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# Whale Detection preprocessor
# detects the ROI of each whale in an image
import os
import numpy as np
import cv2
def whaleExport(readDir, writeDir):
# Get all files in readDir
files = []
for (dirpath, dirnames, filenames) in os.walk(readDir):
files.extend(filenames)
break
# Loop thr... | andpol5/whaleDetector | investigation/whaleExport.py | Python | mit | 4,020 | [
"Gaussian"
] | e634241c7689b882318b2cb9ff222b264c82dd6eeb9986afebc5026c26b27323 |
# A consolidation of the data sources for the project
# includes:
# NetworkX!
# RDFlib!
# Other things!
#
# Works like Configure:
# Inherit from the DataUser class to access data of all kinds (listed above)
import sqlite3
import networkx as nx
import PyOpenWorm
from PyOpenWorm import Configureable, Configure, ConfigVa... | hnunner/PyOpenWorm | PyOpenWorm/data.py | Python | mit | 20,048 | [
"NEURON"
] | c7f8e65479c48d1a336c7157ee34a583b5764c4ea18a024d723dcf8b37f1a5c7 |
# -*- coding: utf-8 -*-
# This file is public domain according to its author, Brian Hsu
from docutils.parsers.rst import Directive, directives
from docutils import nodes
try:
import requests
except ImportError:
requests = None # NOQA
from nikola.plugin_categories import RestExtension
from nikola.utils impor... | immanetize/nikola | nikola/plugins/compile/rest/gist.py | Python | mit | 2,598 | [
"Brian"
] | fb2a24ac82b7624b09e04e1d9542f958b9576bae76d7ff1c11f5c72814537610 |
#!/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/ao2mo/test/test_r_outcore.py | Python | apache-2.0 | 4,800 | [
"PySCF"
] | 26c1694cd8b6d6c04e2917f952494ea4edb5ee564d7113b8147840c093f9b44b |
from setuptools import setup
from setuptools import Extension
from setuptools import find_packages
import platform
from pkg_resources import get_build_platform
from Cython.Build import cythonize
import numpy as np
import os
import sys
description = "A Python interface to the electron microscopy simulation program QSTE... | jacobjma/PyQSTEM | setup.py | Python | gpl-3.0 | 3,569 | [
"ASE"
] | cd3d20b38e294fb1ecfdc905051b2dbf1a91b532257324aca56142e134e85901 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# simrecon_utils.py
"""
Some utilities for SIM reconstruction.
Copyright (c) 2016, David Hoffman
"""
# import some os functionality so that we can be platform independent
import os
import glob
import re
import tqdm
import numpy as np
import matplotlib.pyplot as plt
from mp... | david-hoffman/scripts | simrecon_utils.py | Python | apache-2.0 | 57,959 | [
"Gaussian"
] | 94170172d16db2bcfcd84a888619315d1bd7396d1da1b140f37be4c9f1d7ed2d |
from sys import stdout
from time import localtime
from numpy import linalg as la
import cPickle as pickle
import numpy as np
from gpaw.utilities import pack, unpack
from gpaw.utilities.tools import tri2full
from gpaw.utilities.blas import rk, gemm
from gpaw.basis_data import Basis
from gpaw.setup import types2atomtype... | robwarm/gpaw-symm | gpaw/lcao/tools.py | Python | gpl-3.0 | 22,511 | [
"ASE",
"GPAW"
] | 6c34f179fe653e3c155b18140fe4c675481b4af1de23d9296372414414318064 |
"""
This is a very simple example referenced in the beginner's tutorial:
https://enigmampc.github.io/catalyst/beginner-tutorial.html
Run this example, by executing the following from your terminal:
catalyst ingest-exchange -x bitfinex -f daily -i btc_usdt
catalyst run -f buy_btc_simple.py -x bi... | enigmampc/catalyst | catalyst/examples/buy_btc_simple.py | Python | apache-2.0 | 1,715 | [
"VisIt"
] | f5ed6ba3c48e449a303182ff620694560c89c489f3a8e17fc1fe1cfaf4115104 |
#!/usr/bin/env python
##############################################################################################
#
#
# regrid_emissions_N96e.py
#
#
# Requirements:
# Iris 1.10, cf_units, numpy
#
#
# This Python script has been written by N.L. Abraham as part of the UKCA Tutorials:
# http://www.ukca.ac.uk/wiki... | acsis-project/emissions | emissions/python/timeslice/regrid_aircNO_n96e_360d_1year.py | Python | gpl-3.0 | 6,579 | [
"NetCDF"
] | 61f99c277d9f2570333a4606aeada88b4d6ec500e7c3afb5066a3b03108e4013 |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Complete pipeline for online processing using OnACID.
@author: Andrea Giovannucci @agiovann and Eftychios Pnevmatikakis @epnev
Special thanks to Andreas Tolias and his lab at Baylor College of Medicine
for sharing their data used in this demo.
"""
from __future__ impo... | agiovann/Constrained_NMF | use_cases/CaImAnpaper/online_testing2_bk_AG.py | Python | gpl-2.0 | 38,114 | [
"NEURON"
] | 67bad16a48e6add7f5043042e5e73f0986fcdfdfa07313a9cbefe60bc5e4fd2b |
from .snapshot import BaseSnapshot, SnapshotFactory, SnapshotDescriptor
from .trajectory import Trajectory
from .topology import Topology, MDTrajTopology
from . import features
from .dynamics_engine import (
DynamicsEngine, NoEngine, EngineError,
EngineNaNError, EngineMaxLengthError)
from .external_engine i... | choderalab/openpathsampling | openpathsampling/engines/__init__.py | Python | lgpl-2.1 | 398 | [
"Gromacs"
] | 4069c4b9d95475367b7f3c9d7bbf5c1f10498bd4bc34b2084e9ebb7eade701b2 |
# -*- coding: utf-8 -*-
"""Load LDraw GPLv2 license.
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 distribut... | TobyLobster/ImportLDraw | loadldraw/loadldraw.py | Python | gpl-2.0 | 208,815 | [
"Bowtie"
] | d406627eadb8fbbbab1e2b6e4f70dc8860494549b9739727fec8c68840e8b9b7 |
# -*- coding: utf-8 -*-
"""Operations for BEL graphs."""
from typing import Iterable
import networkx as nx
from tqdm.autonotebook import tqdm
from .utils import update_metadata
from ..dsl import BaseEntity
__all__ = [
"subgraph",
"left_full_join",
"left_outer_join",
"union",
"left_node_intersec... | pybel/pybel | src/pybel/struct/operations.py | Python | mit | 5,181 | [
"Pybel"
] | 22d4e591c35ee7e5b60d9b4cb091b5801ee76bd3bb7611dc611c8422d9fc5e0a |
#!/usr/bin/env python
########################################################################
# File : dirac-version
# Author : Ricardo Graciani
########################################################################
"""
print version of current DIRAC installation
"""
from __future__ import print_function
impo... | fstagni/DIRAC | Core/scripts/dirac-version.py | Python | gpl-3.0 | 350 | [
"DIRAC"
] | ec4262cd317d21897a9c50bb4eadb08fc59e1df8b7f8f34f5ac4b444e9bce72a |
from typing import Optional, Tuple
import picwriter.components as pc
import gdsfactory as gf
from gdsfactory.component import Component
from gdsfactory.components.waveguide_template import strip
from gdsfactory.types import ComponentFactory
@gf.cell
def dbr_tapered(
length: float = 10.0,
period: float = 0.8... | gdsfactory/gdsfactory | gdsfactory/components/dbr_tapered.py | Python | mit | 2,807 | [
"CRYSTAL"
] | dbc0bed072dd3f1ffc1b53114d55218316b75fc1df75766c38e25c456c3ed74d |
# -*- coding: utf-8 -*-
"""
Copyright (C) 2013-2021 ITB - CNR
This file is part of isoSegmenter.
isoSegmenter 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... | bunop/isoSegmenter | GClib/Elements.py | Python | gpl-3.0 | 50,630 | [
"Biopython"
] | 4944904bb472256853581b20e3efafbf0305b3b5e4a0e8d4c1790807566df856 |
'''
Created on Jan 29, 2012
@author: Jeff
'''
import os.path
import numpy, scipy
from scipy.ndimage import gaussian_filter, map_coordinates
from PySide import QtGui, QtCore
import dicom
import TriModel
from Joint import Joint
from polygonise import Polygonise
from STL import readSTLfile, saveSTLFile
from... | vanossj/pyAtlasBoneSegmentation | src/InputDataTypes.py | Python | mit | 32,816 | [
"Gaussian"
] | 6d9892c0d85e7478b8be7498b2585f9ef09355cf34f9f73666172ba36d61eb7b |
import astroid.inference
import astroid
from astroid.node_classes import *
from typing import *
from typing import Callable, Union, ForwardRef, _GenericAlias
from astroid.transforms import TransformVisitor
from itertools import chain
from ..typecheck.base import Environment, TypeConstraints, _ann_node_to_type, \
_n... | RyanDJLee/pyta | python_ta/transforms/type_inference_visitor.py | Python | gpl-3.0 | 42,152 | [
"VisIt"
] | b159a25771d116f3efb38ca51737173908d029d0f1ab24733b2dee2c0adcbec8 |
# Copyright (c) 2015, 2014 Computational Molecular Biology Group, Free University
# Berlin, 14195 Berlin, Germany.
# 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 c... | arokem/PyEMMA | pyemma/coordinates/tests/test_save_traj.py | Python | bsd-2-clause | 7,074 | [
"MDTraj"
] | 02745c922cef98c01a9da5c69008dc1408105b51ec655ef1a38d170b9f101ea4 |
'''
Created on Oct 25, 2010
@author: mkiyer
chimerascan: chimeric transcript discovery using RNA-seq
Copyright (C) 2011 Matthew Iyer
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 ... | tectronics/chimerascan | chimerascan/deprecated/old_gene_to_genome.py | Python | gpl-3.0 | 15,078 | [
"pysam"
] | 897eb4daecba291c17524dbb01768f602eff051c576a06b172583ef72a1328ac |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""Views tests for the OSF."""
from __future__ import absolute_import
import datetime as dt
import httplib as http
import json
import time
import unittest
from flask import request
import mock
from nose.tools import * # noqa PEP8 asserts
from modularodm import Q
from m... | rdhyee/osf.io | tests/test_views.py | Python | apache-2.0 | 195,161 | [
"Brian"
] | 565240ee19e18de17012da29351b27e1617ebc2277ca6e4466f158d71429c793 |
#!/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/ci/__init__.py | Python | apache-2.0 | 3,737 | [
"PySCF"
] | 05994c24f603d7d3679e378581134b6f278c82c6fbc3f72d0b1421642942ab6a |
import pylab as pyl
import cPickle as pickle
galaxies = pickle.load(open('galaxies.pickle','rb'))
galaxies = filter(lambda galaxy: galaxy.Gini != None and galaxy.ston_I >
10., galaxies)
f1 = pyl.figure(1,figsize=(5,5))
f1s1 = f1.add_subplot(221)
f1s2 = f1.add_subplot(222)
f1s3 = f1.add_subplot(223)
f1s4 = f1.... | boada/ICD | sandbox/lowerSN/plot_G_vs_M20_multi.py | Python | mit | 1,777 | [
"Galaxy"
] | 6013ab3a08bc5c0716be07d0b06ebe5b9191d8dd3920062322f5362bed2a2d87 |
# class generated by DeVIDE::createDeVIDEModuleFromVTKObject
from module_kits.vtk_kit.mixins import SimpleVTKClassModuleBase
import vtk
class vtkStructuredGridOutlineFilter(SimpleVTKClassModuleBase):
def __init__(self, module_manager):
SimpleVTKClassModuleBase.__init__(
self, module_manager,
... | nagyistoce/devide | modules/vtk_basic/vtkStructuredGridOutlineFilter.py | Python | bsd-3-clause | 521 | [
"VTK"
] | 1579b40fe92a941021f0945d9b84a52bc015a20082e9a915d79b4b476b841d8d |
##############################################################################
# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | lgarren/spack | var/spack/repos/builtin/packages/r-biocinstaller/package.py | Python | lgpl-2.1 | 1,750 | [
"Bioconductor"
] | f3d57f48b383c7af881aea1c01fe50f0ec7b2522a89222ea6d9f0bc22cb4ca68 |
# -*- 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/android/android_helper.py | Python | gpl-3.0 | 1,940 | [
"ORCA"
] | 8a5b4a6ae1c002c6294548d89740c629674065e53a8c7641d45a7dcb8b5b206f |
from bulbs.neo4jserver import Graph
from bulbs.model import Node, Relationship
from bulbs.property import Property, String, Integer, Float, DateTime
from bulbs.utils import current_datetime
# TODO: check latest gist's
# Requirements (installable with pip)
# pytz ujson six
# You need: sudo apt-get install python-dev
... | catsop/CATMAID | scripts/graphdb/test_bulbs.py | Python | gpl-3.0 | 3,987 | [
"NEURON"
] | 7a65a2c98f09998d485f4dee9554b79cbe3ec53a214cb054e8ab06a2e9eacc21 |
#!/usr/local/sci/bin/python2.7
'''
# KW changed make_and_qc_db.py to make_and_full_qc.py
# KW changed by adding --month1 and --month2
make_and_full_qc.py invoked by typing::
python2.7 make_and_full_qc.py -i configuration.txt --year1 1850 --year2 1855 --month 1 --month2 12
# KW edited to reflect that code now produc... | Kate-Willett/HadISDH_Marine_Build | EUSTACE_SST_MAT/make_and_full_qc.py | Python | cc0-1.0 | 45,398 | [
"NetCDF"
] | 4d9964fc641f83c3fa11f424823e2c872fdeda04352b1910f3524606116088af |
import re
import numpy as np
import math
import os
from skbeam.core.fitting.xrf_model import K_LINE, L_LINE, M_LINE
from skbeam.core.constants.xrf import XrfElement
from skbeam.core.fitting.lineshapes import gaussian
from ..model.load_data_from_db import save_data_to_hdf5
from ..core.quant_analysis import ParamQuantE... | NSLS-II-HXN/PyXRF | pyxrf/simulation/sim_xrf_scan_data.py | Python | bsd-3-clause | 27,000 | [
"Gaussian"
] | 53f875f48c7a2c16047dccd9d52ee33364fad301bf7166118a3b3f462df9d8f7 |
# $Id$
#
# Copyright (C) 2002-2006 greg Landrum and Rational Discovery LLC
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
"""unit testing code ... | strets123/rdkit | rdkit/Chem/EState/UnitTestEState.py | Python | bsd-3-clause | 3,044 | [
"RDKit"
] | e3450e0d9400a47ab6f8f7e9affa6f9f34f46ffb9054e3e04557a00257a69b80 |
"""
awot.io.read_ground_radar
=========================
These scripts are a wrapper using the pyart interface to access a large
number of file formats.
"""
# Load the needed packages
import pyart
from netCDF4 import num2date, date2num
from . import common
def read_ground_radar(fname, map_to_awot=True,
... | adlyons/AWOT | awot/io/read_ground_radar.py | Python | gpl-2.0 | 2,393 | [
"NetCDF"
] | 3d7bba082f2ba73d49c51086e25dc094974f0eaccfaff294a12d553e0ef9424d |
import astropy.io.fits as pf
import os
import numpy as np
from copy import deepcopy
from itertools import chain
import unittest
import healpy as hp
import warnings
# disable new order warnings in tests
warnings.filterwarnings("ignore")
class TestSphtFunc(unittest.TestCase):
def setUp(self):
self.lmax ... | lpsinger/healpy | healpy/test/test_sphtfunc.py | Python | gpl-2.0 | 14,941 | [
"Gaussian"
] | 26f7a2495b862d7338dfcf06c609c90b18aea04e91462865b2c6470b2e7e6a40 |
from django.test import TestCase
from django.test.client import Client
from django.contrib.auth.models import User
from django.conf.urls import url
from ribbit_app.models import Ribbit
from . import views
from django.core.urlresolvers import reverse
from django.test import LiveServerTestCase
from django.contrib.auth.... | bkold/CarbonCopy | ribbit_app/tests.py | Python | mit | 6,847 | [
"Brian"
] | 09fc564422f49369ce7d6bafdfa031b1f44b9a67bab64448d664d6780f17b448 |
""" FileCatalogFactory class to create file catalog client objects according to the
configuration description
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
from DIRAC import gLogger, gConfig, S_OK, S_ERROR
from DIRAC.ConfigurationSystem.Client.Help... | yujikato/DIRAC | src/DIRAC/Resources/Catalog/FileCatalogFactory.py | Python | gpl-3.0 | 2,625 | [
"DIRAC"
] | fcd44a3bcbae7668e4e84db31c69db42c600d8b5c623a7cb70aaf59068e632e0 |
"""Contains the parent classes for MPF's display SlideBuilder class. """
# slide_builder.py
# Mission Pinball Framework
# Written by Brian Madden & Gabe Knuth
# Released under the MIT License. (See license info at the end of this file.)
# Documentation and more info at http://missionpinball.com/mpf
import logging
im... | spierepf/mpf | mpf/media_controller/core/slide_builder.py | Python | mit | 12,495 | [
"Brian"
] | b9ef645d9b387d644ff5acbd796c7ba89e76342c305d2400edf67f68693dcf9e |
import dryscrape, re, sys
from bs4 import BeautifulSoup
class EmailCrawler:
"""
Takes a domain name and prints out a list of email addresses found on that web page
or a lower level web page with the same given domain name.
Stores emails, paths, and visited_paths as sets to avoid duplicates.
Uses Dr... | junhaodong/misc | web_crawler/find_email_addresses.py | Python | mit | 3,846 | [
"VisIt"
] | 1690aa87ad44d1d631ff22348347ef95df1c92d1e718832bd1ca98c9d6e225c1 |
# ============================================================================
#
# Copyright (C) 2007-2010 Conceptive Engineering bvba. All rights reserved.
# www.conceptive.be / project-camelot@conceptive.be
#
# This file is part of the Camelot Library.
#
# This file may be used under the terms of the GNU General... | kurtraschke/camelot | camelot/view/export/printer.py | Python | gpl-2.0 | 2,211 | [
"VisIt"
] | 170e2ca60796dae0b2df02a3f5fcd03ef59afb4a20bd8e608a8bcb534e4fd5e4 |
"""
It is used to load classes from a specific system.
"""
import re
import os
import DIRAC
from DIRAC import gLogger
from DIRAC.Core.Utilities import List
from DIRAC.ConfigurationSystem.Client.Helpers import CSGlobals
def loadObjects(path, reFilter=None, parentClass=None):
"""
:param str path: the path to the sy... | arrabito/DIRAC | Core/Utilities/Plotting/ObjectLoader.py | Python | gpl-3.0 | 2,325 | [
"DIRAC"
] | 09778f6877ca4569d9ddfbd3a2670d1876e425e6fed8ee04ca42442abb1c45c3 |
import os
from sys import exit
import pygame
import time
#import pywapi
import requests
import string
import logging
import datetime
import calendar
#import threading
import random
# *** Not to be used for commercial use without permission!
# if you want to buy the icons for commercial use please sen... | schnitzlein/weatherstation | WeatherScreen.py | Python | mit | 31,076 | [
"SIESTA"
] | 0d239a65f4b489b128671500c29e7826a2dc6b5c9cc5308445efd84f0b145ce1 |
# -*- encoding: utf-8 -*-
##############################################################################
#
# Copyright (c) 2008-2013 Alistek Ltd (http://www.alistek.com) All Rights Reserved.
# General contacts <info@alistek.com>
#
# WARNING: This program as such is intended to be used by professional... | dhp-denero/LibrERP | report_aeroo_direct_print/__openerp__.py | Python | agpl-3.0 | 3,037 | [
"VisIt"
] | e607cf9666b27dbea1b6ce92b2b53349cd03dbbd7804b3333f15be467d0d2b7a |
"""
Latent Dirichlet Allocation models, including vanilla LDA as well as correlated
and dynamic topic models (CTMs and DTMs) employing the Polya-Gamma augmentation.
"""
from __future__ import absolute_import
import abc
import copy
import numpy as np
from scipy.misc import logsumexp
from scipy.linalg import solve_triang... | fivejjs/pgmult | pgmult/lda.py | Python | mit | 15,451 | [
"Gaussian"
] | 62acfe4d4744308c6d6540397e6d1bfd7080f19e2f7df03b146d5954a020bdbf |
# Minimal support for git commands on an hg repository
#
# Copyright 2005, 2006 Chris Mason <mason@suse.com>
#
# This software may be used and distributed according to the terms of the
# GNU General Public License version 2 or any later version.
'''browse the repository in a graphical way
The hgk extension allows bro... | dscho/hg | hgext/hgk.py | Python | gpl-2.0 | 11,479 | [
"VisIt"
] | 839a21c9764f4e27c79f00f910d12299890642d2ed5c5b20adf9bf1dcedf808b |
#!/usr/bin/env python
# MinPath
# developed by Yuzhen Ye (yye@indiana.edu)
# Indiana University, Bloomington
# what's new in version 1.2 (released on Oct 19, 2010)
# MinPath1.2 works on any pathway system
# what you need: a pathway-function mapping file (e.g, data/ec2path), and your input file
# what's new in versi... | ecotox/pacfm | pacfm/tools/minpath-1.2/MinPath1.2.py | Python | mit | 29,666 | [
"BLAST"
] | 65875298cbdbf5190245ebf89d665020c98ff6d5fea9c5aa8449ca8c6b71c417 |
#!/usr/bin/env python3
import argparse
import sys
from pysisyphus.calculators import ORCA
from pysisyphus.helpers_pure import highlight_text
def parse_args(args):
parser = argparse.ArgumentParser()
parser.add_argument("--logs", nargs="+", required=True)
parser.add_argument("--gbws", nargs="+", required... | eljost/pysisyphus | scripts/orca_overlaps.py | Python | gpl-3.0 | 1,835 | [
"ORCA"
] | 7a48436d76e91e250c0bd580ba2c08bbef5dedff563b089228b3b27525706dc6 |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
#
# MDAnalysis --- http://www.mdanalysis.org
# Copyright (c) 2006-2016 The MDAnalysis Development Team and contributors
# (see the file AUTHORS for the full list of names)
#
# Released under th... | alejob/mdanalysis | package/MDAnalysis/analysis/rdf.py | Python | gpl-2.0 | 5,213 | [
"MDAnalysis"
] | cc16c7a4086f032287e17bc8bf59c94aa63962d1763c3987f05e1ee97941dfae |
#
# Copyright (C) 2000 Stephen Davies
# Copyright (C) 2000 Stefan Seefeld
# All rights reserved.
# Licensed to the public under the terms of the GNU LGPL (>= 2),
# see the file COPYING for details.
#
from Synopsis import ASG
from Synopsis.Formatters.HTML.Tags import *
from Tree import Tree
class ModuleTree(Tree):
... | stefanseefeld/synopsis | Synopsis/Formatters/HTML/Views/ModuleTree.py | Python | lgpl-2.1 | 2,273 | [
"VisIt"
] | b7d003d43ced6609c8b46ce70594288ad59bdfc2b878544fef9f4e186d137428 |
"""
:mod: DataManager
.. module: DataManager
:synopsis: DataManager links the functionalities of StorageElement and FileCatalog.
This module consists of DataManager and related classes.
"""
# # imports
from datetime import datetime, timedelta
import fnmatch
import os
import time
import errno
# # from DIRAC
import... | fstagni/DIRAC | DataManagementSystem/Client/DataManager.py | Python | gpl-3.0 | 75,362 | [
"DIRAC"
] | 074f832c3be96c31271748693f31b3fc6ef938d2f06eeb091be9307e1136ddec |
# coding: utf-8
'''
Created on 2014-08-20
A module to load station daily data from Environment Canada from ASCII files and convert them to monthly
NetCDF datasets (with extremes); the module also provides a wrapper to load the NetCDF datasets.
@author: Andre R. Erler, GPL v3
'''
# external imports
import numpy as ... | aerler/GeoPy | src/datasets/EC.py | Python | gpl-3.0 | 58,269 | [
"NetCDF"
] | 8b75d3f836a1f8a292b810dd73070d3a3455855675eb3d0a3102e04790d0ac81 |
# -*- 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/gapic-generator-python | tests/integration/goldens/logging/tests/unit/gapic/logging_v2/test_config_service_v2.py | Python | apache-2.0 | 245,614 | [
"Octopus"
] | 1ec1fac4968d58471f80de324e4bfbfb44a673ca867c6e2dde65e81428042744 |
#!/Users/takashi/.pyenv/shims/python
import numpy as np
import math
def gausskernel(x1, x2, gamma):
"""
x1, x2 must be numpy's ndarrays.
This code returns a gaussian kernel value between x1 and x2
"""
subtr = np.subtract(x1, x2)
return math.exp(- (np.inner(subtr, subtr) * gamma))
# ... | TakashiMatsuda/sag_svm | gausskernel.py | Python | mit | 838 | [
"Gaussian"
] | bc38951c63ff1bcfe2a8c5d950364c4c4d8f1414e68ca98399c4a8452253820c |
# needs mayavi2
# run with ipython -wthread
import networkx as nx
import numpy as np
from enthought.mayavi import mlab
# some graphs to try
#H=nx.krackhardt_kite_graph()
#H=nx.Graph();H.add_edge('a','b');H.add_edge('a','c');H.add_edge('a','d')
#H=nx.grid_2d_graph(4,5)
H=nx.cycle_graph(20)
# reorder nodes from 0,len(... | elenanst/HPOlib | virtualHPOlib/share/doc/networkx-1.11/examples/3d_drawing/mayavi2_spring.py | Python | gpl-3.0 | 1,095 | [
"Mayavi"
] | 899441425862f308b53a425ab09e1e02d842a77af34bc76f7bf06194be7d8e2b |
# $Id$
#
# Copyright (C) 2004-2006 Rational Discovery LLC
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
from __future__ import division
from r... | adalke/rdkit | rdkit/DataStructs/__init__.py | Python | bsd-3-clause | 1,575 | [
"RDKit"
] | 770cf4196d78474f9bda92caab4db1f9ea123433e3b15f1982d421d7de1da57a |
#! /usr/bin/env python
# -*- coding: utf-8 -*-
# vim:fenc=utf-8
#
# Copyright © 2017 rvedantam3 <vrama91@vt.edu>
#
# Distributed under terms of the MIT license.
"""A class specifying preprocessing steps for CelebA images.
Author: Ramakrishna Vedantam
vrama@gatech.edu
The class is based on the example image decoder ... | google/joint_vae | datasets/celeba/image_decoder.py | Python | apache-2.0 | 3,945 | [
"Gaussian"
] | 1b7d8eb3fc77b35db3e689e882609ab92aa312ec3d548758dd664ef27fcfecd2 |
""" LazynessAnalysis returns number of time a name is use. """
from pythran.analyses.aliases import Aliases
from pythran.analyses.argument_effects import ArgumentEffects
from pythran.analyses.identifiers import Identifiers
from pythran.analyses.pure_expressions import PureExpressions
from pythran.passmanager import Fu... | pbrunet/pythran | pythran/analyses/lazyness_analysis.py | Python | bsd-3-clause | 13,878 | [
"VisIt"
] | c5692c4c450208a7ad73f3fb0407eb81693aa3f04b594f0d754d9e229480a26b |
# -*- coding: utf-8 -*-
"""
tools
=====
Functions that USERS will possibly want access to.
"""
from __future__ import absolute_import
import json
import warnings
import six
import re
import os
from plotly import exceptions, optional_imports
from plotly.files import PLOTLY_DIR
DEFAULT_PLOTLY_COLORS = [
"rgb(3... | plotly/python-api | packages/python/plotly/plotly/tools.py | Python | mit | 25,137 | [
"VisIt"
] | 165286fecef9b4cf7b112e7174b5f870cce86da5643c30246fabd1e624345d8c |
#!/usr/bin/python
# -*- coding: utf-8 -*-
"""
Microsoft translator API
An example::
The project is hosted on GitHub where your could fork the project or report
issues. Visit https://github.com/****************
:copyright: © 2015 by Hiroyuki Okada & Tamagawa University
:license: BSD, see LI... | okadahiroyuki/trcp | trcp_chat/nodes/aaa.py | Python | mit | 1,824 | [
"VisIt"
] | cd2d28f10830e29af3c81afa745127510be8e62c162d6747a0f1fefca203d416 |
# SecuML
# Copyright (C) 2016-2018 ANSSI
#
# SecuML 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.
#
# SecuML is distributed in the h... | ah-anssi/SecuML | SecuML/core/Classification/Monitoring/FamiliesMonitoring.py | Python | gpl-2.0 | 8,858 | [
"Gaussian"
] | 703668ef77411a069bb33218a4cadbd96deeb9aa3f1479491c42328ecef4bcf7 |
# 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 version.
#
# This library ... | FedoraScientific/salome-hexablock | doc/pyplots/test_disconnect.py | Python | lgpl-2.1 | 2,114 | [
"VTK"
] | 2c7d87a2e916629e8c70ce564f4bee4c90df3305a3aedac6de90c5fb3c1c6825 |
# coding: utf8
# online.py
# 10/9/2014 jichi
#
# API: http://dws.voicetext.jp/tomcat/data.xml
#
# See: http://voicetext.jp/
#
# Example:
#
# HIKARI (ja) Normal:
# Text: 憎しみは憎しみしか生まない。
# POST http://dws.voicetext.jp/tomcat/servlet/vt [HTTP/1.1 200 OK 587ms]
# - X-Requested-With: XMLHttpRequest
# - Referer: http://dws.vo... | Dangetsu/vnr | Frameworks/Sakura/py/libs/voicetext/online.py | Python | gpl-3.0 | 7,402 | [
"VisIt"
] | a3c143fb3abfa4c3cbdb028f1e97bcb8c21a60e29cd54b6ba1f4516441ffec7a |
import nest
import nest.raster_plot
import numpy as np
import pylab as pl
nest.ResetKernel()
nest.SetKernelStatus({"overwrite_files": True})
if (not 'bcpnn_dopamine_synapse' in nest.Models()):
nest.Install('ml_module')
# #####
# DOPA
# #####
#popa = nest.Create('iaf_neuron', 200)
#vt_dopa = nest.Create('volume... | pierreberthet/local-scripts | neuron_param_test.py | Python | gpl-2.0 | 3,791 | [
"NEURON"
] | 209801b7c1ba950b377026a1358cc387b778e53ac68c93d141a3c1589be62efc |
from __future__ import absolute_import, division, print_function
# ----------------------------------------------------------------------------
# Copyright (c) 2013--, scikit-bio development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file COPYING.txt, distributed ... | Kleptobismol/scikit-bio | skbio/diversity/beta/_base.py | Python | bsd-3-clause | 3,415 | [
"scikit-bio"
] | f28e7bf56ca7988c0fe37df9187be18235850c0c703b5bd07a485e707bfe22c6 |
import os, shutil
class calculate_stability(object):
def __init__(self):
self.new_sequences_list = []
self.split_new_seq_list = []
self.num_splits = 4
self.bash_file_name = "bash_file.sh"
def run(self):
self.read_sequence_file()
self.prep_split_folders()
... | blab/stability | augur/stability-data/calculate_stability.py | Python | agpl-3.0 | 4,068 | [
"FoldX"
] | f11198449120bd69df5f93865b3b92fae5f836ca045bb547a73edd031da2dbb9 |
""" This is a test of using WMSClient and several other functions in WMS
In order to run this test we need the following DBs installed:
- JobDB
- JobLoggingDB
- TaskQueueDB
- SandboxMetadataDB
- PilotAgentsDB
And the following services should also be on:
- OptimizationMind
- JobMan... | arrabito/DIRAC | tests/Integration/WorkloadManagementSystem/Test_Client_WMS.py | Python | gpl-3.0 | 22,006 | [
"DIRAC"
] | 06129ea80e7e49941073202ba504ae3f423d5324d3c38f8f5a4f84c244d10137 |
"""
Test waiting for elements to appear after requesting via ajax.
"""
from bok_choy.promise import BrokenPromise
from bok_choy.web_app_test import WebAppTest
from .pages import AjaxPage, AjaxNoJQueryPage
class AjaxTest(WebAppTest):
"""
Test waiting for an ajax call to return.
"""
def setUp(self):
... | drptbl/bok-choy | tests/test_ajax.py | Python | apache-2.0 | 1,878 | [
"VisIt"
] | b3fccba8142f3832daefee36584c060f9228dcdf8ef6251cd47116ea0782d333 |
"""
User policy settings
"""
from askbot.conf.settings_wrapper import settings
from askbot.deps import livesettings
from django.utils.translation import ugettext as _
from askbot import const
USER_SETTINGS = livesettings.ConfigurationGroup(
'USER_SETTINGS',
_('User settings')
... | aavrug/askbot-devel | askbot/conf/user_settings.py | Python | gpl-3.0 | 1,880 | [
"VisIt"
] | 41c3559b3045d7cc83adc396bc595686b15da9494ee9d1230e4b83257c90486f |
# generated with make_mock.py
def abspath(path):
"""Return a normalized absolutized version of the pathname *path*. On most
platforms, this is equivalent to ``normpath(join(os.getcwd(), path))``."""
return ''
altsep = None
def basename(path):
"""Return the base name of pathname *path*. This is th... | kmod/icbd | stdlib/type_mocks/os/path.py | Python | mit | 9,219 | [
"VisIt"
] | 13ebe077d02aa6090dd774fd139995c37aa35e0adf3a9579cd44cf2f6962785f |
##### import the simple module from the paraview
from paraview.simple import *
#### disable automatic camera reset on 'Show'
paraview.simple._DisableFirstRenderCameraReset()
import os
DATAPATH=os.environ["VERROU_PARAVIEW_DATA_PATH"]
try:
DATAPATH
except NameError:
print("Please set the DATAPATH variable with the... | edf-hpc/verrou | pyTools/paraview_script.py | Python | gpl-2.0 | 2,245 | [
"ParaView"
] | 32fd2fa161cf1e19a5eaa90ab8380f898c0305c96e23cd03f3ff5d70042a1082 |
""" Copyright 2018, Google, Inc.
Licensed under the Apache License, Version 2.0 (the "License");
you may not use this file except in compliance with the License.
You may obtain a copy of the License at
http://www.apache.org/licenses/LICENSE-2.0
Unless required by applicable law or agreed to in writing, software
d... | GoogleCloudPlatform/dlp-cloud-functions-tutorials | gcs-dlp-classification-python/main.py | Python | apache-2.0 | 7,254 | [
"VisIt"
] | 3f8e826ddb41d802155054db5d86ea3a5520fd71f6cfec841f31f28ab8d03acf |
''' file name : smoothing.py
Description : This sample shows how to smooth image using various filters
This is Python version of this tutorial : http://opencv.itseez.com/doc/tutorials/imgproc/gausian_median_blur_bilateral_filter/gausian_median_blur_bilateral_filter.html#smoothing
Level : Beginner
Benefits : Learn t... | asrob-uc3m/rpc_rpi | src/python/opencv_python_tutorials/Official_Tutorial_Python_Codes/3_imgproc/smoothing.py | Python | gpl-3.0 | 2,055 | [
"VisIt"
] | 86eb6c2a69e99066e53dfcb862340bee3170a79c59eaa3e4ecf316313cd53507 |
import numpy as np
import itertools
import logging
import time
import traceback
from collections import Mapping
from ..conventions import cf_encoder
from ..core.utils import FrozenOrderedDict
from ..core.pycompat import iteritems, dask_array_type, OrderedDict
# Create a logger object, but don't add any handlers. Leav... | drewokane/xray | xarray/backends/common.py | Python | apache-2.0 | 7,619 | [
"NetCDF"
] | ad51a724dbf64f171cc4c9794dbfa30838b47f2440102ce3aa92aba1034163c3 |
#!/usr/bin/env python
#
# $File: statAssociation.py $
#
# This file is part of simuPOP, a forward-time population genetics
# simulation environment. Please visit http://simupop.sourceforge.net
# for details.
#
# Copyright (C) 2004 - 2010 Bo Peng (bpeng@mdanderson.org)
#
# This program is free software: you can redistr... | BoPeng/simuPOP | docs/statAssociation.py | Python | gpl-2.0 | 2,265 | [
"VisIt"
] | b3f6952499def7c9f4fa91fa3f65b264af1341834f6094bef7dc075bef1662e4 |
from PyQt4 import QtGui
from aston.qtgui.ui_settings import Ui_Form
#from aston.database.Database import AstonDatabase
#from aston.database.Compound import get_compound_db
from aston.qtgui.TableFile import FileTreeModel
from aston.qtgui.MenuOptions import peak_models
from aston.spectra.Isotopes import delta13C_constant... | molliewebb/aston | aston/qtgui/Settings.py | Python | gpl-3.0 | 6,438 | [
"Gaussian"
] | f11142322730a088559f927dbf233a6a367bfa493c4ab89c247760fa676b68ff |
# -*- coding: utf-8 -*-
"""
Bok choy acceptance tests for problems in the LMS
"""
from __future__ import absolute_import
import time
from datetime import datetime, timedelta
from textwrap import dedent
import ddt
from common.test.acceptance.fixtures.course import CourseFixture, XBlockFixtureDesc
from common.test.acc... | ESOedX/edx-platform | common/test/acceptance/tests/lms/test_lms_problems.py | Python | agpl-3.0 | 48,224 | [
"VisIt"
] | 54750b5ac9b9804a997285230a9ef9a85ef51937f985b1a5d03cbd42c554b6e1 |
# import logging
from ast.visit import visit as v
from ast.node import Node
from ast.body.methoddeclaration import MethodDeclaration
from ast.stmt.minrepeatstmt import MinrepeatStmt
class Desugar(object):
def __init__(self):
self._cur_mtd = None
@v.on("node")
def visit(self, node):
"""... | plum-umd/java-sketch | java_sk/rewrite/desugar.py | Python | mit | 1,242 | [
"VisIt"
] | 149891bfea9aa3dece44ea92796b65481b6a7cb99aa85e5b9bc93c90228b34b6 |
# Draws a vector in the direction of gravity
# To be run using "Tools -> Python Shell -> Run Script" inside of paraFoam
# assumes that one OpenFOAM-case is opened
from PyFoam.Paraview import readerObject,caseDirectory
from PyFoam.Paraview.SimpleSources import Glyph,Arrow
from PyFoam.RunDictionary.ParsedParameterFile... | Unofficial-Extend-Project-Mirror/openfoam-extend-Breeder-other-scripting-PyFoam | examples/paraview3/gDirection.py | Python | gpl-2.0 | 823 | [
"ParaView"
] | 2300658a9789b7a3c0a9ee575629bca5bc11360e349d0d2138fd75653256ea9e |
# rall64.py ---
#
# Filename: rall64.py
# Description:
# Author: Subhasis Ray
# Maintainer:
# Created: Fri May 23 16:33:43 2014 (+0530)
# Version:
# Last-Updated:
# By:
# Update #: 0
# URL:
# Keywords:
# Compatibility:
#
#
# Commentary:
#
#
#
#
# Change log:
#
#
#
#
# This program i... | BhallaLab/moose-full | moose-examples/rall_1964/rall64.py | Python | gpl-2.0 | 8,752 | [
"MOOSE"
] | 454be0b3b79e583fc834703457538dbd06008e0dc4691ee9477449fc737347e4 |
# class generated by DeVIDE::createDeVIDEModuleFromVTKObject
from module_kits.vtk_kit.mixins import SimpleVTKClassModuleBase
import vtk
class vtkSTLReader(SimpleVTKClassModuleBase):
def __init__(self, module_manager):
SimpleVTKClassModuleBase.__init__(
self, module_manager,
vtk.vtkS... | nagyistoce/devide | modules/vtk_basic/vtkSTLReader.py | Python | bsd-3-clause | 464 | [
"VTK"
] | 84787743963c88c9851e291bf874489f7d0924f9be8c7a99b84bdbd2247a1f3d |
import pytest
import psi4
from forte.solvers import solver_factory, HF, ActiveSpaceSolver
def test_fci_rdms_1():
"""Test the FCI 2- and 3-RDMs on LiH/STO-3G"""
# setup job
xyz = """
Li
H 1 3.0
units bohr
"""
input = solver_factory(molecule=xyz, basis='sto-3g')
state = input.state... | evangelistalab/forte | tests/pytest-methods/fci/test_fci-rdms-1.py | Python | lgpl-3.0 | 1,374 | [
"Psi4"
] | 8c31f5a54dbdfb3967dd6c6368ecdfee74fdfe64c6ec6a420a2d7afce6ea8675 |
# Package Imports
from ..workspace import Block, Disconnected, Cancelled
# Twisted Imports
from twisted.internet import reactor, defer, task
from twisted.python import log
# Octopus Imports
from octopus import data
from octopus.constants import State
import octopus.transport.basic
# Do not auto-register these classe... | richardingham/octopus | octopus/blocktopus/blocks/machines.py | Python | mit | 5,669 | [
"Octopus"
] | d163a4f73c6be7bd5e7916c19ca5641aee58cfdc4b8eeb2f32b88406f7ab442a |
""" 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 sympy.core.compatibility import iterable, is_s... | Cuuuurzel/KiPyCalc | sympy_old/solvers/solvers.py | Python | mit | 48,591 | [
"Gaussian"
] | 59e097dcea5583d2c3a4312ad9c16c511ed6b1257944c57385afff15d64e6294 |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2022 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of Psi4.
#
# Psi4 is free software; you can redistribute it and/or modify
#... | psi4/psi4 | psi4/driver/driver_cbs.py | Python | lgpl-3.0 | 83,282 | [
"CFOUR",
"Psi4"
] | 56ad281c50d2f0b7fab0867e698d12a8ca9a88e6ca14d950cb143a1f9179dabb |
from __future__ import absolute_import
from __future__ import print_function
import os
import sys
import atexit
import signal
import logging
from pprint import pformat
from tornado.options import options
from tornado.options import parse_command_line, parse_config_file
from tornado.log import enable_pretty_logging
f... | raphaelmerx/flower | flower/command.py | Python | bsd-3-clause | 4,187 | [
"VisIt"
] | 655c5dd6d0b4a469542f06d24420f9bccf2f8eb893004ff6c85f0c95abcd2197 |
#% DEMO 17: Detector Rotation
#
#
#
# Some systems have a slight rotation of the detector due to mechanicall
# inacuracies.
#
# According to the article "A geometric calibration method for cone beam
# CT systems" (DOI: 10.1118/1.2198187), only Roll needs to be corrected
# for in the algorithmic part, as the other ... | CERN/TIGRE | Python/demos/d17_DetectorRotation.py | Python | bsd-3-clause | 2,390 | [
"Gaussian"
] | 0a2603069e1112c9165a697495f7b09d1a0f4f5a09e55361c029601c7b77d466 |
#
# Copyright (C) 2007-2008 by Greg Landrum
# All rights reserved
#
import numpy
from rdkit import Chem, Geometry
from rdkit import RDLogger
from rdkit.Chem.Subshape import SubshapeObjects
from rdkit.Numerics import Alignment
logger = RDLogger.logger()
class SubshapeAlignment(object):
transform = None
triang... | ptosco/rdkit | rdkit/Chem/Subshape/SubshapeAligner.py | Python | bsd-3-clause | 13,373 | [
"PyMOL",
"RDKit"
] | 4d9bcc72c3075ab9479887f317d36149560b01d8508e4233826538dcacba6e2b |
"""Module containing functions for calling multiple external tools."""
from future.utils import native_str
import pysam
from .sambamba import sambamba_sort
from .util import which
def sort_bam(input_bam, output_bam, threads=1):
"""Sorts bam file using sambamba or samtools."""
if which('sambamba') is not No... | jrderuiter/im-fusion | src/imfusion/external/compound.py | Python | mit | 462 | [
"pysam"
] | 41bb353202a28a9087e56e9d6d892330d6b0c382761549906e5819f0b79038b2 |
import datetime as _datetime
import os
import re
import random
import string
import inflect
import six
from . import mock_random
inflectify = inflect.engine()
def _slugify(string):
"""
This is not as good as a proper slugification function, but the input space is limited
>>> _slugify("beets")
'be... | classam/silly | silly/main.py | Python | mit | 34,913 | [
"BLAST"
] | 87fb50ab31a8d601bb0b288b31602e7fdcb6b38f16e155d572cdea09e78daf59 |
# standart
from collections import deque
from lib2to3.pytree import Leaf
from lib2to3.pgen2 import token
from textwrap import dedent
# internal
from . import classes
__all__ = [
'TreeVisitor',
'CoreGenerator',
]
def itail(iterable, size=1):
'Yields `size` elements of iterable and iterator over rest of... | Evgenus/protocyt | protocyt/compiler.py | Python | mit | 7,320 | [
"VisIt"
] | dcacdf5004e2cfb2e9f0ffefdcedd4d5568bc94cc4257a0bf3980e8cd2c39dcc |
# ################################################################
#
# Active Particles on Curved Spaces (APCS)
#
# Author: Silke Henkes
#
# ICSMB, Department of Physics
# University of Aberdeen
#
# Author: Rastko Sknepnek
#
# Division of Physics
# School of Engineering, Physics and Math... | sknepneklab/SAMoS | FormerAnalysis/sphere_patches_stresses_defects.py | Python | gpl-3.0 | 34,527 | [
"VTK"
] | c29af754b35718ddf7efcee8d8b3f0d0f3921214d29152149272f60842e13725 |
"""
NetCDF reader/writer module.
This module is used to read and create NetCDF files. NetCDF files are
accessed through the `netcdf_file` object. Data written to and from NetCDF
files are contained in `netcdf_variable` objects. Attributes are given
as member variables of the `netcdf_file` and `netcdf_variable` objects... | jrversteegh/softsailor | deps/scipy-0.10.0b2/scipy/io/netcdf.py | Python | gpl-3.0 | 29,815 | [
"NetCDF"
] | 2cb03d48c5f36b3bdbcacb5bbb3ad48326b1edf889b2873e15cdbedb6a840472 |
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
from DIRAC.Core.Utilities.ObjectLoader import ObjectLoader
from DIRAC.Core.DISET.RequestHandler import RequestHandler
from DIRAC.Core.Tornado.Server.TornadoService import TornadoService
def _check(result):
... | ic-hep/DIRAC | src/DIRAC/Core/Utilities/test/Test_ObjectLoader.py | Python | gpl-3.0 | 1,078 | [
"DIRAC"
] | 89de6238788dd32b7a31119b7718bf1f7f13667a5b4a0eca88a43aebd40ff9fb |
#!/usr/bin/env python
# File: plot_histograms3.py
# Created on: Mon Aug 20 22:14:33 2012
# Last Change: Wed Feb 13 16:24:31 2013
# Purpose of script: <+INSERT+>
# Author: Steven Boada
import pylab as pyl
from mk_galaxy_struc import mk_galaxy_struc
galaxies = mk_galaxy_struc()
verylow = low = med = high = superhigh =... | boada/ICD | sandbox/legacy_plot_code/plot_ICD_sersic_pie.py | Python | mit | 3,589 | [
"Galaxy"
] | 72355a54e1286745eb5e0089c6bc20fcfc607823c417ea8ec6f88f97f63fc93e |
#!/usr/bin/env python
import os
import sys
import client_getfile as client
import pyfits
import time
CCDNUM = 59
recv_path = '/lsst8/felipe/ARCHIVE_RECEIVED/DECam/instcal'
REPO = '/lsst8/felipe/REPOS/DECam'
PRODUCTS = '/lsst8/felipe/PRODUCTS'
TEMPLATE_ID = {
'0197371' : '0197371',
'0197367' : '0197371',
... | menanteau/lsstdev | proccess_from_socket_example.py | Python | gpl-3.0 | 2,962 | [
"VisIt"
] | 0cae404762cdf9df907688f4e076a922aa1d320654fcc1e0bb89cd301bc79d17 |
"""
:mod: StorageElementProxyHandler
.. module: StorageElementProxyHandler
:synopsis: This is a service which represents a DISET proxy to the Storage Element component.
This is used to get and put files from a remote storage.
"""
from __future__ import absolute_import
from __future__ import division
from __future_... | yujikato/DIRAC | src/DIRAC/DataManagementSystem/Service/StorageElementProxyHandler.py | Python | gpl-3.0 | 11,531 | [
"DIRAC"
] | 0ee33d4a5e93bfa4fcb1c14b064607aa0aa1226b7c9954dfa4284eaff59b4a8b |
# USAGE
# SetupLHCbDirac
# lhcb-proxy-init
# python SCRIPTNAME lfn <lfn <lfn ....>>
from DIRAC.Core.Base import Script
Script.parseCommandLine(ignoreErrors=False)
import sys
import DIRAC.Interfaces.API.Dirac as Dirac
d = Dirac.Dirac()
lfns = sys.argv[1:]
try:
large_dict = d.getAccessURL(lfns,'CERN-USER')['Value'][... | pseyfert/gangascripts | get_eos_urls.py | Python | gpl-2.0 | 462 | [
"DIRAC"
] | e54e6acf7819a0663db2cd7f2175f68dfa12b6a508a760a26f98c0b46cff8197 |
#!/usr/bin/env python
#-*- coding:utf-8 -*-
#
# This file is part of the NNGT project to generate and analyze
# neuronal networks and their activity.
# Copyright (C) 2015-2019 Tanguy Fardet
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License a... | Silmathoron/NNGT | nngt/core/group_structure.py | Python | gpl-3.0 | 28,658 | [
"NEURON"
] | cc6ae8f3d41f28db4272332a0f9cb7177d325620fd4d2af825de112a25a101c7 |
"""
iFiltr, Simple & Secure Social Shopping.
Copyright (C) 2012-2013 iFiltr (<https://ifiltr.com>).
This program 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 the
... | ifiltr/ifiltr | populateDb.py | Python | agpl-3.0 | 20,273 | [
"COLUMBUS"
] | 6ecbd890b7c4c6ac9087cab61f212050b9c51f5463974eccac7900750e10244c |
from ovito.io import import_file
from ovito.modifiers import ClusterAnalysisModifier
import numpy
node = import_file("simulation.dump")
node.modifiers.append(ClusterAnalysisModifier(cutoff = 2.8, sort_by_size = True))
node.compute()
cluster_sizes = numpy.bincount(node.output.particle_properties['Cluster'].array)
nump... | srinath-chakravarthy/ovito | doc/python/example_snippets/cluster_analysis_modifier.py | Python | gpl-3.0 | 366 | [
"OVITO"
] | 4130272a9a134dafc8336a52c68e82ce8dba69d945602ba8a98428b84895e131 |
# Copyright (C) 2016
# Max Planck Institute for Polymer Research
#
# 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, o... | espressopp/espressopp | src/analysis/AdressDensity.py | Python | gpl-3.0 | 2,966 | [
"ESPResSo"
] | 3dee4a0662df347620f7937722e17f0adf3f6db53c71681555cb6f121465e77d |
# -*- coding: utf-8 -*-
import numpy as np
def kernel(X, Y):
"""Euclidian distance between X and Y.
Args:
X (ndarray): Input X.\n
Y (ndarray): Input Y.
Yields:
K (ndarray): Euclideian distance matrix between X and Y.
Example:
Calculate the distance matrix to i... | aaskov/nsp | gp/gp_kernels.py | Python | mit | 1,678 | [
"Gaussian"
] | b5d6283f016709fd458a8ed5112f86c5209c1aa4a6d0f1ca15993b17d3bee0ce |
# coding: utf-8
"""
flask_oauthlib.contrib.oauth2
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SQLAlchemy and Grant-Caching for OAuth2 provider.
contributed by: Randy Topliffe
"""
import logging
from datetime import datetime, timedelta
from .cache import Cache
__all__ = ('bind_cache_grant', 'bind_sqlalchemy')
l... | dnlm92/chokoretto | temp/venv/lib/python2.7/site-packages/flask_oauthlib/contrib/oauth2.py | Python | mit | 10,159 | [
"VisIt"
] | a5663278fc93aa69c48e6c0362105f28edd5d5eb3152d453c0707fb6f7f46e66 |
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