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 |
|---|---|---|---|---|---|---|---|
from __future__ import division
import pysam
import numpy as np
import yaml
from Bio import SeqIO
from Bio.Seq import Seq
from Bio.Alphabet import generic_dna
#from scripts.seq_classes import locus, segment, tally, allele # %%
from seq_classes import locus, segment, tally, allele
#from scripts.trim_to_regions import ... | lauringlab/variant_pipeline | scripts/position_data.py | Python | apache-2.0 | 6,571 | [
"pysam"
] | 17facc3c00c348af9d88fb4b7e252ad912d1113ee917e4053ca87e172c11f7b4 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
'''
Modified parameters file for the Hybrid LFP scheme, applying the methodology
with the model of:
Potjans, T. and Diesmann, M. "The Cell-Type Specific Cortical Microcircuit:
Relating Structure and Activity in a Full-Scale Spiking Network Model".
Cereb. Cortex (2014) 24 (... | espenhgn/hybridLFPy | examples/example_microcircuit_params_lognormalweights.py | Python | gpl-3.0 | 38,825 | [
"Gaussian",
"NEURON"
] | 8241ac75e06ea1fb7aff9ae91c73246a836db8746d5b113bf25062dddf84503a |
"""
Module for integration with BioPython, specifically SeqRecords and SeqFeature
objects.
"""
import six
try:
from Bio.SeqFeature import SeqFeature, FeatureLocation
except ImportError:
import warnings
warnings.warn("BioPython must be installed to use this module")
from .feature import Feature, feature_from... | daler/gffutils | gffutils/biopython_integration.py | Python | mit | 2,590 | [
"Biopython"
] | 5c9be520f50362b09f182be95678bd69ad3a62e56489c9524822b2cdf2cf15a5 |
###########################################################################
#
# This program is part of Zenoss Core, an open source monitoring platform.
# Copyright (C) 2011, Zenoss Inc.
#
# This program is free software; you can redistribute it and/or modify it
# under the terms of the GNU General Public License versi... | zenoss/ZenPacks.zenoss.OpenStackSwift | ZenPacks/zenoss/OpenStackSwift/tests/testParsers.py | Python | gpl-2.0 | 3,940 | [
"VisIt"
] | 4e9b7fb9344b16a8761c2256f28616816549536309c73f0c67b7874125fede99 |
## This file is part of Invenio.
## Copyright (C) 2005, 2006, 2007, 2008, 2009, 2010, 2011, 2012, 2014 CERN.
##
## Invenio is free software; you can redistribute it and/or
## modify it under the terms of the GNU General Public License as
## published by the Free Software Foundation; either version 2 of the
## License, ... | Panos512/invenio | modules/websession/lib/websession_templates.py | Python | gpl-2.0 | 121,287 | [
"VisIt"
] | e1b7836d01b5c810b125a7728f9678822e1d4304510cfca8abc82d8eaf3b4165 |
"""
Constructs a data source for the ga4gh server by downloading data from
authoritative remote servers.
"""
# TODO
# - would be nice to have some kind of checkpoint functionality to resume
# process where it left off since getting a clean run is uncertain...
from __future__ import division
from __future__ import pri... | ekalosak/server | scripts/download_data.py | Python | apache-2.0 | 15,583 | [
"BWA",
"pysam"
] | fdc5c539c2c00f0284856ad90dd4ffed423a778b58edc85447ced9bd7f2bb29c |
# (c) 2014, Brian Coca, Josh Drake, et al
# (c) 2017 Ansible Project
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
from __future__ import (absolute_import, division, print_function)
__metaclass__ = type
DOCUMENTATION = '''
cache: redis
short_description: Use Redis... | e-gob/plataforma-kioscos-autoatencion | scripts/ansible-play/.venv/lib/python2.7/site-packages/ansible/plugins/cache/redis.py | Python | bsd-3-clause | 4,208 | [
"Brian"
] | 25630b60d8c22432c6628988799b1dccf003659d6679eaf782446999d1bf61a3 |
# -*- coding: utf-8 -*-
from __future__ import print_function
from __future__ import unicode_literals
from __future__ import division
import os
import sys
sys.path.insert(0, os.path.join(os.path.dirname(__file__), ".."))
import unittest
from pattern import graph
from pattern.graph import commonsense
from builtins i... | clips/pattern | test/test_graph.py | Python | bsd-3-clause | 27,752 | [
"VisIt"
] | 4ec1c6c2c9bc1cd030c834afb923efae6f16ab2f3ccb8ac4b6a6c313c6d1f4eb |
""" The CS! (Configuration Service)
"""
from DIRAC.Core.Utilities.ReturnValues import S_OK, S_ERROR
from DIRAC.ConfigurationSystem.private.ServiceInterface import ServiceInterface
from DIRAC.Core.DISET.RequestHandler import RequestHandler, getServiceOption
from DIRAC.WorkloadManagementSystem.Utilities.PilotCStoJSONSyn... | Andrew-McNab-UK/DIRAC | ConfigurationSystem/Service/ConfigurationHandler.py | Python | gpl-3.0 | 4,227 | [
"DIRAC"
] | 69c0cefda7ff20f607c5364a42a7a2d21d06c6163c82fd1aa7ee35d12664611c |
"""
Basic molecular features.
"""
__author__ = "Steven Kearnes"
__copyright__ = "Copyright 2014, Stanford University"
__license__ = "BSD 3-clause"
from rdkit.Chem import Descriptors
from vs_utils.features import Featurizer
class MolecularWeight(Featurizer):
"""
Molecular weight.
"""
name = ['mw', '... | rbharath/vs-utils | vs_utils/features/basic.py | Python | gpl-3.0 | 1,319 | [
"RDKit"
] | 4cd20f73809b71f2a4b7726d9fb365710766ca7fe2ee707b29c7d45bbd0026e9 |
# 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... | fweik/espresso | testsuite/python/lb_poiseuille_cylinder.py | Python | gpl-3.0 | 7,468 | [
"ESPResSo"
] | 9b2211623279a69f0b4442c24466889fff9e82019baa2d502c9e74f40f4b3724 |
#########################################################
# YAM(BO)PY(THON) Library
#
# Generation of Yambo input files using python
#
# Authors: A Molina-Sanchez, HPC Miranda
#
# January 2016
#########################################################
# Calculation of COHSEX corrections for different times
# in real... | alexmoratalla/yambopy | scripts/realtime/rt-cohsex.py | Python | bsd-3-clause | 2,906 | [
"Yambo"
] | 235f4deaf4d9d0977defac46f83ef590b5eabfc1d470abea538446fae34f741d |
top_1000_no_https_hosts = [
"http://baidu.com",
"http://sina.com.cn",
"http://weibo.com",
"http://t.co",
"http://imgur.com",
"http://msn.com",
"http://bing.com",
"http://onclkds.com",
"http://gmw.cn",
"http://xvideos.com",
"http://imdb.com",
"http://csdn.net",
"http://wikia.com",
"http://youth.cn",
"http://diply.com",
... | jlcmoore/vuExposed | src/no_https_hosts.py | Python | mit | 23,094 | [
"ADF"
] | d88514a551f5de0f1ea676bb0e80b960cb3b94881ae7f13ae0ed25011c0eb8e6 |
"""Helpful utilities for building analysis pipelines.
"""
import gzip
import os
import tempfile
import time
import shutil
import contextlib
import itertools
import functools
import random
import ConfigParser
import collections
import fnmatch
import subprocess
import toolz as tz
import yaml
try:
from concurrent imp... | elkingtonmcb/bcbio-nextgen | bcbio/utils.py | Python | mit | 19,312 | [
"Galaxy"
] | e0bbcb2b34f1b63df5a95a975016093e3be17d6e9430786ce61c9ac5a9c0af68 |
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import json
import os
import unittest
from monty.json import MontyDecoder
from pymatgen.core.composition import Composition
from pymatgen.apps.battery.conversion_battery import (
ConversionElectrode,
ConversionVolta... | vorwerkc/pymatgen | pymatgen/apps/battery/tests/test_conversion_battery.py | Python | mit | 3,687 | [
"pymatgen"
] | 16cb50cfdf3d4fe4b535ec4dd9463d1351ad326e072689a0a883c28062d999e0 |
import scipy
import numpy
import math
from AZutilities import dataUtilities
from AZutilities import Mahalanobis
from rdkit import DataStructs
from rdkit import Chem
from rdkit.Chem.Fingerprints import FingerprintMols
from rdkit.Chem import AllChem
from rdkit.Chem import MACCSkeys
def getRespVar(tanList, tanDict, trai... | JonnaStalring/AZOrange | azorange/AZutilities/PredConfMetrics.py | Python | lgpl-3.0 | 7,996 | [
"RDKit"
] | 8f82d686a3e0f9169a803a96d35d29a69d6b2c9b608b19d15b5c9c5b25a44275 |
##############################################################################
# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | mfherbst/spack | var/spack/repos/builtin/packages/r-affyplm/package.py | Python | lgpl-2.1 | 2,158 | [
"Bioconductor"
] | 8c4bf40202247bcc9462fab7e2180b4f43d53b07ed0cb0c0d2657b7e314e484a |
#!/usr/bin/env python
#-----------------------------------------------------------------------------
# Copyright (c) 2013--, biocore development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file COPYING.txt, distributed with this software.
#-------------------------... | biocore/burrito-fillings | bfillings/muscle_v38.py | Python | bsd-3-clause | 28,614 | [
"BLAST"
] | 7a070f45b251141c7f7618868187cb8718fe6a4344f6a41b2f36a6825654c9e6 |
import pytest
import numpy as np
from LabPy import Constants
from NonlinearTMM import SecondOrderNLTMM, Material
def SpdcPowerQuantum(wlP1, wlP2, betaP1, betaP2, nF, chi2, crystalL, pwrP1, dwl, solidAngleSpdc, deltaThetaSpdc):
wlGen = Constants.OmegaToWl(Constants.WlToOmega(wlP1) - Constants.WlToOmega(wlP2))... | ardiloot/NonlinearTMM | Tests/test_SPDC.py | Python | mit | 6,098 | [
"CRYSTAL",
"Gaussian"
] | abb519d547cf44e782c427ee309489f26e4ed2c7e6da6c0faf2c33603b69cbc8 |
""" Some validation functions. """
from __future__ import division
import numpy as np
from scipy.stats import norm
def smse(y_true, y_pred):
"""
Standardised mean squared error.
Parameters
----------
y_true: ndarray
vector of true targets
y_pred: ndarray
vector of predicted ... | NICTA/revrand | revrand/metrics.py | Python | apache-2.0 | 3,239 | [
"Gaussian"
] | c7d188b1e4ba5b87f8066b6aefa132359a28e17c3f62fed1b766e4770af7af57 |
# NOTE: This example uses the next generation Twilio helper library - for more
# information on how to download and install this version, visit
# https://www.twilio.com/docs/libraries/python
import os
from twilio.rest import Client
# Your Account Sid and Auth Token from twilio.com/user/account
# To set up environmenta... | TwilioDevEd/api-snippets | notifications/rest/credentials/create-fcm-credential/create-fcm-credential.7.x.py | Python | mit | 593 | [
"VisIt"
] | cc52a62925c893e65a2e320b13291956c05353d7771d1dcf57b40f1732bbb94d |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
#
# MDAnalysis --- https://www.mdanalysis.org
# Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
# (see the file AUTHORS for the full list of names)
#
# Released under t... | MDAnalysis/mdanalysis | package/MDAnalysis/coordinates/chain.py | Python | gpl-2.0 | 24,516 | [
"Gromacs",
"MDAnalysis"
] | 9e46b043d22256dff6b89bec158d1e050a5e70ce331d7a430069cb341be4bc9e |
'''
A pseudo MSO neuron, with two dendrites (fake geometry).
There are synaptic inputs.
'''
import os
import matplotlib
matplotlib.use('Agg')
from brian2 import *
import brian2cuda # cuda_standalone device
name = os.path.basename(__file__).replace('.py', '')
codefolder = os.path.join('code', name)
print('runing examp... | brian-team/brian2cuda | examples/compartmental/bipolar_with_inputs_cuda.py | Python | gpl-2.0 | 2,220 | [
"NEURON"
] | f33ed5cfd48c6b35b4e064ee0c73593c4bdd471a40459efe52dfbc0d4bf7b7c9 |
"""The suite of window functions."""
from __future__ import division, print_function, absolute_import
import warnings
import numpy as np
from scipy import special, linalg
from scipy.fftpack import fft
from scipy.lib.six import string_types
__all__ = ['boxcar', 'triang', 'parzen', 'bohman', 'blackman', 'nuttall',
... | maciejkula/scipy | scipy/signal/windows.py | Python | bsd-3-clause | 48,620 | [
"Gaussian"
] | a3ad5825b99c9df905d476b9bf7e8b429ce9e9848f9bbf0ed2d1e8686922c2d4 |
import mdp
import numpy as np
try:
from NeuroTools import stgen
from pyNN.pcsim import *
from pypcsim import *
except ImportError:
pass
class poisson_gen:
'''Container class for a poisson generator signal-to-spiketrain convertor
'''
def __init__(self, rngseed, RateScale=1e6, Tstep=10):
... | npinto/Oger | Oger/utils/spiking_utilities.py | Python | gpl-3.0 | 5,435 | [
"Gaussian"
] | 375ec0f6c5ee533fe0de8b8af47fba50b4e890ce1c424574d346bb99504af518 |
"""
../wps.py?request=execute
&service=wps
&version=1.0.0
&identifier=esmvaltool-perfmetrics
&status=true
&storeExecuteResponse=true
"""
import datetime
import shutil
import netCDF4
import urlparse
from pywps.Process import WPSProcess
import os
import logging
from jinja2 import FileSystemLoader, Environment,select... | c3s-magic/adaguc-services-esmvaltool-wps | processes/esmvaltool-perfmetrics.py | Python | apache-2.0 | 9,857 | [
"NetCDF"
] | d8699befd9f69fc2c8c132df72eee3bd3f8e32b7e945b7124e3313022943c1e4 |
# ============================================================================
#
# Copyright (C) 2007-2010 Conceptive Engineering bvba. All rights reserved.
# www.conceptive.be / project-camelot@conceptive.be
#
# This file is part of the Camelot Library.
#
# This file may be used under the terms of the GNU General... | kurtraschke/camelot | camelot/view/wizard/merge_document.py | Python | gpl-2.0 | 4,095 | [
"VisIt"
] | a2ae0bb101f3a601268330350dd944bccd1dab51a7bda5454eb6b631b18359fe |
#!/usr/bin/env python3
import os,sys,getopt,tarfile
import getpass
from distutils.spawn import find_executable
import time
import socket
import optparse
import subprocess
import multiprocessing
from swiftclient import Connection
from swiftclient import shell
from swiftclient import RequestException
from swiftclien... | trel/swift-commander | bin/swbundler.py | Python | apache-2.0 | 12,279 | [
"VisIt"
] | 5db3f03c34da03c74a5fc280d2c0e8d2b47eeed4d24faba341efad57257e0ff5 |
#!/usr/bin/env python
'''
give fastq file(s) (1 or 4 line format)
preprocess_radtag_lane.py /path/to/flowcell/s_N_1_sequence.txt [s_N_2_sequence.txt]
for which individual data is present in <LIBRARY_DATA> gdoc spreadsheet (see config.py)
generates tabular uniqued read data:
ID nreads sequence mean_qual comma,delim,i... | brantp/rtd | preprocess_radtag_lane.py | Python | lgpl-3.0 | 38,846 | [
"BWA"
] | 4b2c276be687ea7bbce1804d5960a5f46da3f03d860da53bd65807a269995dd6 |
import tensorflow as tf
import numpy as np
from draw_ops import *
from utils import *
import input_data
# from scipy.misc import imsave as ims
class Draw():
def __init__(self):
self.mnist = input_data.read_data_sets("MNIST_data/", one_hot=True)
self.n_samples = self.mnist.train.num_examples
... | AutonomyLab/deep_intent | code/autoencoder_model/scripts/draw.py | Python | bsd-3-clause | 9,556 | [
"Gaussian"
] | 6fd3c57178d4b40fbc206c657db25571c209b2614f540664c6af4d8feaba2313 |
# -*- coding: utf-8 -*-
"""
End-to-end tests for the LMS.
"""
import time
from ..helpers import UniqueCourseTest
from ...pages.studio.auto_auth import AutoAuthPage
from ...pages.lms.create_mode import ModeCreationPage
from ...pages.studio.overview import CourseOutlinePage
from ...pages.lms.courseware import Courseware... | kxliugang/edx-platform | common/test/acceptance/tests/lms/test_lms_courseware.py | Python | agpl-3.0 | 12,670 | [
"VisIt"
] | 642f62c5d20ed9552912ffc7dbbf30b57b0147caecfbcd2638a097afb759d541 |
#!/usr/bin/env python
from datetime import datetime, timedelta
from collections import OrderedDict
import calendar
import sys
from ecmwfapi import ECMWFDataServer
import time
from dateutil.relativedelta import *
start_time = time.time()
server = ECMWFDataServer()
def retrieve_interim(strtDate,endDate,latNorth,latSou... | joelfiddes/toposubv2 | workdir/eraRetrievePLEVEL.py | Python | gpl-3.0 | 3,921 | [
"NetCDF"
] | 8e8a2ea82d2d1e9bae346590ba71c77ea33a11df0835ee7a5299354d78655e58 |
# -*- coding: utf-8 -*-
from __future__ import unicode_literals
from django.conf import settings
from django.conf.urls import include, url
from django.conf.urls.static import static
from django.contrib import admin
from django.views.generic import TemplateView
from django.views import defaults as default_views
urlpat... | catherinedevlin/rideshare-matchmaker | config/urls.py | Python | cc0-1.0 | 1,444 | [
"VisIt"
] | 7e608ed85cf5dd2d2054e6812d07feb76ce228cd2560ae965f2c07b6146040f7 |
import unittest
from redisgraph.execution_plan import Operation
from tests.utils import base
import redis
from redisgraph import Node, Edge, Graph, Path
class TestStringMethods(base.TestCase):
def setUp(self):
super().setUp()
self.r = redis.Redis(host='localhost', port=6379, decode_responses=Tr... | swilly22/redisgraph-py | tests/functional/test_all.py | Python | bsd-2-clause | 15,834 | [
"VisIt"
] | 6fbd0c0394489de931cd82b090a5889c795c8e8348bb8b01d15ef26fb30992c7 |
import os
import unittest
import vtk, qt, ctk, slicer
import math
import sys
#
# AstroReprojectSelfTest
#
class AstroReprojectSelfTest:
def __init__(self, parent):
parent.title = "Astro Reproject SelfTest"
parent.categories = ["Testing.TestCases"]
parent.dependencies = ["AstroVolume"]
parent.contrib... | Punzo/SlicerAstro | AstroReproject/Testing/Python/AstroReprojectSelfTest.py | Python | bsd-3-clause | 6,133 | [
"VTK"
] | c4cc0e4ed80a237db95d9ad0ddc2530ddfc95b235d3c62fd61462ce38fb4dce0 |
#!/usr/bin/env python3
import numpy as np
from pytest import approx
from pysisyphus.calculators.XTB import XTB
from pysisyphus.calculators.Psi4 import Psi4
from pysisyphus.optimizers.RFOptimizer import RFOptimizer
from pysisyphus.helpers import geom_from_library
np.set_printoptions(suppress=True, precision=3, line... | eljost/pysisyphus | tests_staging/test_delocalized_coords/test_deloc_coords.py | Python | gpl-3.0 | 2,299 | [
"Psi4",
"xTB"
] | 9190a578afd1823c3d6a3c17dc98e09eddc5a2494c8742150d49abf6a17190dc |
"""
Title: Self-supervised contrastive learning with NNCLR
Author: [Rishit Dagli](https://twitter.com/rishit_dagli)
Date created: 2021/09/13
Last modified: 2021/09/13
Description: Implementation of NNCLR, a self-supervised learning method for computer vision.
"""
"""
## Introduction
### Self-supervised learning
Self-... | keras-team/keras-io | examples/vision/nnclr.py | Python | apache-2.0 | 22,444 | [
"Gaussian"
] | 93825a706925d3bd07ae65c7a16599d48f1e19705eb6f61376cf14e99ff3c545 |
#!/usr/bin/env python
#
# $File: MlSelector.py $
#
# This file is part of simuPOP, a forward-time population genetics
# simulation environment. Please visit http://simupop.sourceforge.net
# for details.
#
# Copyright (C) 2004 - 2010 Bo Peng (bpeng@mdanderson.org)
#
# This program is free software: you can redistribute... | BoPeng/simuPOP | docs/MlSelector.py | Python | gpl-2.0 | 1,907 | [
"VisIt"
] | 294363861e5d30f2f4ae44a535b203fe5323c8062a098ad204a4f3ca4bf0b38b |
#!/usr/bin/env python
#
# Copyright 2016, Raymon Cao <rcao5@jhu.edu> and Daehwan Kim <infphilo@gmail.com>
#
# This file is part of HISAT 2.
#
# HISAT 2 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 v... | infphilo/hisat2 | hisatgenotype_modules/hisatgenotype_extract_cyp_data.py | Python | gpl-3.0 | 37,712 | [
"BLAST"
] | 10d6b71304c4e544d25947c794b1bf5bde856319731d042c2568a4588a521e9e |
# Copyright 2018 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | gunan/tensorflow | tensorflow/python/autograph/pyct/origin_info.py | Python | apache-2.0 | 9,355 | [
"VisIt"
] | c21f264f437276d7bcb0f5312ce01e44c8a39b8932729d950ae66fceb2397e31 |
from django.core.management.base import NoArgsCommand
from dropbox import rest, session
from django_dropbox.settings import CONSUMER_KEY, CONSUMER_SECRET, ACCESS_TYPE
class Command(NoArgsCommand):
def handle_noargs(self, *args, **options):
sess = session.DropboxSession(CONSUMER_KEY, CONSUMER_SECRET, ACCES... | cpatrick/comic-django | django/django_dropbox/management/commands/get_dropbox_token.py | Python | apache-2.0 | 864 | [
"VisIt"
] | bd3f87090c4df1e3647ffd4841f115c88a6b186434cf647478a750ba2051b22d |
"""
Profiling class for updated information on process status
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
__RCSID__ = "$Id$"
import datetime
import errno
import psutil
from DIRAC import gLogger, S_OK, S_ERROR
from DIRAC.Core.Utilities.DErrno import... | yujikato/DIRAC | src/DIRAC/Core/Utilities/Profiler.py | Python | gpl-3.0 | 7,044 | [
"DIRAC"
] | e6f98655324bc5327ace4816f7e976da83c1bafae32171e2bbf50664a3db6ae1 |
# -*- coding: utf-8 -*-
# TODO: Port to pytest
# PEP8 asserts
from copy import deepcopy
import httplib as http
import time
import mock
import pytest
from nose.tools import * # noqa
from tests.base import OsfTestCase, fake
from osf_tests.factories import (
UserFactory, NodeFactory, ProjectFactory,
AuthUserF... | TomBaxter/osf.io | addons/wiki/tests/test_wiki.py | Python | apache-2.0 | 61,125 | [
"VisIt"
] | 907c141ef8cd480673609f64b0680b2bc82aa344173701cf2bee6862f4bfac81 |
#! /usr/bin/python
import os;
import sys;
import subprocess;
def execute_command(command):
sys.stderr.write('Executing command: %s\n' % (command));
subprocess.call(command, shell=True);
def run_simulations():
sys.stderr.write('Starting the alignment process on simulated data.\n');
sys.stderr.write('Note that thi... | isovic/graphmap | reproducibility/run.py | Python | mit | 1,874 | [
"BLAST"
] | b737b4816cd7f46b311ce37c4237a60515d53d0b17ada74683282e08d24218b6 |
#!/usr/bin/env python
################################################
# Prey Configurator for Linux
# By Tomas Pollak
# (c) 2012-2014 - Fork Ltd. (usefork.com)
################################################
# if having trouble with the GTK theme as root, do this:
# sudo ln -s ~/.themes/ /root/.themes
#############... | prey/prey-node-client | lib/conf/gui/linux/prey-config.py | Python | gpl-3.0 | 11,783 | [
"VisIt"
] | f70da4b1da8a16a54cf44773a10b8b055899d66069f7df391d7fd3cd7855884a |
#!/usr/bin/python
# Script: movie.py
# Purpose: create images from LAMMPS dump snapshots
# Syntax: movie.py raster/svg theta phi dump.1 dump.2 ...
# raster/svg = style of image to create
# theta/phi = vertical (z) and azimuthal angle to view from
# files = one or more dump files
# Example: movie... | sn-amber/mylpp | scripts/movie.py | Python | gpl-2.0 | 839 | [
"LAMMPS"
] | 6c5e338bc40b6d4f69b4785f21dbcb38bb6bfd446f4a1b7970a24ebf00570e30 |
import pickle as pickle
import tempfile
import rrpam_wds.examples as ex
from rrpam_wds import hydraulic_services as hs
from rrpam_wds.tests.test_utils import Test_Parent
from rrpam_wds.tests.test_utils import main
TOTAL_DEMAND_EX1 = 95045830.
TOTAL_DEMAND_EX2 = 945660687.
TOTAL_DEMAND_EX3 = 965890.
class TC(Test_Pa... | asselapathirana/RRPam-WDS | src/rrpam_wds/tests/test_hydraulic_services2.py | Python | gpl-3.0 | 1,596 | [
"ADF"
] | 41b64af1a1ccc5289b57c571a62faee7b5bad779f6f5114c117f0e68a5c7d7d7 |
# Copyright 2012 by Wibowo Arindrarto. 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.
"""Bio.SearchIO parser for Exonerate vulgar output format."""
import sys
# Add path to Bi... | Ambuj-UF/ConCat-1.0 | src/Utils/Bio/SearchIO/ExonerateIO/exonerate_vulgar.py | Python | gpl-2.0 | 8,213 | [
"Biopython"
] | c7a0ed34de79ec0434d8b3f87c691f6c2a4ff0c41d59ed1fe68a1aa065e9eb50 |
'''
Created on 16/01/2014
@author: morisset
'''
import os
import sys
import re
import argparse
from scipy import interpolate
import numpy as np
import pyssn
from pyneb.utils.physics import vactoair
from pyneb.utils.misc import roman_to_int
def read_data(filename, NF=True):
dtype = 'i8, a1, a9, float64, float64, f... | mvfcopetti/pySSN | pyssn/utils/misc.py | Python | gpl-3.0 | 10,005 | [
"Gaussian"
] | 4ae8df72de94220b49e458e983380af9d87b878359b963c5eed204849dd78ab7 |
"""
Clustering of LINEAR data
-------------------------
Figure 10.20
~~~~~~~~~~~~
Unsupervised clustering analysis of periodic variable stars from the LINEAR
data set. The top row shows clusters derived using two attributes (g - i and
log P) and a mixture of 12 Gaussians. The colorized symbols mark the five most
signif... | eramirem/astroML | book_figures/chapter10/fig_LINEAR_clustering.py | Python | bsd-2-clause | 9,133 | [
"Gaussian"
] | 51790e636d523b596715a915e3bdeb7131e15affe5d7b6c5b2fedea4fc092929 |
""" A computing element class using singularity containers.
This computing element will start the job in the container set by
the "ContainerRoot" config option.
DIRAC will the re-installed within the container, extra flags can
be given to the dirac-install command with the "ContainerExtraOpts"
opt... | Andrew-McNab-UK/DIRAC | Resources/Computing/SingularityComputingElement.py | Python | gpl-3.0 | 10,825 | [
"DIRAC"
] | 5b102e0cb24978fa1e72b197f2490e68298c94ed282fe01174e2832ee5dceed3 |
# -*- coding: utf-8 -*-
"""
Quickly setup a Pyccel source to work with pyccel.
"""
# TODO this file has not been refactored yet
# TODO: - enables testing extensions when invoking pyccel-quickstart
import sys
import os
import argparse
from os import path
from pyccel.codegen.utilities_old import load_extension
fr... | ratnania/pyccel | pyccel/commands/quickstart.py | Python | mit | 7,726 | [
"VisIt"
] | c652d577aced05b2ae94fdd118816073209ce410924d92388897203d219f44e8 |
#!/usr/bin/env python
#
# $File: conversion.py $
#
# This file is part of simuPOP, a forward-time population genetics
# simulation environment. Please visit http://simupop.sourceforge.net
# for details.
#
# Copyright (C) 2004 - 2010 Bo Peng (bpeng@mdanderson.org)
#
# This program is free software: you can redistribute... | BoPeng/simuPOP | docs/conversion.py | Python | gpl-2.0 | 1,685 | [
"VisIt"
] | 084a14a23009e86623a9d6424f585d103b41d0d43250a436ef95255fee42ec36 |
""" PassiveDNS Common Output Format (COF) MISP importer.
Takes as input a valid COF file or the output of the dnsdbflex utility
and creates MISP objects for the input.
Copyright 2021: Farsight Security (https://www.farsightsecurity.com/)
Author: Aaron Kaplan <aaron@lo-res.org>
Released under the Apache 2.0 license.... | MISP/misp-modules | misp_modules/modules/import_mod/cof2misp.py | Python | agpl-3.0 | 8,831 | [
"Amber"
] | b758b754a3d57eae49760b8befb14d779aa408612ddff2df08ccb02849d885bf |
from equadratures.sampling_methods.sampling_template import Sampling
import numpy as np
from scipy.special import betaln
import bisect
from scipy.optimize import brentq as brentq_root_solve
import copy
try:
import ray
ray_imported = True
except ImportError:
ray_imported = False
pass
class Induced(Samp... | Effective-Quadratures/Effective-Quadratures | equadratures/sampling_methods/induced.py | Python | lgpl-2.1 | 22,888 | [
"Gaussian"
] | 87d4f2f692ef4231ea901ca0dff48601c82033dc9cd109d9b49dc2ab0a3cc982 |
# -*- coding: utf-8 -*-
#
# This script is a modified implementation of an official
# NEST example (see http://nest-simulator.org) that can be used as a task
# on the Collaboratory.
#
# Contributors:
# NEST Developers
# Johanna Senk (j.senk@fz-juelich.de)
#
#
# brunel_delta_nest.py
#
# This file is part of NEST.
... | INM-6/UP-Tasks | NEST/brunel_delta_nest_task/brunel_delta_nest_task.py | Python | gpl-2.0 | 13,335 | [
"NEURON"
] | b7694e143831e491495db296dbc8fc91b097147cb1fc6d474574d830f1e08d60 |
# coding=utf-8
# Copyright 2016 Google Inc. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by app... | pombredanne/grumpy | grumpy-tools-src/grumpy_tools/compiler/stmt.py | Python | apache-2.0 | 33,212 | [
"VisIt"
] | eff90c03a59700fab7724adcec9ecec16348ff0ffe6570f0b5d4ddd40005da03 |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2016 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of ... | kannon92/psi4 | doc/sphinxman/source/psi4doc/ext/__init__.py | Python | gpl-2.0 | 1,013 | [
"Psi4"
] | 15e67f0410fff706a3501a01949d446f3044d9b0dd4bf500ed3af90861927215 |
# Natural Language Toolkit: Logic
#
# Author: Dan Garrette <dhgarrette@gmail.com>
#
# Copyright (C) 2001-2015 NLTK Project
# URL: <http://nltk.org>
# For license information, see LICENSE.TXT
"""
A version of first order predicate logic, built on
top of the typed lambda calculus.
"""
from __future__ import ... | MyRookie/SentimentAnalyse | venv/lib/python2.7/site-packages/nltk/sem/logic.py | Python | mit | 69,910 | [
"VisIt"
] | 25aadee4fa61942a4a0f3cf4ec0489f6a83c842c45d3c883fcf8fdf9c1f163ef |
# Copyright 2017 Max Planck Society
# Distributed under the BSD-3 Software license,
# (See accompanying file ./LICENSE.txt or copy at
# https://opensource.org/licenses/BSD-3-Clause)
"""Training AdaGAN on various datasets.
Refer to the arXiv paper 'AdaGAN: Boosting Generative Models'
Coded by Ilya Tolstikhin, Carl-Joha... | tolstikhin/adagan | iclr_celeba_vae.py | Python | bsd-3-clause | 8,118 | [
"Gaussian"
] | 8fcf1886033d0710449ee2a9a9dd4dde110646909b240ad5d8b0bae9b5fda205 |
import mfem
if mfem.mfem_mode is None:
mfem.mfem_mode = 'parallel'
if mfem.mfem_mode == 'serial':
raise ImportError("MFEM serial mode is already loaded")
debug_print = mfem.debug_print
from mpi4py import MPI
from mfem._par.cpointers import *
from mfem._par.globals import *
from mfem._par.mem_manager import ... | mfem/PyMFEM | mfem/par.py | Python | bsd-3-clause | 3,640 | [
"VTK"
] | d9bc54fff3f22c00b8b23b11570261847dbc172f648ac84fc92f25db4cb3f4cf |
from __future__ import print_function, division
import collections
from sympy.core.add import Add
from sympy.core.basic import Basic, C, Atom
from sympy.core.expr import Expr
from sympy.core.function import count_ops
from sympy.core.logic import _fuzzy_group_inverse, fuzzy_and
from sympy.core.power import Pow
from sym... | dqnykamp/sympy | sympy/matrices/matrices.py | Python | bsd-3-clause | 127,921 | [
"DIRAC",
"Gaussian"
] | f8a1fa881f282039d4257df6e46076f5d565e9be22ebf21fefc50a6ba454ff7e |
# 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-research/fitvid | models.py | Python | apache-2.0 | 5,477 | [
"Gaussian"
] | e7fcd7e41706cbfcf0ead47f5e3ec03f9327ad494c04c87612fac917d9135a58 |
# -*- coding: utf-8 -*-
'''
Describe test for Django
@author: Laurent GAY
@organization: sd-libre.fr
@contact: info@sd-libre.fr
@copyright: 2015 sd-libre.fr
@license: This file is part of Lucterios.
Lucterios is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License ... | Diacamma2/financial | diacamma/accounting/tests.py | Python | gpl-3.0 | 65,977 | [
"Dalton"
] | 01e025930d58712096c7b192ad60df2af40ec3ce6c7652a37f766ee8f1d81c10 |
"""
Interpolate Before Mapping
~~~~~~~~~~~~~~~~~~~~~~~~~~
The ``add_mesh`` function has an ``interpolate_before_map`` argument - this
affects the way scalar data is visualized with colors.
The effect can of this can vary depending on the dataset's topology and the
chosen colormap.
This example serves to demo the diff... | akaszynski/vtkInterface | examples/02-plot/interpolate-before-map.py | Python | mit | 5,846 | [
"VTK"
] | 424cb92f9adc497146c77118c91c265c2328f87562fb50d8d72c16f211941bb1 |
# Copyright 2016 Mycroft AI, Inc.
#
# This file is part of Mycroft Core.
#
# Mycroft Core 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 versio... | seymour-bootay/my-mycroft-skills | loginctl/__init__.py | Python | gpl-3.0 | 3,793 | [
"VisIt"
] | 9a9bc2052ec170b3cbfc820ad251e92950ff24b796470b6b3ef4dfa2a790041e |
# -*- coding: utf-8 -*-
from __future__ import unicode_literals
from django.test import TestCase
from django.test import Client
from django.urls import reverse
from django.contrib.auth.models import User
from wikisensei.wiki.services import get_root_wiki
from wikisensei.wiki.services import add_wiki
from wikisensei.su... | soasme/wikisensei | wikisensei/web/tests.py | Python | gpl-3.0 | 5,355 | [
"VisIt"
] | 66b1f836ca0482abcb9cf803c5c4ed8481898a31e4accff3f30f9bdc37cb8706 |
# Copyright (c) 2017-2019 Uber Technologies, Inc.
# SPDX-License-Identifier: Apache-2.0
"""
An implementation of a Deep Markov Model in Pyro based on reference [1].
This is essentially the DKS variant outlined in the paper. The primary difference
between this implementation and theirs is that in our version any KL div... | uber/pyro | examples/dmm.py | Python | apache-2.0 | 25,357 | [
"Gaussian"
] | a7a0ec8fd8d921b1c012bfcc6eebf0fec6567f0e4c3a6b9c32385da5a9c61937 |
# encoding:utf-8
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2009 Benny Malengier
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# ... | sam-m888/gramps | gramps/plugins/textreport/textplugins.gpr.py | Python | gpl-2.0 | 14,557 | [
"Brian"
] | abf21ab09bae85bbb52da76a14b49d3e35a5c76306cc2fe1f1b0d72dbd6ebdc2 |
# $Id$
#
# Copyright (C) 2001-2010 greg Landrum and Rational Discovery LLC
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
from rdkit import Chem
... | adalke/rdkit | rdkit/Chem/Descriptors.py | Python | bsd-3-clause | 5,822 | [
"RDKit"
] | df3feb3cf590c5b614f4dfff14149aaa8ac38ecea611366b8972104b89acb21b |
from __future__ import absolute_import, division, print_function
# ----------------------------------------------------------------------------
# Copyright (c) 2013--, scikit-bio development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file COPYING.txt, distributed ... | Kleptobismol/scikit-bio | skbio/util/_misc.py | Python | bsd-3-clause | 8,357 | [
"scikit-bio"
] | 9e537cdfe5f37bcf937911a434e50635e812f421dd5f08714694370af4f85f21 |
# class generated by DeVIDE::createDeVIDEModuleFromVTKObject
from module_kits.vtk_kit.mixins import SimpleVTKClassModuleBase
import vtk
class vtkExtractDataOverTime(SimpleVTKClassModuleBase):
def __init__(self, module_manager):
SimpleVTKClassModuleBase.__init__(
self, module_manager,
... | nagyistoce/devide | modules/vtk_basic/vtkExtractDataOverTime.py | Python | bsd-3-clause | 499 | [
"VTK"
] | 1bf3b1f8db52e596c7088af7cb71e325ce177fa18bf7c278754111961082cebf |
import tensorflow as tf
import numpy as np
from skimage.segmentation import slic as skimage_slic
NUM_SEGMENTS = 400
COMPACTNESS = 30.0
MAX_ITERATIONS = 10
SIGMA = 0.0
MIN_SIZE_FACTOR = 0.5
MAX_SIZE_FACTOR = 3.0
CONNECTIVITY = True
def slic(image, num_segments=NUM_SEGMENTS, compactness=COMPACTNESS,
max_iter... | rusty1s/graph-based-image-classification | segmentation/algorithm/slic.py | Python | mit | 4,262 | [
"Gaussian"
] | dc9463ec2f020df971a88f85fcad22be6b9e088848de6c665c7b700706602963 |
# -*- coding:utf-8 -*-
# Default Django settings. Override these with settings in the module
# pointed-to by the DJANGO_SETTINGS_MODULE environment variable.
# This is defined here as a do-nothing function because we can't import
# django.utils.translation -- that module depends on the settings.
gettext_noop = lambda ... | wfxiang08/django178 | django/conf/global_settings.py | Python | bsd-3-clause | 23,348 | [
"VisIt"
] | f8aa7518f49d2e0130b72ec2dfb3ff56fc68cafbf2f30d7d3c17f0b1d3657826 |
u"""
Module for recoding matrices.
date: 25/08/2016
"""
import sys
import os
import subprocess
import re
import copy
import warnings
from Bio.Data import CodonTable
from p4.alignment import Alignment
import p4.func
from p4.var import var
from p4.p4exceptions import P4Error
from p4.func import read
from p4.code_utils im... | pgfoster/p4-phylogenetics | p4/alignment_recoding.py | Python | gpl-2.0 | 46,604 | [
"Biopython"
] | 9a146e2dc9101593ae94108778d10ae4d2ce97403d88f3bcd8362d76de2d48a0 |
#* 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
from . impo... | harterj/moose | python/MooseDocs/extensions/common.py | Python | lgpl-2.1 | 1,370 | [
"MOOSE"
] | 7b081d1fdf27ddd2d11600fcb11e24b54d8e90f632af61d1faa2f5dc8148b28a |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2013 Async Open Source <http://www.async.com.br>
## All rights reserved
##
## 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 Foundati... | andrebellafronte/stoq | stoqlib/gui/test/test_fields.py | Python | gpl-2.0 | 1,564 | [
"VisIt"
] | ee734766eac874f2ef737b73e4263c2a20e6b1877a696cd84a6d2b2b9d88445f |
# Copyright (c) 2015, Ecole Polytechnique Federale de Lausanne, Blue Brain Project
# All rights reserved.
#
# This file is part of NeuroM <https://github.com/BlueBrain/NeuroM>
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are ... | BlueBrain/NeuroM | neurom/io/utils.py | Python | bsd-3-clause | 8,311 | [
"NEURON"
] | b1ca1837630aef568f8d5fdaf83202103ccf8dc32cfa6bb0211ddd866fe8a337 |
# -*- coding: utf-8 -*-
"""
Tests the "preview" selector in the LMS that allows changing between Staff, Learner, and Content Groups.
"""
from textwrap import dedent
from common.test.acceptance.fixtures.course import CourseFixture, XBlockFixtureDesc
from common.test.acceptance.pages.common.auto_auth import AutoAuthPa... | cpennington/edx-platform | common/test/acceptance/tests/lms/test_lms_user_preview.py | Python | agpl-3.0 | 12,620 | [
"VisIt"
] | be3ea65e3b8c5b73b26aa8099436c0968d8d1b1f6989096f0348caa9c00fa438 |
import numpy
import requests
from elastic_backend import Backend
from browbeat_run import browbeat_run
from util import connect_crdb
metrics_list = ["overcloud-controller-0.cpu-*.cpu-system",
"overcloud-controller-0.cpu-*.cpu-user",
"overcloud-controller-0.cpu-*.cpu-softirq",
... | jkilpatr/Browbeat-ML | bml/lib/timeseries_uploaddb.py | Python | apache-2.0 | 4,243 | [
"Elk"
] | f901fdf344eaccff3d503b07f3dc39e43ceb2a16aa11e0cf78ff675c900847a6 |
# -*- coding: utf-8 -*-
"""
equil.py
========
.. argparse::
:module: time
:func: create_parser
:prog: time
.. moduleauthor:: Adam Gagorik <adam.gagorik@gmail.com>
"""
import langmuir as lm
import pandas as pd
import collections
import argparse
import os
desc = """
Check simulation(s) for time data.
"""
... | LangmuirSim/langmuir | LangmuirPython/analyze/time.py | Python | gpl-2.0 | 5,103 | [
"Gaussian"
] | c91d81dfd3e0d26acdcd23d38827a8972e5988db1e23790aef1620dba05fe13c |
"""
This module contains helpers for various statistical calculations.
"""
import logging
logger = logging.getLogger(__name__)
from enum import Enum
import numpy as np
import pandas as pd
import scipy.stats
import typing
from typing import Any, Callable, Iterable, Optional, Tuple
###
# KL-divergence helpers
###
def ... | bmmalone/pymisc-utils | pyllars/stats_utils.py | Python | mit | 15,696 | [
"Gaussian"
] | 8c6e20b47589382c9fdeaac5cf9c25e8ef406916a434fa51fe7d9a74b2da9fc4 |
# coding: utf-8
from __future__ import unicode_literals
"""
Created on Jan 25, 2012
"""
__author__ = "Anubhav Jain, Shyue Ping Ong"
__copyright__ = "Copyright 2012, The Materials Project"
__version__ = "0.1"
__maintainer__ = "Anubhav Jain"
__email__ = "ajain@lbl.gov"
__date__ = "Jan 25, 2012"
import unittest
import... | rousseab/pymatgen | pymatgen/apps/battery/tests/test_insertion_battery.py | Python | mit | 4,696 | [
"pymatgen"
] | 14cc16c4b928bce07b7aa406086d2be27f7fc2a8fb7edacd79bbd7e7930c7975 |
# -*- encoding: utf-8 -*-
# Yuuno - IPython + VapourSynth
# Copyright (C) 2017 StuxCrystal (Roland Netzsch <stuxcrystal@encode.moe>)
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License as published by
# the Free Software Foundation, eit... | stuxcrystal/yuuno | yuuno_ipython/ipython/apps/preview.py | Python | lgpl-3.0 | 5,004 | [
"MOE"
] | 5ff912bb606fa610b90fee2d5f7486a11bbd6f67bdeefc876e4d99ddd159467e |
# Principal Component Analysis Code :
from numpy import mean,cov,double,cumsum,dot,linalg,array,rank,size,flipud
from pylab import *
import numpy as np
import matplotlib.pyplot as pp
#from enthought.mayavi import mlab
import scipy.ndimage as ni
import roslib; roslib.load_manifest('sandbox_tapo_darpa_m3')
import ro... | tapomayukh/projects_in_python | classification/Classification_with_kNN/Single_Contact_Classification/Final/best_kNN_PCA/4-categories/96/test11_cross_validate_categories_96_no_motion_1200ms.py | Python | mit | 4,743 | [
"Mayavi"
] | 14f627bd1aa8d75f68171468f9e23a4cc7733b5b2a579288a24c0919092a83b2 |
examples = dict(
disable_training_metrics="""
>>> from h2o.estimators import H2OSupportVectorMachineEstimator
>>> splice = h2o.import_file("http://h2o-public-test-data.s3.amazonaws.com/smalldata/splice/splice.svm")
>>> svm = H2OSupportVectorMachineEstimator(gamma=0.01,
... ran... | h2oai/h2o-3 | h2o-bindings/bin/custom/python/gen_psvm.py | Python | apache-2.0 | 7,069 | [
"Gaussian"
] | 2907af69b533cdec9d7e1440b103231a2b5d52c9e2cd29831da2833dd7d7b161 |
from splinter import Browser
browser = Browser()
browser.visit('https://facebook.com')
browser.fill('email','nishaanthguna@gmail.com')
browser.fill('pass','googleiswaiting')
browser.find_by_id('u_0_n').click()
| gameFace22/Programs-and-Scripts. | fbsplinter.py | Python | mit | 210 | [
"VisIt"
] | 4b06829504bc50dfac3fb1de4e3fda9490d2e5db28603471df976050deb796bc |
# -*- coding: utf-8 -*-
# Author: Eric Larson <larson.eric.d@gmail.com>
#
# License: BSD (3-clause)
from distutils.version import LooseVersion
import gc
import os
import os.path as op
from pathlib import Path
import shutil
import sys
import warnings
import pytest
# For some unknown reason, on Travis-xenial there are s... | Eric89GXL/mne-python | mne/conftest.py | Python | bsd-3-clause | 21,428 | [
"Mayavi",
"VTK"
] | badcbf761291691a5597847c0860649dfdce453fee55e24d762f6c8bb103d488 |
# 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 | poem/cv_mim/models.py | Python | apache-2.0 | 30,548 | [
"Gaussian"
] | 126f332f820d5ede1e75e1f204d7eb35a7725a2864f21af8d451b398b3a25e68 |
import sys
sys.path.insert(1, "../../../")
import h2o, tests
import random
def random_attack():
def attack(family, train, valid, x, y):
kwargs = {}
kwargs['family'] = family
gaussian_links = ["inverse", "log", "identity"]
binomial_links = ["logit"]
poisson_links =... | kyoren/https-github.com-h2oai-h2o-3 | h2o-py/tests/testdir_algos/glm/pyunit_random_attack_medium.py | Python | apache-2.0 | 5,231 | [
"Gaussian"
] | 5bd49939474e6024808bc476993e592ee3ffbf38efc793db94db8857e9f1edba |
import os
import re
import shutil
import json
import collections
import webbrowser
import subprocess
from cudatext import *
from urllib.parse import unquote
from .work_local import *
from .work_remote import *
from .work_dlg_config import *
from .work_github import *
from .work_cudatext_updates__fosshub import check_cu... | vhanla/CudaText | app/py/cuda_addonman/__init__.py | Python | mpl-2.0 | 20,035 | [
"VisIt"
] | 8bf4534304aeee95557deea9a4cc789c568c0baffdbb81d97eb9af192f79ddab |
'''This script demonstrates how to build a variational autoencoder
with Keras and deconvolution layers.
Reference: "Auto-Encoding Variational Bayes" https://arxiv.org/abs/1312.6114
'''
import numpy as np
import matplotlib.pyplot as plt
from scipy.stats import norm
from keras.layers import Input, Dense, Lambda, Flatte... | pratikgujjar/DeepIntent | code/vae_model/mnist_vae.py | Python | mit | 6,844 | [
"Gaussian"
] | 8138bb60b639c8012d82ccd47b8f53a46e01b80fd36b6545a10cf160d85a974a |
# encoding: utf-8
"""colors.py - select how to color the atoms in the GUI."""
import gtk
from gettext import gettext as _
from ase.gui.widgets import pack, cancel_apply_ok, oops, help
import ase
from ase.data.colors import jmol_colors
import numpy as np
import colorsys
named_colors = ('Green', 'Yellow', 'Blue', 'Red... | grhawk/ASE | tools/ase/gui/colors.py | Python | gpl-2.0 | 29,490 | [
"ASE",
"Jmol"
] | 13fd9e59e1fa65d7db95dc8449ac9e12ca3e99f70018fd6781c38f063f5c46fb |
# This file is part of cclib (http://cclib.github.io), a library for parsing
# and interpreting the results of computational chemistry packages.
#
# Copyright (C) 2006-2014, the cclib development team
#
# The library is free software, distributed under the terms of
# the GNU Lesser General Public version 2.1 or l... | Clyde-fare/cclib | test/testvib.py | Python | lgpl-2.1 | 7,291 | [
"Gaussian",
"ORCA",
"cclib"
] | f89dfddb926a9352e60bf8d30382eab62ba7082290cb9887be09190240a8eaf4 |
#
# @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 program is free software; you can redistribute it and/or modify
# it under the terms of ... | kratman/psi4public | psi4/driver/gaussian_n.py | Python | gpl-2.0 | 7,238 | [
"Gaussian",
"Psi4"
] | 0029aeea5a906a2437d8b67a2918c2aa9bab19c9377906ffbf224d3192ae0247 |
# Copyright 2003 by Bartek Wilczynski. 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.
"""Parsing AlignACE files: AlignAceParser
"""
from Bio.Motif import Motif
from Bio.Alphab... | bryback/quickseq | genescript/Bio/Motif/Parsers/AlignAce.py | Python | mit | 1,718 | [
"Biopython"
] | 839fc565422a52151966147a2034a7b2d33bf7b951fca09142a9ad37b415a5a6 |
from ase import Atom
from ase.units import Hartree
from gpaw import GPAW, FermiDirac
from gpaw.cluster import Cluster
from gpaw.test import equal
h =.3
box = 4.
energy_tolerance = 0.0004
l=2 # d-orbitals
U_ev=3 # U in eV
U_au=U_ev / Hartree # U in atomic units
scale=1 ... | ajylee/gpaw-rtxs | gpaw/test/Hubbard_U_Zn.py | Python | gpl-3.0 | 985 | [
"ASE",
"GPAW"
] | 219b96dc967d5b6008effded5e43407022a3508421f7bac138e319b810fc37b0 |
import csv, os
from Products.CMFCore.utils import getToolByName
def get_folder(self, type, name):
folder_brains = self.queryCatalog({'portal_type':type, 'title':name})[0]
return folder_brains.getObject()
def create_object_in_directory(self, container, type):
id = container.generateUniqueId(type)
conta... | uwosh/UWOshMusicRecruiting | Extensions/import_visits.py | Python | gpl-2.0 | 3,594 | [
"VisIt"
] | 2a255b3b1e015790e35a463cae58f3d65cfb746b1791512735f227613ffeff74 |
# Copyright lowRISC contributors.
# Licensed under the Apache License, Version 2.0, see LICENSE for details.
# SPDX-License-Identifier: Apache-2.0
from typing import Dict, Optional, Sequence
import libcst as cst
from libcst._nodes.internal import CodegenState, visit_required
def make_aref(name: str, idx: cst.BaseEx... | lowRISC/opentitan | hw/ip/otbn/util/docs/get_impl.py | Python | apache-2.0 | 18,317 | [
"VisIt"
] | 9ec0df17a989cb56587f95bd16d969570782b851fe406fb95777944767bba2c6 |
import patternatom
import util
import collections
import logging
max_trials = 8 # algorithm is exponential in this number! Can be tweaked up and down, distinguishes best of the correct choices but not overall correctness
def best(patterns,extended):
# Enumberate daytimes
dts = collections.defaultdict(... | ieb/timetables | python/lib/besttmplcalc.py | Python | agpl-3.0 | 2,713 | [
"BLAST"
] | 023f1befc0ce95268fe048b33d872215596e59e7909d409b2e01ba4c8fa4ec17 |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.