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# This module contains interfaces to external visualization programs
# and a visualization base class
#
# Written by Konrad Hinsen
# last revision: 1999-6-21
#
"""This module provides visualization of chemical objects and animated
visualization of normal modes and sequences of configurations, including
trajectories. V... | fxia22/ASM_xf | PythonD/site_python/MMTK/Visualization_win32.py | Python | gpl-2.0 | 15,239 | [
"VMD"
] | a403d72bea6589ee15589b13384a4ecb84e1f09ab2e4cec172b67249c13c7da1 |
"""
An avar is a facial control unit inspired from The Art of Moving Points.
This is the foundation for the facial animation modules.
"""
import logging
import pymel.core as pymel
from omtk.core import classCtrl
from omtk.core import classModule
from omtk.core import classNode
from omtk.models.model_ctrl_linear impor... | SqueezeStudioAnimation/omtk | python/omtk/modules/rigFaceAvar.py | Python | mit | 39,364 | [
"Brian"
] | b06e610dbd5c16f2e5ed102a225e4b5b09ef6f8ec8be6827e35b5f681539cd6e |
# -*- coding: utf-8 -*-
# Copyright 2022 Google LLC
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or... | googleapis/python-talent | tests/unit/gapic/talent_v4beta1/test_profile_service.py | Python | apache-2.0 | 110,728 | [
"Octopus"
] | 658a0ff0f834dc3bad9acacb90eec4ce6aa855465eb82951e6b52e39a21e4f43 |
__author__ = 'Alexander Weigl'
from unittest import TestCase
import msml.sorts as S
class ConversionTest(TestCase):
def test_bool(self):
self.assertTrue(S._bool("on"))
self.assertTrue(S._bool("yes"))
self.assertTrue(S._bool("true"))
self.assertTrue(S._bool("True"))
self.a... | CognitionGuidedSurgery/msml | src/msmltest/conversions.py | Python | gpl-3.0 | 1,385 | [
"VTK"
] | 6fa0397d85aca78da21e13e11cd731b9418fa4a8cc29d62dc33dbdde46e9c6fc |
# Copyright 2016:
# * Jim Unroe KC9HI, <rock.unroe@gmail.com>
# * Pavel Milanes CO7WT <pavelmc@gmail.com>
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the License, or
# ... | tylert/chirp.hg | chirp/drivers/vgc.py | Python | gpl-3.0 | 49,667 | [
"Amber"
] | cc09a52834e5b41cb3a2f5d170f168bff46f9566b5015cb8e8569c8b87b24cbd |
# -*- 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/base.py | Python | gpl-2.0 | 78,557 | [
"MDAnalysis"
] | 8ac7d9560de2297a4af2222fc28b35e06b8a53855fdd75d00c17157208b96905 |
# -*- coding: utf-8 -*-
# pyQchem - Input/Output-Tools for Q-Chem
# Copyright (c) 2014, Andreas W. Hauser
# All rights reserved.
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are met:
# 1. Redistributions of source code must ... | EhudTsivion/QCkit | physical_constants.py | Python | lgpl-3.0 | 22,049 | [
"Q-Chem"
] | 13a4c1d1c6a6ef233d34fff2b1b42543e12db3a8e90a0a75c97dce0b9b091784 |
"""Creating mock dataframes/series for testing."""
from typing import List, Union
import numpy as np
import pandas as pd
def create_qmc_frame(rng, cols: List[str], means: List[float],
sine_periods: List[float], noise_facs: List[float],
frac_not_convergeds: Union[int, List[flo... | hande-qmc/hande | tools/pyhande/tests/create_mock_df.py | Python | lgpl-2.1 | 9,691 | [
"Gaussian"
] | f4b47e6d4af7aec11095e84f0fa24258bdd9039a729737f2bece4c4581e9e36b |
#!/usr/bin/env python
"""Installer for gemini: a lightweight db framework for disease and population genetics.
https://github.com/arq5x/gemini
Handles installation of:
- Required third party software
- Required Python libraries
- Gemini application
- Associated data files
Requires: Python 2.7 (or 2.6 and argparse),... | heuermh/gemini | gemini/scripts/gemini_install.py | Python | mit | 18,448 | [
"Galaxy",
"pysam"
] | f143997a7f707f60c5a71cd101e416da8b5e6470ed64c3dd19671f7d8878e2c8 |
#!/usr/bin/env python
"""Run all of the servers required to use PennDOT cameras locally.
If this script succeeds, visiting http://localhost:1776/lat/lng/num will
return JSON describing a list of PennDOT cameras. Cameras are returned in
order of increasing distance from the given lat/lng. num is the number of
cameras... | krismolendyke/PennDOT-Traffic-Camera-API | run.py | Python | mit | 1,824 | [
"VisIt"
] | c27ead846d27e10c4722e6b581b528959db821d8179fd6048df39d91ec4eb833 |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2012-2013 Async Open Source <http://www.async.com.br>
## All rights reserved
##
## This program is free software; you can redistribute it and/or modify
## it under the terms of the GNU General Public License as published by
## the Free Software Fou... | andrebellafronte/stoq | stoqlib/gui/test/test_loanitemeditor.py | Python | gpl-2.0 | 3,091 | [
"VisIt"
] | 463826b1014a80eff4de657ea12e7b5f185e7fd0cd2c713088edd8915a0a94f8 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
Package for analysis of magnetic structures.
"""
from pymatgen.analysis.magnetism.analyzer import *
| mbkumar/pymatgen | pymatgen/analysis/magnetism/__init__.py | Python | mit | 215 | [
"pymatgen"
] | 581cdaacd312c7d356b6e4cafff146a8200cc0803121cb289d00624c68b4bb1b |
# -*- coding: utf-8 -*-
# Copyright 2022 Google LLC
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or... | googleapis/python-appengine-admin | tests/unit/gapic/appengine_admin_v1/test_versions.py | Python | apache-2.0 | 81,900 | [
"Octopus"
] | abe9d4f1ce49c28cb671abc79523d95b855863f7b751a1df192f6e98d9de715a |
#
# Pyrex - Parse tree nodes for expressions
#
import cython
from cython import set
cython.declare(error=object, warning=object, warn_once=object, InternalError=object,
CompileError=object, UtilityCode=object, StringEncoding=object, operator=object,
Naming=object, Nodes=object, PyrexTyp... | bzzzz/cython | Cython/Compiler/ExprNodes.py | Python | apache-2.0 | 303,913 | [
"VisIt"
] | f07631408d52a1233aaa39bbaadda9d1040f13639e54a33393c5e53ff21153b8 |
# -*- coding: utf-8 -*-
"""
===========================================================================
Crystal cell classes (:mod:`sknano.core.crystallography._xtal_cells`)
===========================================================================
.. currentmodule:: sknano.core.crystallography._xtal_cells
"""
from ... | androomerrill/scikit-nano | sknano/core/crystallography/_xtal_cells.py | Python | bsd-2-clause | 13,580 | [
"CRYSTAL"
] | 1e838b1f522c2712b04b4bbb1bbb5ea788b2cc9da6b31c8e4c2b3a43872dc854 |
# # # # #
# wrap downscaler for running on slurm
# # # # #
def run_model( fn, base_dir, variable, model, scenario, units, metric, level=None, level_name=None ):
import os, subprocess
head = '#!/bin/sh\n' + \
'#SBATCH --ntasks=32\n' + \
'#SBATCH --nodes=1\n' + \
'#SBATCH --ntasks-per-node=32\n' + \
'#SBA... | ua-snap/downscale | snap_scripts/downscaling_v2/wrap_downscaler_cmip5_slurm_tem_re-run-hur_Aug2018_helene.py | Python | mit | 2,362 | [
"NetCDF"
] | 2e0238ceffaeb554aa7603d7a3612013b8cfcb3568587b61730a113a6f8aaacb |
# -*- coding: utf-8 -*-
# Copyright (C) 2009-2014 CEA/DEN, EDF R&D
#
# This library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free Software Foundation; either
# version 2.1 of the License, or (at your option) any later ve... | FedoraScientific/salome-hexablock | doc/test_doc/pipe/pipes.py | Python | lgpl-2.1 | 1,380 | [
"VTK"
] | da1037edce4e640eec272725799d4f1182d65376e2c0d89c645c865df513378e |
#!/usr/bin/env python
################################################################
#
# kim_compare_lammps
#
################################################################
#
# Copyright 2018 the potfit development team
#
# Permission is hereby granted, free of charge, to any person
# obtaining a copy of this softw... | potfit/potfit | util/kim/kim_compare_lammps/kim_compare_lammps.py | Python | gpl-2.0 | 6,762 | [
"ASE",
"LAMMPS",
"OpenKIM"
] | c56008fb8f2a93c6802a6b1ae1b0815419bbede5c29495e40a0e6b9160326ecc |
#!/usr/bin/env python
import vtk
from vtk.test import Testing
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
reader = vtk.vtkSimplePointsReader()
reader.SetFileName(VTK_DATA_ROOT + "/Data/points.txt")
mapper = vtk.vtkPolyDataMapper()
mapper.SetInputConnection(reader.GetOutputPort())
actor ... | HopeFOAM/HopeFOAM | ThirdParty-0.1/ParaView-5.0.1/VTK/IO/Geometry/Testing/Python/TestSimplePointsReader.py | Python | gpl-3.0 | 646 | [
"VTK"
] | aa3be62f90966160a894d0c15145ebf33d7b659d59c00fedbf2d24b6d8106919 |
#
# @file TestEventAssignment.py
# @brief SBML EventAssignment unit tests
#
# @author Akiya Jouraku (Python conversion)
# @author Ben Bornstein
#
# ====== WARNING ===== WARNING ===== WARNING ===== WARNING ===== WARNING ======
#
# DO NOT EDIT THIS FILE.
#
# This file was generated automatically by converting th... | TheCoSMoCompany/biopredyn | Prototype/src/libsbml-5.10.0/src/bindings/python/test/sbml/TestEventAssignment.py | Python | bsd-3-clause | 4,597 | [
"VisIt"
] | 0f0d64355def3eda9ace71f508990457a58c5f395e31fefe1ae53b4baea3eef1 |
#!/nfs/farm/g/lsst/u1/software/redhat6-x86_64-64bit-gcc44/anaconda/2.3.0/bin/python
## setupVisit.py - Set up for a run of phoSim for a single visit
##
## Required env-vars
## TW_ROOT
## TW_CONFIGDIR
## TW_ICFILE
## TW_SIXDIGSTREAM
import os,sys,shutil
print '\n\nWelcome to setupVisit.py\n========================\n... | rbiswas4/Twinkles | workflows/Twinkles-phoSim/setupVisit.py | Python | mit | 4,656 | [
"VisIt"
] | c6474543825c9ff14b187a89003562ce6afc507e0e1b94a5f5e6050098b59d07 |
'''
Collect all the local variables (including parameters),
attaching them to the containing defintion.
'''
from ..util.dispatch import method_store, multimethod
from .. import node
class CollectLocals(object):
_store = method_store()
def __init__(self):
self.definition = None
@multimethod(_sto... | dacjames/mara-lang | bootstrap/mara/passes/collect_locals.py | Python | mit | 918 | [
"VisIt"
] | 90aefa04457640c552f0f45baf7ec23490667576a111d3dd5f851b49999aa564 |
##
# Copyright 2009-2018 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://www.vscentrum.be),
# Flemish Research Foundation (F... | bartoldeman/easybuild-easyblocks | easybuild/easyblocks/g/gamess_us.py | Python | gpl-2.0 | 15,008 | [
"GAMESS"
] | 6c16513d990316f99649635f470cda4415b3a663d3561d3851108b8eef7309f7 |
### Refer to Chulkov and Echenique, PRB 67, 245402 (2003) for comparison of results ###
import numpy as np
import sys
import time
from math import sqrt
from ase import Atoms, Atom
from ase.visualize import view
from ase.units import Bohr
from ase.lattice.surface import *
from ase.parallel import paropen
from gpaw impo... | robwarm/gpaw-symm | gpaw/test/big/response/be_1ml_surf_response.py | Python | gpl-3.0 | 2,083 | [
"ASE",
"GPAW"
] | 6ec5291b534187aa41b7bcb0bd53d3cf38166aaa203119fc031e810055547fd6 |
# sql/compiler.py
# Copyright (C) 2005-2021 the SQLAlchemy authors and contributors
# <see AUTHORS file>
#
# This module is part of SQLAlchemy and is released under
# the MIT License: https://www.opensource.org/licenses/mit-license.php
"""Base SQL and DDL compiler implementations.
Classes provided include:
:class:`.... | zzzeek/sqlalchemy | lib/sqlalchemy/sql/compiler.py | Python | mit | 184,809 | [
"VisIt"
] | 0e909e215d2b1d61fc2b4f89082741509a6ddcdd4fb0c506edd487d23cf95f46 |
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
__RCSID__ = "$Id$"
import time
from tornado import gen
# We change the import name otherwise sphinx tries
# to compile the tornado doc and fails
from tornado.ioloop import IOLoop as _IOLoop
from DIRAC.Config... | yujikato/DIRAC | src/DIRAC/ConfigurationSystem/private/TornadoRefresher.py | Python | gpl-3.0 | 3,721 | [
"DIRAC"
] | 9b0463810dd52092db49dcf1f949179b7e0926a5af45e11a3cfb5ae4ee0a6763 |
import math
class PyNNet(object):
def __init__(self, neuronCounts, connections, tanh = True):
self.neuronCounts = neuronCounts
self.connections = connections
self.tanh = tanh
self.values = None
def calc(self, inputs):
if len(inputs) != self.neuronCounts[0]:
... | jeyj0/PyNNet | PyNNet.py | Python | gpl-3.0 | 1,803 | [
"NEURON"
] | f96ae102ecadc2233cf01466b7d1dace0c3d4f49faa7e036ec7219c9074cba35 |
# Copyright: (c) 2013, James Cammarata <jcammarata@ansible.com>
# Copyright: (c) 2018-2021, Ansible Project
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
from __future__ import (absolute_import, division, print_function)
__metaclass__ = type
import os.path
import re
impo... | atosorigin/ansible | lib/ansible/cli/galaxy.py | Python | gpl-3.0 | 78,570 | [
"Galaxy"
] | ba2edd8a506c7b5c988819dbdbb1f04c666e7e13329fc3e0f5746bba128e481e |
# Copyright 2017 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | mdrumond/tensorflow | tensorflow/contrib/gan/python/eval/python/classifier_metrics_impl.py | Python | apache-2.0 | 17,413 | [
"Gaussian"
] | 4764e50addc392d144b1b92b57878511fb7e69c532b833a83389f5657b2dc688 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
# (c) 2017, Brian Coca <bcoca@ansible.com>
# (c) 2017, Adam Miller <admiller@redhat.com>
# (c) 2017 Ansible Project
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
from __future__ import absolute_import, division, print_function
__m... | mheap/ansible | lib/ansible/modules/system/sysvinit.py | Python | gpl-3.0 | 13,274 | [
"Brian"
] | 7a61cd44f6be05b3200dede240910595ac2ad4bb6e5f80a21324b401ba8d657d |
#! /usr/bin/env python3
# dialog.py --- A Python interface to the ncurses-based "dialog" utility
# -*- coding: utf-8 -*-
#
# Copyright (C) 2002, 2003, 2004, 2009, 2010, 2013, 2014 Florent Rougon
# Copyright (C) 2004 Peter Åstrand
# Copyright (C) 2000 Robb Shecter, Sultanbek Tezadov
#
# This library is free software;... | pidgornyy/mastermind | dialog.py | Python | gpl-2.0 | 146,865 | [
"VisIt"
] | 2e8e556373c423616caa62c422ba8483a26ecf0ebfaba6ac8623465cd4db223c |
# Copyright (c) 2009-2019 The Regents of the University of Michigan
# This file is part of the HOOMD-blue project, released under the BSD 3-Clause
# License.
"""Manifolds."""
from hoomd.md import _md
from hoomd import _hoomd
from hoomd.operation import _HOOMDBaseObject
from hoomd.data.parameterdicts import ParameterD... | joaander/hoomd-blue | hoomd/md/manifold.py | Python | bsd-3-clause | 12,659 | [
"HOOMD-blue"
] | dd23797b7d1158a8e4f435263d9590c7eb96b460a83fbfffaa0682fb232f3348 |
import ocl
import camvtk
import time
import vtk
import datetime
import math
import random
import gc
def drawVertex(myscreen, p, vertexColor, rad=1):
myscreen.addActor( camvtk.Sphere( center=(p.x,p.y,p.z), radius=rad, color=vertexColor ) )
def drawEdge(myscreen, e, edgeColor=camvtk.yellow):
p1 = e[0]
p2 = ... | AlanZatarain/opencamlib | scripts/voronoi/voronoi_6_dt.py | Python | gpl-3.0 | 7,782 | [
"VTK"
] | 03babe39e3f7a0fb1e6f13f20f02b7d2ae309c0b91609d3a4238e9dc50e04b65 |
# -*- coding: utf-8 -*-
from django.conf import settings
from django.conf.urls import include, url
from django.conf.urls.static import static
from django.contrib import admin
from django.views import defaults as default_views
from django.views.generic import TemplateView
urlpatterns = [
url(settings... | Nikola-K/django-template | project_name/urls.py | Python | mit | 1,264 | [
"VisIt"
] | 1ba5a1e21cc5a5ae82324830b368f680fc5a72456863382ed1728f22c4b7e623 |
# 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 use ... | vongazman/libcloud | libcloud/security.py | Python | apache-2.0 | 2,940 | [
"VisIt"
] | 095c09a8021a5bb5727c2e6755e065572eaa7052a041bbec58775c1c04844184 |
import json
from tracebin.utils import dict_merge
class BaseSerializer(object):
ALL_SERIALIZERS = {}
def __init__(self, obj):
self.obj = obj
@classmethod
def register(cls, subcls):
assert subcls.name not in cls.ALL_SERIALIZERS
cls.ALL_SERIALIZERS[subcls.name] = subcls
... | alex/tracebin | client/tracebin/serializers.py | Python | bsd-3-clause | 2,631 | [
"VisIt"
] | 70cadafa1c6dc238079f3f605c5a42ddeef7db2e4dab14a06f866c1738ceb0ac |
#!/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... | gkc1000/pyscf | pyscf/x2c/sfx2c1e_hess.py | Python | apache-2.0 | 16,950 | [
"PySCF"
] | dba18e9b3fed5940253dcfb3e36a026f248c7d5beadd23d42e6be360c39745db |
# Copyright 2017 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | hfp/tensorflow-xsmm | tensorflow/python/autograph/pyct/transformer_test.py | Python | apache-2.0 | 11,190 | [
"VisIt"
] | 64636419b03343417495c2e1925a34e55f326c451f6669c4f668e5845530e7e9 |
"""
Check for IOOS-approved attributes
"""
import re
from numbers import Number
import validators
from cf_units import Unit
from lxml.etree import XPath
from owslib.namespaces import Namespaces
from compliance_checker import base
from compliance_checker.acdd import ACDD1_3Check
from compliance_checker.base import (... | ocefpaf/compliance-checker | compliance_checker/ioos.py | Python | apache-2.0 | 71,172 | [
"NetCDF"
] | 92ccfc040f3d719bab2d57a0f5ba048459586c731afb271192a6e7f287b61dcb |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
This module provides classes to define everything related to band structures.
"""
import numpy as np
import re
import math
import itertools
import collections
import warnings
from monty.json import MSONab... | gVallverdu/pymatgen | pymatgen/electronic_structure/bandstructure.py | Python | mit | 49,932 | [
"CRYSTAL",
"pymatgen"
] | 9e71ae63ff66b1e30e293f3a4ed4a7a8cdddba71102e666b90872bf9ce891cb8 |
"""
Run VASP tests to ensure that relaxation with the VASP calculator works.
This is conditional on the existence of the VASP_COMMAND or VASP_SCRIPT
environment variables.
"""
from ase.test.vasp import installed
assert installed()
import numpy as np
from ase import io
# QuasiNewton nowadays is an alias for BFGSLine... | grhawk/ASE | tools/ase/test/vasp/vasp_Al_volrelax.py | Python | gpl-2.0 | 2,210 | [
"ASE",
"VASP"
] | ce8b30596bb498f624f0918af7e6a8576e5cf8713acce23dca5533fd7a59a524 |
# Copyright (c) 2014 OpenStack Foundation.
#
# 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 ... | nikesh-mahalka/cinder | cinder/hacking/checks.py | Python | apache-2.0 | 12,429 | [
"VisIt"
] | 2ae56716fe2c9a7ad157d3822aaa39764e476e6554abdf88bda878b6bab6cc4d |
#!/usr/bin/env python
from __future__ import print_function
import sys
import datetime
import argparse
#---------------------------------------------------------------------------------------------------
def amber2playmol( inp, out ):
atoms = {}
mass = {}
note = {}
params = {}
bond = []
angle = []
di... | atoms-ufrj/playmol | src/playmoltools.py | Python | gpl-3.0 | 9,945 | [
"Amber",
"CHARMM"
] | eee58f08214f569c76cf92838e4286e02137b8b60e59ff91c29b2130da57c80c |
# -*- coding: utf-8 -*-
"""
Created on Thu Sep 21 16:29:34 2017
@author: ishort
"""
import math
""" procedure to generate Gaussian of unit area when passed a FWHM"""
#IDL: PRO GAUSS2,FWHM,LENGTH,NGAUS
def gauss2(fwhm, length):
#length=length*1l & FWHM=FWHM*1l
#NGAUS=FLTARR(LENGTH)
... | sevenian3/ChromaStarPy | Gauss2.py | Python | mit | 996 | [
"Gaussian"
] | 29308bd0aecf19ef0088e72ce41d898182074292abc587cfacf8981b8ab7911d |
#!/usr/bin/python
# -*- coding: utf-8 -*-
# (c) 2014, Ruggero Marchei <ruggero.marchei@daemonzone.net>
# (c) 2015, Brian Coca <bcoca@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
#... | dmillington/ansible-modules-core | files/find.py | Python | gpl-3.0 | 13,155 | [
"Brian"
] | 8e894b0448ea9bba4fa39a4e5f7e7cad52d9f5d3257ffd211e052acc27cc0e2f |
import os
import PythonQt
from PythonQt import QtCore, QtGui
from director import callbacks
from director import drcargs
import director
import director.applogic as app
import director.objectmodel as om
import director.visualization as vis
import director.vtkAll as vtk
from director import jointcontrol
from director im... | patmarion/director | src/python/director/roboturdf.py | Python | bsd-3-clause | 19,657 | [
"VTK"
] | 5a0fe85bfc15bd0c11f20c007f0b4f2c9da439c29ab9c34a6335f71f3c07a9cb |
#!/usr/bin/env python
#
# $Id: check_copyright.py 9317 2011-06-10 02:09:04Z nathan_george $
#
# Proprietary and confidential.
# Copyright $Date:: 2011#$ Perfect Search Corporation.
# All rights reserved.
#
import sys, os
buildscriptDir = os.path.dirname(__file__)
buildscriptDir = os.path.abspath(os.path.join(buildscrip... | perfectsearch/sandman | code/buildscripts/codescan/check_copyright.py | Python | mit | 7,857 | [
"VisIt"
] | b7c39322de4f487e5b5784505e88d69dc07c60d22ca66055c9fc5bedc05b4ce2 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
""" Program to create invitations """
def get_party_stats(families, table_size=6):
"""
Args:
families (list): A list of families invited.
table_size (int): Number of seats per table
Returns:
tuple: Total number of guests and total numb... | rrafiringa/is210-week-06-synthesizing | task_01.py | Python | mpl-2.0 | 1,018 | [
"Amber"
] | d2ad60b77d45be9d671d01a1ea8e8d06e9cce714c3a21cfc79df3724e1dd01d4 |
# 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
#
# Unless required by appl... | gkc1000/pyscf | pyscf/nao/test/test_0151_bse_h2b_uhf_rpa.py | Python | apache-2.0 | 2,074 | [
"PySCF"
] | aa7676a9977ad8e5831f7af081749d2adeee2f2308373a2d0565c56e4975a41e |
"""
Various bayesian regression
"""
# Authors: V. Michel, F. Pedregosa, A. Gramfort
# License: BSD 3 clause
from math import log
import numpy as np
from scipy import linalg
from ._base import LinearModel, _rescale_data
from ..base import RegressorMixin
from ..utils.extmath import fast_logdet
from scipy.linalg import... | bnaul/scikit-learn | sklearn/linear_model/_bayes.py | Python | bsd-3-clause | 25,564 | [
"Gaussian"
] | e4314d10dee34a07434dbc8d5198246d5781f69798831cad73780842106bf01d |
# Paperwork - Using OCR to grep dead trees the easy way
# Copyright (C) 2014 Jerome Flesch
#
# Paperwork 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
# ... | Starch/paperwork | src/paperwork/frontend/util/canvas/__init__.py | Python | gpl-3.0 | 19,129 | [
"FLEUR"
] | e45a623e4a13b3d453f1708d2de75ebd923f92fdad4273185ce439dfb98283b4 |
"""
Script to convert output of chimeraCL simulation to VTK files.
VTK files can be plotted by any appropriate viewer, I use Paraview.
Preferrably should be ran from the simulation folder, e.g.
where ./diags/ folder is located. Script creates the folder VTK
where is stores the resuts.
USAGE:
... | hightower8083/chimeraCL | chimera2VTK.py | Python | gpl-3.0 | 5,879 | [
"ParaView",
"VTK"
] | 1e1c3be2a291ede6601b9fb5491f2e6b3c0ec8127436f74a29b951d2c5d1a613 |
from util import *
from InputParameters import InputParameters
from MooseObject import MooseObject
class Tester(MooseObject):
@staticmethod
def validParams():
params = MooseObject.validParams()
# Common Options
params.addRequiredParam('type', "The type of test of Tester to create for this test.")
... | vityurkiv/Ox | python/TestHarness/testers/Tester.py | Python | lgpl-2.1 | 12,787 | [
"VTK"
] | dc382d95392b13fa07066750cc4b85ad4b858fe4af6d8dbc5304019aee6da01b |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import unittest
import os
import tempfile
from monty.json import MontyDecoder
from pymatgen.io.vasp.sets import *
from pymatgen.io.vasp.inputs import Poscar, Kpoints
from pymatgen.core import Specie, Lattice, ... | dongsenfo/pymatgen | pymatgen/io/vasp/tests/test_sets.py | Python | mit | 45,666 | [
"BoltzTrap",
"VASP",
"pymatgen"
] | 12e81372d2336ec7ab77791026e5a0b6c80c19f6bce6295e68ad21519d36cfe4 |
from __future__ import division
from subprocess import call
from matplotlib.ticker import AutoMinorLocator
from matplotlib.ticker import MultipleLocator
from matplotlib.ticker import FixedLocator
from matplotlib.ticker import LogLocator
from matplotlib.ticker import FormatStrFormatter
from sets import Set
import sy... | tripatheea/Riemann-Zeta | python/plots.py | Python | mit | 7,343 | [
"Gaussian"
] | 43e658469534160aff570b6e6f19b7af3c15d6e427cc76b07a2e08d510981c42 |
# -*- coding: utf-8 -*-
#
# This file is part of cclib (http://cclib.github.io), a library for parsing
# and interpreting the results of computational chemistry packages.
#
# Copyright (C) 2006-2014, the cclib development team
#
# The library is free software, distributed under the terms of
# the GNU Lesser General Pub... | ghutchis/cclib | src/cclib/parser/jaguarparser.py | Python | lgpl-2.1 | 29,993 | [
"Gaussian",
"Jaguar",
"cclib"
] | fbfa437953a3c34452e1ca21faad7cc1c5881129ad502eb803965c65e3c76019 |
""" -*- python -*-
This script adding functions and fitting. It also demonstrates
retreiving an ntuple from the histogram to do something with its
contents.
Author: Paul_Kunz@slac.stanford.edu
$Id: function_ntuple.py,v 1.6 2006/04/17 17:32:09 pfkeb Exp $nt
"""
import sys
from load_hippo import app, canv... | plasmodic/hippodraw | examples/function_ntuple.py | Python | gpl-2.0 | 2,272 | [
"Gaussian"
] | 6e0a5010eec25bd94bdd1d1b1ea3312c48c8e5c4f3077571e861b36b8e80092e |
import tempfile
from wsgiref.util import FileWrapper
from django.core.cache import cache
from django.http import StreamingHttpResponse
from django.shortcuts import get_object_or_404, render
from django.views.decorators.cache import cache_page
from django.views.defaults import page_not_found
from newtbase.models impor... | michal-stuglik/newtbase | newtbase/views.py | Python | gpl-2.0 | 7,090 | [
"BLAST"
] | 5e132e965176008785c301f2155ede67842f15b835d4ddc45bbb46c3441b4894 |
"""
#;+
#; NAME:
#; build_casbah_galaxies
#; Version 1.0
#;
#; PURPOSE:
#; Module for buildling CASBAH galaxy database
#; 02-Jan-2015 by JXP
#;-
#;------------------------------------------------------------------------------
"""
from __future__ import print_function, absolute_import, division, unicode_literal... | profxj/xastropy | xastropy/casbah/load_casbah.py | Python | bsd-3-clause | 1,837 | [
"Galaxy"
] | 4f072b59f7125bcf255cdfd54eec58336621eff0897d3e8f6ec877787bcedb0e |
# -*- coding: utf-8 -*-
"""Single-dipole functions and classes."""
# Authors: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Eric Larson <larson.eric.d@gmail.com>
#
# License: Simplified BSD
from copy import deepcopy
import functools
from functools import partial
import re
import numpy as np
from .cov ... | pravsripad/mne-python | mne/dipole.py | Python | bsd-3-clause | 60,225 | [
"Mayavi"
] | b1c91138c6d49e2f37cb5e600d45e29b0ac548b93099974dd686ec2e82df0d8f |
# -*- coding: utf-8 -*-
##############################################################################
#
# OpenERP, Open Source Management Solution
# Copyright (C) 2004-2009 Tiny SPRL (<http://tiny.be>).
# Copyright (C) 2010-2014 OpenERP s.a. (<http://openerp.com>).
#
# This program is free software: you ca... | fossoult/odoo | openerp/tools/misc.py | Python | agpl-3.0 | 45,511 | [
"VisIt"
] | 801eda1a473981ea401af4110c2d75fbc63ab83cf9d1227ceaf251935ac1036c |
from __future__ import division
import tensorflow as tf
import numpy as np
class CRBM(object):
"""CONVOLUTIONAL RESTRICTED BOLTZMANN MACHINE"""
def __init__(self, name, fully_connected = True, v_height = 1, v_width = 1, v_channels = 784, f_height = 1, f_width = 1, f_number = 400,
init_biases_H ... | arthurmeyer/Convolutional_Deep_Belief_Network | crbm_backup.py | Python | mit | 27,267 | [
"Gaussian"
] | 23c80ae9db9b8dc0a80b9784048b6a00f4e66206f2b2e97402557e201d127674 |
"""Makes figure with PMM composites of extreme examples for MYRORSS model.
PMM = probability-matched means
"Extreme examples" include best hits, best correct nulls, worst misses, worst
false alarms, high-probability examples (regardless of true label), and
low-probability examples (regardless of true label).
"""
imp... | thunderhoser/GewitterGefahr | gewittergefahr/prediction_paper_2019/make_extreme_myrorss_figure.py | Python | mit | 18,109 | [
"Gaussian"
] | ac2893d45e8c6837df9876eeb93efa8d5159733553bdb87c209bb09d28bbe1fb |
#/usr/bin/python
# -*- coding:utf-8 -*-
#----------------------------------------------- APPLICATION HEADER DEFINITION ---------------------------------------
## pyTOMTOM - Manage your TomTom !
## http://pytomtom.tuxfamily.org
## dev : Thomas LEROY
## sorry for my bad english in comments...
## thanks to Philippe, Sunil... | albfan/pytomtom | share/pytomtom/src/pytomtom.py | Python | gpl-3.0 | 88,678 | [
"VisIt"
] | 9c8854a3e1c502d7a6a2ba2611d05d30992d71c111789c891fb11d2c102652d3 |
# -*- coding: utf-8; -*-
#
# This file is part of Superdesk.
#
# Copyright 2013, 2014 Sourcefabric z.u. and contributors.
#
# For the full copyright and license information, please see the
# AUTHORS and LICENSE files distributed with this source code, or
# at https://www.sourcefabric.org/superdesk/license
from unittes... | mdhaman/superdesk-aap | server/aap/macros/am_fronters_test.py | Python | agpl-3.0 | 35,554 | [
"VisIt"
] | 79d2611f4e1fe1181c8373c1e7b404873cdc65633e84f42532ac36e7abbaee58 |
'''
Author: Bruno Santeramo <bruno.santeramo@ba.infn.it>
Last Update: 26 dec 2013
Tested Versions:
DIRAC v6r9p33
'''
'''
get input file from LFC
sample tested for gridit VO
'''
print "tested with VO gridit"
print "job download a file using lfn:/"
print "a script set LFC_HOST and get file from LFC"
print "command: ... | SuperDIRAC/TESTDIRAC | sample-script/cli/input_from_LFC/input_from_LFC.py | Python | gpl-3.0 | 443 | [
"DIRAC"
] | 4a18900bce23fbafacf43b2a5413d404ee0c439e34777e4f5f617aa3aa884ef9 |
'''
Created on 26.05.2013
@author: bronikkk
'''
import ast
import config
import ti.mir
import ti.visitor
class Parser(object):
def __init__(self, filename):
self.mir = ti.mir.JoinMirNode()
self.filename = filename
with open(self.filename) as inputFile:
self.ast = ast.parse(... | bronikkk/tirpan | ti/parser.py | Python | gpl-3.0 | 842 | [
"VisIt"
] | 24512b6aa680363e354b7a2cd08b25536c6426d118abcdb9d5deb490b33786fe |
###############################################################################
# Copyright 2015-2020 University of Florida. All rights reserved.
# This file is part of UF CTS-IT's NACCulator project.
# Use of this source code is governed by the license found in the LICENSE file.
#######################################... | ctsit/nacculator | nacc/lbd/v3_1/fvp/builder.py | Python | bsd-2-clause | 20,033 | [
"VisIt"
] | a2013b79ca73cf1bbd5443c9e6a89ecc1ed3b29bbd8441bcd71b9174cebb10e3 |
#!/usr/bin/python
from pymongo import *
class ConnectionDB:
def ConnectionDB(self):
client = MongoClient('localhost',27017)
db = client["octopus"]
return db
| AlissonMMenezes/Octopus | server/octopus/Octopus_Classes/ConnectionDB.py | Python | gpl-2.0 | 168 | [
"Octopus"
] | 00cdd18161800fb3da5de2c6227c0cef7670ee71678d0f09fef5937525c29ba3 |
#!/usr/bin/env python
desc="""Report distance matrix between proteins.
Dependencies:
- Biopython, numpy & scipy
"""
epilog="""Author: l.p.pryszcz@gmail.com
Bratislava, 28/04/2016
"""
import os, sys, gzip
import numpy as np
from datetime import datetime
from Bio import SeqIO
from multiprocessing import Pool
from scip... | lpryszcz/rclups | rclups.py | Python | gpl-3.0 | 8,441 | [
"Biopython"
] | 7ea52c58261c7213a04f60059524093a4fee0d4e874a544e26688d0b254136a6 |
#!/usr/bin/env python
from radical.entk import AppManager
from Sync import SynchronousExchange
import os, time, pprint
import radical.utils as ru
import radical.analytics as ra
import radical.entk as re
import pickle
# ------------------------------------------------------------------------------
# Set default verbosi... | radical-cybertools/radical.repex | old/repex/run.py | Python | mit | 5,463 | [
"Amber"
] | 39ac1fafeaaa47ab803665c83a5bfe3858b4356d25964fbef7d88a7287ba002a |
# -*- coding: utf-8 -*-
#
# Copyright (c) 2016, the cclib development team
#
# This file is part of cclib (http://cclib.github.io) and is distributed under
# the terms of the BSD 3-Clause License.
"""Test Moller-Plesset logfiles in cclib"""
import os
import unittest
import numpy
__filedir__ = os.path.realpath(os.p... | Schamnad/cclib | test/data/testMP.py | Python | bsd-3-clause | 2,464 | [
"cclib"
] | 29c0bf5e66694a1f39ae60b45ccce1c74f44d20a6f1b86bc6d1eabc978dc0277 |
# -*- coding: utf-8 -*-
##
## test_rapidpy.py
## RAPIDpy
##
## Created by Alan D. Snow 2016.
## Copyright © 2015 Alan D Snow. All rights reserved.
##
from datetime import datetime
from filecmp import cmp as fcmp
from netCDF4 import Dataset
import os
from pytz import timezone
from shutil import copy
import pytest
... | erdc-cm/RAPIDpy | tests/test_rapidpy.py | Python | bsd-3-clause | 46,814 | [
"NetCDF"
] | a419e4e099aedcc2a887bf18c99f397c9a29cbe4d050b6cd481f5ce11ac824fb |
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""Setup.py for pymatgen."""
import platform
import sys
from typing import List
import numpy
from setuptools import Extension, find_namespace_packages, setup
extra_link_args: List[str] = []
if sys.platform.startswith("win")... | materialsproject/pymatgen | setup.py | Python | mit | 8,262 | [
"ABINIT",
"ASE",
"CP2K",
"CRYSTAL",
"FEFF",
"Gaussian",
"LAMMPS",
"NWChem",
"VASP",
"VTK",
"pymatgen"
] | 35afc88d9b4e5e4d13aabf875fe06901b77ee0f7a229e74ff789ad4ea6e46095 |
import os
import argparse
import os.path as op
import shutil
from collections import namedtuple
import pysam
try:
from seqcluster import prepare_data as prepare
from seqcluster import make_clusters as main_cluster
from seqcluster.libs.inputs import parse_ma_file
from seqcluster.libs import parse
excep... | fw1121/bcbio-nextgen | bcbio/srna/group.py | Python | mit | 3,686 | [
"pysam"
] | be6f400702bacc3b17bbb34ce74d5331107e2c4e8c7b0244692c152682ae48cf |
# OpenFermion plugin to interface with Psi4.
# Copyright 2017 The OpenFermion Developers.
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your ... | quantumlib/OpenFermion-Psi4 | openfermionpsi4/__init__.py | Python | lgpl-3.0 | 862 | [
"Psi4"
] | 4a014cf078889498f6351466566e9a98a1be9bdf1c99223afa25b89e1fe5a998 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#--------------------------------------------------------------------------
# Software: InVesalius - Software de Reconstrucao 3D de Imagens Medicas
# Copyright: (C) 2001 Centro de Pesquisas Renato Archer
# Homepage: http://www.softwarepublico.gov.br
# Contact: ... | fabio-otsuka/invesalius3 | invesalius/data/viewer_slice.py | Python | gpl-2.0 | 66,618 | [
"VTK"
] | 1d6ccef86ce8d4422945e4d5b32f73e1875ebedd5c6b11e08aa704cddba6dd62 |
#!/usr/bin/env python
# Copyright (C) 2016-2017
# Jakub Krajniak (jkrajniak at gmail.com)
#
# This file is part of ChemLab.
#
# ChemLab 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 ... | cgchemlab/chemlab | src/start_simulation.py | Python | gpl-3.0 | 47,771 | [
"Gaussian",
"Gromacs"
] | 9fb0f70ab504950b7fb54bb666271d41a505612f9ea228f614c22f164ae355c4 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
from __future__ import print_function
import numpy as np
import SimpleITK as sitk
import tempfile
import shutil
from itertools import product
from . import util, preprocessor, plotter
def register_brain(atlas, img, spacing=None, outdir=None):
"""Register 3D mouse brai... | neurodata/ndreg | ndreg/ndreg.py | Python | apache-2.0 | 24,262 | [
"VTK"
] | 0fe98e9d11a0983fdfb2c46d4dc5257d6b25523ff32904ab9805caf4ced975cf |
"""
this file does variant calling for RNAseq
"""
#============= import required packages =================
import os
import sys
import subprocess
sys.stdout = os.fdopen(sys.stdout.fileno(), 'w', 0) # disable buffer
from Modules.f00_Message import Message
from Modules.f01_list_trim_fq import list_files_human,Trimmoma... | shl198/Projects | VariantCall/04_Human_GATK_RNA_vari_call.py | Python | mit | 7,140 | [
"BWA"
] | afc7ac257b8a557aee213746f49b5fe967ef6ab20daabdd097f1900113aa39da |
# -*- coding: UTF-8 -*-
#
# Copyright (c) 2008, Yung-Yu Chen <yyc@solvcon.net>
#
# All rights 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 code must retain the above copyrigh... | yungyuc/solvcon | setup.py | Python | bsd-3-clause | 11,344 | [
"VTK"
] | ddc5dc2c0677b8737058645c5c99be5ef95824c0d4128c41fb4a62355d440423 |
# mako/ast.py
# Copyright (C) 2006-2016 the Mako authors and contributors <see AUTHORS file>
#
# This module is part of Mako and is released under
# the MIT License: http://www.opensource.org/licenses/mit-license.php
"""utilities for analyzing expressions and blocks of Python
code, as well as generating Python from AS... | pcu4dros/pandora-core | workspace/lib/python3.5/site-packages/mako/ast.py | Python | mit | 6,635 | [
"VisIt"
] | 99944e4dbfea943696fb2afc27785802fbead25850ccf3b37497e7292ed4ccfc |
# -*- coding: utf-8 -*-
# vim: autoindent shiftwidth=4 expandtab textwidth=120 tabstop=4 softtabstop=4
###############################################################################
# OpenLP - Open Source Lyrics Projection #
# ------------------------------------------------------... | marmyshev/transitions | openlp/plugins/songs/lib/sundayplusimport.py | Python | gpl-2.0 | 8,696 | [
"Brian"
] | 30577233f4012b5c72adce28e61bd81af0ce513e961da7f340b3b643d5394211 |
"""
@package Utilities
@brief Contains several usefull functions to interact with OS environement and to parse files
@copyright [GNU General Public License v2](http://www.gnu.org/licenses/gpl-2.0.html)
@author Adrien Leger - 2014
* <adrien.leger@gmail.com>
* <adrien.leger@inserm.fr>
* <adrien.leger@univ-na... | a-slide/Isis | src/Utilities.py | Python | gpl-2.0 | 8,630 | [
"BWA",
"Biopython"
] | 06a21e944bdc6df558803cc74a1e32b20a9615302154802481ababf62d11635a |
import sys
from select import select
#from rdkit import Chem
import data_process
import groups
import rotor
import symmetry_no
import gauche
import h_repel
import optical_isomer
import bond_dissociation
import all_classes
import create_dotlst
import create_dotdoc
#################################
def main_prog (line... | mcsanjay/Program-input-to-THERM | main.py | Python | gpl-3.0 | 6,243 | [
"RDKit"
] | 124cacac0bce0cd4c764607acb7c1198f928c5926fb0230b12a6c831a3431ed0 |
# -*- coding: utf-8 -*-
#
# This file is part of Sequana software
#
# Copyright (c) 2016 - Sequana Development Team
#
# File author(s):
# Thomas Cokelaer <thomas.cokelaer@pasteur.fr>
#
# Distributed under the terms of the 3-clause BSD license.
# The full license is in the LICENSE file, distributed with this s... | sequana/sequana | sequana/salmon.py | Python | bsd-3-clause | 8,976 | [
"Bowtie"
] | 077e1a46fe88e1c354c28db9c3c061c8bf36767d7bfd304aad02aed0fdac6710 |
# -*- coding: utf-8 -*-
"""
pysteps.io.importers
====================
Methods for importing files containing two-dimensional radar mosaics.
The methods in this module implement the following interface::
import_xxx(filename, optional arguments)
where **xxx** is the name (or abbreviation) of the file format and f... | pySTEPS/pysteps | pysteps/io/importers.py | Python | bsd-3-clause | 54,566 | [
"NetCDF"
] | 25d37770e6ea0512441f33448a87db142ff667b28db9b03917449b5dbfd60380 |
# Licensed to the StackStorm, Inc ('StackStorm') 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 use th... | lakshmi-kannan/st2 | st2common/st2common/hooks.py | Python | apache-2.0 | 14,743 | [
"GULP"
] | da0442b7b893bdb584252aeaa767be5ef2a93bd2166bc9e8ad902062150c631b |
import unittest, time, sys
sys.path.extend(['.','..','../..','py'])
import h2o, h2o_cmd, h2o_import as h2i, h2o_exec as h2e
class Basic(unittest.TestCase):
def tearDown(self):
h2o.check_sandbox_for_errors()
@classmethod
def setUpClass(cls):
h2o.init()
@classmethod
def tearDownClas... | vbelakov/h2o | py/testdir_single_jvm/test_GLM2_model_key_unique.py | Python | apache-2.0 | 1,980 | [
"Gaussian"
] | 9137b69987b83f632bc7400288599aef7b3a7ea977e942332cc3dcc8834472ae |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2012 Async Open Source <http://www.async.com.br>
## All rights reserved
##
## This program is free software; you can redistribute it and/or modify
## it under the terms of the GNU General Public License as published by
## the Free Software Foundati... | andrebellafronte/stoq | stoqlib/gui/test/test_workorderpackagewizard.py | Python | gpl-2.0 | 3,033 | [
"VisIt"
] | 1a3751c46e30ea9ebe0fbaf5bd6400ba8bf9e4e36b1a10dd0dc426c39dae77f8 |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Thu Jan 19 15:11:09 2017
@author: buckler
"""
import numpy as np
import hashlib
import fnmatch
np.random.seed(888)#for experiment repetibility
import CNN_classifier as cnn
import BIN_classifier as bin
import dataset_manupulation as dm
from os import path, ... | vespero89/Snoring_Challenge | CNN_Snoring_hierarchic/main_experiment_SNORING_hier.py | Python | gpl-3.0 | 13,775 | [
"Gaussian"
] | 366c44a488723efad6ccbf7631897c9205e5478c238c0867ebf794dba93363cb |
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 1 14:22:20 2014
@author: micha
Essentially a python wrapper for GeNN functionality.
"""
from string import Template
import time
import numpy
from ..templates import model
class GennNetwork(object):
"""
This class handles the translation of the network definitio... | Huitzilo/pynn-genn | genn/nittygritty/genn_network.py | Python | mit | 11,284 | [
"NEURON"
] | 1322409c8f51ca0be3e21da75ce9c07ee2e0fa9d6b36583b9bb9f8e67163a468 |
from collections import defaultdict
import csv
import MDAnalysis
from MDAnalysis.analysis import hbonds
from timeit import default_timer as timer
from rdkit import Chem
import rdkit
import numpy as np
import os
class HBonds(object):
"""
This module analyses hydrogen bonds the ligand forms with the protein (ver... | ldomic/lintools | lintools/analysis/hbonds.py | Python | gpl-3.0 | 13,276 | [
"MDAnalysis",
"RDKit"
] | daa4244fa0d00c08bd6a2beb1d8af9de1da6a741955e8f22944d10cd094b8810 |
"""
This module gathers tree-based methods, including decision, regression and
randomized trees. Single and multi-output problems are both handled.
"""
# Code is originally adapted from MILK: Machine Learning Toolkit
# Copyright (C) 2008-2011, Luis Pedro Coelho <luis@luispedro.org>
# License: MIT. See COPYING.MIT file... | kmike/scikit-learn | sklearn/tree/tree.py | Python | bsd-3-clause | 32,489 | [
"Brian"
] | d31f4e256d01210b2b652fdad695adc7a977160f979f88196e590ffcdd07cd92 |
# -*- coding: utf-8 -*-
try:
from selenium.webdriver import PhantomJS
from contextlib import closing
linkbucks_support = True
except:
linkbucks_support = False
try:
from urllib.request import urlsplit, urlparse
except:
from urlparse import urlsplit, urlparse
import json
import os
import re
imp... | pitunti/alfaPitunti | plugin.video.alfa/lib/unshortenit.py | Python | gpl-3.0 | 9,005 | [
"ADF"
] | 630da857ef7e21825719f1cfb95b1a72e40f7c61e1c15108c1c3f8ea8132fd53 |
# -*- coding: utf-8 -*-
__author__ = 'Mikhail Pedrosa <mikhail.jose@hotmail.com> e Tiago AlvesTiago Alves <tiagoinformativa@gmail.com >'
__description__ = 'Operações com Imagens - Histograma, Operações Pontuais, Lógicas, Aritméticas, Translação, Rotação e Escala'
__version__ = '0.1'
__date__ = '15/09/2014'
fro... | mikhailpedrosa/sistmult | histograma.py | Python | gpl-2.0 | 10,917 | [
"Gaussian"
] | 3f5f61359ea13ca339179ad33da99630424e3cc36cb81cf9e2611930fcc74d3c |
import cPickle
import gzip
import os, sys, errno
import time
import math
import glob
import struct
file_location = os.path.split(os.path.realpath(os.path.abspath(os.path.dirname(__file__))))[0]+'/'
sys.path.append(file_location + '/../')
# numpy & theano imports need to be done in this order (only for some num... | ashmanmode/TTSDNNRepo | src/work_in_progress/oliver/dnn_synth.py | Python | apache-2.0 | 25,741 | [
"NEURON"
] | ac19b40e1a5ed38f97753258059d4c81dd3cd4fcc0cf4bb1b815e74ec393126e |
# 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/tests/tests.py | Python | bsd-3-clause | 2,486 | [
"NEURON"
] | 323885e1ae8276e55c9988d94c72eeb69051e22fbca54e977813522107171c0e |
#!/usr/bin/env python3
#* This file is part of the MOOSE framework
#* https://www.mooseframework.org
#*
#* All rights reserved, see COPYRIGHT for full restrictions
#* https://github.com/idaholab/moose/blob/master/COPYRIGHT
#*
#* Licensed under LGPL 2.1, please see LICENSE for details
#* https://www.gnu.org/licenses/lgp... | nuclear-wizard/moose | python/peacock/tests/exodus_tab/test_GoldDiffPlugin.py | Python | lgpl-2.1 | 6,032 | [
"MOOSE"
] | 7044eaa6d351e9119cf61d569f0b00ebed35bb105cee53e9212b4e5f3061d3ae |
# -*- coding: utf-8 -*-
# Copyright (C) 2004-2018 by
# Aric Hagberg <hagberg@lanl.gov>
# Dan Schult <dschult@colgate.edu>
# Pieter Swart <swart@lanl.gov>
# All rights reserved.
# BSD license.
#
# Authors: Aric Hagberg (aric.hagberg@gmail.com)
# Pieter Swart (swart@lanl.gov)
# Dan Sch... | kenshay/ImageScript | ProgramData/SystemFiles/Python/Lib/site-packages/networkx/generators/degree_seq.py | Python | gpl-3.0 | 30,638 | [
"Brian"
] | 87a726b7e90fb4fcd4994f5dac6cd559836d58dd22c94b7c58c6a588c3605a68 |
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