr/share/apport/general-hooks/ubuntu.py | Python | gpl-3.0 | 14,954 | [
"Brian"
] | b5f49445a88142be3704a993e50604b33210c4a4dcbf87fd6162613cf7959c6c |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# --- BEGIN_HEADER ---
#
# extcertaction - handle external certificate sign up and send email to admins
# Copyright (C) 2003-2015 The MiG Project lead by Brian Vinter
#
# This file is part of MiG.
#
# MiG is free software: you can redistribute it and/or modify
# it under the... | heromod/migrid | mig/shared/functionality/extcertaction.py | Python | gpl-2.0 | 10,360 | [
"Brian"
] | 2bfb75bc6d668c13be7fef0e45f7a93d1c11d1bae82d2909a185f4bd853136cc |
# -*- coding: utf-8 -*-
"""Fake data generator.
To use:
1. Install fake-factory.
pip install fake-factory
2. Create your OSF user account
3. Run the script, passing in your username (email).
::
python -m scripts.create_fakes --user fred@cos.io
This will create 3 fake public projects, each with 3 fake con... | aaxelb/osf.io | scripts/create_fakes.py | Python | apache-2.0 | 19,891 | [
"Galaxy"
] | 65116c984b83119320a6fdbd58ec323043cf4fd35c4cef32427bb9830f9098b6 |
from ase.structure import molecule
from ase.parallel import parprint
from gpaw import GPAW
from gpaw.cluster import Cluster
from gpaw.analyse.hirshfeld import HirshfeldDensity, HirshfeldPartitioning
from gpaw.analyse.wignerseitz import WignerSeitz
from gpaw.test import equal
from gpaw.mpi import rank
h = 0.4
gpwname ... | robwarm/gpaw-symm | gpaw/test/partitioning.py | Python | gpl-3.0 | 2,585 | [
"ASE",
"GPAW"
] | 1072b7aba952cb9c8b83b6673c4d8194878559eb07ee4f35df09f628874b8f28 |
#!/usr/bin/env python3
"""
Author: Hunter Cameron
Date: 11/31/2014
Updated: 11/31/2014
Description:
A module for working with GenBank files that uses BioPython under the hood.
"""
from Bio import SeqIO
from taxstring import TaxString
class GenBank(object):
"""
Class for broad processing of GenBank file... | hunter-cameron/Bioinformatics | python/build/lib/mypyli/genbank.py | Python | mit | 1,480 | [
"Biopython"
] | cd16cfdf29dc03e3d4cf1b25d41a96568872f892d7b84fe46c38ac2b836741ae |
import numpy as np
# This is a PEP8 mess, but it is like this to more easily correlate with the FORTRAN77 code.
def S_KP_EXV(Q, RL, RLL):
# RL = contour_length
# RRL = kuhn_length
# I_EXVOL = 0:gaussian coils
# 1: excluded volume effects included ----> this is set to 1 in the code,
# ... | KarlClinckspoor/SAXS_treatment | WLM models/S_KP_EXV.py | Python | gpl-3.0 | 29,159 | [
"Gaussian"
] | 2f38ad8f45949e4bd7b82f07f18ea969e0752ffd8b7195364de4e3546ceec715 |
# -*- coding: utf-8 -*-
__author__ = "Dilawar Singh"
__copyright__ = "Copyright 2019-, Dilawar Singh"
__maintainer__ = "Dilawar Singh"
__email__ = "dilawars@ncbs.res.in"
import moose
import numpy as np
print( "[INFO ] Using moose %s form %s" % (moose.version(), moose.__file__) )
def... | BhallaLab/moose-core | devel/fixme/test_wrapper.py | Python | gpl-3.0 | 2,747 | [
"MOOSE"
] | 271bf3e6faaea2a9f6f9307a4f10540454dbe46a3d5141f867e10f0e3358e3be |
#! /usr/bin/env python
# -*- coding: utf-8
# add parent folder to search path, to enable import of core modules like settings
import os,sys,inspect
currentdir = os.path.dirname(os.path.abspath(inspect.getfile(inspect.currentframe())))
parentdir = os.path.dirname(currentdir)
sys.path.insert(0,parentdir)
import cv2
im... | arikpoz/deep-visualization-toolbox | caffevis/app.py | Python | mit | 85,699 | [
"NEURON"
] | adffbc22dbe875b76c8907bc53e992b2d2624ba41cc3a2411ca281cd341e273b |
"""
cclib (http://cclib.sf.net) is (c) 2006, the cclib development team
and licensed under the LGPL (http://www.gnu.org/copyleft/lgpl.html).
"""
__revision__ = "$Revision: 892 $"
import re
import numpy
import logfileparser
import utils
class GAMESS(logfileparser.Logfile):
"""A GAMESS log file."""
SCFRMS,... | faribas/RMG-Java | source/cclib/parser/gamessparser.py | Python | mit | 43,163 | [
"GAMESS",
"Gaussian",
"cclib"
] | 79603fdd23871e9de84135b873afc006fe6d3cc6417f6179b894bed2fff80960 |
# default.py ---
#
# Filename: default.py
# Description:
# Author: Subhasis Ray
# Maintainer:
# Created: Tue Nov 13 15:58:31 2012 (+0530)
# Version:
# Last-Updated: Thu Jul 18 10:35:00 2013 (+0530)
# By: subha
# Update #: 2244
# URL:
# Keywords:
# Compatibility:
#
#
# Commentary:
#
# The default placehol... | dilawar/moose-full | moose-gui/plugins/default.py | Python | gpl-2.0 | 60,382 | [
"MOOSE"
] | bcee05d825f9bca9ddc1bc14d051eaa6cb679deb56f30383c7fdfb706b546e4a |
#!/usr/bin/python
"""
Copyright 2010 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 | ghLists.py | Python | agpl-3.0 | 4,120 | [
"Galaxy"
] | 63530bb7689279d95cdd2aba524d409a32681f3b5bea5e317ef31c93b10dadfb |
# Copyright 2012 Nebula, Inc.
#
# 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 agree... | mandeepdhami/horizon | horizon/base.py | Python | apache-2.0 | 37,032 | [
"VisIt"
] | 7eca7d19e69810149c801e2d4f05291a3c5197def5038f18b8598f3ac78687ee |
########################################################################
# File: RequestDB.py
# Date: 2012/12/04 08:06:30
# pylint: disable=no-member
########################################################################
""" Frontend for ReqDB
:mod: RequestDB
=======================
.. module: Request... | Andrew-McNab-UK/DIRAC | RequestManagementSystem/DB/RequestDB.py | Python | gpl-3.0 | 33,705 | [
"DIRAC"
] | 4d3286d4bb743d596930aa326ae2db653d7e23cc322718e6f3bea547bce17ea3 |
"""
Class with a collection of likelihood functions for EP
- as executation time of this class is an issue we expect the hyperparameters to be set upfront
"""
from numpy import *
import scipy as S
import scipy.special as special
def n2mode(x):
"""convert from natural parameter to mode and back"""
return arra... | PMBio/pygp | misc/EPLikelihood.py | Python | gpl-2.0 | 8,116 | [
"Gaussian"
] | cd023619c45c05ab4afd0f61c8f64c005290e8a1716fc6e5c10ff53d40586c2f |
# -*- coding: utf-8 -*-
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
from __future__ import unicode_literals
import os.path
import numpy as np
import matplotlib.pyplot as plt
import abel
# This example demonstrates a BASEX transform of an image obtained... | DanHickstein/pyBASEX | examples/example_basex_photoelectron.py | Python | gpl-2.0 | 2,640 | [
"Gaussian"
] | 79d6714103e09a10f79629eed7403c9b307b18eb04180ce8754ced8211a587d8 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import warnings
"""
Created on Mar 19, 2012
"""
__author__ = "Shyue Ping Ong, Stephen Dacek"
__copyright__ = "Copyright 2012, The Materials Project"
__version__ = "0.1"
__maintainer__ = "Shyue Ping Ong"
__em... | davidwaroquiers/pymatgen | pymatgen/entries/tests/test_compatibility.py | Python | mit | 80,029 | [
"pymatgen"
] | cb034e0301fa152d987ee801c8462d6f3b50a45a2684dd961b3ef9b3ec9d6133 |
"""Module symbol-table generator"""
from lib2to3.compiler import ast
from lib2to3.compiler.consts import SC_LOCAL, SC_GLOBAL, SC_FREE, SC_CELL, SC_UNKNOWN
from lib2to3.compiler.misc import mangle
import types
import sys
MANGLE_LEN = 256
class Scope:
# XXX how much information do I need about each name?
def... | certik/pyjamas | pgen/lib2to3/compiler/symbols.py | Python | apache-2.0 | 14,513 | [
"VisIt"
] | 3105c77675afd5f6516d8bdc08383ac5f006f89c97a2e88de909fb44e1f96a0e |
import json
import os
import redis
import subprocess
import time
import repos_service
MAX_RETAINED_BUILDS = 300
redis_client = redis.StrictRedis(
host=os.getenv('REDIS_HOST', 'localhost'),
port=int(os.getenv('REDIS_PORT', 6379)),
db=int(os.getenv('REDIS_DB', 0))
)
class Error(Exception):
pass
class... | grow/buildbot | app/jobs_service.py | Python | mit | 8,451 | [
"GULP"
] | a84ed27fa0cfc5d8461a4a7c27de8aa4d6249add7444afe8386b5184bc3adae7 |
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