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# Copyright 2021, Google LLC.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing... | tensorflow/privacy | tensorflow_privacy/privacy/dp_query/tree_aggregation_test.py | Python | apache-2.0 | 18,269 | [
"Gaussian"
] | 034d22167ed2add2f6fedb5242fa1c33f3893bba740506ff7f560312cbe5d3ab |
from scipy import misc
from skimage import color
import numpy as np
import sompy
import os
import pickle
import random
from sompy.visualization.bmuhits import BmuHitsView
def createDatasetSom (trainingDir, ratio):
dataset = None #trainig data
for filename in os.listdir(trainingDir):
if filename.end... | mrichart/NNcoloring | src/som.py | Python | mit | 4,213 | [
"Gaussian",
"NEURON"
] | 3a2e9b3bdfd76df2a1963c7025f17113d5964f7b54e51a0c7ce8620467f80eac |
from __future__ import division, print_function
import numpy as np
import nose.tools as nt
import regreg.api as rr
from ..lasso import lasso, selected_targets, full_targets, debiased_targets
from ...tests.instance import gaussian_instance
from ...tests.flags import SET_SEED
from ...tests.decorators import set_sampli... | selective-inference/selective-inference | selectinf/randomized/tests/test_lasso.py | Python | bsd-3-clause | 13,984 | [
"Gaussian"
] | 1e8515623db004799711b3366fbe8c2e5e689da06f7da886f66bd35870b6911d |
#!/usr/bin/env python
# Encoding: utf-8
# -----------------------------------------------------------------------------
# Project : OKF - Spending Stories
# -----------------------------------------------------------------------------
# Author : Edouard Richard <edou4rd@gmail.com>
# ---... | okfn/spendingstories | webapp/core/fields.py | Python | gpl-3.0 | 7,991 | [
"BWA"
] | 1749e7d35de95410a9a79742f7e5772bfc9428a88a464de852af72f9193bcb26 |
import zmq, time
import numpy as np
import copy
import sys, json, pdb, pickle, operator, collections
import helper
import predict as predict
from train import load_data
from itertools import izip
import inflect
from sklearn.metrics.pairwise import cosine_similarity
from sklearn.feature_extraction.text import TfidfVecto... | adi-sharma/RLIE_A3C | code/server_multiprocessing.py | Python | mit | 62,206 | [
"Gaussian"
] | 2dff14ce8faf84f45c2e389421610c39e7c56498d9e5dde16674078ff635308d |
# -*- coding: utf-8 -*-
"""
Electrostatic potential simulation
==================================
"""
from math import sqrt
import numpy as np
from numpy import pi
from scipy.special import k0 as bessel
from .. import minimum_image_distance
from .scattering_params import scattering_params
m = 9.109 * 10 ** (-31) # ... | LaurentRDC/scikit-ued | skued/simulation/potential.py | Python | gpl-3.0 | 4,659 | [
"CRYSTAL"
] | 971baa4e9b0e6f12292409d272707d7fa9c5a7585a3cb9dd78276c257512d8a6 |
"""CLI script to simulate transcriptome reads
"""
import sys, argparse, gzip, os, itertools
from seqtools.format.gpd import GPDStream
from seqtools.format.fasta import FASTAData
from seqtools.structure.transcriptome import Transcriptome
from seqtools.simulation.emitter import TranscriptomeEmitter
from seqtools.simulat... | jason-weirather/py-seq-tools | seqtools/cli/utilities/simulate_tx.py | Python | apache-2.0 | 10,034 | [
"Gaussian"
] | c0ec33f9e782e8ccc2c82b85ec01cf604742864530741c87d397d1bf4a4da351 |
# -*- coding: utf-8 -*-
"""
ORCA Open Remote Control Application
Copyright (C) 2013-2020 Carsten Thielepape
Please contact me by : http://www.orca-remote.org/
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as publi... | thica/ORCA-Remote | src/ORCA/utils/Platform/generic/generic_GetDrives.py | Python | gpl-3.0 | 1,003 | [
"ORCA"
] | 85952ddcbbc1a989d2b70acf45381116481d9b5c240f2330ec502cf4e9890849 |
from django.db import models
from django.core.cache import cache
from protein.models import Protein
from residue.models import Residue
from mutation.models import Mutation
from construct.schematics import generate_schematic
from common.diagrams_gpcr import DrawSnakePlot
import pickle
class Construct(models.Model):
... | cmunk/protwis | construct/models.py | Python | apache-2.0 | 18,892 | [
"CRYSTAL"
] | d5762da7e18854ccd4dc3330a508f28f2096578735dbd3fd8c97ed32d92a4e50 |
# -*- coding: utf-8 -*-
import os
import os.path
# FAS usernames of people can that approve/reject proposals
ADMINS = ('lmacken', 'spot')
# Available Languages
LANGUAGES = {
'en': 'English',
'es': 'Español'
}
# Displayed at the top of the index
NOTICE = 'This site is currently in TESTING mode. Registration... | fedora-infra/flock-registration | wsgi/config_default.py | Python | gpl-2.0 | 1,575 | [
"VisIt"
] | 41137a5ee3c6d450807d7135eb4ffde181c4fa209a09c1a4cddc4b8cf7385e38 |
import MDAnalysis as mda
import numpy as np
from numpy.testing import (assert_equal, assert_,
assert_almost_equal, assert_raises)
from MDAnalysisTests.coordinates.reference import RefACHE, RefCappedAla
from MDAnalysisTests.datafiles import (PRM, TRJ, TRJ_bz2, PRMpbc, TRJpbc_bz2)
from MDAnal... | alejob/mdanalysis | testsuite/MDAnalysisTests/coordinates/test_trj.py | Python | gpl-2.0 | 4,236 | [
"MDAnalysis"
] | e05aa35b8c2269febc9357a6212e5d9be6a60aa411dd8135dad77e5160d6df21 |
"""
Modules defining cross-correlated samples.
Has classes for both pure HOD cross-correlations
(i.e. number of cross-pairs) and for HaloModel-derived quantities
based on these cross-pairs.
To construct a :class:`CrossCorrelations` one need to specify the
halo models to be cross-correlated, and how they're correlated... | steven-murray/halomod | src/halomod/cross_correlations.py | Python | mit | 10,570 | [
"Galaxy"
] | 580e3f2bf86bdc46d9984f4b937c2c97521b6c10da6183ec5b204bd1b11310cf |
"""Rewrite assertion AST to produce nice error messages"""
import ast
import errno
import itertools
import imp
import marshal
import os
import struct
import sys
import types
import py
from _pytest.assertion import util
# Windows gives ENOENT in places *nix gives ENOTDIR.
if sys.platform.startswith("win"):
PATH_... | ktan2020/legacy-automation | win/Lib/site-packages/pytest-2.3.4-py2.7.egg/_pytest/assertion/rewrite.py | Python | mit | 22,506 | [
"VisIt"
] | 1b247a4c235e69f23a374fdb71347eb9d6d479044a6b99400e355e6742d7e648 |
#!/usr/bin/env python
# Copyright 2014-2020 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# U... | sunqm/pyscf | pyscf/gto/test/test_eval_gto.py | Python | apache-2.0 | 5,062 | [
"PySCF"
] | 6e71e7abe7180ca9fa7f6d948b12a6cf4b8d48fa937aa36b0667830a42316967 |
#!/usr/bin/python
"""
Copyright 2011 Paul Willworth <ioscode@gmail.com>
This file is part of Galaxy Harvester.
Galaxy Harvester is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of th... | clreinki/GalaxyHarvester | updateFilters.py | Python | agpl-3.0 | 9,156 | [
"Galaxy"
] | 6d3b062baf279abd49ebd0e0dee215b1d62527e5e66a75260f0acec09f2b0b6b |
# Imports.
import numpy as np
from numpy import pi
import matplotlib.pyplot as plt
import matplotlib.patheffects as PE
from matplotlib import ticker
# The ImageMagick package is needed for gifs.
# Visit http://www.imagemagick.org.
try:
from matplotlib.animation import FuncAnimation
except:
print "Couldn't find... | alurban/mentoring | tidal_disruption/scripts/schwarzschild_orbits_rk4.py | Python | gpl-3.0 | 10,732 | [
"VisIt"
] | c7a72583a9ebd9828f2e3ffc1320d139dd36c5cbebca136f590bf16a96deba21 |
""" test run for DFTB+ calculator
the tolerance is extremely loose, beause different sk files
give different results
"""
from ase.test.dftb import installed
assert installed()
from ase import Atoms
from ase.visualize import view
from ase.calculators.dftb import Dftb
from ase.constraints import FixAtoms
fro... | askhl/ase | ase/test/dftb/test_tricky.py | Python | gpl-2.0 | 2,052 | [
"ASE"
] | 5ad49b76d03b6fc1ac2e64ff67e5dd22afc62ccc256efe2c431d14e48cce57f4 |
from .node import NodeVisitor, ValueNode, ListNode, BinaryExpressionNode
from .parser import atoms, precedence
atom_names = {v:"@%s" % k for (k,v) in atoms.items()}
named_escapes = {"\a", "\b", "\f", "\n", "\r", "\t", "\v"}
def escape(string, extras=""):
# Assumes input bytes are either UTF8 bytes or unicode.
... | saneyuki/servo | tests/wpt/web-platform-tests/tools/wptrunner/wptrunner/wptmanifest/serializer.py | Python | mpl-2.0 | 4,558 | [
"VisIt"
] | 3b48696ddf03c1b8dc4f98a63a6a5b47c9fcc939eba4e2805dc1306fdaf2fd26 |
##
# Copyright 2009-2016 Ghent University
# Copyright 2015-2016 Stanford 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... | hpcleuven/easybuild-easyblocks | easybuild/easyblocks/a/amber.py | Python | gpl-2.0 | 8,914 | [
"Amber",
"NetCDF"
] | 0ff5130735bb578468bc04b82f2e08b48863a1501f6549cedf519d0f4e13770d |
# Copyright (c) 2015 Jose David Fernandez Rodriguez
#
# This file is distributed under the terms of the
# GNU Affero General Public License, version 3
# as published by the Free Software Foundation.
#
# This file is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied ... | jdfr/pyslic3r | pyclipper/plot3d.py | Python | agpl-3.0 | 4,657 | [
"Mayavi"
] | f5d2ed2aa49e7462b167eb8f31750e2a976058c8f256dc55c366e90cbd5f55e9 |
from django.db import models
from django.db.models.deletion import ProtectedError
from edc_visit_schedule.site_visit_schedules import site_visit_schedules
class AppointmentManagerError(Exception):
pass
class AppointmentManager(models.Manager):
def get_by_natural_key(self, subject_identifier, visit_schedul... | botswana-harvard/edc-appointment | edc_appointment/managers.py | Python | gpl-2.0 | 8,316 | [
"VisIt"
] | 5bda8cb987f244f57fae6ff7e8c88a1a5f712059373e1e262e94d71f9c01c4a9 |
# -*- coding: utf-8 -*-
{
"A location that specifies the geographic area for this region. This can be a location from the location hierarchy, or a 'group location', or a location that has a boundary for the area.": "Uma localização que especifica a área geográfica para esta região. Pode ser uma localização da hierarq... | gnarula/eden_deployment | languages/pt.py | Python | mit | 207,885 | [
"VisIt"
] | f1cd17c517a22e5f29dfa014324f345c66597eb6cda62f192cbde96b7a98a840 |
# -*- coding: utf-8 -*-
# vim: autoindent shiftwidth=4 expandtab textwidth=120 tabstop=4 softtabstop=4
###############################################################################
# OpenLP - Open Source Lyrics Projection #
# ------------------------------------------------------... | marmyshev/transitions | openlp/plugins/songs/forms/mediafilesform.py | Python | gpl-2.0 | 2,925 | [
"Brian"
] | f928866fb988c94ac9ffcc3a5250361768ec4ad60c9e9275fc256c230e8eb225 |
#!/usr/bin/env python
# encoding: utf-8
"""Based on code from P Barmby"""
from astropy.coordinates import ICRS, Distance, Angle
from astropy import units as u
import numpy as np
def correct_rgc(coord, glx_ctr=ICRS('00h42m44.33s +41d16m07.5s'),
glx_PA=Angle('37d42m54s'),
glx_incl=Angle('77.5d'),
... | jonathansick/synthsb | synthsb/galradii.py | Python | bsd-3-clause | 2,141 | [
"Galaxy"
] | 9287b7d716a45fc9b37fe0b4288c19640d340c0c3514a6e45dcff2db18ee55b8 |
from __future__ import with_statement
import os
from datetime import datetime
import logging
from fabric.api import *
env.user = 'bhs'
env.use_ssh_config = True
env.now = datetime.now().strftime('%Y%m%d-%H%M')
def deploy(api_server='test'):
local('npm install && bower install')
local('gulp test')
push_di... | Beit-Hatfutsot/dbs-front | fabfile.py | Python | agpl-3.0 | 707 | [
"GULP"
] | f81cf13bf6078ab8862e5243f6b591659df4d453c3fef050d206188a17eb04a0 |
# coding: utf-8
"""
This module defines the Node class that is inherited by Task, Work and Flow objects.
"""
from __future__ import division, print_function, unicode_literals
import sys
import os
import time
import collections
import abc
import six
import numpy as np
from pprint import pprint
from pymatgen.util.io_ut... | johnson1228/pymatgen | pymatgen/io/abinit/nodes.py | Python | mit | 39,056 | [
"ABINIT",
"pymatgen"
] | 21e433329cf698ae49217875e67b005bf427583c53d972f51f43ce77cd3c5da9 |
###########################################################################
# Habeluna Segmentation
#
# Modified: Aug/07/2015
###########################################################################
# dependency: nibabel, numpy, scipy
import errno
import os
import numpy as np
from scipy.optimize import curve_fit
... | junqianxulab/habenula_segmentation | src/segment_hb.py | Python | mit | 54,404 | [
"Gaussian"
] | 7b6ba541e87b3758afdc03b8caedc435d7dfd5b4b338849b344266f793591578 |
"""Defines the System class for first-principles calculations."""
import os
import shutil
import subprocess
import contextlib
import collections.abc
from fsc.export import export
from ..system import OverlapSystem
from . import _read_mmn as mmn
@export
class System(OverlapSystem):
r"""
System class for sys... | Z2PackDev/Z2Pack | z2pack/fp/_first_principles.py | Python | gpl-3.0 | 6,872 | [
"Wannier90"
] | 53e2e25b8290ac85bed3c6800adcbbe66b6542a608e218bd4acc58111d861fa5 |
#
# Copyright (C) 2007, Mark Lee
#
#http://rl-glue-ext.googlecode.com/
#
# 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... | steckdenis/rlglue-py3 | rlglue/RLGlue.py | Python | apache-2.0 | 6,211 | [
"Brian"
] | 5486a3ce5fa2cb3eed6c301cda30198f00da3f3e58d1ec3df7f59120e2eb5337 |
# coding: utf-8
"""Test mdn.specifications."""
from __future__ import unicode_literals
from webplatformcompat.models import Section
from mdn.html import HTMLText
from mdn.kumascript import KumaVisitor, SpecName, kumascript_grammar
from mdn.specifications import (
SpecSectionExtractor, Spec2Visitor, SpecDescVisito... | jwhitlock/web-platform-compat | mdn/tests/test_specifications.py | Python | mpl-2.0 | 19,677 | [
"VisIt"
] | e413b846c5b2b4458c3c9b382af2cc95ed60807c3085e5a3dde77a8a694e0471 |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2002-2006 Donald N. Allingham
# Copyright (C) 2007 Brian G. Matherly
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; ... | pmghalvorsen/gramps_branch | gramps/gen/filters/rules/note/__init__.py | Python | gpl-2.0 | 1,568 | [
"Brian"
] | faf55485390e95b5845d0c25423f0a03d574891926975f4061dc8316e7478949 |
# !usr/bin/env python2
# -*- coding: utf-8 -*-
#
# Licensed under a 3-clause BSD license.
#
# @Author: Brian Cherinka
# @Date: 2017-05-19 16:34:31
# @Last modified by: Brian Cherinka
# @Last Modified time: 2018-07-10 14:23:32
from __future__ import print_function, division, absolute_import
from marvin.tests.api.co... | albireox/marvin | python/marvin/tests/api/test_general.py | Python | bsd-3-clause | 3,850 | [
"Brian",
"Galaxy"
] | 0ad9e29340713fe7832c9b58b39cfed139d6f86682ac9cd53c9cf31df676c079 |
#!/usr/bin/env python
import numpy as np
from horton import * # pylint: disable=wildcard-import,unused-wildcard-import
# Load the Gaussian output from file
fn_fchk = context.get_fn('test/water_sto3g_hf_g03.fchk')
# Replace the previous line with any other fchk file, e.g. fn_fchk = 'yourfile.fchk'.
mol = IOData.fro... | theochem/horton | data/examples/wpart/becke.py | Python | gpl-3.0 | 1,051 | [
"Gaussian"
] | 3fd09aa63ae57d84aa26f1a484f059ff4cea1ad68e91d47378fadf65e82b8738 |
# lifcomp.py ---
#
# Filename: lifcomp.py
# Description: Leaky Integrate and Fire using regular neuronal compartment
# Author: Subhasis Ray
# Maintainer:
# Created: Fri Feb 7 16:26:05 2014 (+0530)
# Version:
# Last-Updated:
# By:
# Update #: 0
# URL:
# Keywords:
# Compatibility:
#
#
# Commentary:
#
#
#
... | BhallaLab/moose | moose-examples/snippets/lifcomp.py | Python | gpl-3.0 | 5,913 | [
"MOOSE",
"NEURON"
] | 05fd7883ec431d0dff42eb16f7566a172e2ef53c6ba7242503639c9b2fb4094b |
# -*- coding:utf-8 mode:python; tab-width:4; indent-tabs-mode:nil; py-indent-offset:4 -*-
import json
import hashlib
import uuid
import cpinterface
import sharedutilities
class Psi4Job(cpinterface.Job):
def __init__(self, *args, **kw):
super(Psi4Job, self).__init__(*args, **kw)
self.backend = "psi... | mattbernst/polyhartree | adapters/psi4.py | Python | gpl-3.0 | 13,008 | [
"GAMESS",
"NWChem",
"Psi4"
] | ba324d1df1c8adb0318fffbb73192e735d4ab6a0bdda20f328c501dd6458f0c0 |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4 fileencoding=utf-8
#
# 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)
#... | MDAnalysis/mdanalysis | testsuite/MDAnalysisTests/topology/test_crd.py | Python | gpl-2.0 | 1,574 | [
"MDAnalysis"
] | b987b1b09a1d0fce2a19df4da481a4e146ff7af33bd36cc490bdffdff7d29ed5 |
# encoding: utf-8
import datetime
from south.db import db
from south.v2 import SchemaMigration
from django.db import models
class Migration(SchemaMigration):
def forwards(self, orm):
# Adding field 'Denominator.multiplier'
db.add_column('profiles_denominator', 'multiplier', self.gf('djang... | ProvidencePlan/Profiles | communityprofiles/profiles/oldmigrations/0035_auto__add_field_denominator_multiplier.py | Python | mit | 16,284 | [
"MOE"
] | 87b1b5497fe719204caa8b06821382d4b866ccfd55db13f959d07e3dc3e9674c |
##############################################################################
# adaptiveMD: A Python Framework to Run Adaptive Molecular Dynamics (MD)
# Simulations on HPC Resources
# Copyright 2017 FU Berlin and the Authors
#
# Authors: Jan-Hendrik Prinz
# Contributors:
#
# `adaptiveMD` is free software: ... | jrossyra/adaptivemd | adaptivemd/model.py | Python | lgpl-2.1 | 1,706 | [
"MDTraj"
] | 4353032d24abc91f05351bf181f30abb5b2f25c8cbc85e9da1d6b7c5334a49fd |
import py
import sys
class CommonFSTests(object):
def test_constructor_equality(self, path1):
p = path1.__class__(path1)
assert p == path1
def test_eq_nonstring(self, path1):
p1 = path1.join('sampledir')
p2 = path1.join('sampledir')
assert p1 == p2
def test_new_ide... | youtube/cobalt | third_party/web_platform_tests/tools/py/testing/path/common.py | Python | bsd-3-clause | 15,649 | [
"VisIt"
] | 4a8d6cf174219fef94a7a373e8ac031e2bffd0c158fb40dd4263a42248792912 |
#!/usr/bin/env python
#-*- coding: utf-8 -*-
#python imports
from sys import exit
from os import path, rename,sep
from cPickle import dump
from glob import glob
try:
from hashlib import sha1 as new_sha
except ImportError:
from sha import new as new_sha
from urlparse import urljoin
#project imports
from sessio... | cria/microSICol | py/modules/form_save.py | Python | gpl-2.0 | 158,166 | [
"VisIt"
] | aa7173bf788bdd0c8dba0a6bc11d062336165bf01d3907f588c4d14921521570 |
# (c) 2013-2014, Michael DeHaan <michael.dehaan@gmail.com>
# (c) 2015 Toshio Kuratomi <tkuratomi@ansible.com>
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either... | indrajitr/ansible | lib/ansible/executor/module_common.py | Python | gpl-3.0 | 63,447 | [
"VisIt"
] | 87275baf3dc9075eb28915e65c82bce00eb616eb01dfddd87110ddc54be04009 |
# This program is free software; you can redistribute it and/or
# modify it under the terms of the GNU General Public License
# as published by the Free Software Foundation; either version 2
# of the License, or (at your option) any later version.
#
# This program is distributed in the hope that it will be useful,
# bu... | michel-slm/bodhi | bodhi/mail.py | Python | gpl-2.0 | 15,460 | [
"VisIt"
] | 0ff5603a21105af13b215d1622cca50186526b3d8be785dc256280452d1c5501 |
#! /usr/bin/python3
import json
from multiprocessing.dummy import Pool
import os
import pprint
import urllib.parse
from bs4 import BeautifulSoup as BS
import requests
"""
Note - pages sometimes link back to themselves or to other pages which do.
So it is important to avoid reprocessing a page that has already been
pr... | Kamikazilady/scrape-xls-beautifulsoup | scraper.py | Python | mit | 4,824 | [
"VisIt"
] | 2f091507e67eabdb671ef2304e9b4ee0bb5a7f19ca15ad7ca346c26c45fb0667 |
#!/usr/bin/env python
# -*- coding: ISO-8859-1 -*-
#
# Kovan's OGBot
# Copyright (c) 2007 by kovan
#
# *************************************************************************
# * *
# * This program is free software; you ca... | tectronics/ogrobot | src/gui.py | Python | gpl-2.0 | 27,011 | [
"CRYSTAL"
] | 8ae4d82c13f843d736f4f5f4413045fe50d2d04f9fd699359749ff4d575595ac |
import os
import difflib
try:
from urllib.request import urlopen
from urllib.parse import urlparse
except ImportError: # python 2
from urllib2 import urlopen
from urlparse import urlparse
from .handlers.base import make_ionotavailable
from .handlers import GromacsIO
from .handlers import PdbIO
from .ha... | swails/chemlab | chemlab/io/datafile.py | Python | gpl-3.0 | 4,680 | [
"cclib"
] | 06a9ca78a1fd176eca86cb3803e5b1f007711f535abbbcfd2585498d110afbc9 |
from pycbc.types import *
from pycbc.noise.gaussian import *
from pycbc.filter import *
from pycbc.waveform import *
from pycbc.vetoes import *
import pycbc.psd
sr = 4096.0
dt = 1.0/sr
bl = 256
df = 1.0/bl
N = int(sr * bl)
n = int(N/2 + 1)
psd = pycbc.psd.from_string("aLIGOZeroDetHighPower", n, df, 14)
strain = noise... | tdent/pycbc | test/bankvetotest.py | Python | gpl-3.0 | 3,650 | [
"Gaussian"
] | aefff6b457b651361a5ba6b46dd4fdd703ed36435da95bbc5204fb9c5514874d |
# -*- coding: utf-8 -*-
# LICENSE
#
# Copyright (c) 2010-2017, GEM Foundation, G. Weatherill, M. Pagani,
# D. Monelli.
#
# The Hazard Modeller's Toolkit 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, e... | gem/oq-hazardlib | openquake/hmtk/tests/seismicity/smoothing/test_isotropic_gaussian_kernel.py | Python | agpl-3.0 | 5,532 | [
"Gaussian"
] | a422e9af2aecaf5898dd9857a64e07719d073524c5acf596636537788c834cb2 |
"""Implementation of the WebSocket protocol.
`WebSockets <http://dev.w3.org/html5/websockets/>`_ allow for bidirectional
communication between the browser and server.
WebSockets are supported in the current versions of all major browsers,
although older versions that do not support WebSockets are still in use
(refer ... | mr-ping/tornado | tornado/websocket.py | Python | apache-2.0 | 41,314 | [
"VisIt"
] | 1bc6adb19e4e47f9accb9a6af9e57a2c75f47574def3e79d7418b2c3d7ae92b4 |
import popsims
import numpy as np
import matplotlib.pyplot as plt
import wisps
import pandas as pd
import wisps.simulations as wispsim
from tqdm import tqdm
import astropy.units as u
import numba
from scipy.interpolate import griddata
from popsims import galaxy
def probability_of_selection(spt, snr):
"""
pro... | caganze/wisps | wisps/simulations/thick_disk_counts.py | Python | mit | 9,347 | [
"Galaxy"
] | e3d6a717acaeba252823f78327dab8f467d723afa7f61592a3e5b7ce45da8d7d |
"""This is where most universal code for the Python examples of API implementation exist.
Much of the abstracted logic such as filling out credential objects and arrays
resides in this class."""
from mboapi_djangodemo.SECRETS import SITEIDs, SOURCENAME, SOURCEPASS, USERNAME, USERPASS
def BuildWsdlUrl(serviceNa... | kirkalicious/MINDBODY-Django | helpers/mbosoap/BasicRequestHelper.py | Python | mit | 3,678 | [
"VisIt"
] | e065e03022eb7a9d2cafe8860784c65eea8cdc49f65c5d2d7570cace023c5042 |
# 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 ... | wizmer/NeuroM | neurom/apps/morph_stats.py | Python | bsd-3-clause | 9,849 | [
"NEURON"
] | e8addb99f57cc9c9acf4646a94b8edf345b948c063f9aa9605ea48f0b87fc29a |
# 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... | KaiSzuttor/espresso | testsuite/python/lb.py | Python | gpl-3.0 | 17,439 | [
"ESPResSo"
] | 703637f4af023eaa9782e28731e565ecbca76cb138560f4b8228cedc903e7d50 |
## \package GOXDiGraph A weighted directed graph representation of the Gene Ontology.
# \author Brian Muller <mullerb@musc.edu>
from networkx import DiGraph, dfs_postorder_nodes
import Aspects
from GOGraphBase import GOGraphBase
from GOXGraph import GOXGraph
import DOMLight
class GOXDiGraph(DiGraph, GOGraphBase):
... | aswarren/GOGranny | GOGranny/GOXDiGraph.py | Python | gpl-2.0 | 3,272 | [
"Brian"
] | 7bb63e6277eda935eb366e5a9077db9ca92d9cc6152e8978a2370d5d03fe47d9 |
import gtk
from ase.gui.languages import translate as _
class Number(gtk.SpinButton):
def __init__(self, value=0,
lower=0, upper=10000,
step_incr=1, page_incr=10,
climb_rate=0.5, digits=0):
self.adj = gtk.Adjustment(value, lower, upper, step_incr, page_i... | slabanja/ase | ase/gui/widgets.py | Python | gpl-2.0 | 5,441 | [
"ASE"
] | 77eee3e8a4945193fea0eb7284b24b1daec4a9f0b636ad8dd8c2670072ec2ee2 |
#!/usr/bin/env python
from __future__ import print_function
from school_exp import load_school
from ca_exp import load_ca
from nips_exp import load_nips
from words_exp import load_words
import spacetime
import numpy as np
import scipy.io
import itertools
import sys, os, re, argparse
def load_data( data ):
nips_... | sunk/spacetime | kl_exp.py | Python | bsd-2-clause | 3,123 | [
"Gaussian"
] | a3c4dbe180a564d007c2d88bcceee87084b946e4434523c6c6fd15ddd59c560a |
import os
import sys
from math import sqrt, fabs
from scipy import optimize
import numpy as np
from array import array
import cvfit
from cvfit import data
from cvfit import errors
from cvfit.errors import residuals
from cvfit.errors import SSD
from cvfit.errors import SSDlik
class MultipleFitSession(object):
def ... | DCPROGS/CVFIT | cvfit/fitting.py | Python | gpl-2.0 | 21,252 | [
"Gaussian"
] | 4b53a5a30ba34e90609f08d9e0b85868ceda6ef6951f8e641fd80f6e3450ba19 |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2007 Donald N. Allingham
# Copyright (C) 2009 Brian G. Matherly
# Copyright (C) 2009 Gary Burton
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as publis... | ennoborg/gramps | gramps/gui/dbman.py | Python | gpl-2.0 | 45,230 | [
"Brian"
] | bc1b99a4c83de3085d0e42e466f357212f188fb77c92878377eda5e7b8d29a0c |
# Copyright 2002 by Katharine Lindner. 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.
"""
Module to represent the NDB Atlas structure (a minimal subset of PDB format).
Hetero,... | updownlife/multipleK | dependencies/biopython-1.65/build/lib.linux-x86_64-2.7/Bio/Crystal/__init__.py | Python | gpl-2.0 | 8,693 | [
"Biopython",
"CRYSTAL"
] | 9182b5ce220be377aa4bd74f3259761577c43c37435829f2363c6c893e19de83 |
from __future__ import annotations
from scitbx.array_family import flex
from dials.algorithms.image.filter import convolve
from dials.algorithms.statistics import BinnedStatistics
# Module-level definition imported by the image viewer
phil_str = """
n_iqr = 6
.type = int
.help = "IQR multiplier for determini... | dials/dials | extensions/radial_profile_spotfinder_threshold_ext.py | Python | bsd-3-clause | 5,140 | [
"Gaussian"
] | e08f01cf6703181feaea2d94912a663e9cd1bf24fe97042c05272b43b70d0723 |
#!/usr/bin/env python3
'''
Unit tests for ToolDog
'''
# Import ------------------------------
# General libraries
import os
import json
import filecmp
import unittest
# External libraries
import requests_mock
# Class and Objects
from tooldog import main, biotool_model
from tooldog.annotate import galaxy, cwl, ed... | khillion/ToolDog | test/test_unit_tooldog.py | Python | mit | 24,232 | [
"Galaxy"
] | 8e2df096d66c98b08c27014fb15fe96b2ecd033c5987456b294e0ceeaa5cc5bd |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# (c) 2012-2013 Michal Kalewski <mkalewski at cs.put.poznan.pl>
#
# This file is a part of the Simple Network Simulator (sim2net) project.
# USE, MODIFICATION, COPYING AND DISTRIBUTION OF THIS SOFTWARE IS SUBJECT TO
# THE TERMS AND CONDITIONS OF THE MIT LICENSE. YOU SHO... | mkalewski/sim2net | sim2net/mobility/_mobility.py | Python | mit | 3,133 | [
"VisIt"
] | 2f02baa3366306fb92fe0f9cd51ef771b81031d450f8743f7c071f0bca13a18a |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
# File Title: ngrok.py
# Author: Selphia
# Mail: LoliSound@gmail.com
# Time: 2017年07月16日 星期日 04时10分16秒
# Version:
# Ngrok Install
import os
import shutil
print("""Please enter your system architecture:
1.) x64
2.) i386
3.) ARM (RaspBerry Pi)
""")
Arch=input()
if Arch ... | selphia/ManagementScript | ngrok.py | Python | gpl-3.0 | 1,588 | [
"MOE"
] | 0fa49d4a0f203436db6002d2af07f343cc56787a3699841a955c43f73112d269 |
import os
import numpy as np
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._dat... | mmechelke/bayesian_xfel | bxfel/model/__init__.py | Python | mit | 13,024 | [
"Gaussian"
] | cd8856eba443afbc4b8b59733c0d83eea92663b02905fa7827ddd3710bf08e66 |
#!/usr/bin/env python
"""
Get rid of lines containing duplicate bonded nbody interactions in the
corresponding section of a LAMMPS data file (such as bonds, angles,
dihedrals and impropers). Duplicate lines which occur later are
preserved and the earlier lines are erased.
(This program reads from sys.... | slitvinov/lammps-sph-multiphase | tools/moltemplate/src/remove_duplicates_nbody.py | Python | gpl-2.0 | 1,438 | [
"LAMMPS"
] | 040b54af07ccaf2ee8b99f2b56d981a37b8aa0c4ae2a7a8c1816e917ed6bc029 |
# ERPNext - web based ERP (http://erpnext.com)
# Copyright (C) 2012 Web Notes Technologies Pvt Ltd
#
# 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 3 of the License, or
# (at you... | indictranstech/focal-erpnext | home/__init__.py | Python | agpl-3.0 | 3,676 | [
"VisIt"
] | 70e70b2af3efd258635463b7f61d38ce256a4fe80f3281f2556792333497b701 |
"""
Acceptance tests for Content Libraries in Studio
"""
from ddt import ddt, data
from nose.plugins.attrib import attr
from flaky import flaky
from unittest import skip
from .base_studio_test import StudioLibraryTest
from ...fixtures.course import XBlockFixtureDesc
from ...pages.studio.auto_auth import AutoAuthPage
f... | nttks/edx-platform | common/test/acceptance/tests/studio/test_studio_library.py | Python | agpl-3.0 | 28,290 | [
"VisIt"
] | a6558afbf98cbde2b2f6aafdf6d46cadeee877e072c2f23f1daa6fb79391928a |
#!/usr/bin/env python
import numpy as np
import pandas as pd
# from matplotlib.pyplot import plot,show,draw
import scipy.io
import sys
sys.path.append("../")
from functions import *
from pylab import *
from sklearn.decomposition import PCA
import _pickle as cPickle
import neuroseries as nts
import os
data_director... | gviejo/ThalamusPhysio | python/figure_article_v3/main_article_v3_fig_2.py | Python | gpl-3.0 | 24,115 | [
"NEURON"
] | 43553ca607ce085f5018d3629ffcb98f1d02f59e9e5fb0c5919648deaa67e63f |
import random
from simphony.core.cuba import CUBA
from simphony.cuds.meta.api import Material
from simphony.cuds.particles import Particle, Particles
class MDExampleConfigurator:
""" Class which handles configuration of MD examples
Class provides an example configuration for a
lammps molecular dynamic ... | simphony/simphony-lammps-md | simlammps/testing/md_example_configurator.py | Python | bsd-2-clause | 5,576 | [
"LAMMPS"
] | 214f5a701da507065d7213a26d75c453f282120dab174b490ce6e730500820cd |
# -*- 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/transformations/wrap.py | Python | gpl-2.0 | 5,641 | [
"MDAnalysis"
] | 9c16123729c9d45ebc48655fd61a9f66667d6a2eaba56566318e9c2229ed08b7 |
import scipy.io as sio
import os
os.environ['TF_CPP_MIN_LOG_LEVEL'] = '3'
import tensorflow as tf
import numpy as np
import plotly.plotly as py
import plotly.graph_objs as go
import plotly.tools as tls
from tqdm import tqdm
from embedded_rnn_model import RecurrentActivityModel
from helpers.dataloaders import MatLoad... | elijahc/ml_v1 | rnn/continuous.py | Python | mit | 12,924 | [
"NEURON"
] | 2d8e9f6d90aa24e81b483d223c89a825c5e77d2a507e634a1eb7ec5dea2b47a5 |
#!/usr/bin/env python
#
# tools.py
#
# Reimplementations of Santi's trim_longitudes.py and blastclust_lst2fasta.py
# scripts/functions, and other miscellaneous functions
#
# (c) The James Hutton Institute 2016
# Author: Leighton Pritchard and Peter Thorpe
import os
import gzip
from subprocess import check_output, Cal... | widdowquinn/THAPBI-pycits | pycits/tools.py | Python | mit | 23,643 | [
"BLAST",
"Biopython",
"pysam"
] | 6f3d9d4d610ab11b2d3634637538992d4a7e20a88c966ddad0c70df3a49da137 |
"""
font data tables for truetype and afm computer modern fonts
"""
# this dict maps symbol names to fontnames, glyphindex. To get the
# glyph index from the character code, you have to use get_charmap
"""
from matplotlib.ft2font import FT2Font
font = FT2Font('/usr/local/share/matplotlib/cmr10.ttf')
items = font.get_... | tkaitchuck/nupic | external/linux64/lib/python2.6/site-packages/matplotlib/_mathtext_data.py | Python | gpl-3.0 | 57,988 | [
"Bowtie"
] | 10ce3d131be041046eeaa9e36166eacaab73b7e9666c980e19e83eaff09a759e |
""" ExpandImports replaces imports by their full paths. """
from pythran.passmanager import Transformation
from pythran.utils import path_to_attr
import ast
class ExpandImports(Transformation):
"""
Expands all imports into full paths.
Attributes
----------
imports : {str}
Imported modu... | hainm/pythran | pythran/transformations/expand_imports.py | Python | bsd-3-clause | 3,987 | [
"VisIt"
] | 5afce342be614638e7ba9f52a27610a355948be25988a10ed1369afec4c6111d |
"""
===============
Gaussian fitter
===============
.. moduleauthor:: Adam Ginsburg <adam.g.ginsburg@gmail.com>
Created 3/17/08
Original version available at http://code.google.com/p/agpy/source/browse/trunk/agpy/gaussfitter.py
(the version below uses a Class instead of independent functions)
"""
from __future__ impo... | jpinedaf/pyspeckit | pyspeckit/spectrum/models/gaussfitter.py | Python | mit | 10,301 | [
"Gaussian"
] | 3659ea132138dfa2d6129caa5a1d70b236c9d67c885284fb6f90ef200db96922 |
"""
KeepNote
Copyright Matt Rasmussen 2008
Editor widget in main window
"""
# python imports
import sys, os
# pygtk imports
import pygtk
pygtk.require('2.0')
from gtk import gdk
##import gtk.glade
import gtk
import gobject
# keepnote imports
##import keepnote
##from rednotebook.gui.keepnote import... | tomka/rednotebook | rednotebook/gui/keepnote/gui/editor.py | Python | gpl-2.0 | 22,723 | [
"VisIt"
] | f023f86e3160fac8da86ab9bc5601ad8d31dc94a573e0f2e2da39c78481accc6 |
#
# @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 | psi4/driver/procedures/mcscf/augmented_hessian.py | Python | gpl-2.0 | 5,871 | [
"Psi4"
] | 745d877784079b80106edb1baa31491849a04203a996093d9a7fa8dfe456adff |
#!/usr/bin/env python
##################################################
## DEPENDENCIES
import sys
import os
import os.path
try:
import builtins as builtin
except ImportError:
import __builtin__ as builtin
from os.path import getmtime, exists
import time
import types
from Cheetah.Version import MinCompatib... | pli3/Openwebif | plugin/controllers/views/ajax/event.py | Python | gpl-2.0 | 10,247 | [
"VisIt"
] | 860e30421728d731cbf5dc29a9dfc4e68f3208543c3c4633746bc9a415da6c77 |
#!/usr/bin/env python3
import random
import math
import loos
import LipidLibrary
import PSFGen
import NAMD
import WaterBox
if __name__ == '__main__':
import sys
import shutil
import os
import stat
config = PSFGen.ReadConfig(sys.argv[1])
if len(sys.argv) > 2:
config.directory = sys.ar... | GrossfieldLab/loos | Packages/OptimalMembraneGenerator/OptimalMembraneGenerator.py | Python | gpl-3.0 | 17,712 | [
"NAMD"
] | 6594c214e96680e599b4278977770ee2139a33f48c931a576ba88fec05818a2c |
#
# Copyright (c) 2009-2015, Jack Poulson
# All rights reserved.
#
# This file is part of Elemental and is under the BSD 2-Clause License,
# which can be found in the LICENSE file in the root directory, or at
# http://opensource.org/licenses/BSD-2-Clause
#
import El
import time
m = 250
n = 500
lambda1 = 3
lambd... | justusc/Elemental | examples/interface/ENDense.py | Python | bsd-3-clause | 1,400 | [
"Gaussian"
] | 82d143a88ef8620a266a108810dadfc99d914a057dc0b73de76d6c67dd956bd2 |
# Start with users that need to be verified,
# and an empty list to hold confirmed users.
unconfirmed_users = ['alice', 'brian', 'candace']
confirmed_users = []
# Verify each user until there are no more unconfirmed users.
# Move each verified user into the list of confirmed users.
while unconfirmed_users:
curre... | mccarrion/python-practice | crash_course/chapter07/confirmed_users.py | Python | mit | 606 | [
"Brian"
] | 36c8247835f046510c89efa5e915adceab07e6b5049e09ea0192c1c76c986034 |
# Copyright (c) 2020 PaddlePaddle 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 app... | luotao1/Paddle | python/paddle/fluid/dygraph/dygraph_to_static/logical_transformer.py | Python | apache-2.0 | 4,789 | [
"VisIt"
] | e2873762c67a599fd799b9228e2178d1bdf224368144a058bb18b8bc81345ec2 |
'''
Created on Jul 15, 2011
@author: sean
'''
from __future__ import print_function
import _ast
from graphlab.meta.asttools import Visitor
from string import Formatter
import sys
from graphlab.meta.utils import py3op, py2op
if sys.version_info.major < 3:
from StringIO import StringIO
else:
from io import Stri... | ypkang/Dato-Core | src/unity/python/graphlab/meta/asttools/visitors/pysourcegen.py | Python | agpl-3.0 | 23,991 | [
"VisIt"
] | 7c53518697c913423cb3f55d665c6bd1833343b323d131dc3741c88d97159c75 |
# coding: utf-8
import os, sys, time, re
from Crypto.Cipher import AES
import crypt
import pwd
from binascii import b2a_hex, a2b_hex
import hashlib
import datetime
import random
import subprocess
import uuid
import json
import logging
from settings import *
from django.core.paginator import Paginator, EmptyPage, Inva... | ibuler/jumpserver | jumpserver/api.py | Python | gpl-2.0 | 14,526 | [
"VisIt"
] | 0cc2bbe2b6c6e94a379ff15526b3a6b6d4ea5632b07c0e5d3f4050a460196da6 |
"""
Just a selector for X509Certificate between PyGSI and M2Crypto based on DIRAC_USE_M2CRYPTO environment variable
"""
__RCSID__ = "$Id$"
import os
from pkgutil import extend_path
#####
# SUPER DISGUSTING HACK
# We define these variables, and then remove them immediately.
# it is to allow something like 'from DIR... | fstagni/DIRAC | Core/Security/__init__.py | Python | gpl-3.0 | 1,116 | [
"DIRAC"
] | 3c9b7f4f37e81df03550c2362069d57bf9a81556eae867914ba36380c8c4c612 |
# -*- coding: utf-8 -*-
"""
Application Template for Rhineland-Palatinate (RLP) Crisis Management
- used to manage COVID-19 test stations
@license MIT
"""
from collections import OrderedDict
from gluon import current, URL, A, DIV, TAG, \
IS_EMPTY_OR, IS_IN_SET, IS_INT_IN_RANGE, IS_NOT_... | flavour/eden | modules/templates/historic/RLPPTM/config.py | Python | mit | 197,643 | [
"Amber"
] | 27b162283284513e619d0dd3e0c457548fc2161ee987ac172b23702d12d97c66 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
###############################################################################
# Copyright 2016 Kitware Inc.
#
# Licensed under the Apache License, Version 2.0 ( the "License" );
# you may not use this file except in compliance with the License.
# You may obtain a cop... | Kitware/HPCCloud | server/taskflows/hpccloud/taskflow/pyfr/__init__.py | Python | apache-2.0 | 20,813 | [
"ParaView",
"VTK"
] | fd28558fb7b63c6a6b6fcfdab5b33d138ab9e56f9b9c324d172640bcace3c3d9 |
# ----------------------------------------------------------------------
# LAMMPS - Large-scale Atomic/Molecular Massively Parallel Simulator
# http://lammps.sandia.gov, Sandia National Laboratories
# Steve Plimpton, sjplimp@sandia.gov
#
# Copyright (2003) Sandia Corporation. Under the terms of Contract
# DE... | jag1g13/lammps | python/lammps.py | Python | gpl-2.0 | 28,009 | [
"LAMMPS"
] | eab1e4a524de54c8c877ddabe0f1843a0e10a8659a8ae184aa9d1584437db556 |
# -*- coding: utf-8 -*-
"""
For each saddle point (out of three) in a bifurcation EC mesh place an 'imaginary' sphere around the point.
Iterate over all EC centres and if a cell centre falls into one of the spheres, map the distance to the
sphere centre to an ATP value.
"""
import os
import vtk
import math
import num... | BlueFern/DBiharMesher | meshes/c4080ang/synCfd/GenerateSyntheticCFD_ATP60-110.py | Python | gpl-2.0 | 6,342 | [
"VTK"
] | f92f3fc8ba8200121b592beba8b82221db81d8de2a7d37c4825b319204a7b8c6 |
from builtins import range
from builtins import object
import numpy as np
from cs231n.layers import *
from cs231n.layer_utils import *
class TwoLayerNet(object):
"""
A two-layer fully-connected neural network with ReLU nonlinearity and
softmax loss that uses a modular layer design. We assume an input dim... | DavidQiuChao/CS231nHomeWorks | assignment2/cs231n/classifiers/fc_net.py | Python | mit | 17,124 | [
"Gaussian"
] | 453bb7c5661b4844bd346823a370593aa0ecd29c4a02749401981a20003ebdc8 |
"""
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
fr... | postvakje/sympy | sympy/solvers/solvers.py | Python | bsd-3-clause | 122,311 | [
"Gaussian"
] | 82b311448aaeff360ebd9e9b8eb7237c322a9936413b78b2540dd515927408d9 |
# -*- coding: utf-8 -*-
#
# test_urbanczik_synapse.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the ... | lekshmideepu/nest-simulator | testsuite/pytests/test_urbanczik_synapse.py | Python | gpl-2.0 | 9,912 | [
"NEURON"
] | 050d48a27eb4d19c76af0bb417afbc342e630178f0aaa1ea7443fbcdd77defda |
"""
This pipeline is intended to extract Haralick features from T2W images.
"""
import os
import numpy as np
from protoclass.data_management import T2WModality
from protoclass.data_management import GTModality
from protoclass.preprocessing import RicianNormalization
from protoclass.preprocessing import GaussianNorm... | I2Cvb/mp-mri-prostate | pipeline/feature-extraction/t2w/pipeline_extraction_phase_congruency_t2w.py | Python | mit | 4,148 | [
"Gaussian"
] | 4c7dcb0352f347af018b51a686d62dfd1ce0842d970f0939fc7300a0c2cfd907 |
# 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 ... | psci2195/espresso-ffans | testsuite/python/dipolar_mdlc_p3m_scafacos_p2nfft.py | Python | gpl-3.0 | 7,552 | [
"ESPResSo"
] | 1d1cf4dabb6a7b8844b55ac0ff1b5e98d2cd5575a2d004795fa387cc28fc8a47 |
"""
Module for the UngriddedData class
"""
import logging
from time import gmtime, strftime
import numpy
import six
from cis.data_io.netcdf import get_data as netcdf_get_data
from cis.data_io.hdf_vd import get_data as hdf_vd_get_data
from cis.data_io.hdf_sd import get_data as hdf_sd_get_data
from cis.data_io.commo... | cedadev/jasmin_cis | cis/data_io/ungridded_data.py | Python | gpl-3.0 | 53,343 | [
"NetCDF"
] | 55b99b15527ec98675c84210e1e7793aabe9bb56027e2ab06cfd8bbf33f43d59 |
import unittest
from DIRAC.Core.Utilities.ObjectLoader import ObjectLoader
from DIRAC.Core.DISET.RequestHandler import RequestHandler
class ObjectLoaderMainSuccessScenario( unittest.TestCase ):
def setUp( self ):
self.ol = ObjectLoader()
def __check( self, result ):
if not result[ 'OK' ]:
self.fai... | Sbalbp/DIRAC | Core/Utilities/test/ObjectLoaderTests.py | Python | gpl-3.0 | 917 | [
"DIRAC"
] | c70024411c9e5c7052f547e3b0d0f4fbd47e798ee23c208f20288fe847ebcbd8 |
# -*- coding: utf-8 -*-
import codecs
import collections
import json
import os
import tempfile
from django import forms
from django.core.files.storage import default_storage as storage
from django.core.urlresolvers import reverse
from mock import Mock, patch
from nose.tools import eq_
from pyquery import PyQuery as p... | andymckay/zamboni | mkt/developers/tests/test_views_validation.py | Python | bsd-3-clause | 9,409 | [
"exciting"
] | ef5211394f8896344f75593050c1403c519b86a694b58007955d0c745ddcab25 |
''' Some tests for filters '''
from __future__ import division, print_function, absolute_import
import numpy as np
from numpy.testing import (assert_equal, assert_allclose,
assert_array_equal, assert_almost_equal,
suppress_warnings)
from pytest import raises as as... | arokem/scipy | scipy/ndimage/tests/test_filters.py | Python | bsd-3-clause | 16,554 | [
"Gaussian"
] | ae305f1117a4682a9b57b1c0ea3a8548935a8bc0dabd6a26a6972f24a05a11b7 |
# -*- coding: utf-8 -*-
"""
Bok choy acceptance tests for problems in the LMS
See also old lettuce tests in lms/djangoapps/courseware/features/problems.feature
"""
from textwrap import dedent
from unittest import skip
from ..helpers import UniqueCourseTest
from ...pages.studio.auto_auth import AutoAuthPage
from ...pa... | nttks/edx-platform | common/test/acceptance/tests/lms/test_lms_problems.py | Python | agpl-3.0 | 16,101 | [
"VisIt"
] | d022c61f2ed5c1f0f598cf6111865962aa6cc4cc3a4c606613fc8e613bd0e697 |
## linelast.py
## This is my implementation of linear elasticity using FEniCS
## The reference that I used was
## A. Logg, K.-A. Mardal, G. N. Wells et al. (2012). Automated Solution of Differential Equations by the Finite Element Method, Springer. [doi:10.1007/978-3-642-23099-8]
## particularly Chapter 26 Applicati... | ernestyalumni/SME | linelast.py | Python | gpl-2.0 | 4,616 | [
"VTK"
] | 519342ef2a08d39ab489c4a06d9ebe3374b57777875766d385439810e9960537 |
# ----------------------------------------------------------------------------
# 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 with this software.
# --------------------------------------------... | johnchase/scikit-bio | skbio/sequence/_nucleotide_sequence.py | Python | bsd-3-clause | 6,453 | [
"scikit-bio"
] | b2f05627ff275ae7596c77af1f3f3d4a63752baf07bcdd7338d62a9ba748d029 |
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