text stringlengths 12 1.05M | repo_name stringlengths 5 86 | path stringlengths 4 191 | language stringclasses 1
value | license stringclasses 15
values | size int32 12 1.05M | keyword listlengths 1 23 | text_hash stringlengths 64 64 |
|---|---|---|---|---|---|---|---|
# -*- coding: utf-8 -*-
# Copyright 2022 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... | googleapis/python-datastore | tests/unit/gapic/datastore_v1/test_datastore.py | Python | apache-2.0 | 90,976 | [
"Octopus"
] | 7a259d329c293c764151c52de0fb07a33366155d09623d8cd562baf7f9347913 |
#!/usr/bin/env python
"""
PE Bash Maker V 1.11
by Brendan Kohrn
August 11, 2014
Write a bash script to run the process.
This program makes a shell script so that the user will not need to
enter the commands for all the programs himself. When using it,
navigate to the folder with your data, with all the programs ... | loeblab/Duplex-Sequencing | Nat_Protocols_Version/PE_BASH_MAKER.py | Python | bsd-3-clause | 6,989 | [
"BWA"
] | 671b3438179b66fc27d3d55052a2cbf1d4d35e3e2293ca356095fed29f04dd61 |
from lib.utils import *
CONF_THRES = 0.95 # Threshold for confidence score
IOU_THRES = 0.5 # Threshold for IoU for evaluating detector
# Labels of circlur signs
cir_cls = [0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 16,
17, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42]
def bb_iou(boxA, boxB):
"""
C... | chawins/aml | lib/detector_utils.py | Python | mit | 4,584 | [
"Gaussian"
] | 619bd8a8085cdb565a2ed2ee90eaf9bcac7a6461ca83adfccc70b86cf83e5a22 |
import os
import sys
import director.vtkAll as vtk
import director.vtkNumpy as vnp
from director import ioUtils
from director import filterUtils
from director import transformUtils
from director import objectmodel as om
from director.shallowCopy import shallowCopy
from collections import OrderedDict
import pyassimp
imp... | mitdrc/director | src/python/director/assimp2vtk.py | Python | bsd-3-clause | 5,718 | [
"VTK"
] | 2d956a06b06db994e5f557b920d3b1ed19ddc903aaec5e8e871441015841221c |
import os, sys, re, inspect, types, errno, pprint, subprocess, io, shutil, time, copy
import path_tool
path_tool.activate_module('FactorySystem')
path_tool.activate_module('argparse')
from ParseGetPot import ParseGetPot
from socket import gethostname
#from options import *
from util import *
from RunParallel import R... | danielru/moose | python/TestHarness/TestHarness.py | Python | lgpl-2.1 | 40,327 | [
"MOOSE",
"VTK"
] | 72d2c3c2c309dc5052dc10bf5762de86f61db6972bc0ae461324a2ae4201cf6a |
# The Hazard Library
# Copyright (C) 2012 GEM Foundation
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU Affero General Public License as
# published by the Free Software Foundation, either version 3 of the
# License, or (at your option) any later version.
#
# Th... | ROB-Seismology/oq-hazardlib | openquake/hazardlib/gsim/base.py | Python | agpl-3.0 | 41,941 | [
"Gaussian"
] | 87d0ea8f14b2b258de4c3f18d1f541e2a8fda97c903cb15c74dfe3f1468dcfc7 |
"""Processes for testing purposes"""
from pywps.Process import WPSProcess
class NoInputsProcess(WPSProcess):
"""This process has no inputs and no outputs"""
def __init__(self):
WPSProcess.__init__(
self, identifier="noinputsprocess", title="No inputs")
class LiteralProcess(WPSProcess):... | 3liz/qgis-wps4server | filters/PyWPS/pywps/processes/tests.py | Python | gpl-3.0 | 6,768 | [
"NetCDF"
] | 966af07040a3bdd2589ab68fd3a0b1475400bb48a0785e53bb3590b074973d02 |
import codecs
import struct
import re
from datetime import datetime
__author__="brian"
__date__ ="$Feb 6, 2011 1:38:17 AM$"
class MediaLibrary:
"""A class to read (not write) the database used by winamp"""
def __init__(self, db, verbose=False):
print("Reading the winamp database from {}".format(db))
... | bmillham/djrq2 | web/app/djrq/model/nullsoft/nullsoftdb.py | Python | mit | 6,885 | [
"Brian"
] | f5b1ed7c94c7e4043446ce901e2950d11762d54474143ead14e34824302dc1b5 |
"""Test for RSMDef.py - Rural Site & Vertical Diffusion Model (RSM & VDM)"""
import os
import pytest
from .test_base import auto_setup_uwg, calculate_tolerance, setup_open_matlab_ref
from functools import reduce
TEST_DIR = os.path.abspath(os.path.dirname(__file__))
def test_rsm_init():
"""Test Initialize RSM i... | chriswmackey/UWG_Python | tests/test_RSMDef.py | Python | gpl-3.0 | 6,683 | [
"EPW"
] | 8248d2f38a7780465eb20b39d8d2c93ed70941d612c6019e9329fd199e22e66e |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding: utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
import MDAnalysis as mda
import numpy as np
from pytim import *
from pytim.datafiles import *
u = mda.Universe(WATER_GRO, WATER_XTC)
oxygens = u.select_atoms('name OW')
radii = pytim_data.vdw... | Marcello-Sega/pytim | pytim/examples/example_profile.py | Python | gpl-3.0 | 633 | [
"MDAnalysis"
] | d421e4817a485cebfeec72cf95e500dd56e2685fa398b9ec4d473f95c137c203 |
from __future__ import unicode_literals, absolute_import
from urllib import urlencode
from django.utils.html import conditional_escape, mark_safe
DEFAULT_DESCRIPTION = \
"Scotch ale lambic, hoppy ester double bock/dopplebock. brewpub " \
"units of bitterness amber copper grainy specific gravity. mouthfeel " ... | aptivate/atanigeriatool | django/website/lscharts/embed.py | Python | gpl-3.0 | 5,567 | [
"Amber"
] | b949d73942a5b89ed1b787617ef57f07db6b70b4a1c61ea33e7be44e95b42f16 |
import os
import shared
def compress(config):
"""Compresses netcdf files to netcdf4 format. Relies on
the NCO operator nccopy. Will try and compress all output netcdf files
associated with the current initial time, based on the standard WRF naming
convention. If a simulation produces multiple wrfo... | envhyf/wrftools | wrftools/post.py | Python | gpl-3.0 | 12,158 | [
"NetCDF"
] | 8fbac1f9478cb8f5d9b25a45b31c3a93e8799a1894759b48334e4550076e11d7 |
#!/usr/bin/env python
# -*- coding: UTF-8 -*-
import math
import random
import sys
from wx.lib.pubsub import pub as Publisher
import numpy as np
import vtk
import invesalius.constants as const
import invesalius.project as prj
import invesalius.session as ses
import invesalius.utils as utils
TYPE = {const.LINEAR: _(... | fabio-otsuka/invesalius3 | invesalius/data/measures.py | Python | gpl-2.0 | 31,691 | [
"VTK"
] | 0bdd0a8ad6ac598df3870e1a99e8b48b3a9bf39f6dc2dfa04740cb2aadb8b618 |
# GromacsWrapper
# Copyright (c) 2009-2010 Oliver Beckstein <orbeckst@gmail.com>
# Released under the GNU Public License 3 (or higher, your choice)
# See the file COPYING for details.
"""
:mod:`gromacs` -- GromacsWrapper Package Overview
=================================================
**GromacsWrapper** (package :m... | pslacerda/GromacsWrapper | gromacs/__init__.py | Python | gpl-3.0 | 11,589 | [
"Gromacs"
] | 4f1b7c1cbcb77a2f7227afa6e3825a9dd4f6efd6d3a7b09609b191551ee9843a |
# coding: utf-8
# Copyright (c) Materials Virtual Lab
# Distributed under the terms of the BSD License.
from __future__ import division, print_function, unicode_literals, \
absolute_import
import os
import abc
import io
import subprocess
import itertools
import six
import numpy as np
from monty.tempfile import S... | czhengsci/veidt | veidt/potential/lammps/calcs.py | Python | bsd-3-clause | 18,891 | [
"LAMMPS",
"pymatgen"
] | 215d4d5bb904fdacafe8c487d7b59f10c7fbb5de683e81a17d618d3044407212 |
#!/usr/bin/env python
# adds episodes from an external source, like a json file or url.
"""
fields:
title - Talk title
speakers - list of:
name - person's name.
email - email address (hide behind auth)
twitter_id - twitter @username
bio - info about the person
picture_url - head shot
summary - short descrip... | xfxf/veyepar | dj/scripts/addeps.py | Python | mit | 172,355 | [
"Brian"
] | f43d9833aa5d72be83b5ec9175765cc4da0a6365987eb5c0c05f372fbd6eca39 |
#
# Copyright 2016 The BigDL 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 applicable law or agreed to in ... | psyyz10/BigDL | pyspark/dl/nn/layer.py | Python | apache-2.0 | 100,868 | [
"Gaussian"
] | b5d6941fb1691559a3b81e5bb95c0dbeab7a57d7c24f45a90997310e5f14f13c |
# -*- coding: utf-8 -*-
#
# MELD documentation build configuration file, created by
# sphinx-quickstart on Mon Aug 11 15:01:20 2014.
#
# 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 ... | laufercenter/meld | docs/conf.py | Python | mit | 8,490 | [
"OpenMM"
] | da692507fbcee7916697b0495985150976898ce841636cd3904d2d953dc35920 |
import pickle
from io import BytesIO
import numpy as np
import scipy.sparse
from sklearn.datasets import load_digits, load_iris
from sklearn.cross_validation import cross_val_score, train_test_split
from sklearn.externals.six.moves import zip
from sklearn.utils.testing import assert_almost_equal
from sklearn.utils.te... | arjoly/scikit-learn | sklearn/tests/test_naive_bayes.py | Python | bsd-3-clause | 17,862 | [
"Gaussian"
] | ddff1ff4c691a4471cc6e8610150239a0de63df447cbfbcb45907e6f963b2aba |
import numpy as np
from HPOlibConfigSpace.configuration_space import ConfigurationSpace
from autosklearn.pipeline.components.base import AutoSklearnClassificationAlgorithm
from autosklearn.pipeline.constants import *
class GaussianNB(AutoSklearnClassificationAlgorithm):
def __init__(self, random_state=None, ve... | hmendozap/auto-sklearn | autosklearn/pipeline/components/classification/gaussian_nb.py | Python | bsd-3-clause | 3,040 | [
"Gaussian"
] | cdc806418dc315e40243d7b390148f722cca4d979fcff6dee495eaf3a7732885 |
#!/usr/bin/env python
# File created on 2 Jul 2014
from __future__ import division
from collections import defaultdict
__author__ = "Jesse Zaneveld"
__copyright__ = "Vega Thurber Lab Copyright 2014"
__credits__ = ["Jesse Zaneveld",""]
__license__ = "GPL"
__version__ = "0.1-dev"
__maintainer__ = "Jesse Zaneveld"
__ema... | zaneveld/viroscape | viroscape/taxonomy.py | Python | bsd-2-clause | 5,674 | [
"BLAST"
] | 59b8cdb7e342a19a28a77d7d02f60c572d09373c6f0dcd1b4519289130082aa5 |
# -*- coding: utf-8 -*-
# vim: autoindent shiftwidth=4 expandtab textwidth=120 tabstop=4 softtabstop=4
###############################################################################
# OpenLP - Open Source Lyrics Projection #
# ------------------------------------------------------... | marmyshev/transitions | openlp/plugins/presentations/lib/powerpointcontroller.py | Python | gpl-2.0 | 12,162 | [
"Brian"
] | c202c1fdd785ccd265f8ec4d0862d51a20eebdabcb5154628be973cab047cb74 |
from rscraper import *
def createCranBiocGitTables():
"""Create a table of R packages from CRAN, Bioconductor, and Github.
Use previously-scraped information about github R projects to populate
a table of packages ("packages" are defined as github projects that are
in R and contain a... | cbogart/rscraper | weeklyScrape.py | Python | apache-2.0 | 2,064 | [
"Bioconductor"
] | 22ff706763617c118b37c3e3e9156b1b86c77d3eb0204b149ec95ff7021d5d67 |
import pytest
from thefuck.rules.npm_wrong_command import match, get_new_command
from thefuck.types import Command
output = '''
Usage: npm <command>
where <command> is one of:
access, add-user, adduser, apihelp, author, bin, bugs, c,
cache, completion, config, ddp, dedupe, deprecate, dist-tag,
dist-tags, ... | SimenB/thefuck | tests/rules/test_npm_wrong_command.py | Python | mit | 1,919 | [
"GULP"
] | 196240e75ff1aafe66638c3bc3c4e95a32dd8f9ec84b8b8b2fc6db2de622e5c5 |
# HF XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
# HF X
# HF X f90wrap: F90 to Python interface generator with derived type support
# HF X
# HF X Copyright James Kermode 2011
# HF X
# HF X These portions of the source code are released under the GNU General
# HF X Public License, ve... | davidovitch/f90wrap | f90wrap/fortran.py | Python | gpl-2.0 | 28,433 | [
"VisIt"
] | 0c9cbfe95a793b63634cdcce07dedad0eeb36d44d42552dda1ff2ba66d47a0b3 |
"""M-probability estimate"""
import numpy as np
import pandas as pd
from sklearn.base import BaseEstimator
from category_encoders.ordinal import OrdinalEncoder
import category_encoders.utils as util
from sklearn.utils.random import check_random_state
__author__ = 'Jan Motl'
class MEstimateEncoder(BaseEstimator, util... | wdm0006/categorical_encoding | category_encoders/m_estimate.py | Python | bsd-3-clause | 10,725 | [
"Gaussian"
] | 037ea2ef6cccc072d76c6a6e17f8549e06b5cdf0ca7c96f467a7b6b4731ee609 |
# creates: Pt.png paw_note.pdf
import os
import numpy as np
import matplotlib
matplotlib.use('Agg')
import pylab as plt
from gpaw.atom.all_electron import AllElectron
ae = AllElectron('Pt')
ae.run()
fig = plt.figure(1, figsize=(7, 4), dpi=80)
fig.subplots_adjust(left=0.05, bottom=0.11, right=0.85, top=0.95)
for n, l... | qsnake/gpaw | doc/documentation/paw_note/make_paw_note.py | Python | gpl-3.0 | 1,310 | [
"GPAW"
] | 7b26f2b1dc586bb12647a7450f5517af3f27fddb99c3898ba04d6193b92e044b |
# Author: Virgile Fritsch <virgile.fritsch@inria.fr>
#
# License: BSD 3 clause
import numpy as np
from . import MinCovDet
from ..utils.validation import check_is_fitted, check_array
from ..metrics import accuracy_score
from ..base import OutlierMixin
class EllipticEnvelope(MinCovDet, OutlierMixin):
"""An object ... | chrsrds/scikit-learn | sklearn/covariance/elliptic_envelope.py | Python | bsd-3-clause | 7,417 | [
"Gaussian"
] | 3c715b3951e5fd2d8ae591d1136df5f1cf2fc7ddab363120d7bbe97a0f491eeb |
from typing import Callable, List, Optional, Tuple
import copy
import dataclasses
import os
import numpy as np
from spins import goos
from spins.goos_sim import maxwell
from spins.goos_sim.maxwell import render
from spins.goos_sim.maxwell import simspace
from spins import fdfd_solvers
from spins import fdfd_tools
fr... | stanfordnqp/spins-b | spins/goos_sim/maxwell/simulate.py | Python | gpl-3.0 | 30,448 | [
"Gaussian"
] | c00c24c5f169a80fd601766793d6bb8e71e667c0dc13e4093cec507bd8935416 |
import copy
import random
import unittest
from hearthbreaker.agents.basic_agents import DoNothingAgent, PredictableAgent
from hearthbreaker.cards.base import MinionCard
from hearthbreaker.constants import MINION_TYPE, CARD_RARITY
from hearthbreaker.tags.status import ChangeAttack
from tests.agents.testing_agents impor... | jirenz/CS229_Project | tests/copy_tests.py | Python | mit | 108,561 | [
"BLAST"
] | e82cbcb5a1ac0e0d86df30ea401226ebc2b49e8fe85c714d286ac7744ea96c49 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
Common test support for pymatgen test scripts.
This single module should provide all the common functionality for pymatgen
tests in a single location, so that test scripts can just import it and work
right... | tschaume/pymatgen | pymatgen/util/testing.py | Python | mit | 6,808 | [
"pymatgen"
] | 8eb368392b3e07ec3856e8b5105b870820268232fe90de7a8810861c52a3a306 |
#!/usr/bin/env python3
"""
Reads the uniref100 flat file and creates a SQLite3 database of commonly-accessed attributes
for each entry.
INPUT
When you BLAST against a database like UniRef100 or UniRef90 you'll get accessions like:
UniRef100_A8PWR2 RepID=A8PWR2_MALGO
UniRef100_M9MHS5 RepID=M9MHS5_PSEA3... | jorvis/biocode | blast/uniref_to_sqlite3.py | Python | mit | 7,850 | [
"BLAST"
] | 868830d195330f12d3d2f74b59eca6e3df030262cef3286a993fcda1ccece8a4 |
# 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... | adit-chandra/tensorflow | tensorflow/python/ops/linalg/linalg_impl.py | Python | apache-2.0 | 44,558 | [
"Gaussian"
] | cd23214ed47e4a1b437db069c1e0716135f684765e15b9bf8f3b02611485d3fd |
import ast
class LabelVisitor(ast.NodeVisitor):
def __init__(self):
self.result = ''
def handle_comma_separated(self, comma_separated_list):
if comma_separated_list:
for element in range(len(comma_separated_list)-1):
self.visit(comma_separated_list[element])
... | python-security/pyt | pyt/helper_visitors/label_visitor.py | Python | gpl-2.0 | 8,424 | [
"VisIt"
] | 29fa4604ecab771b7a1a83908e48f73ee17bd8ae37af3b1511c6a5c56044b2f3 |
import traceback
import tornado.escape
import tornado.web
from misc import standalone_helper
from server.data_gates.default_data_gate import DefaultDataGate
class Endpoint(tornado.web.RequestHandler):
"""
The base class for any http endpoint to use. This assures a equal response structure and error handling... | OpServ-Monitoring/opserv-backend | app/server/apis/endpoint.py | Python | gpl-3.0 | 6,451 | [
"VisIt"
] | fa4e049bd01df6078e53b4e84d2477aee4be49f920b12412f6115f85b70ce47d |
'''
# This script is an example of calculation of long range interactions (Coulomb interaction) using
# the Ewald summation method.
#
# The initial data file is 'ini_struct_deserno.dat'. It contains initial information about
# the system: the box size, particle id, position and charge.
#
# File 'deserno_ewald.d... | capoe/espressopp.soap | testsuite/ewald/ewald_eppDeserno_comparison.py | Python | gpl-3.0 | 6,710 | [
"ESPResSo"
] | 8a89119ca261cf4b52050c8c279d307f9a57bdc65b117310eb12f4223df8a41d |
#!/usr/bin/env python2
# -*- coding: utf-8 -*-
"""
Created on Mon Jul 31 17:03:59 2017
@author: fespir
"""
"""
NAME;
Plot of the global distribution of Aerosol Optical Depth at 550nm for June 2008
PURPOSE;
This program to processes AOD, lon and lat variables for each pixel from a
.nc file taken by AATSR and produces... | fe114/CCI_LAND | plot_aod_global.py | Python | gpl-3.0 | 3,704 | [
"NetCDF"
] | 0c35e043eaa2fcbf5b57130f1594fd0b574677535f05b97b44627bf078ae5a27 |
import os
#import pyfits
import astropy.io.fits as pyfits
import numpy as np
import glob
import shutil
import time
import matplotlib.pyplot as plt
# testing by Britt
USE_PLOT_GUI=False
from matplotlib.figure import Figure
from matplotlib.backends.backend_agg import FigureCanvasAgg
import matplotlib.ticker as mticker... | gbrammer/unicorn | analysis.py | Python | mit | 170,576 | [
"Gaussian"
] | 6fa7b8f12ccb54637877b817a8c2682297aeea873e40eb21b09c6ea9277cf0e2 |
#!/usr/bin/env python
# Copyright 2014-2020 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# U... | sunqm/pyscf | pyscf/dft/rks.py | Python | apache-2.0 | 18,166 | [
"Gaussian",
"PySCF"
] | 6317585a84e864da3de7b559ef747391278b5d02965f87f312a67924d94e3fe2 |
import argparse
import json
from antlr4 import *
import fuzzy.defuzzifiers as defuzzifiers
import fuzzy.functions as functions
import fuzzy.models as models
from fuzzy.parsing.FuzzyLexer import FuzzyLexer
from fuzzy.parsing.FuzzyParser import FuzzyParser
from fuzzy.parsing.evaluator import Evaluator
def print_dict(... | ealmuina/fuzzy-logic-evaluator | main.py | Python | mit | 1,704 | [
"VisIt"
] | 5dbde59ab3f2a5626b58b9955f829661494fa0d8ed64f4ea654278109d1b7c16 |
# Databricks notebook source
# MAGIC %md
# MAGIC ScaDaMaLe Course [site](https://lamastex.github.io/scalable-data-science/sds/3/x/) and [book](https://lamastex.github.io/ScaDaMaLe/index.html)
# MAGIC
# MAGIC This is a 2019-2021 augmentation and update of [Adam Breindel](https://www.linkedin.com/in/adbreind)'s initial ... | lamastex/scalable-data-science | dbcArchives/2021/000_6-sds-3-x-dl/055_DLbyABr_04-ConvolutionalNetworks.py | Python | unlicense | 22,551 | [
"NEURON"
] | fd30f57eb11382a31df2a276de199598370f28aa4ba3a401fa5ef3b99f3ac912 |
#* 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
import subp... | nuclear-wizard/moose | python/TestHarness/tests/test_UnknownPrereq.py | Python | lgpl-2.1 | 778 | [
"MOOSE"
] | fa4c22fc09c941fe6991ba009793a5e49b62f60c20118ff724527b452b476280 |
# (c) Crown Owned Copyright, 2016. Dstl.
from django.contrib.auth import get_user_model
from django.core.urlresolvers import reverse
from django_webtest import WebTest
from apps.organisations.models import Organisation
from apps.teams.models import Team
from testing.common import login_user
class TeamWebTest(WebTe... | dstl/lighthouse | apps/teams/tests/test_team_join.py | Python | mit | 5,237 | [
"VisIt"
] | e76d94dce929d962b60a9d020e0016042006cb7a18be4835d7aecf0f8f8d4592 |
# -*- coding: utf-8 -*-
"""Release data for the IPython project."""
#-----------------------------------------------------------------------------
# Copyright (c) 2008, IPython Development Team.
# Copyright (c) 2001, Fernando Perez <fernando.perez@colorado.edu>
# Copyright (c) 2001, Janko Hauser <jhauser@zscout.de>... | marcoantoniooliveira/labweb | oscar/lib/python2.7/site-packages/IPython/core/release.py | Python | bsd-3-clause | 5,583 | [
"Brian"
] | aa569c9c77c396757b0683c2e669f82404c31481087ae2adcfc7fd23236f624f |
#!/usr/bin/env python
__author__ = "Mike McCann"
__copyright__ = "Copyright 2012, MBARI"
__license__ = "GPL"
__maintainer__ = "Mike McCann"
__email__ = "mccann at mbari.org"
__doc__ = '''
Script to read data from CSV formatted data that Monique makes from the ESP Drifter
platform and write them to netCDF files.
... | stoqs/stoqs | stoqs/loaders/CANON/toNetCDF/espDriftToNetcdf.py | Python | gpl-3.0 | 11,370 | [
"NetCDF"
] | f7b12f6bda0f33632517fc738cb99f2b90a09aa083f2cab5bbb0adfd9f3d28a8 |
#!/usr/bin/env python3
# -*- coding: utf-8 -*
"""
restart_particles - create a spawning file for particle tracking based on the
end position on a particle tracking run
restart_particles -i Input_file -o Output_file Date Time
Input_file - name of the netcdf file
O... | abstractwisdom/Age-Tracer | reborn_v1.0.py | Python | gpl-3.0 | 5,616 | [
"NetCDF"
] | ed69f0f1874ecf6985973950fafe4066e076ab06dcf8291f4020abe2e3456caa |
'''
Created on 29 Mar 2015
@author: ian
'''
"""
Some function calls can be ignored when attempting to resolve FuncCalls to FuncDefs because
we will not ever find their implementation. i.e. They are in the standard library.
"""
import os
from pycparser import c_ast
import astcache
from interfaces import InterfaceReso... | juniper-project/fpgas-caicos | flowanalysis.py | Python | gpl-2.0 | 8,467 | [
"VisIt"
] | 92a2825bf73468a6357cdf8ba5b9aebbf683f5d0b857d1924ea4aa3bb5d9dc33 |
########################################################################
# $HeadURL $
# File: FTSStrategy.py
# Author: Krzysztof.Ciba@NOSPAMgmail.com
# Date: 2013/04/12 13:12:07
########################################################################
""" :mod: FTSStrategy
=================
.. module: FTSStrate... | rajanandakumar/DIRAC | DataManagementSystem/private/FTSStrategy.py | Python | gpl-3.0 | 18,131 | [
"DIRAC"
] | 5ee2c2ccac5c22cab67d24dd11539e2063c60255e4e15a3e70a90c97e18cd56b |
import unittest
import copy
import numpy as np
from math import pi, cos, sin
from pele.angleaxis.rigidbody import RBTopologyBulk, RigidFragmentBulk
from pele.angleaxis.aaperiodicttransforms import MeasurePeriodicRigid, ExactMatchRigidPeriodic, TransformPeriodicRigid
from pele.angleaxis.bulk_rigid_mindist import MinDis... | kjs73/pele | pele/angleaxis/tests/test_bulk_rigid_mindist.py | Python | gpl-3.0 | 8,409 | [
"PyMOL"
] | 083c5233565261e96ede5ee97f78b06ed4ec5ee26c5bc894f852b9870c967e1c |
#!/usr/bin/env python
Info="""
Module name: lmp2radii-column.py
Author: (c) Andres Jaramillo-Botero
California Institute of Technology
ajaramil@wag.caltech.edu
Project: pEFF
Version: August 2009
Extracts the electron radii from a lammps trajectory dump of style custom:
dump 1 all custom period dump_file id type... | crtrott/lammps | tools/eff/lmp2radii_col.py | Python | gpl-2.0 | 3,357 | [
"LAMMPS"
] | 74fdcad4ca5f1223c363fb64ee2ba101d754d27efdccd881a9fb64d6d33adf9e |
#!/usr/bin/env python
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# shrandom.py
# shelly
#
"""
Random number generation.
"""
import sys
import optparse
import random
def random_uniform(min_=0, max_=1):
r = random.random
while True:
yield min_ + (max_ - min_) * r()
def random_gaussian(mu=0, s... | larsyencken/shelly | shelly_cmd/shrandom.py | Python | isc | 1,411 | [
"Gaussian"
] | 9462dea531497b093d6487b2a7c05126af2c8a48136d5a5f9f86cdad2512ae1d |
import psi4
import forte
import pytest
def test_scfinfo():
"""Test the SCFInfo class python API"""
ref_energy = -99.50300245245828
geom = """
1 2
H 0.0 0.0 0.0
F 0.0 0.0 1.0
"""
psi4.core.clean()
mol = psi4.geometry(geom)
psi4.set_options(
{
'basis': 'cc... | evangelistalab/forte | tests/pytest/scfinfo/test_scfinfo.py | Python | lgpl-3.0 | 1,066 | [
"Psi4"
] | 9d1b976dbd9ce704144565702aed8cf9ab4d54caf5a2415af18e1267431bb42d |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2007 Donald N. Allingham
# Copyright (C) 2008 Brian G. Matherly
# Copyright (C) 2010 Nick Hall
# Copyright (C) 2011 Tim G L Lyons
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of t... | dermoth/gramps | gramps/gui/displaystate.py | Python | gpl-2.0 | 22,902 | [
"Brian"
] | 736657edfccfc1210a3575a7c6b2c46c8ed4c0d5913e56e317a9ec4c9e98977e |
#########################################################################################
#
# author: Richard Neher
# email: richard.neher@tuebingen.mpg.de
#
# Reference: Richard A. Neher, Colin A Russell, Boris I Shraiman.
# "Predicting evolution from the shape of genealogical trees"
#
###################... | rneher/FitnessInference | prediction_src/fitness_inference.py | Python | mit | 14,559 | [
"Biopython",
"Gaussian"
] | dcaec164125efbae1856929003e3e73a08693e2a74aed5b701cdf924ed190728 |
import kivy
kivy.require('1.8.0')
from kivy.app import App
from kivy.properties import ObjectProperty
from kivy.uix.boxlayout import BoxLayout
from kivy.uix.popup import Popup
from kivy.clock import Clock
from plyer import accelerometer
'''
This example uses Kivy Garden Graph addon to draw graphs plotting the
accele... | johnbolia/plyer | examples/accelerometer/using_graph/main.py | Python | mit | 2,757 | [
"VisIt"
] | 2b4bebd168f2aaab0ca77a6f663027f8f3565714b392a64db83ed2437f8c9ea0 |
import json
import os
import os.path
import shutil
import sys
import unittest
import datetime
from collections import OrderedDict
from time import sleep
from typing import Union, List
from unittest import TestCase
from cate.cli import main
from cate.core.ds import DATA_STORE_REGISTRY
from cate.core.op import OP_REGIST... | CCI-Tools/ect-core | test/cli/test_main.py | Python | mit | 29,582 | [
"NetCDF"
] | dc643e56e19f9dee7802779b79802a15f7b7ad96c790f31f3a23043096027098 |
from malleefowl import wpslogging as logging
logger = logging.getLogger(__name__)
def modelUncertaintyWorker(resource):
"""returns the result
:param resource: list of pathes to netCDF files
"""
from cdo import Cdo
cdo = Cdo()
from flyingpigeon.utils import check_timestepps
# check resource for consis... | KatiRG/flyingpigeon | examples/modelUncertainty2.py | Python | apache-2.0 | 2,217 | [
"NetCDF"
] | 18529e75e5c44d68c1f0e325241ea0767c6fbb299a6e734b8cdf99c4fa22ea84 |
# -*- coding: utf-8 -*-
"""
#
# ENCODING
#
import json
from stalker import db, Task, Project
from anima.utils import task_hierarchy_io
db.setup()
t = Task.query.get(12106)
data = json.dumps(t, cls=task_hierarchy_io.StalkerEntityEncoder, check_circular=False, indent=4)
#
# DECODING
#
project = Project.query.filter(Proj... | eoyilmaz/anima | anima/utils/task_hierarchy_io.py | Python | mit | 7,449 | [
"VisIt"
] | 86b7077075ef3554e6236e29ce926f5f2a1678e7b3634203d34150d64d9246e2 |
# encoding: utf-8
import os
import numpy as np
import glob
import re
try:
import netCDF4 as netCDF
except:
import netCDF3 as netCDF
import pyroms
import pyroms_toolbox
import _remapping
import matplotlib.pyplot as plt
import datetime
def remapping_bound(varname, srcfile, wts_files, srcgrd, dst_grd, \
... | kshedstrom/pyroms | pyroms_toolbox/pyroms_toolbox/remapping_bound.py | Python | bsd-3-clause | 39,859 | [
"NetCDF"
] | 9e3c48630579454acabed2d4761d515e149527327a9f35210c2236b5af129346 |
from __future__ import unicode_literals
from django.db import models
class Person(models.Model):
person_id = models.BigIntegerField(primary_key=True)
gender_concept = models.ForeignKey('Gender', null=True, blank=True)
year_of_birth = models.DecimalField(max_digits=4, decimal_places=0)
month_of_birth = ... | chop-dbhi/omop_harvest | omop_harvest/models.py | Python | bsd-2-clause | 33,702 | [
"VisIt"
] | 8657cd5ffcd059977fb972626638a8982d563fae2e7f440bfb70598eb8cd61e0 |
"""Collection of function implementations.
Functions are either implemented as :class:`~chainer.Function`\\ s or
:class:`~chainer.FunctionNode`\\ s.
"""
from chainer.functions.activation.clipped_relu import clipped_relu # NOQA
from chainer.functions.activation.clipped_relu import ClippedReLU # NOQA
from chainer.fun... | aonotas/chainer | chainer/functions/__init__.py | Python | mit | 19,888 | [
"Gaussian"
] | a11361f2e89f8be0570f1965ae9365e264dec3807730d5946dd29a8698a8a25b |
"""This example implements RF experiments from https://pubs.acs.org/doi/abs/10.1021/acs.jcim.6b00290"""
import sys
import os
import deepchem
import deepchem as dc
import tempfile, shutil
from bace_datasets import load_bace
from deepchem.hyper import HyperparamOpt
from sklearn.ensemble import RandomForestRegressor
from ... | deepchem/deepchem | examples/bace/bace_rf.py | Python | mit | 4,200 | [
"CRYSTAL"
] | 78a3a08a303d94b723dc83fb2d146a6bae5562f0616bb73a1324dae67ba0b5d5 |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2006 Donald N. Allingham
# Copyright (C) 2007-2008 Brian G. Matherly
#
# 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; ... | Forage/Gramps | gramps/gui/plug/quick/_textbufdoc.py | Python | gpl-2.0 | 12,690 | [
"Brian"
] | ffbd4d298b25e3e6f5fb29b0535d783da520281267b85d3b514ada06a4b47e33 |
# -*- coding: utf-8 -*-
#
# ChemTreeMap documentation build configuration file, created by
# sphinx-quickstart on Wed Feb 24 18:13:58 2016.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this
# autogenerated file.
#... | ajing/ChemTreeMap | docs/source/conf.py | Python | apache-2.0 | 9,194 | [
"RDKit"
] | 9eebe7a0ab6eb47ef06d4db8b69375e6c75b84b35373151ef25f83f62b18d779 |
"""
Given dictionary of words and two strings a and b.
Covert a to b by changing only one character at a time and makig sure that
all the intermediate words in the dictionary.
Example:
dictionary: {"cat", "bat","had","hat","bad"}
a = "bat"
b = "had"
Solution:
"bat" -> "bad" -> "had"
Implementation:
Create graph ... | bkpathak/HackerRank-Problems | python/graphs/convert_string.py | Python | mit | 2,280 | [
"VisIt"
] | f5b3d33d6a597404926b19b2245267ae56d7c2e3269b9860c13d7253e5bc44bc |
# encoding: utf-8
#----------------------------------------------------------------------------
# Copyright (C) 2008-2014, IPython Development Team and Enthought, Inc.
# Distributed under the terms of the BSD License. See COPYING.rst.
#----------------------------------------------------------------------------
"""... | RaoUmer/distarray | examples/seismic_volume/create_volume.py | Python | bsd-3-clause | 9,894 | [
"Gaussian"
] | 72fed993b59a1e7c9e8804d9a377dde4e5e8b9e15d4cb917b47d88036366452d |
"""
Universe configuration builder.
"""
import sys, os
import logging, logging.config
from optparse import OptionParser
import ConfigParser
from galaxy.util import string_as_bool
from galaxy import eggs
import pkg_resources
log = logging.getLogger( __name__ )
def resolve_path( path, root ):
"""If 'path' is rela... | mikel-egana-aranguren/SADI-Galaxy-Docker | galaxy-dist/lib/galaxy/webapps/demo_sequencer/config.py | Python | gpl-3.0 | 5,754 | [
"Galaxy"
] | 738478e7978dd5e5a1a7a858a49204a5bd20826e47c17ee7c6b3103a9c3b1100 |
# Copyright (c) 2003-2014 LOGILAB S.A. (Paris, FRANCE).
# http://www.logilab.fr/ -- mailto:contact@logilab.fr
#
# 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, o... | JetChars/vim | vim/bundle/python-mode/pymode/libs/pylint/utils.py | Python | apache-2.0 | 36,353 | [
"VisIt"
] | daa28dd3306e2fc4b531ba4af596ceb455bc40c96747133da7fa445dd40fbd0e |
import unittest, time, sys, os
sys.path.extend(['.','..','py'])
import h2o, h2o_cmd, h2o_hosts, h2o_import as h2i, h2o_exec
import h2o_glm, h2o_gbm, h2o_rf # TODO: DeepLearning
class ModelManagementTestCase(unittest.TestCase):
tear_down_cloud = True
# tear_down_cloud = False
def tearDown(self):
h2... | janezhango/BigDataMachineLearning | py/testdir_single_jvm/test_model_management.py | Python | apache-2.0 | 31,952 | [
"Gaussian"
] | 0072bc976bcd52044684f6658580842d2a0646b96d9a0a5e4fedf936394c680e |
__author__ = 'chris hamm'
#NetworkClient_r9D
#Created: 1/10/2015
#Added functions to parse chunk objects (Has now been decided that these will not be needed)
#Added a command logging system that records what commands has been received and sent to server/controller. These will be displayed after the client shuts down a... | COCS4950G7/COSC4950 | Source/Network/Obsolete/NetworkClient_r9D.py | Python | gpl-3.0 | 40,556 | [
"ADF"
] | 85475dbfc12a960b332b2824da47946130219884cbad62f5af951a4fc1965da5 |
import numpy as np
import matplotlib.pyplot as plt
from scipy.io import loadmat
from openmdao.api import Problem
from wakeexchange.OptimizationGroups import OptAEP
from wakeexchange.gauss import gauss_wrapper, add_gauss_params_IndepVarComps
from wakeexchange.floris import floris_wrapper, add_floris_params_IndepVarCom... | byuflowlab/gaussian-wake | doc/compare.py | Python | apache-2.0 | 12,295 | [
"Gaussian"
] | 211a580d912ea7fdfcb6fe3a7680d93616dad69446eb64ce143354566ceb8ef3 |
###########################################################################
#
# 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
#
# https://www.apache.org/l... | google/starthinker | dags/dcm_replicate_to_bigquery_dag.py | Python | apache-2.0 | 7,424 | [
"VisIt"
] | fa3f9342a730f782d93af0d240a110ea3267c1da9caaf2c8798008a763657858 |
#
# @file TestReadFromFile4.py
# @brief Reads tests/l1v1-minimal.xml into memory and tests it.
#
# @author Akiya Jouraku (Python conversion)
# @author Ben Bornstein
#
# ====== WARNING ===== WARNING ===== WARNING ===== WARNING ===== WARNING ======
#
# DO NOT EDIT THIS FILE.
#
# This file was generated automatic... | TheCoSMoCompany/biopredyn | Prototype/src/libsbml-5.10.0/src/bindings/python/test/sbml/TestReadFromFile4.py | Python | bsd-3-clause | 3,087 | [
"VisIt"
] | 671308221177611f807ef8be85c7947f34bd4d03d2fd86fc4f49b9f028db186f |
# -*- coding: utf-8 -*-
# Author: Hao Wang <wangronin@gmail.com>
# Bas van Stein <bas9112@gmail.com>
from __future__ import print_function
import pdb
import numpy as np
from numpy import log, pi, log10
from scipy import linalg, optimize
from scipy.linalg import cho_solve
from scipy.optimize import fmin_l_b... | Basvanstein/OWCK | OWCK/gpr.new.py | Python | gpl-2.0 | 54,241 | [
"Gaussian"
] | 122efba8ddeb4aa3115b59e7f33a1b4ae21ca1558e47d7063831b18bed12e491 |
#!/usr/bin/env python
import sys
sitePython = "@SITEPYTHON@"
if sitePython:
sys.path.insert( 0, "@SITEPYTHON@" )
from DIRAC.Core.Base import Script
Script.parseCommandLine()
from DIRAC.WorkloadManagementSystem.JobWrapper.JobWrapper import JobWrapper, rescheduleFailedJob
from DIRAC.WorkloadManagementSystem.Client.J... | coberger/DIRAC | WorkloadManagementSystem/JobWrapper/JobWrapperTemplate.py | Python | gpl-3.0 | 5,088 | [
"DIRAC"
] | 6a024180527b39bf1e11a5c74f9365b6535f8b4a79314a6f876235ef733ea9fd |
from ..componentclass import ComponentClass
from nineml.exceptions import NineMLUsageError, NineMLSerializationError
from .. import Parameter
class RandomDistribution(ComponentClass):
nineml_type = 'RandomDistribution'
nineml_attr = ComponentClass.nineml_attr + ('standard_library',)
standard_library_bas... | INCF/lib9ML | nineml/abstraction/randomdistribution/base.py | Python | bsd-3-clause | 4,513 | [
"VisIt"
] | d079c5e56673524d8f3a4eb9221a5132b1044373b566c91d6e0da0183ab09891 |
#!/usr/bin/env python
# -*- coding:utf-8 -*-
# Author: shirui <shirui816@gmail.com>
import re
import warnings
import argparse
from scipy.constants import Boltzmann as KB
from scipy.constants import Avogadro as NA
import numpy as np
import pandas as pd
from argparse import RawTextHelpFormatter
from scipy.stats import g... | Shirui816/UmbrellaIntegrate.py | wham.py | Python | mit | 9,219 | [
"Avogadro",
"Gaussian"
] | e11e53e9c068f9752778aecc26dec41933c3d3942c6cd59480e24922786169af |
#!/usr/bin/env python -i
# preceeding line should have path for Python on your machine
# viz_gl.py
# Purpose: viz running LAMMPS simulation via GL tool in Pizza.py
# Syntax: viz_gl.py in.lammps Nfreq Nsteps
# in.lammps = LAMMPS input script
# Nfreq = dump and viz shapshot every this many steps
# ... | arielzn/lammps | python/examples/viz_gl.py | Python | gpl-2.0 | 1,950 | [
"LAMMPS"
] | 05bb7924fa1f185f937b5b2d4bad5ef49e331581c03e47699c5b66a8851cc691 |
#!/usr/bin/env python
# -*- coding: UTF-8 -*-
#
# Copyright 2014 Google Inc. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENS... | googlei18n/nototools | nototools/extra_locale_data.py | Python | apache-2.0 | 18,658 | [
"MOE",
"MOOSE"
] | d22c37a9ecb15bcf7aa823d8887c7807b7ee138a8bd8655cd9887df5149bd96e |
# Functional test: functional test: mesocrystal simulation
#
from __future__ import print_function
import ctypes, math, numpy, os, sys, time
import utils
from bornagain import *
# ----------------------------------------------------------------------------
# Sample builder to build mixture of cylinders and prisms o... | gpospelov/BornAgain | Tests/Functional/PyCore/mesocrystal1.py | Python | gpl-3.0 | 8,286 | [
"CRYSTAL"
] | 16691e72891a98a1471949978e4690799bf7066620440143590e161a277ca914 |
#!/usr/bin/env python
from __future__ import print_function
import sys, os
import argparse
import netCDF4 as nc
import numpy as np
import shlex
import shutil
import subprocess as sp
import matplotlib.pyplot as plt
from mpl_toolkits.basemap import Basemap
from regridder import Regridder
from mkancil import Mkancil
fr... | CWSL/access-cm-tools | grid/make_grids.py | Python | apache-2.0 | 35,131 | [
"NetCDF"
] | fc609a921976b350057082411c05c0f2d23994fa7c902cb4409d45a8b99c9ad4 |
# coding: utf-8
from __future__ import unicode_literals
import base64
import datetime
import hashlib
import json
import netrc
import os
import random
import re
import socket
import sys
import time
import math
from ..compat import (
compat_cookiejar,
compat_cookies,
compat_etree_fromstring,
compat_getp... | longman694/youtube-dl | youtube_dl/extractor/common.py | Python | unlicense | 121,217 | [
"VisIt"
] | 98e83a68b4627f0db4385981002e57608c902e6f7cce47986c26fa2c29069b2e |
'''
Functions and classes for inserting station observation data from multiple sources
into a single database format.
Copyright 2014,2015, Jared Oyler.
This file is part of TopoWx.
TopoWx is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the ... | jaredwo/topowx | twx/db/create_db_all_stations.py | Python | gpl-3.0 | 60,857 | [
"NetCDF"
] | 43661b12e105e298f246bb95e076f26cd210de65a5e5a1d172d1134498fd70f3 |
"""Neural network position reconstruction"""
import numpy as np
from pax import plugin, utils
class PosRecNeuralNet(plugin.PosRecPlugin):
"""Reconstruct S2 x,y positions from top pmt hit pattern using a feed-foward neural net
See Alex Kish' thesis for details:
http://www.physik.uzh.ch/groups/groupbaudis... | XENON1T/pax | pax/plugins/posrec/NeuralNet.py | Python | bsd-3-clause | 5,341 | [
"NEURON"
] | 0343b40eaf8dd0b5cf3db54ff0e6a10e6545285da416e56b49e53ef4b05e4875 |
import math
import random
import copy
import pickle
"""
module: brain
multilayer neural network.
The bias input in implemented by adding an extra weight to each set of inputs.
The weights are stored as an 3 dimensional array [layers][neurons_in_layer][weights_into_neuron]
e.g. 3 inputs 2 hidden neurons ... | pauljohnleonard/pod-world | CI_2015/CI_examples/NNSearchForTruthTable/brain.py | Python | gpl-2.0 | 7,992 | [
"NEURON"
] | 33c34256f71b111728b0aedbd8d86577cad26e069884a2c2879aa6997e9a2123 |
# -*- coding: utf-8 -*-
# YAFF is yet another force-field code.
# Copyright (C) 2011 Toon Verstraelen <Toon.Verstraelen@UGent.be>,
# Louis Vanduyfhuys <Louis.Vanduyfhuys@UGent.be>, Center for Molecular Modeling
# (CMM), Ghent University, Ghent, Belgium; all rights reserved unless otherwise
# stated.
#
# This file is pa... | molmod/yaff | yaff/conversion/gaussian.py | Python | gpl-3.0 | 6,358 | [
"Gaussian"
] | dfc8071e14f63371e6f38a99f3eb20bfa77be7297b64cd0a46ac9e5e67ab5872 |
""" pytest for TransformationClient
"""
# pylint: disable=protected-access,missing-docstring,invalid-name
import pytest
# sut
from DIRAC.TransformationSystem.Client.TransformationClient import TransformationClient
tc = TransformationClient()
@pytest.mark.parametrize("tsFiles, dictOfNewLFNsStatus, force, expected... | andresailer/DIRAC | TransformationSystem/Client/test/Test_Client_TransformationClient.py | Python | gpl-3.0 | 2,121 | [
"DIRAC"
] | 67da69b769553c81381cf33923eb88dacf87f91a232ff0041d34f65b3eb59aef |
#-------------------------------------------------------------------------------
# Cloud-COPASI
# Copyright (c) 2013 Edward Kent.
# All rights reserved. This program and the accompanying materials
# are made available under the terms of the GNU Public License v3.0
# which accompanies this distribution, and is available... | edkent/cloud-copasi | cloud_copasi/web_interface/pools/condor_log_tools.py | Python | gpl-3.0 | 6,711 | [
"COPASI"
] | e8e1cbf637b80c056314809cffb438310f5d4dc852179fd18006fbd561dc126e |
#!/bin/env python
# script to analyse mixtures of chiffchaff audios
# by Dan Stowell, summer 2012
from glob import glob
from subprocess import call
import os.path
import csv
from math import log, exp, pi, sqrt, ceil, floor
from numpy import array, mean, cov, linalg, dot, median, std
import numpy as np
import tempfile... | danstowell/markovrenewal | experiments/chiffchaff.py | Python | gpl-2.0 | 35,302 | [
"Gaussian"
] | 93946b8ee6ee8101e11b56f7453d7a9a0d7d143ade01e52347f862274919406c |
"""
BSRT Analysis
-------------
Top-level script to query BRST data, then perform an analysis and output the generated plots. The
script runs through the following steps:
- Processes the output files of ``BSRT_logger.py`` for a given timeframe, returns them in as a
`TfsDataFrame` for further processing.
- Additionally... | pylhc/PyLHC | pylhc/bsrt_analysis.py | Python | mit | 15,453 | [
"Gaussian"
] | bf9a5f4b9ebc31cfb5480f8ad81057961329b337c839ae099c5df42bd5384c14 |
""" Calculate residuals """
from scipy.optimize import curve_fit
import glob
import os
import numpy as np
import matplotlib.pyplot as plt
from math import log10, floor
from matplotlib import rc
import matplotlib.gridspec as gridspec
from matplotlib.colors import LogNorm
plt.rc('text', usetex=True)
from matplotlib.tick... | annayqho/TheCannon | code/lamost/li_giants/residuals.py | Python | mit | 7,181 | [
"Gaussian"
] | d4e79f11061f88d580bb1796facee6fa680acd0da6148d42ec7e248be84458ff |
# coding=utf-8
from global_test_case import GlobalTestCase as TestCase
from ..models import Confirmation, send_confirmation_email
from ..models import Message, WriteItInstance, ConfirmationTemplate
from django.core import mail
from subdomains.utils import reverse
from django.contrib.auth.models import User
from django.... | TEDICpy/write-it | nuntium/tests/confirmation_template_test.py | Python | gpl-3.0 | 12,470 | [
"VisIt"
] | 3ab11870f8a918686a0880d349486ec8fe03ec753fd3e5aa9aa185ec77d6babf |
# (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... | ColOfAbRiX/ansible | lib/ansible/constants.py | Python | gpl-3.0 | 28,297 | [
"Galaxy",
"MOOSE"
] | 47745412cafb24e5d86adc5c0006bc09f6f340aeaf0d4e6098b0867d08531ccf |
#!/usr/bin/env python
# ===============================================================================
# Copyright 2015 Geoscience Australia
#
# 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
... | ama-jharrison/agdc | agdc/agdc/abstract_ingester/tile_contents.py | Python | apache-2.0 | 15,707 | [
"NetCDF"
] | 8ab6df95d0ee8f8ea493aae045ba4e9a71d566608555598f0c22843e209ae8a5 |
'''
synbiochem (c) University of Manchester 2016
synbiochem is licensed under the MIT License.
To view a copy of this license, visit <http://opensource.org/licenses/MIT/>.
@author: neilswainston
'''
# pylint: disable=invalid-name
# pylint: disable=no-member
import sys
import numpy as np
from synbiochemdev.learning... | neilswainston/development-py | synbiochemdev/learning/ch2/adaline.py | Python | mit | 1,303 | [
"VisIt"
] | 084ad4aac95d895c352a3ac8d5f2f521db4d360d95833d893adfe06ca6ab706d |
#!/usr/bin/env python
# Copyright 2009 by Michiel de Hoon. All rights reserved.
# Revisions copyright 2010 by Peter Cock. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
"""Test ... | updownlife/multipleK | dependencies/biopython-1.65/Tests/test_SwissProt.py | Python | gpl-2.0 | 102,052 | [
"Biopython"
] | 4f111398d4db6e79b17affabf8c4db36a75f05f8f6022360a73b3a9abdcc3185 |
from config import CLIENT_DIST_PATH
from bs4 import BeautifulSoup
from shutil import copyfile
from argparse import ArgumentParser, REMAINDER
from re import sub, IGNORECASE
def main():
args = parse_arguments()
for arg in args.args:
if args.backup:
# save a backup of original just in case
... | wangchulab/CIMAGE | cimage/cimage-clientpatches/source/cimage-preview/modify-existing-dta.py | Python | mit | 3,294 | [
"GULP"
] | 2f4c442fd2124cfd1118c17b462d728c5f5857791833a1a3d26c71568db3096f |
# -*- coding: utf-8 -*-
"""
ORCA Open Remote Control Application
Copyright (C) 2013-2020 Carsten Thielepape
Please contact me by : http://www.orca-remote.org/
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as publi... | thica/ORCA-Remote | src/ORCA/download/Repository.py | Python | gpl-3.0 | 7,855 | [
"ORCA"
] | c4ee514356e7a1304d9edf0ad8ed8ce1db7f2b0146c61cf22d19f18d14094b7c |
#!/usr/bin/python
"""Test of sayAll."""
from macaroon.playback import *
import utils
sequence = MacroSequence()
#sequence.append(WaitForDocLoad())
sequence.append(PauseAction(5000))
sequence.append(utils.StartRecordingAction())
sequence.append(KeyComboAction("KP_Add"))
sequence.append(utils.AssertPresentationActio... | chrys87/orca-beep | test/keystrokes/firefox/say_all_empty_anchor.py | Python | lgpl-2.1 | 1,541 | [
"ORCA"
] | 8a18e673d26cfc3d80a16b42e9d52020074649d1f863fea6f8794354a9e6653c |
from ase.calculators.dftb import Dftb
from ase.optimize import QuasiNewton
from ase.io import write
from ase.structure import molecule
test = molecule('H2O')
test.set_calculator(Dftb(label='h2o',
atoms=test,
Hamiltonian_MaxAngularMomentum_='',
... | misdoro/python-ase | doc/ase/calculators/dftb_ex1_relax.py | Python | gpl-2.0 | 554 | [
"ASE"
] | df8a57d4535f349ece3f41659ea2e807f043ce3cee851876a7c58738f93067f0 |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.