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from WebAppDIRAC.Lib.WebHandler import WebHandler, asyncGen
from DIRAC.Core.DISET.RPCClient import RPCClient
from DIRAC.ResourceStatusSystem.PolicySystem.StateMachine import RSSMachine
from DIRAC.Core.Utilities import Time
from DIRAC import gLogger
import collections
import json
class ResourceSummaryHandler( WebHandl... | zmathe/WebAppDIRAC | WebApp/handler/ResourceSummaryHandler.py | Python | gpl-3.0 | 16,917 | [
"DIRAC"
] | e7dc37a324c9c2c7626f25cebd04fd77a2d29e662feba96885bb16f7633093a5 |
'''
Modules for Numerical Relativity Simulation Catalog:
* catalog: builds catalog given a cinfiguration file, or directory containing many configuration files.
* scentry: class for simulation catalog entry (should include io)
'''
#
from nrutils.core import settings as gconfig
from nrutils.core.basics import *
fro... | Cyberface/nrutils_dev | nrutils/core/nrsc.py | Python | mit | 126,535 | [
"Psi4"
] | f6afb9188450e2f026a9b84e412c74e42099800fb3014acbac9cb32bc2baac16 |
# Copyright Iris contributors
#
# This file is part of Iris and is released under the LGPL license.
# See COPYING and COPYING.LESSER in the root of the repository for full
# licensing details.
"""
Unit tests for the :class:`iris.experimental.ugrid.cf.CFUGridConnectivityVariable` class.
todo: fold these tests into cf t... | SciTools/iris | lib/iris/tests/unit/experimental/ugrid/cf/test_CFUGridConnectivityVariable.py | Python | lgpl-3.0 | 8,277 | [
"NetCDF"
] | 51e28dbd815c1d27127c915f791ea60f00b5ad978dc2d4f9c7d3b47d675a2d3a |
#!/usr/bin/env python2
# vim:fileencoding=utf-8
from __future__ import (unicode_literals, division, absolute_import,
print_function)
__license__ = 'GPL v3'
__copyright__ = '2013, Kovid Goyal <kovid at kovidgoyal.net>'
import inspect, time
from io import BytesIO
from repr import repr
from funct... | hazrpg/calibre | src/calibre/db/tests/legacy.py | Python | gpl-3.0 | 38,815 | [
"MOOSE"
] | 4df5b3610b9efc168792521389fbd69c43aa39bda775b403463e24f6ed74931b |
#!/usr/bin/env python
"""A kernel that creates a new ASCII file with a given size and name.
"""
__author__ = "The ExTASY project <vivek.balasubramanian@rutgers.edu>"
__copyright__ = "Copyright 2015, http://www.extasy-project.org/"
__license__ = "MIT"
from copy import deepcopy
from radical.ensemblemd.exceptions... | radical-cybertools/ExTASY | examples/coam-on-stampede/kernel_defs/amber.py | Python | mit | 4,751 | [
"Amber"
] | b314fc602f4c55f71f01df85c814fa53349928b5a975d8ec14bdca2524b25ffe |
import librosa
from functools import partial
import numpy as np
from librosa.core.spectrum import stft
PADDING = 0.1
def load_waveform(file_path, begin=None, end=None):
"""
Load a waveform segment from an audio file
Parameters
----------
file_path : str
Path to audio file
begin : flo... | PhonologicalCorpusTools/PolyglotDB | polyglotdb/acoustics/utils.py | Python | mit | 2,476 | [
"Gaussian"
] | ad24a8825922a433c5632d10f0ef0aeedd413a9220ddb4f0dffbfe71323dc61e |
#
# dnfhelper.py
#
# Copyright (C) 2010-2015 Red Hat, Inc.
#
# 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 pr... | maxamillion/lorax | src/pylorax/dnfhelper.py | Python | gpl-2.0 | 3,533 | [
"Brian"
] | 97f9e164791f9e7698137e16be8d1484eba7ae5a9ae5286c83cfc8624596fcd6 |
import sip
import os
from PyQt5.QtWidgets import QTabWidget, QWidget, QGridLayout, QLabel, QPushButton, QComboBox, QLineEdit, QCheckBox, \
QFileDialog
from PyQt5.QtCore import pyqtSignal
from .Plotters import *
from .ErrorBox import ErrorBox
from .ErrorMessages import ErrorMessages
class ExportTabWidget(QTabWidg... | maxscheurer/pycontact | PyContact/gui/ExportTabWidget.py | Python | gpl-3.0 | 16,959 | [
"VMD"
] | dc8f74a90b2ac39c09a3d65b3e8bfe75a7ed9208b82f2f926f304772abfc3c68 |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2007 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 Lesser General Public License as published by
## the Free Software F... | andrebellafronte/stoq | stoqlib/lib/cardinals/cardinals.py | Python | gpl-2.0 | 1,824 | [
"VisIt"
] | 376ec232c486591a3882c0a8792536113943f74ec8d5f6701c78baf5f708bfdf |
# -*- coding: utf-8 -*-
{
"'Cancel' will indicate an asset log entry did not occur": "'Hủy' sẽ chỉ dẫn một lệnh nhập không thực hiện được",
"A location that specifies the geographic area for this region. This can be a location from the location hierarchy, or a 'group location', or a location that has a boundary for ... | code-for-india/sahana_shelter_worldbank | languages/vi.py | Python | mit | 359,193 | [
"VisIt"
] | e0d55d7d3c25ba3429fc1fca620656bdc220085178145ea0941364b54cf5c3a9 |
#
# YamlFSSource.py - New-style YAML file-system data source
# Copyright (C) 2009 Tony Garnock-Jones <tonyg@kcbbs.gen.nz>
#
# 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 th... | tonyg/gyre | YamlFSSource.py | Python | gpl-2.0 | 3,698 | [
"VisIt"
] | 35231e87fd5427cfd1d09dc03c8154c3a139e82d79a5023909970684b3afb419 |
# Mantid Repository : https://github.com/mantidproject/mantid
#
# Copyright © 2018 ISIS Rutherford Appleton Laboratory UKRI,
# NScD Oak Ridge National Laboratory, European Spallation Source
# & Institut Laue - Langevin
# SPDX - License - Identifier: GPL - 3.0 +
from __future__ import (absolute_import, divi... | mganeva/mantid | Testing/SystemTests/tests/analysis/WishCalibrate.py | Python | gpl-3.0 | 8,722 | [
"Gaussian"
] | f4fe9adb9cdac1eab57cc20d4cda779d2c57242666a84f8259e5e9bc9bde5ac8 |
"""
InaSAFE Disaster risk assessment tool developed by AusAid -
**IS Utilitles implementation.**
Contact : ole.moller.nielsen@gmail.com
.. note:: 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 Foun... | rukku/inasafe | safe_qgis/utilities.py | Python | gpl-3.0 | 45,636 | [
"VisIt"
] | c8f8af75d89d86a31bb0923066d830f1a7a8cdc35fda762ef8c6dabb21025e4f |
"""Convert to and from Roman numerals
This program is part of "Dive Into Python", a free Python book for
experienced programmers. Visit http://diveintopython.org/ for the
latest version.
"""
__author__ = "Mark Pilgrim (mark@diveintopython.org)"
__version__ = "$Revision: 1.3 $"
__date__ = "$Date: 2004/05/05 21:57:19 ... | Iconik/eve-suite | src/model/generated/roman/roman.py | Python | gpl-3.0 | 3,339 | [
"VisIt"
] | c0fe00c7aa4ffd95a505bb1c048153cad40d43b11fa5df50f0384fd856b2938b |
# Copyright 2015 Google Inc. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or a... | jamesmarva/enjarify | enjarify/jvm/optimization/stack.py | Python | apache-2.0 | 9,011 | [
"VisIt"
] | 8bf2e9b420b7176fcb72c96b1ad3bcb55486641783deb443cf11331e43d151df |
from __future__ import print_function
import pyspeckit
# Grab a .fits spectrum with a legitimate header
sp = pyspeckit.Spectrum('G031.947+00.076_nh3_11_Tastar.fits')
""" HEADER:
SIMPLE = T / Written by IDL: Tue Aug 31 18:17:01 2010
BITPIX = -64
NAXIS = 1 / number of array dim... | vlas-sokolov/pyspeckit | examples/ammonia_vtau_fit_example.py | Python | mit | 3,778 | [
"Gaussian"
] | 3c25db86de5d9d8d2beba48046a7c4e909d68827f52f0b63b92ddeba66ca89ce |
"""A VTK interactor scene which provides a convenient toolbar that
allows the user to set the camera view, turn on the axes indicator
etc.
"""
# Authors: Prabhu Ramachandran <prabhu_r@users.sf.net>,
# Dave Peterson <dpeterson@enthought.com>
# Copyright (c) 2006, Enthought, Inc.
# License: BSD Style.
# System ... | liulion/mayavi | tvtk/pyface/ui/qt4/decorated_scene.py | Python | bsd-3-clause | 11,285 | [
"VTK"
] | 3a85894b0ed87b3016c7e4e683d0d1cadc3b3acca34388c8f342cd077206afe8 |
"""
Kernel Density Estimation
-------------------------
"""
# Author: Jake Vanderplas <jakevdp@cs.washington.edu>
import numpy as np
from scipy.special import gammainc
from ..base import BaseEstimator
from ..utils import check_array, check_random_state
from ..utils.extmath import row_norms
from .ball_tree import BallT... | mbayon/TFG-MachineLearning | venv/lib/python3.6/site-packages/sklearn/neighbors/kde.py | Python | mit | 8,218 | [
"Gaussian"
] | 0e8971ce7a990bcab68d2aaf7cb11c05ac0f887443310507960110d9b326e05b |
# $Id$
#
# Copyright (C) 2000-2006 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.
#
""" defines class _Db... | rdkit/rdkit-orig | rdkit/Dbase/DbConnection.py | Python | bsd-3-clause | 8,808 | [
"RDKit"
] | cf72fe82763c35cccab5b6ae1a82bf2ee7eb2b35b7bd86a511582c5b2edd389c |
import logging
from logging.handlers import SysLogHandler
from logging import Formatter
LOG_PATH = '/var/log/syslog'
LOG_APP_LABEL = 'moosefstool'
LOG_MFS_LABEL = 'mfsmaster'
def get_logger():
"""
get_logger function provides logging object with file/syslog handlers.
Path to local Moose log file c... | ochirkov/MooseFSTool | app/utils/log_helper.py | Python | gpl-3.0 | 931 | [
"MOOSE"
] | 6ce34467107c4a47ac69008215e099851a081169d32c826a81b28d00411fb2b9 |
#!/usr/bin/python
#
# @author: Gaurav Rastogi (grastogi@avinetworks.com)
# Eric Anderson (eanderson@avinetworks.com)
# module_check: supported
#
# Copyright: (c) 2017 Gaurav Rastogi, <grastogi@avinetworks.com>
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
#
ANSIB... | alexlo03/ansible | lib/ansible/modules/network/avi/avi_clusterclouddetails.py | Python | gpl-3.0 | 3,609 | [
"VisIt"
] | 6cfcda1788aaa90ac71b372f1793e429386f93253784482c41f26c9914f54fbc |
""" A simple manager for a task queue.
The manager handles creating, submitting, and managing
running jobs, and can even resubmit jobs that have failed.
author: Brian Schrader
since: 2015-08-27
"""
from .reporting import BaseReportingMixin, HtmlReportingMixin, TextReportingMixin
from .job_template import JobTemplate
... | TorkamaniLab/metapipe | metapipe/models/queue.py | Python | mit | 7,561 | [
"Brian"
] | 0de567c6f31939d32b01b150789d7a8433dc49cf11b38c6e6d9b5feadade2570 |
# -*- coding: utf-8
from yade import ymport, utils,pack,export
import gts,os
from yade import geom
#import matplotlib
from yade import plot
#from pylab import *
#import os.path, locale
#### set False when running in batch mode
#defaultTable = True
defaultTable = False
####-------------------------------------
####----... | anna-effeindzourou/trunk | examples/anna_scripts/triax/triaxial_uniformrm.py | Python | gpl-2.0 | 11,635 | [
"ParaView"
] | 33c4db11ba1749babcab7bc84c88e68ee35b26fc805db7c8e4541aecf7e2069a |
""" The Script class provides a simple way for users to specify an executable
or file to run (and is also a simple example of a workflow module).
"""
import os, sys, re
from DIRAC.Core.Utilities.Subprocess import shellCall
from DIRAC import gLogger
from DIRAC.Core.Utilities.Os ... | avedaee/DIRAC | Core/Workflow/Modules/Script.py | Python | gpl-3.0 | 4,169 | [
"DIRAC"
] | 14aa6a0b80fe850e70e687bb94fa45553652398120ab7a23774e9e23b05c5ee7 |
# Small Genome Tools
# Copyright (C) 2015 University of the Witwatersrand, Johannesburg, South Africa
# Author: Dr Trevor G. Bell, TrevorGrahamBell@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... | DrTrevorBell/SmallGenomeTools | cgi-bin/climbMini.py | Python | gpl-2.0 | 65,005 | [
"Biopython"
] | 0ded0b620682a1fa9e6fd5047116cf90287786e679b0c9de5e32eb5b935d6a48 |
## INFO ########################################################################
## ##
## Python and Cython Syntax Highlighters ##
## ===================================== ... | jotomicron/python | src/cython.py | Python | gpl-3.0 | 12,220 | [
"VisIt"
] | 87bf8d30ea5b58215631f9487a3fce336a17e840f9c881d574a02952b0305aa1 |
# Copyright 2013-2020 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
class EcpIoSdk(CMakePackage):
"""ECP I/O Services SDK"""
homepage = "https://github.com/chu... | rspavel/spack | var/spack/repos/builtin/packages/ecp-io-sdk/package.py | Python | lgpl-2.1 | 1,635 | [
"NetCDF"
] | 2ca16c47e4ec33e591283b5c9451112662e6b306a91ebb09a3a74dd7d4b71abd |
# pyresample, Resampling of remote sensing image data in python
#
# Copyright (C) 2010, 2014, 2015 Esben S. Nielsen
# Adam.Dybbroe
#
# 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
# ... | mitkin/pyresample | pyresample/kd_tree.py | Python | lgpl-3.0 | 35,833 | [
"Gaussian"
] | 1ec1eebf938dc3575ca2adcf85db6680fafa9dc95da12f8facc7bbc8fde98c84 |
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import os
import unittest
import numpy as np
from pymatgen.core.structure import Structure
from pymatgen.io.cif import CifParser
from pymatgen.io.feff.inputs import Atoms, Header, Paths, Potential, Tags
from pymatgen.util.t... | materialsproject/pymatgen | pymatgen/io/feff/tests/test_inputs.py | Python | mit | 15,079 | [
"FEFF",
"pymatgen"
] | b3b1e1aa071eae9ffdc99542677359df849c3e4b186de74850de7a3a8e32dae2 |
# Copyright: (c) 2012-2014, Michael DeHaan <michael.dehaan@gmail.com>
# Copyright: (c) 2016, Toshio Kuratomi <tkuratomi@ansible.com>
# Copyright: (c) 2018, Ansible Project
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
# Make coding more python3-ish
from __future__ import ... | s-hertel/ansible | lib/ansible/cli/__init__.py | Python | gpl-3.0 | 20,965 | [
"Galaxy"
] | b6e22a97287005af6388fc18595afda250f467d9341b1b3bd72e54ac2d134fdd |
#!/usr/bin/env python
import sys
from .lammps_main import LammpsSimulation
from .structure_data import ase_from_CIF, from_CIF, write_CIF, write_PDB, write_RASPA_CIF, write_RASPA_sim_files, MDMC_config
from .InputHandler import Options
def main():
# command line parsing
options = Options()
sim = LammpsSimu... | peteboyd/lammps_interface | lammps_interface/cli.py | Python | mit | 1,209 | [
"RASPA"
] | f7caa12194f10307615ab75c1c7c7bfcd681a6f35eb3e9286592cb6a555b4787 |
import numpy, vigra
import os.path
#*******************************************************************************
# s i z e _ i n _ p i x e l s *
#*******************************************************************************
class size_in_pixels():
def __init__... | ilastik/ilastik-0.5 | ilastik/modules/object_picking/core/objectOperators.py | Python | bsd-2-clause | 9,958 | [
"Mayavi"
] | 180238d6bb374fb1605ae5a00b59ab786fd1056a132a07a6530da81487ef0455 |
r"""
:mod:`~matplotlib.mathtext` is a module for parsing a subset of the
TeX math syntax and drawing them to a matplotlib backend.
For a tutorial of its usage see :ref:`mathtext-tutorial`. This
document is primarily concerned with implementation details.
The module uses pyparsing_ to parse the TeX expression.
.. _p... | ryandougherty/mwa-capstone | MWA_Tools/build/matplotlib/lib/matplotlib/mathtext.py | Python | gpl-2.0 | 108,907 | [
"Bowtie"
] | 40e5d983019bea1f74a5af1120c3157bb5bbefd80aa55c33801355f5b4898b73 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import os
from monty.serialization import loadfn
from pymatgen.analysis.structure_matcher import StructureMatcher
"""
This module uses data from the AFLOW LIBRARY OF CRYSTALLOGRAPHIC PROTOTYPES.
If using thi... | dongsenfo/pymatgen | pymatgen/analysis/aflow_prototypes.py | Python | mit | 4,002 | [
"CRYSTAL",
"pymatgen"
] | b20382543720e90430484dfccd9c6bbbfd0a677d86ac765707fa40d832db65bd |
#=== CONTEXT =========================================================================================
# 2D NodeBox API in OpenGL.
# Authors: Tom De Smedt, Frederik De Bleser
# License: BSD (see LICENSE.txt for details).
# Copyright (c) 2008 City In A Bottle (cityinabottle.org)
# http://cityinabottle.org/nodebox
# All... | est/nodebox-gl | graphics/context.py | Python | bsd-3-clause | 151,331 | [
"VisIt"
] | f2bcf51018e15de41fc36aafffabadf13d07a1386425566783b9282f16399c1d |
# (c) 2012-2014, Michael DeHaan <michael.dehaan@gmail.com>
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) an... | sidartaoliveira/ansible | lib/ansible/playbook/conditional.py | Python | gpl-3.0 | 10,450 | [
"VisIt"
] | acc6ec1055f724bb1635e429d16cd34c65a954028864e6fbf1992b8512fc04bd |
"""
@name: Modules/families/UPB/UPB_data.py
@author: D. Brian Kimmel
@contact: D.BrianKimmel@gmail.com
@copyright: (c) 2014-2020 by D. Brian Kimmel
@license: MIT License
@note: Created on Aug 6, 2014
@summary: This module is for communicating with UPB controllers.
"""
__updated__ = '2020-02-17'
# ... | DBrianKimmel/PyHouse | Project/src/Modules/House/Family/Upb/upb_data.py | Python | mit | 787 | [
"Brian"
] | 2bc4f8f7f8211fb6adfe8bafe17537d9c473f560f1b7c53fa388374034cad6b7 |
from __future__ import absolute_import
from django.db import models
from django.conf import settings
from django.contrib.auth.models import AbstractBaseUser, UserManager, \
PermissionsMixin
from django.dispatch import receiver
from zerver.lib.cache import cache_with_key, flush_user_profile, flush_realm, \
user... | esander91/zulip | zerver/models.py | Python | apache-2.0 | 50,057 | [
"VisIt"
] | fd71cbccde9c956a9ec9b2105de25e949a7e83b55f984581c806bc9bb1d6f509 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
import rdkit
from rdkit.Chem import AllChem
from rdkit import DataStructs
__license__ = "X11"
METADATA = {
"id": "method_rdkit_ecfp2_1023_tanimoto",
"representation": "ecfp2_1023",
"similarity": "tanimoto"
}
def _compute_fingerprint(molecule):
return Al... | skodapetr/lbvs-environment | methods/ecfp/ecfp2_1023_tanimoto.py | Python | mit | 1,396 | [
"RDKit"
] | db43f39d323efebf46886f8f30f98fb3593dbf9611f12c25c67bf564982db505 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import unittest
import os
import json
from pymatgen.entries.computed_entries import ComputedEntry
from pymatgen.apps.battery.insertion_battery import InsertionElectrode
from pymatgen import MontyEncoder, Mont... | tschaume/pymatgen | pymatgen/apps/battery/tests/test_insertion_battery.py | Python | mit | 5,523 | [
"pymatgen"
] | 91cc5f3e362cf62ac6c191ab1d10ff43744364ec5b755df34e37a685a70d4d4e |
""" an XML-RPC server to allow remote control of PyMol
Author: Greg Landrum (glandrum@users.sourceforge.net)
Created: January 2002
$LastChangedDate$
License: 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, f... | rvianello/rdkit | External/pymol/modules/pymol/rpc.py | Python | bsd-3-clause | 17,644 | [
"PyMOL",
"RDKit"
] | 47a1e6824e861b50cc67de0270e4204024db0ae33885764b18d9ba64bad33eeb |
import librosa
import scipy
import scipy.linalg as linalg
import scipy.signal as sig
import numpy as np
import sklearn.cluster as sklhc
import scipy.cluster.hierarchy as scihc
from collections import OrderedDict
from .analysis import create_selfsim
from ..VMO.utility.misc import entropy
"""Segmentation algorithms
"""
... | wangsix/vmo | vmo/analysis/segmentation.py | Python | gpl-3.0 | 11,477 | [
"Brian"
] | ba0f39c3011e6b4413ec025c1c3b39cb13dff30ba178021f7f6a975fd86535dd |
#!/usr/bin/env python
"""
This module contains a class to parse a ppi predictions output file in tsv
format and perform network related operations on it.
"""
from collections import OrderedDict as Od
import numpy as np
import pandas as pd
from ..base.constants import P1, P2, G1, G2, SOURCE, TARGET
from... | daniaki/pyPPI | pyppi/network_analysis/__init__.py | Python | mit | 9,649 | [
"Cytoscape"
] | 12e537fd43120b9e583739027c18a8990fc7ff8adc59948186e1c102f3e5a7f6 |
from __future__ import print_function
import IMP
import IMP.test
import IMP.core
import IMP.atom
class Tests(IMP.test.TestCase):
def _test_simple(self):
"""Check that hierarchies don't have circular ref counts """
# make sure internal things are created
m = IMP.Model()
h = IMP.ato... | shanot/imp | modules/atom/test/test_refcount_hierarchy.py | Python | gpl-3.0 | 3,105 | [
"CHARMM"
] | 2760d4e7c823b86e11f06d7aa5e6182cf356fb5115b872aab61269ca0e7e585d |
################################################################################
# Peach - Computational Intelligence for Python
# Jose Alexandre Nalon
#
# This file: nn/nn.py
# Basic topologies of neural networks
################################################################################
# Doc string, reStructur... | anki1909/peach | peach/nn/nnet.py | Python | lgpl-2.1 | 24,145 | [
"Gaussian",
"NEURON"
] | 20eefaa470057c16dc3280a220453d208e90a54b33e0c11b01af93c8de8b86cb |
##############################################################################
# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | EmreAtes/spack | var/spack/repos/builtin/packages/shortbred/package.py | Python | lgpl-2.1 | 2,142 | [
"BLAST",
"Biopython"
] | e24a555133717b8fcb726813ae91de84a50204e5e060f969ac0b0d475385cd48 |
#!/usr/bin/env python
import os
import sys
sys.path.insert(0, os.path.abspath('lib'))
from ansible.release import __version__, __author__
try:
from setuptools import setup, find_packages
except ImportError:
print("Ansible now needs setuptools in order to build. Install it using"
" your package man... | Censio/ansible-dev | setup.py | Python | gpl-3.0 | 2,025 | [
"Galaxy"
] | b4a3cdef853db9d5022f2becc49baedf03880fb57b6eb6d302eb60e4bdfeca9f |
#!/usr/bin/env python
"""
Plot ORA-IP annual mean profile (T or S)
and Hiroshis or WOA13 1995-2004 profile.
"""
import os
import sys
import re
import copy
import glob
import string
import numpy as np
import matplotlib as mpl
import matplotlib.pyplot as plt
import netCDF4 as nc
from datetime import datetime
from netcdf... | puotila/PORA-IP | plotAnnuaMeanProfile.py | Python | gpl-3.0 | 28,427 | [
"NetCDF"
] | f22ce30aacc6215bd3d4ecc7e838ae3a5f3d3a4f998dae04370f7fc97653dc11 |
"""
Class that define a normal estimation method based on vtkPointSetNormalsEstimation by David Doria
"""
__all__ = ["vtkPointSetNormalsEstimation"]
from pcloudpy.core.filters.base import FilterBase
import numpy as np
from vtk import vtkPolyDataAlgorithm, vtkFloatArray, vtkKdTree, vtkPlane, vtkPolyData, vtkIdList
from... | mmolero/pcloudpy | pcloudpy/core/filters/vtkPointSetNormalsEstimation.py | Python | bsd-3-clause | 5,076 | [
"VTK"
] | 65fcdc2aa0a197f405bf2d97deb5ae390af212248de0538d5a9585d38be7c372 |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2007 Johan Gronqvist (johan.gronqvist@gmail.com)
# copyright (C) 2007 Brian G. Matherly
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software ... | Forage/Gramps | gramps/gen/filters/rules/person/_missingparent.py | Python | gpl-2.0 | 2,420 | [
"Brian"
] | 0de89f23bd8cf0217064af5e48c351d05952863b9d6a0fdc2e336249068a1e02 |
#!/usr/bin/env python
import math
__author__ = "Pablo Marchant"
__credits__ = ["Pablo Marchant", "Fabian Schneider"]
__license__ = "GPL"
__version__ = "3.0"
__maintainer__ = "Pablo Marchant"
__email__ = "pamarca@gmail.com"
"""Define multiple constants. Much of this taken directly from MESA.
This module simply define... | orlox/medusa | const/const_lib.py | Python | gpl-3.0 | 3,318 | [
"Avogadro"
] | a4957e812e8d6cb122940a3c64225b3bda4d205dd84123e491ab5df080c5c4fe |
import numpy as np
import glob
filename2 = 'data.poly-d200' #lammps 'charge' data file
outputfile = 'data.GP-composite_200nm_charge'
flist2 = glob.glob(filename2)
#the 1st col. is string so its loaded seperately
for f in flist2:
load2 = np.genfromtxt(f, dtype=float, skip_header=10, usecols=(1,3,4,5)) #dtype=("|S... | msadat/python-scripts | write_multigrain__few-grains_charge.py | Python | gpl-3.0 | 3,874 | [
"LAMMPS"
] | a2c6dc45e8cbe1c3ca0317baf567db148aa51fa5bd567b72b49d8d7c63430172 |
from slm_lab.agent import net
from slm_lab.agent.algorithm import policy_util
from slm_lab.agent.algorithm.reinforce import Reinforce
from slm_lab.agent.net import net_util
from slm_lab.lib import logger, math_util, util
from slm_lab.lib.decorator import lab_api
import numpy as np
import pydash as ps
import torch
logg... | kengz/Unity-Lab | slm_lab/agent/algorithm/actor_critic.py | Python | mit | 16,313 | [
"Gaussian"
] | 8ef06d656d8634eb1a86ae5523f3c77fb176378102ef732a839d0b64fececa26 |
import Bio
from Bio import SeqIO, SeqFeature
from Bio.SeqRecord import SeqRecord
from Bio.Blast import NCBIXML
from Bio.Blast import NCBIStandalone
import sys
import os
import site
import argparse
import string
import numpy
import re
import subprocess
import genbank
import blast
import intergene
loc_reg = re.compil... | idoerg/BOA | src/genome/genome.py | Python | gpl-3.0 | 3,607 | [
"BLAST"
] | e9c90b8ba5978b04905b8a0d7e5fec1061d5aef7adce5c01c537d132461f97f1 |
#!/usr/bin/env ipython
from pylab import *
import numpy as np
from scipy.io.netcdf import netcdf_file
import os, sys
import matplotlib.patches as patches
import matplotlib.transforms as transforms
from numpy import array
from matplotlib.gridspec import GridSpec
import matplotlib.pyplot as plt
from os.path import isdir,... | jimsrc/seatos | mixed.icmes/src/report/tt.py | Python | mit | 9,791 | [
"NetCDF"
] | 603331ce96ebc6307acdad4382fbd7a74a98d4cf9d96100b84f2b9db08a2e383 |
# -*- 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-essential-contacts | tests/unit/gapic/essential_contacts_v1/test_essential_contacts_service.py | Python | apache-2.0 | 113,777 | [
"Octopus"
] | 0e3ec8cb31c3c9c628ed2c4e884e8d4ecfd6fda0af47bd6387b998f41097a71a |
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import os
import unittest
import numpy as np
from pymatgen.io.pwscf import PWInput, PWInputError, PWOutput
from pymatgen.util.testing import PymatgenTest
class PWInputTest(PymatgenTest):
def test_init(self):
s ... | materialsproject/pymatgen | pymatgen/io/tests/test_pwscf.py | Python | mit | 11,756 | [
"CRYSTAL",
"pymatgen"
] | 05c20da09d3d31484e00bdc8d994146de92e9f882a7addaa5339917cbd67848a |
import re
import os
import shutil
import logging
import netCDF4
from django.dispatch import receiver
from django.core.files.uploadedfile import UploadedFile
from hs_core.signals import pre_add_files_to_resource, \
pre_delete_file_from_resource, pre_metadata_element_create, pre_metadata_element_update, \
post... | ResearchSoftwareInstitute/MyHPOM | hs_app_netCDF/receivers.py | Python | bsd-3-clause | 16,184 | [
"NetCDF"
] | 8992ed66ccb7301b95201d14b7a265e8adb6c62a25c8cb4376a7a854e9b0fcb0 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import numpy as np
import pickle
from pymatgen.util.testing import PymatgenTest
from pymatgen.core.periodic_table import Element, Specie
from pymatgen.core.sites import Site, PeriodicSite
from pymatgen.core.l... | tschaume/pymatgen | pymatgen/core/tests/test_sites.py | Python | mit | 11,857 | [
"pymatgen"
] | 65733ce8fa627d7edae90710d84d40f495689dcb661fd24fb290df5b7d227b3f |
#!/usr/bin/env python
########################################################################
# File : dirac-admin-get-pilot-info
# Author : Ricardo Graciani
########################################################################
"""
Retrieve available info about the given pilot
Example:
$ dirac-admin-get-pilo... | ic-hep/DIRAC | src/DIRAC/Interfaces/scripts/dirac_admin_get_pilot_info.py | Python | gpl-3.0 | 4,570 | [
"DIRAC"
] | 96f9e5ee02fdd27849613321541d5ca4cdfeec5de22eef681d788e38b6826118 |
# -*- coding: utf-8 -*-
# Copyright (c) 2015-2022, Exa Analytics Development Team
# Distributed under the terms of the Apache License 2.0
"""
Atomic Position Data
############################
This module provides a collection of dataframes supporting nuclear positions,
forces, velocities, symbols, etc. (all data associ... | exa-analytics/exatomic | exatomic/core/atom.py | Python | apache-2.0 | 22,762 | [
"Gaussian"
] | f6bf094800fab6dfb99e3621474581b009edfc8da588a154b729d91083e5df1b |
# Copyright (C) 2003-2005 Peter J. Verveer
#
# 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 retain the above copyright
# notice, this list of conditions and the following d... | ales-erjavec/scipy | scipy/ndimage/filters.py | Python | bsd-3-clause | 40,515 | [
"Gaussian"
] | 3dba0eecd8415443aa352b4095f7397a2e27cbb9bb4b76043dfe14e42a3ff8b9 |
try: paraview.simple
except: from paraview.simple import *
paraview.simple._DisableFirstRenderCameraReset()
import os,sys,glob,struct,math,subprocess
import vtk
#os.chdir("/home/zeli/tmp/delme1/")
cwd_folder=os.getcwd()
#-------------------------------------------------------------
def window(LT, title):
RenderV... | zeli86/playground | paraview/mass_image_creation_mit_clipping_cs.py | Python | gpl-3.0 | 4,794 | [
"ParaView",
"VTK"
] | 24accf156b5d8d36ea9ec8600562d9c0fb03b02692276088d9082440a81ed9fb |
import itertools
import numpy as np
from six.moves import zip, range
from nose.plugins.attrib import attr
from unittest import TestCase
from numpy.testing import (assert_equal, assert_raises, assert_almost_equal,
assert_array_almost_equal, raises, assert_allclose,
a... | alejob/mdanalysis | testsuite/MDAnalysisTests/coordinates/base.py | Python | gpl-2.0 | 40,567 | [
"MDAnalysis"
] | a534e14aab044bd4fb9491b0aca4679f96373d62744f6a373dba20042860d979 |
from __future__ import absolute_import
from typing import Any, Dict, List, Set, Tuple, TypeVar, Text, \
Union, Optional, Sequence, AbstractSet, Pattern, AnyStr
from typing.re import Match
from zerver.lib.str_utils import NonBinaryStr
from django.db import models
from django.db.models.query import QuerySet
from dja... | sharmaeklavya2/zulip | zerver/models.py | Python | apache-2.0 | 57,439 | [
"VisIt"
] | ddc439026a251177e653c5a1b061c0c6ff521eec9c0b69443313f7397cf8d64a |
#!/usr/bin/env python
# Copyright (c) 2015-2018
# Jakub Krajniak (jkrajniak at gmail.com)
#
# 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 versio... | govarguz/espressopp | testsuite/FileIOTests/h5md/dump_topology_test.py | Python | gpl-3.0 | 7,346 | [
"ESPResSo"
] | 63d62f5435365c981a4271f55be22ef065431cf2910cee4cf918d9e80c419b40 |
### Code written for STDP tutorial @ CAMP 2016
### Adapted from Song et al 2000 (Competitive Hebbian Learning through spike-timing-dependent synaptic plasticity
### With independent Poisson inputs (relevant figures : Fig 2a,b,c)
### Author: Harsha Gurnani
### Date: June 15, 2016
#######################################... | h-mayorquin/camp_india_2016 | tutorials/LTP-I/Demo1/For_abbott_repfig2.py | Python | mit | 5,265 | [
"Gaussian",
"NEURON"
] | 04f93c660838b77ff7c60ef6f260283b7b0f36f6f308fc5ed0d825e1462c71f8 |
from disposable_email_domains import blacklist
def is_reserved_subdomain(subdomain: str) -> bool:
if subdomain in ZULIP_RESERVED_SUBDOMAINS:
return True
if subdomain[-1] == 's' and subdomain[:-1] in ZULIP_RESERVED_SUBDOMAINS:
return True
if subdomain in GENERIC_RESERVED_SUBDOMAINS:
... | brainwane/zulip | zerver/lib/name_restrictions.py | Python | apache-2.0 | 4,774 | [
"Octopus"
] | 2dd47b0e301221ecefea359fd754612e1832f3ade019a6439d08526e1caf7d63 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# -------------------------------------------------------------------
# Filename: local_handler.py
# Purpose: handling local processing/plotting in obspyDMT
# Author: Kasra Hosseini
# Email: kasra.hosseinizad@earth.ox.ac.uk
# License: GNU Lesser Gener... | kasra-hosseini/obspyDMT | obspyDMT/utils/local_handler.py | Python | gpl-3.0 | 31,984 | [
"VTK"
] | ee20bf3cd8932422ebb74acc6ebf7767c597e3b45d44c44681216ef3c9158685 |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
#
# Raspa Preço documentation build configuration file, created by
# sphinx-quickstart on Mon Nov 6 10:52:29 2017.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this
... | IvanBrasilico/raspa-preco | conf.py | Python | gpl-3.0 | 5,357 | [
"RASPA"
] | 41c3e6b6eecfac6662178addfe0b346b9907a74aa9f5b78e68fc0ebcd819477e |
"""
Created on 27/04/2013
@author: thom
"""
import unittest
import math
from rdkit.rdBase import DisableLog, EnableLog
from kinetic_molecule import KineticMolecule
from molecule import Molecule
from chemistry_model.default_chemistry import DefaultChemistry
from reactor_model.spatial_reaction_vessel import SpatialRea... | th0mmeke/toyworld | tests/test_reaction_vessel.py | Python | gpl-3.0 | 3,642 | [
"RDKit"
] | 297ef7eb02cffbe7875fa409d0729850479a82290b9c287a8fe25904c95f5c40 |
import numpy as np # type: ignore
import re
import math
import warnings
from .units import angstrom_to_bohr, ev_to_hartree
from .band import Band
from copy import deepcopy
import fortranformat as ff # type: ignore
from functools import reduce
class KPoint():
def __init__( self, index, frac_coords, weight ):
... | bjmorgan/vasppy | vasppy/procar.py | Python | mit | 23,579 | [
"VASP"
] | 7a66fc89ca96d4278146ddd79882285c426f99a1ef705ee9d4506c3b669a0e23 |
# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
class RAldex2(RPackage):
"""Analysis Of Differential Abundance Taking Sample Variation Into Acco... | LLNL/spack | var/spack/repos/builtin/packages/r-aldex2/package.py | Python | lgpl-2.1 | 2,126 | [
"Bioconductor"
] | e227725599635936f5100ee64801b4a0acbb3ed4bb89d640b75acfb3ef1c4a02 |
#
# Author: Henrique Pereira Coutada Miranda
# Date: 18/10/2015
# Parallelize a GW calculation using Yambo
# In this example we take advantage of the fact that the q points of the dielectric function
# are totally independent calculations so its a good idea to calculate them in separate jobs
# These example runs local... | alexandremorlet/yambopy | tutorial/bn/gw_par_bn.py | Python | bsd-3-clause | 3,611 | [
"Yambo"
] | 51ea7bfc90487aa5e442fd734ecf24085c15a2a53dab7029bb09d85aba90d0e0 |
# -*- coding: utf-8 -*-
from __future__ import division
import cv2
import numpy as np
import os
from os.path import isfile, join
from os import listdir
import math
import sys
import itertools
import urllib
import caffe
from time import gmtime, strftime
from math import cos, sin
from subprocess import check_output, STDO... | chintak/misc_codes | utils.py | Python | gpl-2.0 | 17,329 | [
"Gaussian"
] | 6c22ffd3a125417fb3bd16565a07156e5bd2a446cbdf8ad29bfa6c8f5dc47f88 |
# 10/24/2013 Sebastian Raschka
# BondVis
# PyMOL Plugin for visualization of molecular bonds between atom pairs.
import tkSimpleDialog,tkFileDialog
import tkMessageBox
from pymol import cmd
import sys
import string
import itertools
def __init__(self):
self.menuBar.addmenuitem('Plugin', 'command',
... | rasbt/BondPack | src/BondVis.py | Python | gpl-3.0 | 2,744 | [
"PyMOL"
] | 728cc69fe5b710facbcf48918afea97d4fb8b368e57304968a3a35b54104eeaf |
import json
from operator import attrgetter
import click
from click import echo, echo_via_pager
from .api import JiffyBox
from .format import PlainFormatVisitor
API = None
OUTPUT_FORMAT = None
USE_PAGER = None
def sort_data(data):
return sorted(data, key=attrgetter('id'))
def format_data(data):
data = so... | AmadeusITGroup/python-jiffybox | jiffybox/cli.py | Python | gpl-3.0 | 3,486 | [
"VisIt"
] | 137828d072e29bec272d961f825c20f1c3d97e5b43262f4ee511a9fdbb8308de |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding: utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
"""A python based tool for interfacial molecules analysis
"""
# To use a consistent encoding
import codecs
import os
import sys
# Always prefer setuptools over distutils
try:
from setupt... | Marcello-Sega/pytim | setup.py | Python | gpl-3.0 | 5,678 | [
"MDAnalysis"
] | cbeb4543f66d60210b2bde003a28238d7ed73c756ea2945961892cfd9ae297e8 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# gaussian_class.py
#
# Copyright 2017 ssd <ssd@ssd>
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, o... | cimadure/programming-on-purpose | gaussian_class.py | Python | gpl-3.0 | 1,792 | [
"Gaussian"
] | bb2c7d5ecc51fb70db5e93e1e4af1c17ea1bc7b64009507fb6adb5a738f4dbec |
#!/usr/bin/env python
#
# Copyright 2008 Jose Fonseca
#
# 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 option) any later version.
#
# This ... | isi-nlp/bolinas | common/hgraph/xdot.py | Python | mit | 91,176 | [
"FLEUR"
] | d3fd31a92ac9fd92c5dc16658444acd5a68000242dac761698952cd07537817a |
# numkit --- time series manipulation and analysis
# Copyright (c) 2010 Oliver Beckstein <orbeckst@gmail.com>
# Released under the "Modified BSD Licence" (see COPYING).
"""
:mod:`numkit.timeseries` --- Time series manipulation and analysis
==================================================================
A time serie... | jandom/GromacsWrapper | numkit/timeseries.py | Python | gpl-3.0 | 21,347 | [
"Gromacs"
] | c1c1227b08a7b035fee2b883427429334a8ece99e2396b5da6a686c81605951f |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import unittest
import requests
from pymatgen.ext.jhu import get_kpoints
from pymatgen.io.vasp.inputs import Incar
from pymatgen.io.vasp.sets import MPRelaxSet
from pymatgen.util.testing import PymatgenTest
... | richardtran415/pymatgen | pymatgen/ext/tests/test_jhu.py | Python | mit | 949 | [
"VASP",
"pymatgen"
] | 15e1e8e94a8b542332e124557771f1da8ef611c7ca3fbd38289637807a559017 |
"""Support for control of ElkM1 lighting (X10, UPB, etc)."""
from __future__ import annotations
from homeassistant.components.light import (
ATTR_BRIGHTNESS,
SUPPORT_BRIGHTNESS,
LightEntity,
)
from homeassistant.config_entries import ConfigEntry
from homeassistant.core import HomeAssistant
from homeassista... | rohitranjan1991/home-assistant | homeassistant/components/elkm1/light.py | Python | mit | 1,934 | [
"Elk"
] | ba7509667d728e8578bcdc92992f7ae329d2f6c04d947aaec3c693ff02e2f378 |
# -*- coding: utf-8 -*-
"""
Authors: Gonzalo E. Espinoza-Dávalos, Wim G.M. Bastiaanssen, Boaz Bett, and
Xueliang Cai
IHE Delft 2017
Contact: g.espinoza@un-ihe.org
Repository: https://github.com/gespinoza/hants
Module: hants
Description:
This module is an implementation of the Harmonic ANalysis of Tim... | gespinoza/hants | wa_arcpy/__init__.py | Python | apache-2.0 | 2,745 | [
"NetCDF"
] | 229f06299acced0146b42d35ceab36132faf6c3951d43e197fbf478d9e074159 |
from __future__ import (absolute_import, division, print_function)
import numpy as np
import re
import warnings
from six import string_types
# RegEx pattern matching a composite function parameter name, eg f2.Sigma.
FN_PATTERN = re.compile('f(\\d+)\\.(.+)')
# RegEx pattern matching a composite function parameter nam... | dymkowsk/mantid | scripts/Inelastic/CrystalField/fitting.py | Python | gpl-3.0 | 63,447 | [
"CRYSTAL",
"Gaussian"
] | a33f41a502e8a6d1d46b299f6c58449a3c88f2b784be9984c18fce0fd057efa6 |
""" This is the Job Repository which stores and manipulates DIRAC job metadata in CFG format """
from diraccfg import CFG
from DIRAC import gLogger, S_OK, S_ERROR
import os
import time
import tempfile
import shutil
class JobRepository:
def __init__(self, repository=None):
self.location = repository
... | DIRACGrid/DIRAC | src/DIRAC/Interfaces/API/JobRepository.py | Python | gpl-3.0 | 4,790 | [
"DIRAC"
] | 5a42b83d4f34fce095616f5f1b983222163b3b77462eee2a70ca628ac2155919 |
from __future__ import division, print_function
import xgboost as xgb
# from sklearn.ensemble import GradientBoostingRegressor, RandomForestRegressor
import sklearn.preprocessing as prep
from sklearn import cluster
# from sklearn import cross_validation as cv
# from sklearn.feature_selection import RFE, RFECV
# from... | marcocaccin/MLTI | step2_ML/ml_learnability.py | Python | gpl-3.0 | 8,004 | [
"CRYSTAL"
] | 1b770f9941e2c6025a82afc38a1c4ea9f8226f34c26999e0a9905868ac4b1b43 |
# Sample module in the public domain. Feel free to use this as a template
# for your modules (and you can remove this header and take complete credit
# and liability)
#
# Contact: Brian Carrier [carrier <at> sleuthkit [dot] org]
#
# This is free and unencumbered software released into the public domain.
#
# Anyone is f... | millmanorama/autopsy | pythonExamples/reportmodule.py | Python | apache-2.0 | 4,633 | [
"Brian"
] | 517772009698e309e95a00a27afb434c1f8bc24613109cfa66e6802508ab5271 |
"""
Sandboxed expression parser.
Copyright 2017-2018 Leon Helwerda
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... | lhelwerd/expression-parser | expression/parser.py | Python | apache-2.0 | 12,920 | [
"VisIt"
] | f11b2ef197c5f47247a1a94eb605a617de4fb372af7a51875b0cd0131f343527 |
import environ
from celery.schedules import crontab
root_dir = environ.Path(__file__) - 3
project_dir = root_dir.path('shopify')
env = environ.Env()
env.read_env('.env')
DJANGO_APPS = (
'django.contrib.auth',
'django.contrib.contenttypes',
'django.contrib.sessions',
'django.contrib.sites',
'dja... | CorbanU/corban-shopify | config/settings/base.py | Python | bsd-3-clause | 4,845 | [
"Brian"
] | 1eecb0dfc03fe512b3c0eda7bcf9de598ca01bd2cf41b4133e62dc38d36347d8 |
#!/bin/env python
""" create and put 'ReplicateAndRegister' request """
__RCSID__ = "$Id: $"
import os
from DIRAC.Core.Base import Script
Script.setUsageMessage( '\n'.join( [ __doc__,
'Usage:',
' %s [option|cfgfile] requestName LFNs targetSE [tar... | avedaee/DIRAC | DataManagementSystem/scripts/dirac-dms-replicate-and-register-request.py | Python | gpl-3.0 | 3,550 | [
"DIRAC"
] | c685ca827c69b78dfd37962f9738da3c1786ae2e641c1fbf54b60e157f182129 |
import copy
import os
from visitor import *
from stringstream import *
class Rewriter(NodeVisitor):
""" Class for rewriting of the original AST. Includes:
1. the initial small rewritings,
2. transformation into our representation,
3. transforming from our representation to C-executable code,
4. cre... | dikujepsen/OpenTran | v2.0/framework/old/rewriter.py | Python | mit | 39,575 | [
"VisIt"
] | affc58229817c41ef4aebe57f6b617e1d532c69f04ede867744ec3e9ee1b5620 |
#!/usr/bin/env python
import psycopg2
import sys
time =sys.argv[1]
#time = str(1086725208)
#conn = psycopg2.connect("dbname=mwa host=mwa-metadata01.pawsey.org.au user=MWA-guest password=guest port=5432")
conn = psycopg2.connect("dbname=mwa host=mwa-metadata01.pawsey.org.au user=mwa password=BowTie port=5432")
cur ... | steve-ord/galaxy-scripts | scripts/fits_db.py | Python | gpl-2.0 | 934 | [
"Bowtie"
] | 08b0953848a5b7a6a099f2c5cb9ea3e78d8a93ee59faa5189a95be067b38269e |
import json
import os
import unittest
import warnings
from sympy import Number, Symbol
from pymatgen.analysis.surface_analysis import (
NanoscaleStability,
SlabEntry,
SurfaceEnergyPlotter,
WorkFunctionAnalyzer,
)
from pymatgen.entries.computed_entries import ComputedStructureEntry
from pymatgen.util.t... | materialsproject/pymatgen | pymatgen/analysis/tests/test_surface_analysis.py | Python | mit | 22,393 | [
"pymatgen"
] | 48adb9f905fec70aa2bd7d189492b1b180bfe8e45c803cedd703b083f1168b5d |
"""
/******************************************************************************
This source file is part of the Avogadro project.
Copyright 2013 Kitware, Inc.
This source code is released under the New BSD License, (the "License").
Unless required by applicable law or agreed to in writing, software
di... | OpenChemistry/avogadrolibs | avogadro/qtplugins/scriptfileformats/formatScripts/zyx.py | Python | bsd-3-clause | 2,841 | [
"Avogadro"
] | c33746ca72e79b7fd8a51852521f86bded89b9ac2d5ce46a4dc39cc4359bb0b3 |
########################################################################
#
# (C) 2013, James Cammarata <jcammarata@ansible.com>
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software ... | nrwahl2/ansible | lib/ansible/cli/galaxy.py | Python | gpl-3.0 | 31,733 | [
"Galaxy"
] | c93a0ab7bd8719b11996071d2aad3933ccca7c88e8cec1de93d6ff5937c8d9ef |
#!/usr/bin/python
import json
import os
import random
import unittest
import numpy as np
from pymatgen.analysis.structure_matcher import StructureMatcher
from pymatgen.core.lattice import Lattice
from pymatgen.core.structure import Structure
from pymatgen.core.surface import (
ReconstructionGenerator,
Slab,... | gmatteo/pymatgen | pymatgen/core/tests/test_surface.py | Python | mit | 36,585 | [
"pymatgen"
] | 320e626957fbb79632b32926cfd119cef1d599e73def32baf237f2142dc1c29b |
# Copyright (C) 2018 Henrique Pereira Coutada Miranda, Alejandro Molina Sanchez
# All rights reserved.
#
# This file is part of yambopy
#
#
import os
import re
import shutil
from math import sqrt
from qepy import qepyenv
from .pseudo import get_pseudo_path
from .tools import fortran_bool
from .lattice import red_car, c... | henriquemiranda/yambo-py | qepy/pw.py | Python | bsd-3-clause | 24,853 | [
"ASE",
"CRYSTAL",
"Quantum ESPRESSO"
] | f19cbd5313b4110a4e6fbbd3f44680db39e18325eabc54594d9612b8161f9ab0 |
# $HeadURL$
__RCSID__ = "$Id$"
from DIRAC import gLogger, S_OK
from DIRAC.Core.Base.AgentModule import AgentModule
from DIRAC.Resources.Catalog.FileCatalog import FileCatalog
from DIRAC.DataManagementSystem.Client.DataIntegrityClient import DataIntegrityClie... | avedaee/DIRAC | StorageManagementSystem/Agent/RequestPreparationAgent.py | Python | gpl-3.0 | 10,152 | [
"DIRAC"
] | d2bf3bbc44b6beb3d5552e3b0120415d21b67db1c623f87df7666ed88e427cc2 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import sys
import platform
from setuptools import setup, find_packages, Extension
from setuptools.command.build_ext import build_ext as _build_ext
class build_ext(_build_ext):
def finalize_options(self):... | Bismarrck/pymatgen | setup.py | Python | mit | 8,781 | [
"ABINIT",
"ASE",
"FEFF",
"Gaussian",
"NWChem",
"VASP",
"VTK",
"pymatgen"
] | 6fa9e983d9c03287f8aa2f5157fe333a1653e00df3caaf1c23517da87263b4e6 |
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