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 |
|---|---|---|---|---|---|---|---|
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import os
import random
import unittest
import warnings
from pathlib import Path
from shutil import which
import numpy as np
import pytest
from pymatgen.core.composition import Composition
from pymatgen.core.lattice import L... | materialsproject/pymatgen | pymatgen/core/tests/test_structure.py | Python | mit | 63,855 | [
"pymatgen"
] | 314f49eab21b381671d0bb1c185d4753a4090d2e92c6643439c43a719fc9bc85 |
from datetime import datetime, timedelta
from sqlalchemy.dialects.postgresql import ENUM, JSONB
from sqlalchemy.orm import make_transient
from ..database import db
from ..date_tools import FHIR_datetime, weekday_delta
from ..models.audit import Audit
trigger_state_enum = ENUM(
'unstarted',
'due',
'inproce... | uwcirg/true_nth_usa_portal | portal/trigger_states/models.py | Python | bsd-3-clause | 8,203 | [
"VisIt"
] | ad78a94d83a8c064cbda195706639a53bc6cffcf6d1f0fc0fd67d453e45735c9 |
import ast
class ExpressionVisitor(ast.NodeVisitor):
def __init__(self, document, locals):
super(ExpressionVisitor, self).__init__()
self.locals = locals
self.document = document
self.feature_name = None
self.doc = None
@property
def result(self):
if self.f... | JohnVinyard/zounds | zounds/ui/featureparser.py | Python | mit | 1,790 | [
"VisIt"
] | 0da33cfcb07ce41a66b4ab285cdff2bd5bee7e953459cac19af7eb3584a3317e |
# This file is licensed seperately of the rest of the codebase. This is due to
# BioPython's failure to merge https://github.com/biopython/biopython/pull/544
# in a timely fashion. Please use this file however you see fit!
#
#
# Copyright (c) 2015-2017 Center for Phage Technology. All rights reserved.
# Redistribution ... | TAMU-CPT/galaxy-tools | tools/comparative/xmfa.py | Python | gpl-3.0 | 5,025 | [
"Biopython"
] | 07ef3b0fe4b4392a31a362de8bd8035189cfcd790421e163921b0c0616bcbb7e |
# Copyright (c) 2003-2014 LOGILAB S.A. (Paris, FRANCE).
# http://www.logilab.fr/ -- mailto:contact@logilab.fr
#
# This program is free software; you can redistribute it and/or modify it under
# the terms of the GNU General Public License as published by the Free Software
# Foundation; either version 2 of the License, o... | Shouqun/node-gn | tools/depot_tools/third_party/pylint/utils.py | Python | mit | 36,187 | [
"VisIt"
] | 864acd1951285dda308e56a15a707d6c21ef9ef44ec1ba947d7c5be5080fe266 |
import discord
from discord.ext import commands
class Lessons:
'''How To Marvel Contest of Champions'''
lessons = {
'parry': (
'How to Parry Like a Boss',
'https://www.youtube.com/watch?v=VRPXxHrgDnY',
'``Parry Types:``\n1. The First Kiss\n2. The Cher... | JasonJW/mcoc-cogs | lessons/lessons.py | Python | mit | 4,108 | [
"BLAST"
] | 7ef9694c833d50718b247d2d248ad3e76ab14d7ec1ced828a9f7195fa8b73e87 |
# -*- coding: utf-8 -*-
#
# Copyright 2001 - 2016 Ludek Smid [http://www.ospace.net/]
#
# This file is part of Outer Space.
#
# Outer Space 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... | ospaceteam/outerspace | client/osci/StarMapWidget.py | Python | gpl-2.0 | 33,801 | [
"Galaxy"
] | 59a26a828714993fb14dabd499fd21db4bef8a16fd88816e1433f790b7cd4ee1 |
# ============================================================================
#
# Copyright (C) 2007-2012 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... | jeroendierckx/Camelot | camelot/view/controls/editors/choiceseditor.py | Python | gpl-2.0 | 5,519 | [
"VisIt"
] | ff099900077018220e924c6c5b96846c256acab87d5e7a9e127e19e2668c586f |
# Linear and logistic Regression with Automatic Relevance Determination (Fast Version uses
# Sparse Bayesian Learning)
#https://github.com/AmazaspShumik/sklearn-bayes/blob/master/skbayes/rvm_ard_models/fast_rvm.py
import superimport
import numpy as np
from sklearn.base import RegressorMixin, BaseEstimator
#from ... | probml/pyprobml | scripts/ard_linreg_logreg.py | Python | mit | 41,132 | [
"Gaussian"
] | 1b685649e156bb896a822dca72b6f9fbeb668c4046262c44f59ba19360aebc9d |
#!/usr/bin/env python
#
#
# A file which can be run in (Python enabled) NEURON to analyse the rate
# variables contained in a mod file
#
#
import argparse
import re
import neuron
print("\n\n")
import matplotlib.pyplot as pylab
from pyneuroml.analysis.NML2ChannelAnalysis import get_state_color
from pylab impor... | rgerkin/pyNeuroML | pyneuroml/neuron/analysis/HHanalyse.py | Python | lgpl-3.0 | 14,857 | [
"NEURON"
] | f10133fa29a7504cba22faa07b5079c9c0d86ff13a500b0279d4aad06c6da1ee |
# -*- coding: utf-8 -*-
#
# Pyplis is a Python library for the analysis of UV SO2 camera data
# Copyright (C) 2017 Jonas Gliss (jonasgliss@gmail.com)
#
# This program is free software: you can redistribute it and/or
# modify it under the terms of the GNU General Public License a
# published by the Free Software Foundat... | jgliss/pyplis | pyplis/optimisation.py | Python | gpl-3.0 | 63,904 | [
"Gaussian"
] | e8220b3f99b4a37af36e5589f88dce6c0271ce8a4889a5f6fa1def2245c7d902 |
# Copyright 2018 Google LLC
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# https://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, ... | googleapis/gapic-generator-python | tests/unit/schema/wrappers/test_service.py | Python | apache-2.0 | 21,051 | [
"Octopus"
] | 04871305d3c35f604cf4578e00ae28ca09aadbe3a0eccf68617559623fe311c9 |
# Author: Wei Xue <xuewei4d@gmail.com>
# Thierry Guillemot <thierry.guillemot.work@gmail.com>
# License: BSD 3 clauseimport warnings
import sys
import warnings
import numpy as np
from scipy import stats, linalg
from sklearn.covariance import EmpiricalCovariance
from sklearn.datasets.samples_generator import... | hlin117/scikit-learn | sklearn/mixture/tests/test_gaussian_mixture.py | Python | bsd-3-clause | 40,215 | [
"Gaussian"
] | 69166d95f2de253c2ea001dc8cf2aaee8242e1091d488797228e7be46dde9821 |
import pylab
import numpy as np
import re
from rdkit import Chem
from rdkit.Chem import AllChem
from rdkit.Chem import Draw
import os
import glob
def fixPdbSdfFormatting(data):
datasp = data.split('\n')
readingAtoms = True
for lineInd, line in enumerate(datasp):
linesp = line.split()
if ... | POVME/POVME | POVME/examples/analysis_workflow_example/3-post_analysis/analyzeClusterMembershipInGroups_HSP90.py | Python | mit | 19,645 | [
"RDKit"
] | cb5c7c6e67c7bbaf97965f9289818793dee2d813d1e2bddb716ef7a6360a1407 |
import os, sys
import numpy as np
import argparse
import matplotlib
matplotlib.use('Agg')
import matplotlib.pyplot as plt
from matplotlib.backends.backend_pdf import PdfPages
import tensorflow as tf
import data
import model
from uncertainty import ECE
if __name__ == '__main__':
parser = argparse.ArgumentPars... | googleinterns/intern2020_cocal | uncertainty/plots/plot_temp_trend.py | Python | apache-2.0 | 4,864 | [
"Gaussian"
] | de3693167e88d8bd3325ceca35848948e7bcd9af47c7c07aa56f941cd2bdd39b |
#!/usr/bin/env python3
"""
Copyright 2020 Paul Willworth <ioscode@gmail.com>
This file is part of Galaxy Harvester.
Galaxy Harvester is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 ... | pwillworth/galaxyharvester | html/getComponentList.py | Python | gpl-3.0 | 2,331 | [
"Galaxy"
] | 54e037ccdeb16619bb8b45c46bf914b78fbd0322c834ce54137f8becf0afec9f |
#
# Copyright (C) 2013-2018 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later... | mkuron/espresso | testsuite/python/coulomb_cloud_wall.py | Python | gpl-3.0 | 6,357 | [
"ESPResSo"
] | f4c2bda29da1aec4e61a06a3008fa159f7af101e4171ced743557166325a0e51 |
import pysam
from collections import Counter
from argparse import ArgumentParser
from lhc.io.locus import open_locus_file
def strand(alignments: pysam.AlignmentFile):
counter = Counter()
i = 0
try:
for alignment in alignments:
if i > 500000:
break
if alignm... | childsish/lhc-python | lhc/binf/alignment/tools/strand.py | Python | gpl-2.0 | 1,882 | [
"pysam"
] | 9cb4fd3ae9c0acd445df5cd6a0c6402428ad7a294735816083f59b48fc4d3d79 |
# #
# Copyright 2013-2015 Ghent University
#
# This file is part of EasyBuild,
# originally created by the HPC team of Ghent University (http://ugent.be/hpc/en),
# with support of Ghent University (http://ugent.be/hpc),
# the Flemish Supercomputer Centre (VSC) (https://vscentrum.be/nl/en),
# the Hercules foundation (ht... | nesi/easybuild-framework | test/framework/config.py | Python | gpl-2.0 | 28,485 | [
"NetCDF"
] | 0cb21e30a0a8f78a6764cbcb3e7a1e2757d1ab663804f55161fc1421c7562be5 |
import httplib
import httplib2
import os
import random
import sys
import time
import argparse
import datetime
from apiclient.discovery import build
from apiclient.errors import HttpError
from apiclient.http import MediaFileUpload
from oauth2client.client import flow_from_clientsecrets
from oauth2client.file import Sto... | AlecWallace2001/YouTube-Uploader | Youtube File Uploader.py | Python | mit | 10,589 | [
"VisIt"
] | 821223ffc38bdc2f9fbb7a76e48dc96759c9245cf500ba47f97e8581bc5a1b7c |
# -*- coding: utf-8 -*-
"""
Created on Mon Aug 4 13:48:18 2014
@author: quaglio
"""
import scipy.stats
import math
import warnings
# TODO: decide if we want to set the input as a population histogram (current
#version) or a list of SpikeTrains
def cubic(data, ximax=100, alpha=0.05, errorval=4., rate_distr='stat'):... | SPP1665DataAnalysisCourse/elephant | elephant/cubic.py | Python | bsd-3-clause | 31,053 | [
"Gaussian"
] | f98866f2b9c65f8749d92a1e18d935335c6a5fa2f800c34ec8fdfab7a1c90217 |
#!/usr/bin/env python
#
# Author: Qiming Sun <osirpt.sun@gmail.com>
#
'''
QM/MM charges + implicit solvent model
'''
import numpy
from pyscf import gto, qmmm, solvent
from pyscf.data import radii
# load all modeuls
from pyscf import __all__
mol = gto.M(atom='''
C 0.000000 0.000000 -0.542500
O ... | gkc1000/pyscf | examples/qmmm/22-with_solvent.py | Python | apache-2.0 | 1,222 | [
"PySCF"
] | ce2a55fbff707d053051f96c96c04939ecef7f245b97a762035df809014774f9 |
#! /usr/bin/python
# This is a Gnome-2 panel applet that uses the
# buildbot.status.client.PBListener interface to display a terse summary of
# the buildmaster. It displays one column per builder, with a box on top for
# the status of the most recent build (red, green, or orange), and a somewhat
# smaller box on the b... | eunchong/build | third_party/buildbot_8_4p1/contrib/bb_applet.py | Python | bsd-3-clause | 14,676 | [
"Brian"
] | d6d8295ea89d8b7c7c02bcce5687505bf3b0635f6da6db098a347885a61dd3ed |
''' Utility Class for threaded agents (e.g. TransformationAgent)
Mostly for logging
'''
from DIRAC import gLogger
__RCSID__ = "$Id$"
AGENT_NAME = ''
class TransformationAgentsUtilities( object ):
''' logging utilities for threaded TS agents
'''
def __init__( self ):
''' c'tor
'''
self.transIn... | coberger/DIRAC | TransformationSystem/Agent/TransformationAgentsUtilities.py | Python | gpl-3.0 | 2,024 | [
"DIRAC"
] | 4f8c29c3d024327ccdf0e14a4bfe1de591f5cecb27b79c69b6c1f87ec976ab4c |
# coding=utf-8
'''
Created on 3/20/2017 8:58 57PM Wang Weimin
@author: wangwm
'''
import os
from pcd_corners_est import exact_full_marker_data
import numpy as np
from pcd_corners_est import generate_grid_coords
import matplotlib.pyplot as plt
import matplotlib
import vtk
import config
from ast import literal_eval as m... | mfxox/ILCC | ILCC/utility.py | Python | bsd-2-clause | 31,390 | [
"VTK"
] | c0365657f84a6861b2af2080132a5025d6922cd8c9b3f809729da88377239442 |
import lan
from processing import collect_array as ca
from processing import collect_id as ci
class Rewriter(object):
def rewrite_to_baseform(self, ast, functionname='FunctionName'):
""" Rewrites a few things in the AST, ast, to increase the
abstraction level.
:param ast: abstract... | dikujepsen/OpenTran | v3.0/framework/rewriter.py | Python | mit | 2,212 | [
"VisIt"
] | c6bfbbf908b420b17e2355b02d0b9aa12c35174763ff59423a2862208798fb7a |
# -*- coding: utf-8 -*-
from south.utils import datetime_utils as datetime
from south.db import db
from south.v2 import DataMigration
from django.db import models
class Migration(DataMigration):
def forwards(self, orm):
"Write your forwards methods here."
# Note: Don't use "from appname.models imp... | myvoice-nigeria/myvoice | myvoice/clinics/migrations/0042_lga_initial_values.py | Python | bsd-2-clause | 13,445 | [
"VisIt"
] | c12e6273e92988d7f20890c9980402b4538ec146e10c8f3c1b93827158e1038b |
from hamcrest import *
from test.features import BrowserTest
from test.features.support import table_from
class GenerateAllServicesPages(BrowserTest):
def test_all_services_table(self):
self.browser.visit("http://0.0.0.0:8000/all-services/by-transactions-per-year/descending")
table = table_from(... | imclab/transactions-explorer | test/features/test_generate_all_services_pages.py | Python | mit | 3,255 | [
"VisIt"
] | e251874201f23c16e88cf472aed90c2e2e61ce995229363c0b44de4a9e6d4548 |
"""
functions.py
These are supports for functions that are included in modeling software but have no
straightforward equivalent in python.
"""
from __future__ import division
from functools import wraps
import pandas as pd
import pandas as _pd
import numpy as np
from . import utils
import imp
import warnings
impor... | SimonStrong/pysd | pysd/functions.py | Python | mit | 30,695 | [
"VisIt"
] | f58fe23d08d66b88984b74344ffc12f80402500d420326e3cc367e57f430c7a3 |
# --------------------------------------------------------
# Deformable Convolutional Networks
# Copyright (c) 2016 by Contributors
# Copyright (c) 2017 Microsoft
# Licensed under The Apache-2.0 License [see LICENSE for details]
# Written by Zheng Zhang
# --------------------------------------------------------
#impor... | deepinsight/Deformable-ConvNets | carvn/deeplab/train.py | Python | apache-2.0 | 10,446 | [
"Gaussian"
] | 1c83783d950e45df35d7e15d159986e4d18f4b50e86b339d1f680a544b8930c4 |
# 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 PyDeeptools(PythonPackage):
"""deepTools addresses the challenge of handling the large amo... | rspavel/spack | var/spack/repos/builtin/packages/py-deeptools/package.py | Python | lgpl-2.1 | 1,836 | [
"pysam"
] | 472acc1d93d0004293ff46a617eb4b421225f5b66e51c3f1968b370716b9ca45 |
"""Tigramite data processing functions."""
# Author: Jakob Runge <jakob@jakob-runge.com>
#
# License: GNU General Public License v3.0
from __future__ import print_function
from collections import defaultdict, OrderedDict
import sys
import warnings
import copy
import math
import numpy as np
import scipy.sparse
import s... | jakobrunge/tigramite | tigramite/data_processing.py | Python | gpl-3.0 | 27,013 | [
"Gaussian"
] | 0472f1af8cd4b5b0e304e2f43fc10cf5685a4778288d29902d89ec3f4398b06a |
# Copyright 2012-2014 Brian May
#
# This file is part of python-tldap.
#
# python-tldap 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.... | Karaage-Cluster/python-tldap | tldap/django/__init__.py | Python | gpl-3.0 | 1,981 | [
"Brian"
] | 5e3e580bbcd54df701674abab45780c4c1427292b113ddf99783224f5f214613 |
from __future__ import print_function
import qt
# Importing vtk initializes vtkPythonMap owned by vtkPythonUtil and prevent
# call to vtkPythonUtil::GetObjectFromPointer() from segfaulting.
# PythonQt internally uses vtkPythonUtil to properly wrap/unwrap VTK objects
from vtk import *
t = _testWrappedVTKSlotInstance.... | SINTEFMedtek/CTK | Applications/ctkSimplePythonShell/Testing/Python/wrappedVTKSlotTest.py | Python | apache-2.0 | 513 | [
"VTK"
] | a73ceeac00d59ede733acb23e60c60b57c35268150fe53c68ff262f96b105721 |
# -*- coding: utf-8 -*-
import os
import tempfile
from unittest import TestCase
from django.contrib.auth.models import Group
from rdflib import Graph, URIRef
from rdflib.compare import _squashed_graphs_triples
from rdflib.namespace import DCTERMS, RDF, DC
from hs_core import hydroshare
from hs_core.hs_rdf import HSTE... | hydroshare/hydroshare | hs_core/tests/api/native/test_bag_ingestion.py | Python | bsd-3-clause | 8,520 | [
"NetCDF"
] | 1c42932f4d2b0b346e1b0a40cedf57e520d742a0f3c4a52add1fd5ec47ae12c8 |
# -*- coding: UTF-8 -*-
"""This module contains functions related to the harmonic approximation."""
import sys
import numpy as np
from chemphysconst import Constants
from numpy import linalg
from . import printfunctions as PF
FLOAT = np.float128
CONST = Constants()
COMPLEX = np.complex256
class Harmonic(object):
... | jdcapa/MolecularToolbox | moleculartoolbox/harmonic.py | Python | gpl-3.0 | 14,682 | [
"CFOUR"
] | e35f1312c01486179104279c1601498d7f48a473fcfaf1635bfcebf01aeea22f |
#!/usr/bin/env python
# # # # # # # # # # # # # # # # # # # # # # # # # # # # # #
# Main Madpack installation executable.
# # # # # # # # # # # # # # # # # # # # # # # # # # # # # #
import sys
import getpass
import re
import os
import glob
import traceback
import subprocess
import datetime
import tempfile
import shutil... | apache/incubator-madlib | src/madpack/madpack.py | Python | apache-2.0 | 59,042 | [
"ORCA"
] | fd237626b1dc9c7ab32e1746b5b98a425123dc4f88ee292622c9f30c56c7640d |
import numpy as np
import tempfile
from pele.angleaxis import RBTopology
from copy import deepcopy
from pele.utils import rotations
from pele.takestep import RotationalDisplacement
from pele.systems import BaseSystem, dict_copy_update, BaseParameters
from pele.transition_states import NEB, InterpolatedPathDensity
fro... | js850/pele | pele/angleaxis/aasystem.py | Python | gpl-3.0 | 8,012 | [
"PyMOL"
] | b4b6d564ad8d30b4d379709d5365dff95ded773ff7db5718057a77eed62da272 |
#!/usr/bin/env python3
#This extracts data from xml plists
#
#########################COPYRIGHT INFORMATION############################
#Copyright (C) 2013 dougkoster@hotmail.com #
#This program is free software: you can redistribute it and/or modify #
#it under the terms of the GNU General Public License as... | mantarayforensics/mantaray | Tools/Python/get_system_version.py | Python | gpl-3.0 | 3,323 | [
"Jaguar"
] | cafe38126d44a17d8c79e3ed91620153c6a5f8f6d214bd63b6d4da27d6c563ad |
# Copyright (C) 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 versio... | espressomd/espresso | testsuite/scripts/samples/test_chamber_game.py | Python | gpl-3.0 | 1,305 | [
"ESPResSo"
] | afef5a308234ecc88f7c69d442742e852723c7bd0239bb3f46b441f821706e72 |
"""The Request Task Agent takes request tasks created in the
TransformationDB and submits to the request management system.
The following options can be set for the RequestTaskAgent.
.. literalinclude:: ../ConfigTemplate.cfg
:start-after: ##BEGIN RequestTaskAgent
:end-before: ##END
:dedent: 2
:caption: Reques... | fstagni/DIRAC | TransformationSystem/Agent/RequestTaskAgent.py | Python | gpl-3.0 | 2,414 | [
"DIRAC"
] | f7a8d2c5222afcfd01c8dd8bed6c5bc6d5a9ca5a2bb39852ec78d95c44bb2fe8 |
class UMGrid:
"""
Interpolate the ocean mask onto the UM grid.
Creates the land fraction and mask, later used as an input to the UM.
"""
def __init__(self, um_restart, num_lon_points, num_lat_points, mom_grid,
output_dir):
self.SOUTHERN_EXTENT = -89.995002746582031
... | DoublePrecision/esmgrids | esmgrids/um_grid.py | Python | apache-2.0 | 13,744 | [
"NetCDF"
] | 0bcc4cff88531577a9824d5c1030f3b83ae10e00017892ad5136f10993e421da |
import subprocess
import sys
import os
# This script is an attempt to use PyMOL to do the RosettaAntibody superimposition
# You have to get permission to use ProFit and the PyRosetta script they provided does not seem to work
if (len(sys.argv) != 2):
print "Usage: python superimpose_pymol.py profit.in"
... | schenc3/InteractiveROSETTA | InteractiveROSETTA/server/superimpose_pymol.py | Python | gpl-2.0 | 2,951 | [
"PyMOL"
] | 76f3410befeed9102a71df78a064ea65b850668e1421045e13c876246cc38508 |
# -*- coding: utf-8 -*-
# These tests require a working internet connection.
from __future__ import unicode_literals
from __future__ import print_function
from __future__ import division
from builtins import str, bytes, dict, int
from builtins import map, zip, filter
from builtins import object, range, next
import o... | clips/pattern | test/test_web.py | Python | bsd-3-clause | 46,049 | [
"VisIt"
] | c8cfdcb740418c828a5a617ede32061aadf51e42dd26a34ee69e41efe81fed3e |
"""
Python Interchangeable Virtual Instrument Library
Copyright (c) 2017 Alex Forencich
Permission is hereby granted, free of charge, to any person obtaining a copy
of this software and associated documentation files (the "Software"), to deal
in the Software without restriction, including without limitation the righ... | alexforencich/python-ivi | ivi/rigol/rigolDSSource.py | Python | mit | 19,204 | [
"Gaussian"
] | e5f48921da0c750b78c24f7b8844d14385b95d35d4b7006f1e50c8e0f2276f96 |
"""
desitarget.cmx.cmx_cuts
========================
Target Selection for DESI commissioning (cmx) derived from `the cmx wiki`_.
A collection of helpful (static) methods to check whether an object's
flux passes a given selection criterion (*e.g.* STD_TEST).
.. _`the Gaia data model`: https://gea.esac.esa.int/archive... | desihub/desitarget | py/desitarget/cmx/cmx_cuts.py | Python | bsd-3-clause | 105,684 | [
"Galaxy"
] | 4bbc080ddeaa249090642047c8e34b4370f2d23385175e81f8a8fa35a6ffbbeb |
import coords
import numpy as np
import ephem
from scipy.stats import norm
import matplotlib.pyplot as plt
from matplotlib.ticker import FuncFormatter,MultipleLocator
size = 1000
def gaussian(x,mu,sig):
return np.e**(-((x-mu)**2)/(2*sig**2))
def fanbeam_model(ns_mean,ew_mean,ns_offsets,ew_offsets):
ns_fwhm =... | ewanbarr/UtmostFanbeamMapper | localisation_maps.py | Python | apache-2.0 | 6,758 | [
"Gaussian"
] | a6e780d0d9cb97848ec75e3fa6bbcf886efe8f65c227a9a6f29492cd0d7a204d |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
try:
from setuptools import setup
except ImportError:
from distutils.core import setup
readme = open('README.rst').read()
history = open('HISTORY.rst').read().replace('.. :changelog:', '')
requirements = [
# TODO: put package requirements here
]
test_require... | petrilli/pkpserver | setup.py | Python | bsd-3-clause | 1,447 | [
"Amber"
] | e9861964307fcb58453ebae4e1961e81a0a5157a79d84632696c1050a1f8fef8 |
'''
This is theia, a Python package for Gaussian ray tracing in 3D optical setups.
'''
__author__ = u"Rapha\u00EBl Duque"
__copyright__ = u"Copyright 2017-2018, Rapha\u00EBl Duque"
__credits__ = [u"Rapha\u00EBl Duque"]
__license__ = "GNU GPLv3+"
__version__ = "0.1.3"
__status__ = "stable"
__maintainer__ = u"Rapha\u00... | bandang0/theia | theia/__init__.py | Python | gpl-3.0 | 397 | [
"Gaussian"
] | c981d7eb5560646d967da3d6cde727a3c15285aa7b7fe04c7d3ca2cacdec0734 |
#!/usr/bin/env python3
#
# Copyright (C) 2020(H)
# Institute Jozef Stefan
# Max Planck Institute for Polymer Research
# Copyright (C) 2013-2017(H)
# Max Planck Institute for Polymer Research
#
# This file is part of ESPResSo++.
#
# ESPResSo++ is free software: you can redistribute it and/or modify
# ... | espressopp/espressopp | testsuite/FixedLocalTuple/testFixedLocalTupleList.py | Python | gpl-3.0 | 4,639 | [
"ESPResSo"
] | 26f8630b38eb75dc2f307209b3c8e33c7897d747c0db2bdad031104566c488d2 |
#!/usr/bin/env python
#
# This file is part of the Fun SDK (fsdk) project. The complete source code is
# available at https://github.com/luigivieira/fsdk.
#
# Copyright (c) 2016-2017, Luiz Carlos Vieira (http://www.luiz.vieira.nom.br)
#
# MIT License
#
# Permission is hereby granted, free of charge, to any person obtai... | luigivieira/fsdk | fsdk/detectors/immersion.py | Python | mit | 15,698 | [
"Gaussian"
] | 60a09440c238882c701c9a968975b6effe5dd65b21d372d77dd3b7616a577a75 |
# Licensed under a 3-clause BSD style license - see LICENSE.rst
import functools
import types
import warnings
import numpy as np
from ..units.core import Unit, UnitsError
from ..units.quantity import Quantity
from ..utils import lazyproperty
from ..utils.exceptions import AstropyUserWarning
from ..utils.misc import I... | DougBurke/astropy | astropy/constants/constant.py | Python | bsd-3-clause | 8,583 | [
"Gaussian"
] | fbeda3e7dfbc977ade53fd2fb43d3f9bcbb3543e01aa09bbcd2288fca59c2292 |
"""
This module contain solvers for all kinds of equations:
- algebraic or transcendental, use solve()
- recurrence, use rsolve()
- differential, use dsolve()
- nonlinear (numerically), use nsolve()
(you will need a good starting point)
"""
from __future__ import print_function, division
f... | ga7g08/sympy | sympy/solvers/solvers.py | Python | bsd-3-clause | 121,880 | [
"Gaussian"
] | 23c58e945f15881b6011f739df804a5ffef6ae95fc0dd8246c2180f3efe00fab |
# coding=utf-8
import numpy as np
from mpi4py import MPI
from petsc4py import PETSc
from numpy import pi
from src import stokes_flow as sf
from src import geo
from tqdm import tqdm
# from multiprocessing import cpu_count, Pool
# from numba import jit
# import numexpr as ne
# from numpy import linalg as LA
def delta... | pcmagic/stokes_flow | src/StokesFlowMethod_bck.py | Python | mit | 70,276 | [
"DIRAC"
] | 9961fdb41f6e7841ecb038f29f627627c03b2066bd47493fe05c4c1e614c36d4 |
# -------------------------------------------------------------------------
# Copyright (C) 2005-2013 Martin Strohalm <www.mmass.org>
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundat... | lukauskas/mMass-fork | mspy/mod_signal.py | Python | gpl-3.0 | 20,335 | [
"Gaussian"
] | 705442d9722acf8c813b96ac3dcdd15a3590d7434f5e1875a17112b6952bb6c3 |
import pytest
import cocrawler.surt as surt
def netloc1(netloc, parse):
test_parse = surt.parse_netloc(netloc)
assert test_parse == parse
def netloc2(netloc, parse):
'''
Bi-directional test
'''
test_parse = surt.parse_netloc(netloc)
assert test_parse == parse
test_unparse = surt.unp... | cocrawler/cocrawler | tests/unit/test_surt.py | Python | apache-2.0 | 9,063 | [
"VisIt"
] | 5b363ad2b5ecadb9a0435ecce24cd383b8cfc34a0360efdbe3a488284dbdfc99 |
import numpy as np
import matplotlib.pyplot as plt
class TwoLayerNet(object):
"""
A two-layer fully-connected neural network. The net has an input dimension of
N, a hidden layer dimension of H, and performs classification over C classes.
We train the network with a softmax loss function and L2 regularization ... | Alexoner/mooc | cs231n/2016/assignment1/cs231n/classifiers/neural_net.py | Python | apache-2.0 | 11,432 | [
"NEURON"
] | 08882b0d8d91e2257b6f5b9a628bbeab09f4f1e3734387c02b9b39b8a2658124 |
from __future__ import absolute_import
from .gaussian import gauss_test
from .perceptron import neural_net_test
from .nearest_neighbor import knn_test
from .decision_tree import decision_tree_test
CLASSIFIERS = {
'knn': knn_test,
'gauss': gauss_test,
'dtree': decision_tree_test,
'nnet': neural_net_test... | all-umass/superman | superman/classifiers/__init__.py | Python | mit | 323 | [
"Gaussian"
] | 878bd62340ec8c4f4d44e5293514dc6e30391dd1f1ade5285a3e434341edf72c |
# Copyright 2014-2019 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by appl... | sunqm/pyscf | pyscf/adc/test/test_radc/test_H2O_radc_ip.py | Python | apache-2.0 | 3,400 | [
"PySCF"
] | 35df0bbbbe5d2b8ef8a69d9c1cacf0b9b05c56cee2b3dbe63f983434f80fcd04 |
#!/usr/bin/env python
import json
import vtk
import sys
if len(sys.argv) != 4:
print('requires 3 arguments: .mesh file, .param file, output vtu file')
exit(-1)
#open topology file
with open(sys.argv[1]) as f:
mesh = json.load(f)
#open parameter file
with open(sys.argv[2]) as f:
param = json.load(f)... | Chrismarsh/mesher | tools/mesh2vtu.py | Python | gpl-3.0 | 2,439 | [
"VTK"
] | 2a59b7c380f449a6ffb516694ae896571bc0d236786a37e56a875c19eec283a0 |
# This file is part of the Trezor project.
#
# Copyright (C) 2012-2018 SatoshiLabs and contributors
#
# This library is free software: you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License version 3
# as published by the Free Software Foundation.
#
# This library is distrib... | jhoenicke/python-trezor | trezorlib/client.py | Python | lgpl-3.0 | 12,468 | [
"VisIt"
] | e2dd6a06d663c6510edc8c15bef00a2f102222eca63291599b5b6753f433ec84 |
#
# Copyright 2019, 2021 Lars Pastewka (U. Freiburg)
#
# matscipy - Materials science with Python at the atomic-scale
# https://github.com/libAtoms/matscipy
#
# 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... | libAtoms/matscipy | scripts/diffusion/rms.py | Python | lgpl-2.1 | 2,011 | [
"ASE",
"Matscipy"
] | 439a33c7b1671cca01396db0f7f670fdd5197859ed1a8c12192d54bb3063829b |
#! /usr/bin/env python
from gammalib import *
from math import *
# ====================== #
# Test Gaussian gradient #
# ====================== #
def gauss(dir, sigma):
"""
Test Gaussian gradient.
"""
# Compute derivative
dh = 0.0001
s = GSkyDir()
f1 = GModelSpatialGauss(s, sigma)
f2 ... | cdeil/gammalib | inst/cta/test/test_gauss.py | Python | gpl-3.0 | 2,325 | [
"Gaussian"
] | 37e57987d7409d9d0aa8476c8e981e93e22051d862323f803796788b2fd1ae5c |
from ase.structure import molecule
from ase.parallel import rank, barrier
from gpaw import GPAW, FermiDirac
from gpaw.test import equal, gen
# Generate setup for oxygen with a core-hole:
gen('O', name='fch1s', xcname='PBE', corehole=(1, 0, 1.0))
atoms = molecule('H2O')
atoms.center(vacuum=2.5)
calc = GPAW(xc='PBE')... | ajylee/gpaw-rtxs | gpaw/test/h2o_dks.py | Python | gpl-3.0 | 1,389 | [
"ASE",
"GPAW"
] | e0003aa68557c2b31d016dc53d4dcaea75c235e7d910d1a4b813d352aa88eaf8 |
# -*- coding: utf-8 -*-
r"""
.. _tut-mvpa:
===============
Decoding (MVPA)
===============
.. include:: ../../links.inc
Design philosophy
=================
Decoding (a.k.a. MVPA) in MNE largely follows the machine
learning API of the scikit-learn package.
Each estimator implements ``fit``, ``transform``, ``fit_trans... | mne-tools/mne-python | tutorials/machine-learning/50_decoding.py | Python | bsd-3-clause | 16,736 | [
"VisIt"
] | 96974113d4059c6515c92aee71c4927bb935e2f1e977a0b36ee9923462d7c60d |
# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
class RRhdf5filters(RPackage):
"""HDF5 Compression Filters
Provides a collection of compres... | LLNL/spack | var/spack/repos/builtin/packages/r-rhdf5filters/package.py | Python | lgpl-2.1 | 896 | [
"Bioconductor"
] | b930f7c7fdbf9753de8ed7d7416dc419a20884e29923472eaff16b21cc30c4d2 |
# Autodetecting setup.py script for building the Python extensions
#
import sys, os, importlib.machinery, re, optparse
from glob import glob
import importlib._bootstrap
import importlib.util
import sysconfig
from distutils import log
from distutils import text_file
from distutils.errors import *
from distutils.core i... | tpsatish95/Python-Workshop | Python Environment Setup/Alternate/1. Python/1. Installer/Python-3.4.0(Linux)/setup.py | Python | apache-2.0 | 96,677 | [
"VisIt"
] | cc08a983c5b250ccea8d4429805499e462fd9ce0dcac0f94183c87180a97c45d |
import pytest
from pysisyphus.helpers import geom_loader
from pysisyphus.run import run_from_dict
from pysisyphus.testing import using
@using("pyscf")
@pytest.mark.parametrize("coord_type, cos_type", [("dlc", "gs"), ("cart", "neb")])
def test_preopt(coord_type, cos_type, this_dir):
run_dict = {
"geom": {... | eljost/pysisyphus | tests/test_preopt/test_preopt.py | Python | gpl-3.0 | 1,607 | [
"PySCF"
] | 02d7033f40accb9c004a5b52eac7a5bed852df3419d12b560fd47e3a2eaf0ca0 |
# cell_test_util.py ---
#
# Filename: cell_test_util.py
# Description: Utility functions for testing single cells
# Author:
# Maintainer:
# Created: Mon Oct 15 15:03:09 2012 (+0530)
# Version:
# Last-Updated: Thu Jul 18 18:36:07 2013 (+0530)
# By: subha
# Update #: 299
# URL:
# Keywords:
# Compatib... | dilawar/moose-full | moose-examples/traub_2005/py/cell_test_util.py | Python | gpl-2.0 | 8,987 | [
"MOOSE",
"NEURON"
] | ad82bd0c5772285cf2a248763fe61abb1593674d45d05ac55eb5e6dbbc68cfcd |
# emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
# vi: set ft=python sts=4 ts=4 sw=4 et:
"""Provides interfaces to various commands provided by FreeSurfer
Change directory to provide relative paths for doctests
>>> import os
>>> filepath = os.path.dirname( os.path.realpath( __file__ )... | sgiavasis/nipype | nipype/interfaces/freesurfer/preprocess.py | Python | bsd-3-clause | 92,272 | [
"Gaussian"
] | 014ef0c3ed876a2b6776e570d9c4deab79c03b882cd030fafd0501b157664df5 |
# Licensed under a 3-clause BSD style license - see LICENSE.rst
"""
Tests that relate to fitting models with quantity parameters
"""
import numpy as np
import pytest
from astropy.modeling import models
from astropy import units as u
from astropy.units import UnitsError
from astropy.tests.helper import assert_quantit... | bsipocz/astropy | astropy/modeling/tests/test_quantities_fitting.py | Python | bsd-3-clause | 6,571 | [
"Gaussian"
] | 62ba43e175164f45da3d0816a955bbcf4b5823d766b0fa9622aaeba8b9c660ba |
#!/usr/bin/env python3
from tkinter import *
from tkinter import messagebox, filedialog, Menu
import tkinter.ttk as ttk
#from tkinter.ttk import *
import os
import constants as co
#os.chdir(os.path.dirname(__file__))
class q2mm_gui():
def __init__(self):
self.anchor = W
self.cur_dir = os.g... | ericchansen/q2mm | q2mm/gui.py | Python | mit | 13,585 | [
"Amber",
"Gaussian",
"Jaguar",
"MacroModel",
"PySCF",
"TINKER"
] | 3f3ebcea9fa3c66b4e25e21751be2f5634b470b6576fd92c588a465d468305b4 |
"""The Cauchy distribution."""
from equadratures.distributions.template import Distribution
from equadratures.distributions.recurrence_utils import custom_recurrence_coefficients
import numpy as np
from scipy.stats import cauchy
RECURRENCE_PDF_SAMPLES = 8000
class Cauchy(Distribution):
"""
The class defines a ... | Effective-Quadratures/Effective-Quadratures | equadratures/distributions/cauchy.py | Python | lgpl-2.1 | 3,836 | [
"Gaussian"
] | 85b730df0e39bda251068d50624f8c11b643af5e96a765891fbde64514993b77 |
#
# Licensed to the Apache Software Foundation (ASF) under one or more
# contributor license agreements. See the NOTICE file distributed with
# this work for additional information regarding copyright ownership.
# The ASF licenses this file to You under the Apache License, Version 2.0
# (the "License"); you may not us... | lukecwik/incubator-beam | sdks/python/apache_beam/transforms/ptransform.py | Python | apache-2.0 | 40,169 | [
"VisIt"
] | b7b9ae22104051cfea63d216bd5ef1f4c8a288329d78d6099ed77b07aaf4f9a5 |
# Copyright (C) 2013-2017 2ndQuadrant Limited
#
# This file is part of Barman.
#
# Barman 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... | infoxchange/barman | barman/output.py | Python | gpl-3.0 | 38,993 | [
"ESPResSo"
] | 3c3dd88651c9f769d02acdd6019468849292436fee116c8a1b8be29f76ca18b0 |
# 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... | psci2195/espresso-ffans | src/python/espressomd/cluster_analysis.py | Python | gpl-3.0 | 5,358 | [
"ESPResSo"
] | b00015684afda6d580c62d06a2c2436f0e9f91bcf1b980b4ed57b5d4c40ff922 |
#!/usr/bin/env python
# encoding: utf-8
r"""
Woodward-Colella blast wave problem
===================================
Solve the one-dimensional Euler equations for inviscid, compressible flow:
.. math::
\rho_t + (\rho u)_x & = 0 \\
(\rho u)_t + (\rho u^2 + p)_x & = 0 \\
E_t + (u (E + p) )_x & = 0.
The flu... | numerical-mathematics/ssp-lmm-vss_RR | woodward_colella_1d.py | Python | bsd-2-clause | 6,304 | [
"BLAST"
] | a8b1a168c848d86167f2eae81babb7ae20c39bc1f3cccd8403bab59e6bddf487 |
#!/usr/bin/env python
# -*- coding: utf8 -*-
from __future__ import print_function
import numpy as np
from netCDF4 import Dataset
import mkCdf
# EU15(15) = (/ "AT", "BE", "DK", "FI", "FR", "DE", "GR", "IE", "IT", &
# "NL", "PT", "ES", "SE", "GB", "LU" /),&
# EU27(27) = (/ EU15,"HU", "PL", "CY", ... | mifads/pyscripts | emxmisc/mkEUmask.py | Python | gpl-3.0 | 2,071 | [
"NetCDF"
] | 3646a42ab13c6f33502dcdd6ddebe0d9815a6073df55b2f36e30cac7e6f81d19 |
#!/usr/bin/env python
#pylint: disable=missing-docstring
#################################################################
# DO NOT MODIFY THIS HEADER #
# MOOSE - Multiphysics Object Oriented Simulation Environment #
# #... | Chuban/moose | python/chigger/tests/geometric/base/scale.py | Python | lgpl-2.1 | 1,612 | [
"MOOSE",
"VTK"
] | e99e1f4ef3e6c7d57927b48ee973f1a35ec3a1f8331c93a903d1aaf8a1bb93b2 |
#!/usr/bin/env python
import sys
import numpy as np
try:
# Matplotlib is not a dependency
import matplotlib as mpl
mpl.use('Agg') # force the antigrain backend
except (ImportError, RuntimeError):
mpl = None
from ase.units import Bohr
from gpaw.mpi import world, distribute_cpus
from gpaw.utilities.to... | qsnake/gpaw | gpaw/test/parallel/ut_invops.py | Python | gpl-3.0 | 19,638 | [
"ASE",
"GPAW",
"Gaussian"
] | 17968035577501407f4ac83bc22b5b43c67d85ae0df76c101b486ae599392a5f |
#!/usr/bin/env python
from __future__ import print_function
import os
import sys
import json
import argparse
import logging
import fnmatch
import rethinkdb
LOG = logging.getLogger('shotgunCache')
SCRIPT_DIR = os.path.dirname(__file__)
DEFAULT_CONFIG_PATH = '~/shotguncache'
CONFIG_PATH_ENV_KEY = 'SHOTGUN_CACHE_CONFIG... | moonbot/shotgun-cache-server | shotgunCache/main.py | Python | mit | 23,605 | [
"VisIt"
] | c4c2f6f7d269eb28f10050c9c481eec34104643e95e60aeed03e2ae3ab9d1f85 |
from constants import *
import roles
import random
class KevinBotArgumentException(Exception):
pass
class KevinBotSettingException(Exception):
pass
class KevinBotPermissionException(Exception):
pass
class KevinBotGM:
def __init__(self, commandHandler, channel):
self.commandHandler = commandH... | t3nsor/kevinbot | kevinbot.py | Python | mit | 31,843 | [
"Brian"
] | a7806481d995ac7dbe9e8abe6e5de818558650f18f7dd146365f6dec0c18353d |
import unittest
from nose.tools import (assert_in, assert_raises, assert_equals)
import io
import logging
import numpy
from sknn.mlp import MultiLayerPerceptron as MLP
from sknn.mlp import Regressor as MLPR
from sknn.mlp import Classifier as MLPC
from sknn.mlp import Layer as L
import sknn.mlp
class TestTrainingPr... | gticket/scikit-neuralnetwork | sknn/tests/test_training.py | Python | bsd-3-clause | 3,171 | [
"Gaussian"
] | 97aae94bdb54acfe7476214e651031a2ee40427f294088d2dd59d3311803285e |
# -*- coding: utf-8 -*-
"""Shortest paths and path lengths using A* ("A star") algorithm.
"""
# Copyright (C) 2004-2015 by
# Aric Hagberg <hagberg@lanl.gov>
# Dan Schult <dschult@colgate.edu>
# Pieter Swart <swart@lanl.gov>
# All rights reserved.
# BSD license.
from heapq import heappush, heappop
fr... | LumPenPacK/NetworkExtractionFromImages | win_build/nefi2_win_amd64_msvc_2015/site-packages/networkx/algorithms/shortest_paths/astar.py | Python | bsd-2-clause | 4,949 | [
"VisIt"
] | 4cca1c12fc8afea968b87eebb445ee455431aade97d71081bf07d1eb8726f3a9 |
import numpy as np
import scipy as sp
from abc import ABCMeta, abstractmethod
class DataSet(object):
def __init__(self, data = None, params=None):
if data is None:
self._data = []
self._params = []
elif params is None:
self._data = data
self._param... | mmechelke/bayesian_xfel | bxfel/model/optimize.py | Python | mit | 27,125 | [
"Gaussian"
] | 9083066e2caeb6b02491d35808d7c2ea6ed424d5a723ba69fd6a9c8f0470d501 |
# -*- coding: utf-8 -*-
#
# (c) Copyright 2001-2009 Hewlett-Packard Development Company, L.P.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at your opt... | Alberto-Beralix/Beralix | i386-squashfs-root/usr/share/hplip/ui4/devmgr5.py | Python | gpl-3.0 | 79,729 | [
"VisIt"
] | ef25f019526b874da436e4e8b4088d1db4be9847764a3eb1692c821ad2d108ea |
# $Id$
#
# Copyright (C) 2007-2008 Greg Landrum
# @@ 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
from rdkit.Chem import AllCh... | rdkit/rdkit-orig | rdkit/Chem/MolDb/Loader_orig.py | Python | bsd-3-clause | 6,137 | [
"RDKit"
] | 124e01cd4670b8bff2de9d30a5445325087141b7d8bd00683842a57ca9ae724c |
"""Handle extraction of final files from processing pipelines into storage.
"""
import datetime
import os
import toolz as tz
from bcbio import log, utils
from bcbio.upload import shared, filesystem, galaxy, s3
from bcbio.pipeline import run_info
import bcbio.pipeline.datadict as dd
_approaches = {"filesystem": files... | mjafin/bcbio-nextgen | bcbio/upload/__init__.py | Python | mit | 23,416 | [
"Galaxy"
] | d5cab79168d186df3d33bd0eadd7d96b77b33487b166086c1b4f0414ff2a7dd0 |
"""Forest of trees-based ensemble methods
Those methods include random forests and extremely randomized trees.
The module structure is the following:
- The ``BaseForest`` base class implements a common ``fit`` method for all
the estimators in the module. The ``fit`` method of the base ``Forest``
class calls the ... | costypetrisor/scikit-learn | sklearn/ensemble/forest.py | Python | bsd-3-clause | 61,223 | [
"Brian"
] | b54889dba9f3794b1715cc043634531bf06dcf5647bc5bb33f22c62947ec9c0f |
UNIFORM = 'uniform'
GAUSSIAN = 'gaussian'
LORENTZIAN = 'lorentzian'
# Distance is in mm, energy in MeV
MM = 1
MEV = 1
STEP_DISTANCE = 1
# 1%/cm
ABSORPTION_PROB = 0.001
# 10%/cm
COLLISION_PROB = 0.01
COLLISION_DEPOSIT = 2
PROPAGATION_DEPOSIT = 0.15
| DanielBrookRoberge/MonteCarloExamples | particle-beam/const.py | Python | mpl-2.0 | 250 | [
"Gaussian"
] | 955363759f1dae7adf6f1dda8c8cf63a4d42150df034d395a1b9dce5e00814f1 |
#
# Run a tiny little web server to serve up json-wrapped wordspew. Usage:
# python generatePhrasesWeb.py
# then go to a web browser and visit:
# http://localhost:8080/spew?getspew&num=20
# Adjust the num parameter to change the number of phrases that are spewed
#
# requires: the fabulous webpy module - see: http://web... | bhautikj/wordspew | examples/generatePhrasesWeb.py | Python | mit | 942 | [
"VisIt"
] | 23e4c12a2673a7f64c03eb7a93881cdde381d9fa639ba8b231b887fb0074ea28 |
import unittest
from os import path
import os
import numpy as np
from netCDF4 import Dataset
from pyproj import Proj
from shyft.api import Calendar
# from shyft.api import UtcPeriod
# from shyft.api import TemperatureSource
from shyft.api import TimeSeries
from shyft.api import TimeAxis
from shyft.api import point_int... | felixmatt/shyft | shyft/tests/test_netcdf_rw.py | Python | lgpl-3.0 | 37,160 | [
"NetCDF"
] | defa2feed3dca01bba712c4c5064c72455c8a7477feec672537b5727a8ca141d |
from __future__ import print_function
from builtins import range
import sys
sys.path.insert(1,"../../")
import h2o
from tests import pyunit_utils
import random
import os
def javapredict_dynamic_data():
# Generate random dataset
dataset_params = {}
dataset_params['rows'] = random.sample(list(range(5000,150... | nilbody/h2o-3 | h2o-py/tests/testdir_javapredict/pyunit_javapredict_dynamic_data_paramsDL.py | Python | apache-2.0 | 3,492 | [
"Gaussian"
] | 870b15f81e9845c81d559df8fe394133b1f4688f2b8351ad76b4373bcbcdf137 |
# -*- 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/DLPoly.py | Python | gpl-2.0 | 8,736 | [
"DL_POLY",
"MDAnalysis"
] | d0e5d8015e8ccdd40b75c2c56d90f0d53c433357dfc3a17ff7b7461b06408dcb |
# -*- coding: utf-8 -*-
"""
Created on Fri Jul 27 10:08:25 2018
@author: cdeline
Using pytest to create unit tests for modelchain.
to run unit tests, run pytest from the command line in the bifacial_radiance directory
to run coverage tests, run py.test --cov-report term-missing --cov=bifacial_radiance
"""
#from bi... | NREL/bifacial_radiance | tests/test_modelchain.py | Python | bsd-3-clause | 1,912 | [
"EPW"
] | 03253d514e033f1006e7a765756cdfeb58df7714eee9d76a430a65cc5b30b857 |
#!/usr/bin/env python
# Generic driver for the Neato XV-11 Robot Vacuum
# Copyright (c) 2010 University at Albany. All right reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are met:
# * Redistributions of source c... | DakotaNelson/robo-games | neato_robot/neato_driver/src/neato_driver/neato_driver.py | Python | mit | 17,741 | [
"Amber"
] | c98493ef19f6a711bc14c4a5892e41d57d4b545c5e39da3be523b15e29b0c822 |
#!/usr/bin/env python
# Copyright 2014-2018 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# U... | sunqm/pyscf | pyscf/dft/test/test_xcfun.py | Python | apache-2.0 | 21,271 | [
"PySCF"
] | 0b575bdcc38201fe3daba0e87c9d7c9619be5504f89a8c699413cca40af1caa6 |
#!/usr/bin/env python
# Copyright 2014-2019 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# U... | gkc1000/pyscf | pyscf/prop/efg/dhf.py | Python | apache-2.0 | 3,798 | [
"PySCF"
] | 5f6a4115a597bd5a6d2bcac58a8cd624c95f42282502a55bf0ae41432f69abaa |
#!/usr/bin/env python
# Copyright 2014-2019,2021 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
... | sunqm/pyscf | pyscf/pbc/df/df.py | Python | apache-2.0 | 42,136 | [
"Gaussian",
"PySCF"
] | d38f7a40d2f99cf1bc70c0de44384c151af479b770633287c46606710f9d9ce3 |
## INFO ########################################################################
## ##
## cutils ##
## ====== ... | petervaro/cutils | pycutils/cutils/internal/table.py | Python | gpl-3.0 | 8,596 | [
"VisIt"
] | 42b1c19545720d7b345db6b54ec0771e2b59b8b2a2929a08c63aeaf236cd8c8b |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.