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import os
import math
import struct
import numpy as np
import matplotlib.pyplot as plt
from mpl_toolkits.mplot3d import Axes3D
from mayavi import mlab
from mayavi.mlab import *
filePath = "/home/kriol/data/R8O1IS01C25_Y0Z55/R8O1IS01C25_Y0Z55.3ddose"
f = open(filePath,'r')
#read in the dimensions
line = f.readline(... | Iwan-Zotow/runEGS | XcVV/may.py | Python | apache-2.0 | 1,480 | [
"Mayavi"
] | b56762d102cca77438ccc69318beaf84d4bd7d5a438076cf22d0996a35d85bc2 |
# Copyright (C) 2010-2019 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later v... | espressomd/espresso | testsuite/python/pairs.py | Python | gpl-3.0 | 4,553 | [
"ESPResSo"
] | 74acda2cb7db769f2839e9b81ed2c015d2abe8acec0326d2eae38ce69e3ef880 |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""SUPER-FOCUS: A tool for agile functional analysis of shotgun metagenomic data"""
import argparse
import os
import sys
import logging
from pathlib import Path
from shutil import which
from superfocus_app import version
import tempfile
LOGGER_FORMAT = '[%(asctime)s - ... | metageni/SUPER-FOCUS | superfocus_app/superfocus_downloadDB.py | Python | gpl-3.0 | 7,440 | [
"BLAST"
] | 0bf25ed3c327ea20c435f0baf2fc43c0178e892d4cfa0a78c313540c934b88ef |
# -*- coding: utf-8 -*-
""" Module to handle World Ocean Atlas (WOA) climatology
"""
from os.path import expanduser
import re
from datetime import datetime
import numpy as np
from numpy import ma
import netCDF4
from scipy.interpolate import interp1d
# RectBivariateSpline
from scipy.interpolate import griddata
from ... | castelao/oceansdb | oceansdb/woa.py | Python | bsd-3-clause | 18,112 | [
"NetCDF"
] | ec875a288efec952eddb360542eda4f83457acad4d6acd9587636a99d552ca1c |
#!/usr/bin/env python
# Dan Blankenberg
from __future__ import print_function
import datetime
import logging
import optparse
import os
import shutil
import subprocess
import tempfile
from json import (
dumps,
loads
)
from os.path import basename
from xml.etree.ElementTree import tostring
try:
# For Python ... | blankclemens/tools-iuc | data_managers/data_manager_rsync_g2/data_manager/data_manager_rsync.py | Python | mit | 17,666 | [
"Galaxy"
] | ae35c57d927035d313545e7cdfcd491e71349dcec801d2e4c3326ece372e1c14 |
"""Support for displaying weather info from Ecobee API."""
from datetime import datetime
from pyecobee.const import ECOBEE_STATE_UNKNOWN
from homeassistant.components.weather import (
ATTR_FORECAST_CONDITION,
ATTR_FORECAST_TEMP,
ATTR_FORECAST_TEMP_LOW,
ATTR_FORECAST_TIME,
ATTR_FORECAST_WIND_BEARIN... | postlund/home-assistant | homeassistant/components/ecobee/weather.py | Python | apache-2.0 | 6,349 | [
"VisIt"
] | 8260be26b2d621242efcaee619693658a82441e555c6711978ea75c500112f40 |
"""
This file is a mess, it is a merge of random stuff that is in galaxy.util and
stuff that was in pulsar.util. This should be reworked to only contain stuff in
galaxy.util and the rest should be moved into galaxy.util.pulsar_io or something
like that.
"""
import os
import stat
try:
import grp
except ImportError:
... | ssorgatem/pulsar | galaxy/util/__init__.py | Python | apache-2.0 | 7,460 | [
"Galaxy"
] | 0c8f89f11fa02108f6748186b63e3e3e208ccf8d60294e0ebcdcacb53007b1ca |
# -*- 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-compute | tests/unit/gapic/compute_v1/test_license_codes.py | Python | apache-2.0 | 52,934 | [
"Octopus"
] | f37ad22523e1025d5dac253be5102ed5983bf73af77bb5dd6c62033d555a11be |
from __future__ import absolute_import
from typing import Any, Dict, List, Set, Tuple, TypeVar, Text, \
Union, Optional, Sequence, AbstractSet, Pattern, AnyStr
from typing.re import Match
from zerver.lib.str_utils import NonBinaryStr
from django.db import models
from django.db.models.query import QuerySet
from dja... | peguin40/zulip | zerver/models.py | Python | apache-2.0 | 56,005 | [
"VisIt"
] | 9363c4fa000ff535531693d93a977125a2c3cfeb96d9c95599a0a6ebd17ec854 |
# -*- coding: utf-8 -*-
from __future__ import absolute_import
from os import path
import logging
import socket
from tornado import gen, testing
import thriftpy
from thriftpy.tornado import make_client
from thriftpy.tornado import make_server
logging.basicConfig(level=logging.INFO)
addressbook = thriftpy.load(pa... | eleme/thriftpy | tests/test_tornado.py | Python | mit | 3,604 | [
"Brian"
] | 4215e5a1d92bec86f46f83e8619cf1713de68e6b12922e373b255478e1170c24 |
#!/usr/bin/env python
# -*- encoding: utf-8 -*-
# CREATED:2015-03-03 21:29:49 by Brian McFee <brian.mcfee@nyu.edu>
'''Additive background noise'''
import pysoundfile as psf
import librosa
import numpy as np
import os
import six
from ..base import BaseTransformer
def sample_clip(filename, n_samples, sr, mono=True):
... | silky/muda | muda/deformers/background.py | Python | apache-2.0 | 3,768 | [
"Brian"
] | c610dc0e98d06b7a96e1388401307519f0014243a46ccaa0c9418f863bd2f299 |
#!/usr/bin/python
###
## twitter access for #cc
#
import sys
import ccdb
import tweepy
import urllib
import tempfile
import igscrape
import instasync
import credentials
###
## actual tweeting
#
def get_api():
# pull the credentials
cred = credentials.get_credentials("twitter")
if (cred is None):
... | cromulentcoffee/cromulentcoffee.github.io | tweet.py | Python | gpl-2.0 | 8,382 | [
"ESPResSo"
] | 406ce73138c44aceaec7e33761c94b993f05cbf6bfcaa6ff781df55c89baa936 |
# coding: utf-8
# 😬
from django.utils.translation import ugettext_lazy as _
# This file is a place to store static, translatable strings
SECTORS = (
# (value, human-readable label)
("Public Administration", _("Public Administration")),
("Arts, Entertainment, and Recreation", _("Arts, Entertainment, and R... | kobotoolbox/kpi | kobo/static_lists.py | Python | agpl-3.0 | 15,429 | [
"BWA"
] | 27c585cf114bd58fa45a3a58ff6df19914a36b0c364635016f86ffda58d58f59 |
# Standard Library
import asyncio
import random
# Casino
from .deck import Deck
from .engine import game_engine
# Red
from redbot.core import bank
from redbot.core.i18n import Translator
from redbot.core.errors import BalanceTooHigh
from redbot.core.utils.chat_formatting import box
from redbot.core.utils.predicates i... | Redjumpman/Jumper-Cogs | casino/games.py | Python | gpl-3.0 | 16,248 | [
"CASINO"
] | e34519fb83d4c08bf1907b1546b10d4cff91d5f677f9a4b10db3edbeb2aaec37 |
# ***************************************************************************
# * Copyright (c) 2017 qingfeng Xia <qingfeng.xia@gmail.coom> *
# * Copyright (c) 2017 Bernd Hahnebach <bernd@bimstatik.org> *
# * *
# * Th... | sanguinariojoe/FreeCAD | src/Mod/Fem/feminout/importVTKResults.py | Python | lgpl-2.1 | 6,452 | [
"VTK"
] | abbf37dbf4965543447a7784c5d821da91fd9e1f14c55b7b5efddf169ac0685b |
#!/usr/bin/python
# TODO: This code needs to be cleaned up a lot... there is a lot of testing garbage that is no longer needed!
# It however, does work for the purposes of the paper submission.
# I have to make this submission ready, and conform to infile, out folder, done.
from multiprocessing import Pool
import tim... | schaefce/gene_block_evolution | make_operon_query.py | Python | gpl-3.0 | 32,347 | [
"BLAST",
"Biopython"
] | 3496d0026c0382a1d18033502846b4829a244a7f370e9bceae49f957dd83a129 |
# -*- coding: utf-8 -*-
from __future__ import (absolute_import, division, print_function,
unicode_literals)
from datetime import date
from workalendar.core import WesternCalendar, ChristianMixin, Calendar
from workalendar.core import SUN, MON, SAT
class Canada(WesternCalendar, ChristianMixin... | sayoun/workalendar | workalendar/canada.py | Python | mit | 10,029 | [
"Desmond"
] | 0978becb58ce581b22667c9e1f5dcf57ff90e1ff670ccb7b94e9e0211a9c62e6 |
#!/usr/bin/env python
# coding: utf-8
"""Test suite for autopep8.
Unit tests go in "UnitTests". System tests go in "SystemTests".
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
from __future__ import unicode_literals
import os
import re
import sys
i... | hhatto/autopep8 | test/test_autopep8.py | Python | mit | 256,881 | [
"Psi4"
] | cc039492ec0e216daef5f3d72d227a552d4ace9b56329a1a950018c9771617fd |
#!/usr/bin/env python
# encoding: utf-8
# -*- coding: UTF-8 -*-
#--------------------------------------------------------------------------
# package : GenroPy core - see LICENSE for details
# module gnrbag : an advanced data storage system
# Copyright (c) : 2004 - 2007 Softwell sas - Milano
# Written by : Gi... | poppogbr/genropy | gnrpy/tests/sql/e_query_test.py | Python | lgpl-2.1 | 8,654 | [
"Brian"
] | ffb042881475a70fb3e9527cdc8fb5300031b2f82c4091f3c0d49567dc82b9e1 |
""" FileManager for ... ?
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
__RCSID__ = "$Id$"
import six
import os
import datetime
from DIRAC import S_OK, S_ERROR
from DIRAC.DataManagementSystem.DB.FileCatalogComponents.FileManager.FileManagerBase impor... | yujikato/DIRAC | src/DIRAC/DataManagementSystem/DB/FileCatalogComponents/FileManager/FileManagerPs.py | Python | gpl-3.0 | 31,305 | [
"DIRAC"
] | 0d478d9b5ca18b9399ec22979a78f5e19ffa4ac1cb24e1352caff787612586de |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2017 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of Psi4.
#
# Psi4 is free software; you can redistribute it and/or modify
#... | rmcgibbo/psi4public | psi4/driver/qcdb/interface_gcp.py | Python | lgpl-3.0 | 11,889 | [
"Psi4"
] | 895fec3862e31eb914c21d72b39a88d1f35992b5e420987efcd2a9c151ae0b13 |
# Import libaries and illustris library
import numpy as np
import math
# calulate distance to a point:
# input: subhalo_mask: position of particles in column matrix x,y,z position
# fil_pos_mat: position of filaments in column matrix x,y,z position
# output: array: 1st column is index of filament row that is ... | zpenoyre/illustris | web/code/subroutines/distance.py | Python | mit | 3,364 | [
"Galaxy"
] | 2499a7d8020b8327fe943c3407859c29fa4b1449ea469c01077cf7ffb42bba7a |
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_getpass,
compat_... | dannyperry571/theapprentice | script.module.youtube.dl/lib/youtube_dl/extractor/common.py | Python | gpl-2.0 | 115,266 | [
"VisIt"
] | a2ce3f49d657cd78865ddc0c865ee419a47feec422d540af73b8c4bdca20faf3 |
"""
Courseware views functions
"""
import logging
import urllib
import json
from collections import defaultdict
from django.utils import translation
from django.utils.translation import ugettext as _
from django.conf import settings
from django.core.context_processors import csrf
from django.core.exceptions import P... | epam-mooc/edx-platform | lms/djangoapps/courseware/views.py | Python | agpl-3.0 | 38,453 | [
"VisIt"
] | 51453c63f14c933c3800d02ea336f88f408fe914c870e13dc21620f8c9ca9441 |
import numpy as np
def Gaussian(Center, Smear, Norm, Domain):
return Norm * np.exp( - 0.5 * (Domain - Center) ** 2 / Smear ** 2 )
def dump(args, suffix, x, y):
fname = args.filename.split('.out')[0] + suffix
np.savetxt(fname, np.transpose([x,y])) | LuciusV/ORCA-pyPDOS | functions.py | Python | gpl-3.0 | 260 | [
"Gaussian"
] | b0f760dd59fcb4fc54b1056b841fea49d1cce5b81a6af8d73c3efd2c03835291 |
import json
import uuid
from django.conf import settings
import requests
class TranslationException(Exception):
pass
def translate(text, from_language, to_language):
AZURE_CLIENT_SECRET = getattr(settings, 'AZURE_CLIENT_SECRET', None)
GOOGLE_APPLICATION_CREDENTIALS_PATH = getattr(
settings, 'G... | mbi/django-rosetta | rosetta/translate_utils.py | Python | mit | 4,624 | [
"VisIt"
] | 50c7d1e8365c3d5bfa344b70ea1f53eb09c2b963b12ad0f805f8c171370fd83b |
from django.db import models
from django.apps import apps
from edc_base.model.fields import OtherCharField
from edc_base.model.models import BaseUuidModel
from edc_base.model.validators import datetime_not_before_study_start, datetime_not_future
from edc_consent.models import RequiresConsentMixin
from edc_constants.ch... | botswana-harvard/tshilo-dikotla | td_maternal/models/maternal_labour_del.py | Python | gpl-2.0 | 11,697 | [
"VisIt"
] | a38077a6001ca496cebce568ace431630c68713b3e1c051af58ca55b0bab5314 |
from numpy import array, arange, frombuffer, load, asarray, random, \
fromstring, expand_dims, unravel_index, prod
try:
buffer
except NameError:
buffer = memoryview
from ..utils import check_spark, check_options
spark = check_spark()
def fromrdd(rdd, nrecords=None, shape=None, index=None, labels=None, d... | jwittenbach/thunder | thunder/series/readers.py | Python | apache-2.0 | 14,477 | [
"Gaussian"
] | 80be0a7f91e62330eaf4d5503bf69cbbf4887065825348d1f491ba7388e340af |
# -*- coding: UTF-8 -*-
"""
``DeSeq2``
-----------------------
:Authors: Liron Levin
:Affiliation: Bioinformatics core facility
:Organization: National Institute of Biotechnology in the Negev, Ben Gurion University.
Short Description
~~~~~~~~~~~~~~~~~~~~~~~~~
A module to preform:
* Gene level differential e... | bioinfo-core-BGU/neatseq-flow_modules | neatseq_flow_modules/Liron/DeSeq2_module/DeSeq2.py | Python | gpl-3.0 | 16,344 | [
"Bioconductor",
"HTSeq"
] | cfbe0751bafaf9033f6445a1bac1a44b72d90008e5c4e5c52e77acf07bde0ea1 |
import unittest
from pymatgen.core import Structure
import pandas as pd
import numpy as np
from veidt.monte_carlo.ensemble import NVT, NPT, uVT
from veidt.monte_carlo.base import State, StaticState
from veidt.monte_carlo.state import AtomNumberState, IsingState
from veidt.monte_carlo.base import StateDict
from veidt.mo... | materialsvirtuallab/veidt | veidt/monte_carlo/tests/test_ensemble.py | Python | bsd-3-clause | 3,849 | [
"pymatgen"
] | 7b22d12053fde36061afa3e1002805976b448bf906c06319594e211c5e4313bb |
#!/usr/bin/env python
# coding=utf-8
from __future__ import absolute_import
from collections import namedtuple
from difflib import get_close_matches
try:
from collections import OrderedDict
except ImportError:
from future.moves.collections import OrderedDict
from future.utils import with_metaclass, iteritems... | bionikspoon/pureyaml | tests/utils/parametrized_tests_data.py | Python | mit | 3,138 | [
"VisIt"
] | ffd68b72e7c56340cfd8f07b36d33872c654ff4e252755110de299719e057db0 |
"""Calculate quality control metrics for UMI tags and consensus generation.
"""
import collections
import math
import os
import numpy as np
import pysam
import yaml
from bcbio import bam, utils
from bcbio.pipeline import datadict as dd
def run(_, data, out_dir):
stats_file = os.path.join(utils.safe_makedir(out_d... | biocyberman/bcbio-nextgen | bcbio/qc/umi.py | Python | mit | 3,082 | [
"pysam"
] | 6f749d45cabd990c2e6558ba10de11896d9fec953be41fa4b30e479378e931f1 |
"""
This sample performs a grand canonical simulation of a salt solution.
"""
#
# Copyright (C) 2013-2018 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Softwar... | hmenke/espresso | samples/grand_canonical.py | Python | gpl-3.0 | 4,854 | [
"ESPResSo"
] | 71c23d4351fbb74ad8155dca4870829a40e08a77f3c1b7a665e14b427754b71f |
"""Unit tests for Variational Bayes.
"""
from .variational import *
from ..density.gauss import Gauss
from ..density.student_t import StudentT
from ..density.mixture import MixtureDensity, create_gaussian_mixture, recover_gaussian_mixture
from ..sampler import importance_sampling
from ..tools._probability_densities im... | fredRos/pypmc | pypmc/mix_adapt/variational_test.py | Python | gpl-2.0 | 30,985 | [
"Gaussian"
] | ea44f63cccab334984d6d730cbc761a751ab190c94ecc2a340cd839f1f12e284 |
# -*- coding: utf-8 -*-
"""
ast
~~~
The `ast` module helps Python applications to process trees of the Python
abstract syntax grammar. The abstract syntax itself might change with
each Python release; this module helps to find out programmatically what
the current grammar looks like and allows... | kennedyj/symphony | vim/bundle/pyflakes/ftplugin/python/pyflakes/pyflakes/ast.py | Python | mit | 11,668 | [
"VisIt"
] | ffc01a24a00f3c8ef6c0ac68bcd6792515b6277317fea45722c67504dc0cf859 |
# 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 agreed to in writing, ... | google/latexify_py | latexify/core.py | Python | apache-2.0 | 8,483 | [
"VisIt"
] | 67e0ed6c1708e75c305ab50c6bb94d1b9c3b39f96006c8505493254d5754d197 |
# This file is part of the myhdl library, a Python package for using
# Python as a Hardware Description Language.
#
# Copyright (C) 2003-2008 Jan Decaluwe
#
# The myhdl 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 t... | jck/myhdl | myhdl/_extractHierarchy.py | Python | lgpl-2.1 | 12,645 | [
"VisIt"
] | 2a984f69c3067d274ef2f7ce935a005792367a594bc2a9a2fa9ea7bd0d99c2b1 |
from __future__ import print_function
import openpyxl
import scipy.io as sio
import numpy as np
from sklearn import linear_model
import matplotlib.pyplot as plt
from functions_extract_database import get_rates_from_trials
folder = './database/'
filename = 'SummaryDatabase'
format_type = '.xlsx'
# Extract all the dat... | h-mayorquin/camp_india_2016 | project1/predict_location.py | Python | mit | 1,706 | [
"NEURON"
] | 6e6f06cab1eae0bd146fd2f6e6f18d9cdd6eabc9d183b0c9cf802c1d347905c4 |
# proxy module
from __future__ import absolute_import
from mayavi.filters.api import *
| enthought/etsproxy | enthought/mayavi/filters/api.py | Python | bsd-3-clause | 87 | [
"Mayavi"
] | 800e67a6d188f8fff0a9b6baef2b2d12014f8d186f841b8716bec941c1862c8e |
# Copyright 2008-2010 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.
"""Code for dealing with sequence alignments.
"""
from Bio.Seq import Seq
from Bio.SeqRecor... | BlogomaticProject/Blogomatic | opt/blog-o-matic/usr/lib/python/Bio/Align/__init__.py | Python | gpl-2.0 | 25,300 | [
"Biopython"
] | 4a25ccad831388484daaa7b6358828f84e1ee20e73b9daa5ff7e1696202e79b3 |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2017 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of Psi4.
#
# Psi4 is free software; you can redistribute it and/or modify
#... | rmcgibbo/psi4public | psi4/driver/procrouting/sapt/sapt_jk_terms.py | Python | lgpl-3.0 | 16,078 | [
"Psi4"
] | 04c32f1d0beab1a9dfead6d8278415d48d8fc60fe5b7a6278bb6e8bc8bb439ac |
import numpy as np
import theano.tensor as T
import conv_ops
import deconv_ops
import feedforward
from theano_toolkit import utils as U
from theano.printing import Print
FMAP_SIZES = [4, 8, 16, 32, 64, 128]
FEATURE_MAP_SIZE = FMAP_SIZES[0]
REV_FMAP_SIZES = FMAP_SIZES[::-1]
FINAL_FMAP_SIZE = 64 // 2**(len(FMAP_SIZES)-1... | shawntan/ift6266 | model.py | Python | mit | 10,855 | [
"Gaussian"
] | 396801c68ba634a5f6985d9bf2b2661385503c7ef550579ea38448bd517ea3e0 |
# Copyright 2015 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... | nburn42/tensorflow | tensorflow/tools/api/tests/api_compatibility_test.py | Python | apache-2.0 | 9,970 | [
"VisIt"
] | a655f8f59ab15dcca178e20ed459b64d5de6aabdda300edd61dcf92db065f638 |
# sql/elements.py
# Copyright (C) 2005-2020 the SQLAlchemy authors and contributors
# <see AUTHORS file>
#
# This module is part of SQLAlchemy and is released under
# the MIT License: http://www.opensource.org/licenses/mit-license.php
"""Core SQL expression elements, including :class:`_expression.ClauseElement`,
:clas... | cloudera/hue | desktop/core/ext-py/SQLAlchemy-1.3.17/lib/sqlalchemy/sql/elements.py | Python | apache-2.0 | 159,917 | [
"VisIt"
] | 74567c2929bf9859183098c40043f78a997751fd29d14ddda5440216a13a198b |
# Welcome to the OpenDFT scripting console
#
# You can normally(*) use python to script here in addition to OpenDFT objects that can be
# used to calculate electronic properties and visualize them. The structure, engine options etc. are loaded, when the
# scripting window is opened and can be changed within the script.... | JannickWeisshaupt/OpenDFT | src/examples/scripting/structure_optimization.py | Python | gpl-3.0 | 2,754 | [
"CRYSTAL"
] | 9d0ae5a22d70cbe346d5a6804048561b17694a7d87a941791fb82d284a62fd5c |
# 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 Ibmisc(CMakePackage):
"""Misc. reusable utilities used by IceBin."""
homepage = "http... | iulian787/spack | var/spack/repos/builtin/packages/ibmisc/package.py | Python | lgpl-2.1 | 2,520 | [
"NetCDF"
] | 055fbc36e6b0801cf16eaf220aca527aed47244f2ed1a03afd4336b612fe4f14 |
# $Id$
#
# Copyright (C) 2006 greg Landrum and Rational Discovery LLC
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
from rdkit.ForceField impo... | soerendip42/rdkit | rdkit/Chem/ChemicalForceFields.py | Python | bsd-3-clause | 370 | [
"RDKit"
] | 392111917d9b16d91748de1689887ed907e0747099a2a2efa5eac5d4a26ac4c3 |
from django.conf import settings
from django.contrib.sites.models import Site
from django.core.mail import send_mail
from django.template.defaultfilters import pluralize
from grandchallenge.subdomains.utils import reverse
def send_unread_notifications_email(recipients):
site = Site.objects.get_current()... | comic/comic-django | app/grandchallenge/notifications/emails.py | Python | apache-2.0 | 1,248 | [
"VisIt"
] | 019031167cdc6e757d8a739e364ad1f0dcddd8b48adf8fff657e1b2abdb99680 |
#!/usr/bin/env python
# ----------------------------------------------------------------------------
# Copyright 2015 Nervana Systems 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
#
# ... | coufon/neon-distributed | examples/early_stopping.py | Python | apache-2.0 | 2,993 | [
"Gaussian"
] | f70df447473881c7c089cef6fb04cca22b5117904e925feacf9c6b463f7231fb |
from contextlib import closing
import numpy
from mayavi.scripts import mayavi2
from simphony.core.cuba import CUBA
from simphony.cuds.lattice import (make_hexagonal_lattice,
make_orthorhombic_lattice)
from simphony.io.h5_cuds import H5CUDS
# create some datasets to be saved in a fi... | simphony/simphony-mayavi | examples/cudsfilesource_mayavi2.py | Python | bsd-2-clause | 1,926 | [
"Mayavi"
] | 50b6f2cf04d1ea7c824e1f4a25f0c1ad072f7d6a12277c79e60348090b26e68f |
__author__ = 'Victoria'
from src.common.Observable import *
from src.game.AttackSpell import *
from src.game.Room2 import *
from src.game.StatePattern4 import *
from src.game.Monsters2 import *
from random import *
class Hero(Observable,Observer, AttackSpell):
def __init__(self, name):
super(Hero, self)._... | victorianorton/SimpleRPGGame | src/game/Heros3.py | Python | mit | 3,416 | [
"VisIt"
] | a1debdf4a5b297085a192e772d90c3b2ba5d84973ba1809b454faadad88bfe08 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
3D Visualization (Proof of concept)
-----------------------------------
"""
import pygimli as pg
from pygimli.viewer import show
mesh = pg.meshtools.createMesh3D(1,1,1)
"""
If interactive is set to True, a Mayavi window pops up which allows for
interactive introspect... | gimli-org/gimli | doc/tutorials/dev/plot_XX-3D-visualization.py | Python | apache-2.0 | 657 | [
"Mayavi"
] | bb17e0cb525070b2c3dc335d10a733b2d2d8e6352373cd8bf11baba6321b80ef |
# abstract class for Beverage
class BeverageBase(object):
def get_description(self):
raise 0, "Must be implemented"
def get_cost(self):
raise 0, "Must be implemented"
# Concrete Beverage
class Beverage(BeverageBase):
def get_description(self):
return self.description
def get_c... | sakurahilljp/dojo | Decorator/DecoratorSamples/PythonDecorator/PythonDecorator.py | Python | mit | 2,366 | [
"ESPResSo"
] | ac42709f1d185a1a38ea3ca39ff6f238e29f356e5c8854753d7905e48919ce35 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
This package containes classes to parse input files from the exciting
code package.
"""
from .inputs import * # noqa
| gmatteo/pymatgen | pymatgen/io/exciting/__init__.py | Python | mit | 234 | [
"exciting",
"pymatgen"
] | 37a11720f9b13b107ded4d0e25bdcc839b2d0c1e902407f22d578c25ea4bcb46 |
from ase import Atoms, Atom
from gpaw import GPAW
from gpaw.mpi import rank, size
a = 3.0
H = Atoms([Atom('H')],
cell=(a, a, a),
pbc=True,
calculator=GPAW())
if size > 1:
H.positions[0, 0] += 0.01 * rank
try:
e0 = H.get_potential_energy()
except RuntimeError:
pa... | qsnake/gpaw | gpaw/test/parallel/compare.py | Python | gpl-3.0 | 354 | [
"ASE",
"GPAW"
] | b9aff304664d5a34e026933f2e7900fac86483d78b30c8ed57719f49eac1922c |
# -*- coding: utf-8 -*-
from __future__ import unicode_literals
from django.db import models, migrations
from django.conf import settings
import django.core.validators
class Migration(migrations.Migration):
dependencies = [
migrations.swappable_dependency(settings.AUTH_USER_MODEL),
('main', '000... | FMI-B20/Yarr | main/migrations/0008_auto_20150523_1053.py | Python | mit | 1,349 | [
"VisIt"
] | 9a1d06c1322092a24eac9987489906940b0d6489cd72c89a70a45abc3fe4ac46 |
from ase import *
from ase.visualize import *
import numpy as np
from math import *
np.set_printoptions(precision=3, suppress=True)
TOLERANCE = 1.0e-5
'''
module to create hkl slabs using a layer approach
'''
def nint(number):
"""Returns the nearest integer to :arg:`number`."""
if number >= 0.0:
r... | jboes/jasp | jasp/vicinal.py | Python | gpl-2.0 | 9,522 | [
"ASE"
] | fc143e05903a6c27b877ea4cb92b1bdacdccce9adc76414a4b64816b19483e06 |
################################################################################
# #
# Copyright (C) 2010-2018 The ESPResSo project #
# #
# This file is pa... | hmenke/espresso | doc/tutorials/06-active_matter/SOLUTIONS/rectification_simulation.py | Python | gpl-3.0 | 8,056 | [
"ESPResSo",
"VTK"
] | a04e87c6d62e777b99444c574377590eadcfe9ef4704dd5664d162a94e569153 |
#build list of available data
import sys
builds= []
try:
#read db names from file, this file is also used in galaxy/util.py
for line in open("static/ucsc/builds.txt"):
if line[0:1] == "#": continue
try:
fields = line.replace("\r","").replace("\n","").split("\t")
... | jmchilton/galaxy-central | tools/filters/axt_to_lav_code.py | Python | mit | 1,169 | [
"Galaxy"
] | ebea512045bcdda2962d7a68d5e604c71113c71979d639133c099dbcb216b1a4 |
import torch.nn as nn
import torch.nn.parallel
import torch.backends.cudnn as cudnn
from torch.autograd import Variable
import torch.optim as optim
import random
import numpy as np
from sklearn.metrics import roc_auc_score
def symmetric_normalize_adj(adj):
"""
Implements symmetric normalization of graphs
... | Agent007/deepchem | contrib/torch/pytorch_graphconv.py | Python | mit | 17,841 | [
"NEURON"
] | 0c9a5a099657f92818c79e7ec89e969443a30f323cd583eedecab4ebacd70144 |
from __future__ import print_function
import numpy as np
import matplotlib.pyplot as plt
from matplotlib.ticker import MultipleLocator
from astropy.io import fits
from astropy.time import Time
from PyAstronomy import pyasl
from scipy import ndimage
import pandas as pd
import gaussfitter as gf
import BF_functions as bff... | mrawls/BF-simulator | BF_pythonTYC.py | Python | mit | 12,707 | [
"Gaussian"
] | 55a98c5c8ae003c6dc51038f528f0edd1b05e8e5b37281bdfa3d32c25604bb9f |
"""Testing for Gaussian process classification """
# Author: Jan Hendrik Metzen <jhm@informatik.uni-bremen.de>
# License: BSD 3 clause
import numpy as np
from scipy.optimize import approx_fprime
from sklearn.gaussian_process import GaussianProcessClassifier
from sklearn.gaussian_process.kernels import RBF, Constant... | RPGOne/scikit-learn | sklearn/gaussian_process/tests/test_gpc.py | Python | bsd-3-clause | 6,016 | [
"Gaussian"
] | cdadd0a3ab73724797e3fe931c45e54f4b1c5c28b7f1bcae4c31006b7d2010ef |
##############################################################################
# MDTraj: A Python Library for Loading, Saving, and Manipulating
# Molecular Dynamics Trajectories.
# Copyright 2012-2014 Stanford University and the Authors
#
# Authors: Kyle A. Beauchamp
# Contributors: Robert McGibbon
#
# MDTraj i... | mattwthompson/mdtraj | mdtraj/nmr/shift_wrappers.py | Python | lgpl-2.1 | 12,185 | [
"MDTraj"
] | 42643992a68a23ac1b2583bb349f7979631a2fa71c2fe6fe792064316e865a7b |
# -*- coding: utf-8 -*-
import os
import matplotlib.pyplot as plt
import numpy as np
from __future__ import division
import utils
import seaborn
seaborn.set()
colors = seaborn.color_palette()
# First create a vector of x values spanning the support of the histogram
x = linspace(d.min(), d.max(), 1000)
# Let's define... | NicovincX2/Python-3.5 | Probabilités/Loi de probabilité/gaussian.py | Python | gpl-3.0 | 1,348 | [
"Gaussian"
] | 3e5471b81ff67777a4ed0cdc9d1a1cf7465da7b0bc0d703c0466a078e4cd7603 |
import os
import time
import urllib, json
from random import randint
from flask import Flask
from flask_ask import Ask, statement, question
app = Flask(__name__)
ask = Ask(app, '/')
MAGIC_SEAWEED_KEY = 'e96ca9b1f03a627aaab136eafe4f83ee'
SPOT_ID = '1449'
@ask.launch
def launched():
return question("This is a sur... | willchis/alexaskillz | alexaskillz.py | Python | apache-2.0 | 5,867 | [
"VisIt"
] | dee5cfcacb9b2a3e7b81a43d49db173cd76421dd2c0a2977ff1176f3570ba15f |
"""Loading icons."""
# Copyright (C) 2009, Thomas Leonard
# See the README file for details, or visit http://0install.net.
from zeroinstall import _, logger
import gtk
import math
def load_icon(icon_path, icon_width=None, icon_height=None):
"""Load icon from path. Icon MUST be in PNG format.
@param icon_path: pathn... | timdiels/0install | zeroinstall/gtkui/icon.py | Python | lgpl-2.1 | 1,392 | [
"VisIt"
] | 823345807c5ad47c4889e626f2a4aea03251c762fcbfae921428113026e506b5 |
#!/usr/bin/env python
# This example demonstrates the use of vtk3DSImporter.
# vtk3DSImporter is used to load 3D Studio files. Unlike writers,
# importers can load scenes (data as well as lights, cameras, actors
# etc.). Importers will either generate an instance of vtkRenderWindow
# and/or vtkRenderer or will use th... | CMUSV-VisTrails/WorkflowRecommendation | examples/vtk_examples/IO/flamingo.py | Python | bsd-3-clause | 1,623 | [
"VTK"
] | 43f21d54839a0e32999e734f2a843dd6ef986a908088285efb8d6b35f4d7daf7 |
""" This module loads the entire VTK library into its namespace. It
also allows one to use specific packages inside the vtk directory.."""
import os
import sys
# The dl module is used to force the symbols in the loaded VTK modules to
# be global, that is, to force symbols to be shared between modules. This
# used ... | Wuteyan/VTK | Wrapping/Python/vtk/__init__.py | Python | bsd-3-clause | 3,701 | [
"VTK"
] | c6d250dbc4404fc6d3084258c06635ff4cb006249cc18e7033b2f920ad940eb5 |
__author__ = 'Chaya D. Stern'
import mdtraj as md
import os
from fnmatch import fnmatch
import sys
from math import radians
try:
import openeye.oechem as oechem
except ImportError:
pass
from torsionfit.utils import logger
import warnings
import numpy as np
from cclib.parser import Gaussian, Psi
from cclib.pars... | ChayaSt/Torsions | torsionfit/qmscan/torsion_scan.py | Python | gpl-2.0 | 12,248 | [
"Gaussian",
"MDTraj",
"Psi4",
"cclib"
] | 84f2b31cfd228ac3e5eb698cf5b61da3c219a59055fc4b40c6a05213eb9328f7 |
# -*- coding: utf-8 -*-
"""Multivariate Normal and t distributions
Created on Sat May 28 15:38:23 2011
@author: Josef Perktold
TODO:
* renaming,
- after adding t distribution, cov doesn't make sense for Sigma DONE
- should mean also be renamed to mu, if there will be distributions
with mean != mu
... | wesm/statsmodels | scikits/statsmodels/sandbox/distributions/mv_normal.py | Python | bsd-3-clause | 38,670 | [
"Gaussian"
] | b13439bf05bfe68692351e41e7807359c57c37590fd98c85aad4b4e269d5f9b0 |
from random import Random
class Haikunator:
_adjectives = [
'aged', 'ancient', 'autumn', 'billowing', 'bitter', 'black', 'blue', 'bold',
'broad', 'broken', 'calm', 'cold', 'cool', 'crimson', 'curly', 'damp',
'dark', 'dawn', 'delicate', 'divine', 'dry', 'empty', 'falling', 'fancy',
... | Atrox/haikunatorpy | haikunator/haikunator.py | Python | bsd-3-clause | 3,671 | [
"Firefly"
] | 1d4df14ad8619944171f83e87dbd7f597a9f0e957c5e80ea8147350aa18b8007 |
# -*- coding: utf-8 -*-
"""
Part of the astor library for Python AST manipulation.
License: 3-clause BSD
Copyright 2012 (c) Patrick Maupin
Copyright 2013 (c) Berker Peksag
"""
import ast
class NonExistent(object):
pass
def iter_node(node, name='', list=list, getattr=getattr, isinstance=isinstance,
... | casawa/mdtraj | mdtraj/utils/external/astor/misc.py | Python | lgpl-2.1 | 5,966 | [
"VisIt"
] | 4e53e96c450743aa57b662f65eaa2d8d949081ea5eaa6cd69298fa6bb64fc6eb |
# GromacsWrapper: test_example.py
# Copyright (c) 2009 Oliver Beckstein <orbeckst@gmail.com>
# Released under the GNU Public License 3 (or higher, your choice)
# See the file COPYING for details.
from __future__ import division, absolute_import, print_function
import pytest
import gromacs
common_tool_names = ["pdb2... | PicoCentauri/GromacsWrapper | gromacs/tests/test_tools.py | Python | gpl-3.0 | 1,448 | [
"Gromacs"
] | 397449a57fd9eba696ad66be05ca5032a2053fdfd5acfa07ea2813a9620dc35e |
import vtk
red = [255, 0, 0]
green = [0, 255, 0]
blue = [0, 0, 255]
# Setup the colors array
colors = vtk.vtkUnsignedCharArray()
colors.SetNumberOfComponents(3)
colors.SetName("Colors")
# Add the colors we created to the colors array
colors.InsertNextTypedTuple(red)
colors.InsertNextTypedTuple(red)
colors.InsertNext... | tjssmy/CuviewerPy | vtkTests/Banded.py | Python | mit | 5,343 | [
"VTK"
] | 5dbd0a05723758ad6e6195c4eef9b90fb41018f4e0cec82e34e6e2ebbfd065e7 |
# Copyright 2014 The Oppia 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 ... | brianrodri/oppia | core/controllers/reader_test.py | Python | apache-2.0 | 104,499 | [
"VisIt"
] | 3560d61ea4088b581093a1b414734eaa1744c50e9e81e3dba47cf39946e6ca6f |
# 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.
#
"""Generate RGB colours suitable for distinguishing categorical data.
This module provides a class that implements a spiral 'path' through HSV
colou... | zjuchenyuan/BioWeb | Lib/Bio/Graphics/ColorSpiral.py | Python | mit | 7,225 | [
"Biopython"
] | 1fad016017a794e2bbb7163f7a7eb2879dc2a4e26dd1e9f6872800c6997c1e77 |
# !usr/bin/env python
# -*- coding: utf-8 -*-
#
# Licensed under a 3-clause BSD license.
#
# @Author: Brian Cherinka
# @Date: 2018-07-17 23:36:31
# @Last modified by: Brian Cherinka
# @Last Modified time: 2018-07-19 00:37:28
from __future__ import print_function, division, absolute_import
import copy as copy_mod
... | sdss/marvin | python/marvin/utils/datamodel/vacs/base.py | Python | bsd-3-clause | 5,053 | [
"Brian"
] | 579a5646360e8bd885ddd04f065580618b0e32566f6ab6b6b9bb53f0ba45446e |
"""NumpyArrayHandler.py was written by Ryan Petersburg for use with fiber
characterization on the EXtreme PREcision Spectrograph
The functions in this module are used to handle two dimensional np.ndarray
objects that represent images from optical fibers. Functions include
array summing, image cropping, image filt... | rpetersburg/FiberProperties | fiber_properties/numpy_array_handler.py | Python | mit | 20,018 | [
"Gaussian"
] | 4dd1406df26832698439a245318dc7237c614647e944f063a84accb05a382b45 |
"""Helper methods for model interpretation."""
import numpy
from gewittergefahr.gg_utils import radar_utils
from gewittergefahr.gg_utils import error_checking
from gewittergefahr.deep_learning import cnn
from gewittergefahr.deep_learning import input_examples
from gewittergefahr.deep_learning import deep_learning_util... | thunderhoser/GewitterGefahr | gewittergefahr/deep_learning/model_interpretation.py | Python | mit | 11,293 | [
"NEURON"
] | da9887ba4f33c02a2b99cc569dfa8b2c48a60dd1266ae5b58c09f575ff0ba1e6 |
# -*- coding: utf-8 -*-
"""
E2E tests for the LMS.
"""
from unittest import skip
from .helpers import UniqueCourseTest, load_data_str
from ..pages.lms.auto_auth import AutoAuthPage
from ..pages.lms.find_courses import FindCoursesPage
from ..pages.lms.course_about import CourseAboutPage
from ..pages.lms.course_info im... | geekaia/edx-platform | common/test/acceptance/tests/test_lms.py | Python | agpl-3.0 | 15,194 | [
"VisIt"
] | 6ce1ffa5bdd1becd2f53048a0c16d06df01b058b0220c73091afddc727048544 |
"""Test suite for the crystal field calculations in the Inelastic/CrystalField package
"""
from __future__ import (absolute_import, division, print_function)
import unittest
import numpy as np
from scipy.constants import physical_constants
# Import mantid to setup the python paths to the bundled scripts
import mantid
... | ScreamingUdder/mantid | scripts/test/CrystalFieldTest.py | Python | gpl-3.0 | 75,565 | [
"CRYSTAL",
"Gaussian"
] | 34894d9a66925c47bea020a14482f44ec6e89fabaef3672a07b07aba7bfa5150 |
#!/usr/bin/python
# -*- coding: Windows-1252 -*-
NaturalEarthToGeoIP = {
'AFG': 'AF',
'AGO': 'AO',
'ALB': 'AL',
'ARE': 'AE',
'ARG': 'AR',
'ARM': 'AM',
'ATA': 'AQ',
'ATF': 'TF',
'AUS': 'AU',
'AUT': 'AT',
'AZE': 'AZ',
'BDI': 'BI',
'BEL': 'BE',
'BEN': 'BJ',
'BFA': 'BF',
'BGD': 'BD',
'BGR': 'BG',
'BHS... | Xangis/mm2ne | MaxMindToNaturalEarth.py | Python | mit | 19,645 | [
"BWA"
] | 74faf977cb92f0588ea4c1ed9beca9d4b58cc9f13f8894ea2ff7c3276b93e8b0 |
'''
Evolve a music piece with a simple evolutionary algorithm
Author: Saquib
Email: nzm.saquib@gmail.com
7/27/13
Note: you can get pygame libraries from http://www.pygame.org/download.shtml
'''
import pygame
import pygame.midi
from time import sleep
import random
def fitness(source, target):
fitval = 0
for i in... | nsaquib/slc-mathcsworkshop | evolve_music.py | Python | mit | 3,384 | [
"CRYSTAL"
] | 995e0ee29c09319abb6c1d1424298c03b7ee7bb28053932782bfea9972507303 |
"""
test_NeuronUpdate.py
This file is part of ANNarchy.
Copyright (C) 2016-2018 Helge Uelo Dinkelbach <helge.dinkelbach@gmail.com>
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 Found... | vitay/ANNarchy | tests/Unittests/test_SynapseUpdate.py | Python | gpl-2.0 | 2,005 | [
"NEURON"
] | 2019995d8ee8eec3cb4ae206fee4dc1e196fc0004f953cb3d443ae4cb44f7d31 |
import numpy as np
import matplotlib.pyplot as plt
import random
import math
class Envelope:
def _init_(self):
self.number=0
self.mass_std = 0 #modified, used to be self.central_fit_std
self.mass = 0
self.charge = 1 #modified, used to be 0
self.peaks = [] #peak number in lis... | lujonathanh/PeakSeeker | SpectrumSimulator.py | Python | gpl-3.0 | 10,464 | [
"Gaussian"
] | 50dc33f5507c0a7332cc7690202236719e5cd10340ef639816160605d1934de7 |
#!/usr/bin/env python
"""
Simple script for testing various SfePy functionality, examples not
covered by tests, and running the tests.
The script just runs the commands specified in its main() using the
`subprocess` module, captures the output and compares one or more key
words to the expected ones.
The output of fai... | RexFuzzle/sfepy | test_install.py | Python | bsd-3-clause | 6,907 | [
"VTK"
] | d16c94a6a54f52c29ab70fe8e6e6353c043edd909857dc92b1c7b44dbef3012b |
#-*- coding:utf-8 -*-
"""
This file is part of OpenSesame.
OpenSesame is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
OpenSesame is distri... | eort/OpenSesame | libopensesame/sketchpad_elements/_noise.py | Python | gpl-3.0 | 1,670 | [
"Gaussian"
] | d360783004f8adb5385b834539b73b11d3431681158edaebbfc8d0ad3b59e94c |
from data.Category import Category
class Root(Category):
"""description of class"""
instance = None
def __init__(self, args, name="Root", depth=-1):
super().__init__(args.path, name, depth)
global instance
instance = self
self.args = args
def accept(self, visitor):
... | Sildra/PyTester | PyTester/data/Root.py | Python | apache-2.0 | 660 | [
"VisIt"
] | 74e8f87252ca6a7a0a1e3d4de2c621f197b7e4b595209de34431a3e3ccb16506 |
import warnings
warnings.simplefilter('always', DeprecationWarning)
import os
import itertools
import functools
import os.path
import re
import urllib
import urllib2
import imp
import tabulate
from connection import H2OConnection
from job import H2OJob
from expr import ExprNode
from frame import H2OFrame, _py_tmp_key, ... | brightchen/h2o-3 | h2o-py/h2o/h2o.py | Python | apache-2.0 | 78,121 | [
"Gaussian"
] | f1b19367bb870386047e7f5da403a86f1cd9e954ea9c1234ab3bd533b0a94972 |
class BrowserHistory:
def __init__(self, homepage: str):
self.history = [homepage]
self.future = []
def visit(self, url: str) -> None:
self.history.append(url)
self.future.clear()
def back(self, steps: int) -> str:
while steps > 0 and len(self.his... | jiadaizhao/LeetCode | 1401-1500/1472-Design Browser History/1472-Design Browser History.py | Python | mit | 817 | [
"VisIt"
] | 4b5f47ba2be73d8b0caf1d76ad05b159a8bb931a0ea914e6f071109661e737f1 |
#!/usr/bin/env python
##print __name__
import optparse
import os
usage_line = """
read_mapping.py
Version 1.0 (8 September, 2014)
License: GNU GPLv2
To report bugs or errors, please contact Daren Card (dcard@uta.edu).
This script is provided as-is, with no support and no guarantee of proper or desirable functioning... | darencard/RADpipe | read_mapping.py | Python | gpl-2.0 | 16,032 | [
"BWA"
] | 5751e0be44bf7779cba133bf3f251e00c0d59be9ca16aaa7ce675390d0558632 |
"""
SDSS Galaxy Colors
------------------
The function :func:`fetch_sdss_galaxy_colors` used below actually queries
the SDSS CASjobs server for the colors of the 50,000 galaxies. Below we
extract the :math:`u - g` and :math:`g - r` colors for 5000 stars, and
scatter-plot the results
"""
# Author: Jake VanderPlas <vand... | eramirem/astroML | examples/datasets/plot_sdss_galaxy_colors.py | Python | bsd-2-clause | 1,300 | [
"Galaxy"
] | 29484706a883c6a24faaa51ea928a7bd51df85fd0fcbc80f918ad4dadc2b3dd3 |
#!/usr/local/anaconda/bin/python
'''
A tool to calculate the fluxes from DSMACC
D.Ellis 2016
'''
#functions
global specs,reactants
xlen = lambda x: xrange(len(x))
import numpy as np
import pandas as pd
import sys,os,re,multiprocessing,netCDF4
from netCDF4 import Dataset
import matplotlib.pyplot as plt
#netcdf fil... | wolfiex/RopaJL | treecluster/tree/ropa_tool.py | Python | mit | 5,867 | [
"NetCDF"
] | 9579e6c55490f66f69c74959023434b5ea631e338b4c2ca8966efa1eacb5d9df |
"""
bct slope v0.01
- implements an alternative market classification algo
Bitcoin Trade Simulator
Copyright 2011 Brian Monkaba
This file is part of ga-bitbot.
ga-bitbot is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Fre... | stahn/ga-bitbot | bct_slope.py | Python | gpl-3.0 | 38,814 | [
"Brian"
] | bd8f4290dbf1356411eca6614f6a73d28a946e156a24d1e2a7569565d8f865dc |
"""Priority based json library imports.
Use jsonapi.loads() and jsonapi.dumps() for guaranteed symmetry.
Priority: simplejson > jsonlib2 > json
Always serializes to bytes instead of unicode for zeromq compatibility.
jsonapi.loads/dumps provide kwarg-compatibility with stdlib json.
To override pyzmq's choice of jso... | IsCoolEntertainment/debpkg_python-pyzmq | zmq/utils/jsonapi.py | Python | lgpl-3.0 | 2,407 | [
"Brian"
] | b8ab9da21e72206fd4427e5d04d5fb9176ff5da5717549d204476234753961e8 |
import os
import unittest
import pysal
import numpy as np
class Testuser(unittest.TestCase):
def setUp(self):
self.wq = pysal.queen_from_shapefile(
pysal.examples.get_path("columbus.shp"))
self.wr = pysal.rook_from_shapefile(
pysal.examples.get_path("columbus.shp"))
de... | spreg-git/pysal | pysal/weights/tests/test_user.py | Python | bsd-3-clause | 7,649 | [
"COLUMBUS",
"Gaussian"
] | 53b0beb2fcb0bf920fd52c6dbc42e11677ef308181bafca53dd3ddc55681ffa6 |
from sys import exit
from random import randint
class Scene(object):
def enter(self):
print "this scene is not yet configured. Subclass it and implement enter()."
exit(1)
class Engine(object):
def __init__(self, scene_map):
self.scene_map = scene_map
def play(self):
cu... | githubfun/lphw | ex43.py | Python | mit | 8,745 | [
"BLAST"
] | 600b548df35aa24b4b9fe773bfe9fd8fad5f869de7f4eb9d6ccd92610385ac8c |
#***********************************************************************
# This code is part of pyCMPL
#
# Copyright (C) 2013 - 2016
# Mike Steglich - Technical University of Applied Sciences
# Wildau, Germany
#
# pyCMPL is a project of the Technical University of
# Applied Sciences Wildau and the Inst... | Mangara/ArboralExplorer | lib/Cmpl/pyCmpl/lib/pyCmpl/Cmpl.py | Python | apache-2.0 | 51,709 | [
"VisIt"
] | 33692fc37f056eaef6abf4dcb0e1555e928034b4d3307d5d4b8d7ccb1de96d6d |
# coding=utf-8
# Copyright 2022 The Google Research Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicab... | google-research/google-research | frechet_audio_distance/fad_utils.py | Python | apache-2.0 | 4,951 | [
"Gaussian"
] | 78e4cc9cb4d4e32288037472ca2d8e28cefc5f5cc623e80f5d6c4208c9334199 |
# (c) 2013-2014, Michael DeHaan <michael.dehaan@gmail.com>
# (c) 2015 Toshio Kuratomi <tkuratomi@ansible.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... | fredericlepied/ansible | lib/ansible/executor/module_common.py | Python | gpl-3.0 | 40,167 | [
"VisIt"
] | 2415e5007ff2e63078bee713772eacd0b9e4b303e054f518259e9194f8c7d2a9 |
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