text stringlengths 12 1.05M | repo_name stringlengths 5 86 | path stringlengths 4 191 | language stringclasses 1
value | license stringclasses 15
values | size int32 12 1.05M | keyword listlengths 1 23 | text_hash stringlengths 64 64 |
|---|---|---|---|---|---|---|---|
from clldfabric import tasks
tasks.init('cdk')
| clld/cdk | fabfile.py | Python | apache-2.0 | 47 | [
"CDK"
] | effcdd2e7fac43edd5abef86331e3ab861cad46abd857587d15dce01aaa736c6 |
# flake8: noqa
# Generated with tools/generate-isocodes.py
LANGUAGES = set(
['aa',
'aaa',
'aab',
'aac',
'aad',
'aae',
'aaf',
'aag',
'aah',
'aai',
'aak',
'aal',
'aan',
'aao',
'aap',
'aaq',
'aas',
'aat',
'aau',
'aaw',
'aax',
'aaz',
'ab',
'aba',
'abb',
'abc',
'abd',
'abe',
'abf',
'abg',
'abh... | matwey/rpmlint | rpmlint/__isocodes__.py | Python | gpl-2.0 | 64,434 | [
"ADF",
"ASE",
"BWA",
"Elk",
"MOE",
"VMD",
"xTB"
] | 20adf674ea2d10a7ad1d84e92eff90701d15c0c74f15ff1ea0433a6fe0473617 |
# Copyright (C) 2012,2013
# Max Planck Institute for Polymer Research
# Copyright (C) 2008,2009,2010,2011
# Max-Planck-Institute for Polymer Research & Fraunhofer SCAI
#
# This file is part of ESPResSo++.
#
# ESPResSo++ is free software: you can redistribute it and/or modify
# it under the terms of the G... | espressopp/espressopp | src/FixedTripleAngleList.py | Python | gpl-3.0 | 4,092 | [
"ESPResSo"
] | de90c3561722f3a37820d5fb8d60d7e73f8568873b68bdaa1f74393e2bf53746 |
#!/usr/bin/env python
# Author: Andrew Jewett (jewett.aij at g mail)
# http://www.chem.ucsb.edu/~sheagroup
# License: 3-clause BSD License (See LICENSE.TXT)
# Copyright (c) 2011, Regents of the University of California
# All rights reserved.
"""
lttree.py
lttree.py is an extension of the generic ttree.py pr... | crtrott/lammps | tools/moltemplate/src/lttree.py | Python | gpl-2.0 | 35,110 | [
"LAMMPS"
] | d59e84a7b776eca04964389bae603339144f2949cada78efc1b287faff59c222 |
# Licensed under a 3-clause BSD style license - see LICENSE.rst
"""
This module provides tools for detecting sources in an image.
"""
import warnings
from astropy.convolution import Gaussian2DKernel, convolve
from astropy.stats import gaussian_fwhm_to_sigma, sigma_clipped_stats
from astropy.utils.exceptions import As... | astropy/photutils | photutils/segmentation/detect.py | Python | bsd-3-clause | 18,568 | [
"Gaussian"
] | efcd8127c071976e8eee00cb0e3c689b64826a94937867749ce157d6390d031d |
#!/usr/bin/env python
# Copyright (c) 2012 The Chromium Authors. All rights reserved.
# Use of this source code is governed by a BSD-style license that can be
# found in the LICENSE file.
"""Makes sure that all files contain proper licensing information."""
import optparse
import os.path
import subprocess
import sys... | KitKatXperience/platform_external_chromium_org | tools/checklicenses/checklicenses.py | Python | bsd-3-clause | 15,850 | [
"Galaxy"
] | 0d37fe4ea295bb48cb92e78b04246954c755d4f7940746258ca593074f0517b8 |
# -*- 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_GetSystemUserPath.py | Python | gpl-3.0 | 1,028 | [
"ORCA"
] | 4d4e01195df369c229cbad22246f48aa1dfdf16affc8de53dd0349463f381ecc |
#!/restricted/projectnb/montilab-p/personal/eric/hydra_dev/dev_env/bin/python
#Copyright 2015 Daniel Gusenleitner, Stefano Monti
#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.a... | montilab/Hydra | build/scripts-2.7/paired_ends_intersect.py | Python | apache-2.0 | 2,532 | [
"Biopython"
] | 9cb7e16fb3cca4bd63dee0f56352c1945b3cae7d927f901d79b6fea3e91aa062 |
# -*- coding: utf-8 -*-
# Copyright 2007-2016 The HyperSpy developers
#
# This file is part of HyperSpy.
#
# HyperSpy 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... | magnunor/hyperspy | hyperspy/_components/gaussianhf.py | Python | gpl-3.0 | 5,976 | [
"Gaussian"
] | 8e4c2c1154961e151ea15f82eecee8bc8da792cdb462a116b8ad6c973ee45e48 |
# coding: utf-8
#
# Copyright 2012 NAMD-EMAP-FGV
#
# This file is part of PyPLN. You can get more information at: http://pypln.org/.
#
# PyPLN 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 o... | NAMD/pypln.backend | pypln/backend/workers/statistics.py | Python | gpl-3.0 | 2,790 | [
"NAMD"
] | 8a647b8b294e7d1527935ac422d8e93014bc7d3cb7ce927338d412502ba9969e |
# Copyright (c) 2009-2021 The Regents of the University of Michigan
# This file is part of the HOOMD-blue project, released under the BSD 3-Clause
# License.
"""Synced list utility classes."""
from collections.abc import MutableSequence
import inspect
from copy import copy
class _PartialIsInstance:
"""Allows pa... | joaander/hoomd-blue | hoomd/data/syncedlist.py | Python | bsd-3-clause | 10,180 | [
"HOOMD-blue"
] | e958ad1239dc1d93a920ddab2c9ce895b3a30b6aa9eb920859130e1b10774f9b |
# -*- coding: utf-8 -*-
"""
Authors: Gonzalo E. Espinoza-Dávalos
IHE Delft 2017
Contact: g.espinoza@un-ihe.org
Repository: https://github.com/gespinoza/waterpix
Module: waterpix
"""
import os
from .davgis import NetCDF_to_Raster
import netCDF4
def output_nc_to_tiffs(output_nc, output_path):
"""
Crea... | wateraccounting/wa | Models/waterpix/wp_gdal/output_nc_to_tiffs.py | Python | apache-2.0 | 3,388 | [
"NetCDF"
] | 19f71660376fe3e5a6eeefbd9fb4bf806cd02bee307490ae57ca50f1b46b41e3 |
#!/bin/env python
import vtk
import PyQt4
from PyQt4 import QtCore, QtGui
from vtk.util.colors import *
from vtk.qt4.QVTKRenderWindowInteractor import QVTKRenderWindowInteractor
from ui_testbed import Ui_TestbedWindow
from imgVolRender import imgVolRender
class MainWindow (QtGui.QMainWindow):
def __init__(self, da... | chapering/PyVolRender | vmDTIRender.py | Python | gpl-2.0 | 2,628 | [
"VTK"
] | 9841df5ea9e8bb174263e4476dec9cd0a57ff1f91607f592095f45168535756d |
# coding: utf-8
import numpy as np
from .. import img_as_float
from ..restoration._denoise_cy import _denoise_bilateral, _denoise_tv_bregman
from .._shared.utils import _mode_deprecations
def denoise_bilateral(image, win_size=5, sigma_range=None, sigma_spatial=1,
bins=10000, mode='constant', cva... | jwiggins/scikit-image | skimage/restoration/_denoise.py | Python | bsd-3-clause | 11,808 | [
"Gaussian"
] | b95e622a54208c272dd6ab3fdf735d1c38cb8cd8bce0b02714c5adaf5852b4c2 |
#! /usr/bin/env python
"""Test script for the bsddb C module by Roger E. Masse
Adapted to unittest format and expanded scope by Raymond Hettinger
"""
import os, sys
import copy
import bsddb
import dbhash # Just so we know it's imported
import unittest
from test import test_support
class TestBSDDB(unittest.TestCase)... | leighpauls/k2cro4 | third_party/python_26/Lib/test/test_bsddb.py | Python | bsd-3-clause | 11,518 | [
"Brian"
] | a91e528059fcb9f8e654fee1c27848da428cbe6bacc6234201c939bc9a50d147 |
"""The SOINN regressor."""
import isoinn2
from kde import density
from __gaussian_custom import norm_pdf_multivariate
from numpy import array,diag,matrix
import time
from pygraph.classes.graph import graph
from pygraph.algorithms.accessibility import connected_components
import itertools
from copy import deepc... | sbxzy/pygks | build/lib/pygks/reg_inn.py | Python | bsd-3-clause | 6,787 | [
"NEURON"
] | d4b0e59b7c06fda533c8d8dfd743b31922d962a5cb7536b6998f23e0cf9b1c96 |
#from ctx_base import StandardBaseContext
from .libmp.backend import basestring, exec_
from .libmp import (MPZ, MPZ_ZERO, MPZ_ONE, int_types, repr_dps,
round_floor, round_ceiling, dps_to_prec, round_nearest, prec_to_dps,
ComplexResult, to_pickable, from_pickable, normalize,
from_int, from_float, from_str,... | lidavidm/mathics-heroku | venv/lib/python2.7/site-packages/sympy/mpmath/ctx_mp_python.py | Python | gpl-3.0 | 36,688 | [
"Gaussian"
] | aa8d787269210c0bd39e5822c415fc0605ac9cf4acf2fe50942faad79cfcbc0e |
# - Coding UTF8 -
#
# Networked Decision Making
# Development Sites (source code):
# http://code.google.com/p/global-decision-making-system/
# http://github.com/NewGlobalStrategy/NetDecisionMaking
#
# Demo Sites (Google App Engine)
# http://netdecisionmaking.appspot.com
# http://globaldecisionmaking.appspot.co... | NewGlobalStrategy/NetDecisionMaking | controllers/eventquests.py | Python | mit | 25,087 | [
"VisIt"
] | de26a97ba6b4b25c5970abd2a8cb37e21ce71d8c63ed279ce5f2bf25f67e47b0 |
"""
To know more or get code samples, please visit my website:
https://morvanzhou.github.io/tutorials/
Or search: 莫烦Python
Thank you for supporting!
"""
# please note, all tutorial code are running under python3.5.
# If you use the version like python2.7, please modify the code accordingly
# 4 - Regressor example
im... | tencrance/cool-config | ml_keras_learn/tutorials/kerasTUT/4-regressor_example.py | Python | mit | 1,503 | [
"VisIt"
] | 3faf777872fb298486c61023985595d0ef36689b9edfb89a6f4841bf8b02ac48 |
#!/usr/bin/env python
########################################################################
# $HeadURL$
# File : dirac-install-agent
# Author : Ricardo Graciani
########################################################################
"""
Do the initial installation and configuration of a DIRAC agent
"""
__RCSID_... | avedaee/DIRAC | Core/scripts/dirac-install-agent.py | Python | gpl-3.0 | 3,120 | [
"DIRAC"
] | ac5da8bb37e1748a15bce784e898ab351bb94695889314bc0cd2cb8d659b2a1a |
#!/usr/bin/env python -i
# Script: logplot.py
# Purpose: use GnuPlot to plot two columns from a LAMMPS log file
# Syntax: logplot.py log.lammps X Y
# log.lammps = LAMMPS log file
# X,Y = plot Y versus X where X,Y are thermo keywords
# once plot appears, you are in Python interpreter, type ... | SGenheden/lammps | tools/python/logplot.py | Python | gpl-2.0 | 760 | [
"LAMMPS"
] | 1b2ee8916bee193ac1924c5948c29e590cbcfe78bed8dd456ad98451029c12df |
# coding=utf-8
from __future__ import unicode_literals
import re
from calendar import timegm
from datetime import timedelta, MAXYEAR
from time import time
from dateutil import relativedelta
from dateutil.tz import tzlocal, tzutc
from faker.utils import is_string
from faker.utils.datetime_safe import date, datetime... | deanishe/alfred-fakeum | src/libs/faker/providers/date_time/__init__.py | Python | mit | 82,424 | [
"BWA"
] | 7a516c1385f0745b2010848707f0af13d0cd4113a7f9d3ec8278697ed44b5253 |
# python3
# pylint: disable=g-bad-file-header
# Copyright 2021 DeepMind Technologies Limited. 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... | deepmind/neural_testbed | neural_testbed/likelihood/regression.py | Python | apache-2.0 | 5,157 | [
"Gaussian"
] | d77e61ac6d509fad335260e91b9e1dbeec194e37d44a6af5e01a3c6d90c32139 |
"""
Downloads feeds, keys, packages and icons.
"""
# Copyright (C) 2009, Thomas Leonard
# See the README file for details, or visit http://0install.net.
from zeroinstall import _, logger
import os, sys
from zeroinstall import support
from zeroinstall.support import tasks, basedir, portable_rename
from zeroinstall.in... | dsqmoore/0install | zeroinstall/injector/fetch.py | Python | lgpl-2.1 | 24,666 | [
"VisIt"
] | efc3519f1b9831ae69fbb53d370a42a093b63f43684383cea3f3e4471bd45b24 |
import time, socket
import commands, channels, mods, irc_msg
class irc:
def __init__(self, host, nick, port, chans, rootpwd):
self.host = host
self.port = port
self.nick = nick
self.command_char = "!"
self.init_phase = True
self.auto_join = chans
self.root_p... | ccshiro/mib | src/irc.py | Python | mit | 9,263 | [
"VisIt"
] | f213060a6f98599350f726e62370ddef43a2797256ae9c6c62224fc3916aefd5 |
#!/usr/bin/env python
# -*- coding: utf8 -*-
# *****************************************************************
# ** PTS -- Python Toolkit for working with SKIRT **
# ** © Astronomical Observatory, Ghent University **
# *****************************************************************
##... | Stargrazer82301/CAAPR | CAAPR/CAAPR_AstroMagic/PTS/pts/magic/tools/regions.py | Python | mit | 11,810 | [
"Galaxy"
] | dab5321badff28515cef5d4b9ddd4d057319baf17c3ac164a8c84281923dad2a |
__author__ = 'cos'
from tactic_world import TacticWorld
from strategic_world import StrategicWorld
from galaxy import *
from faction import Faction
from gui.universeUI import UniverseUI
from campaign import Campaign
from agents.unit import *
from agents.building import *
import Tkinter, tkFileDialog
from engine.so... | conan747/fallen-heaven | scripts/universe.py | Python | gpl-2.0 | 13,110 | [
"Galaxy"
] | 2b771c67309f43b074e08448e1b2c6c4bb812a9f67e81f7ac24467455fe460de |
#convert Chemical Models to SBML
#Moose needs to be compiled with libsbml: USE_SBML=1
import moose
moose.loadModel('../genesis/Kholodenko.g','/Kholodenko')
moose.writeSBML('../genesis/Kholodenko.xml','/Kholodenko')
| dilawar/moose-full | moose-examples/snippets/convert_to_sbml.py | Python | gpl-2.0 | 216 | [
"MOOSE"
] | be26b222e59b30242b7086de4b59d92d63cc703c19f774e9839091ef415240b2 |
from django.core.management.base import NoArgsCommand
from django.contrib.sites.models import Site
from pombola.feedback.models import Feedback
class Command(NoArgsCommand):
help = 'Report all the feedbac that needs attention'
args = ''
def handle_noargs(self, **options):
pending = Feedback.obj... | mysociety/pombola | pombola/feedback/management/commands/feedback_report_pending.py | Python | agpl-3.0 | 857 | [
"VisIt"
] | 67c93cb51821fbb646a9d8a6ff70e823892346df61f4f91589f655023c106c43 |
# pylint: disable=missing-docstring
import json
import platform
import re
import time
from textwrap import dedent
from urllib import quote_plus
# django_url is assigned late in the process of loading lettuce,
# so we import this as a module, and then read django_url from
# it to get the correct value
import lettuce.d... | BehavioralInsightsTeam/edx-platform | common/djangoapps/terrain/ui_helpers.py | Python | agpl-3.0 | 21,595 | [
"VisIt"
] | e1142dfba1e1c13b9f4a77c73ca66897181684dc5bc8c95f17ee0c54a92ac830 |
##############################################################################
# MDTraj: A Python Library for Loading, Saving, and Manipulating
# Molecular Dynamics Trajectories.
# Copyright 2012-2013 Stanford University and the Authors
#
# Authors: Robert McGibbon
# Contributors: Kyle A Beauchamp, Ravi Ramanat... | marscher/mdtraj | MDTraj/geometry/dihedral.py | Python | lgpl-2.1 | 16,636 | [
"MDTraj"
] | 95352000584b6f6f51deebc6c87663afa6eb73c6de4523a63b6b856ebd7b00f5 |
from compiler import ast
# XXX should probably rename ASTVisitor to ASTWalker
# XXX can it be made even more generic?
class ASTVisitor:
"""Performs a depth-first walk of the AST
The ASTVisitor will walk the AST, performing either a preorder or
postorder traversal depending on which method is called.
... | trivoldus28/pulsarch-verilog | tools/local/bas-release/bas,3.9/lib/python/lib/python2.3/compiler/visitor.py | Python | gpl-2.0 | 3,900 | [
"VisIt"
] | fe171bdac89157d9cb8576778917129735945bece4f8e19fbe4f9c8f9189f11c |
# ----------------------------------------------------------------------------
# Copyright (c) 2013--, scikit-bio development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file COPYING.txt, distributed with this software.
# --------------------------------------------... | gregcaporaso/scikit-bio | skbio/io/tests/test_util.py | Python | bsd-3-clause | 23,129 | [
"scikit-bio"
] | d850f2ef2ff19dc2da149e63508de5696c1e6ab785a0c1a07f10eaf423960402 |
########################################################################
#
# (C) 2015, Brian Coca <bcoca@ansible.com>
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation... | ilpianista/ansible | lib/ansible/galaxy/role.py | Python | gpl-3.0 | 16,177 | [
"Brian",
"Galaxy"
] | e222c1405bf9c9bde31dbb45c8aaee1289cede3f73ce012603be7342bbd08d6c |
"""Visualization helpers."""
from contextlib import contextmanager
import copy
import os.path as op
import numpy as np
from scipy import linalg
from mne import read_proj, read_events, pick_types
from mne.utils import verbose
from mne.viz.utils import tight_layout, plt_show
from ._sss import compute_good_coils
from ... | kambysese/mnefun | mnefun/_viz.py | Python | bsd-3-clause | 18,073 | [
"Mayavi"
] | 13dd8a747da2630bb884a9564a9e1cada40570801667ef2f0568266e7320b248 |
# Copyright (c) 2015, Frappe Technologies Pvt. Ltd. and Contributors
# License: GNU General Public License v3. See license.txt
from __future__ import unicode_literals
import frappe
import json
import frappe.utils
from frappe.utils import cstr, flt, getdate, cint, nowdate, add_days, get_link_to_form
from frappe import ... | Zlash65/erpnext | erpnext/selling/doctype/sales_order/sales_order.py | Python | gpl-3.0 | 35,256 | [
"VisIt"
] | d1269a9884ec0d977d8f44f141944f73d7dc814dae12e49fadb78aaba35045e1 |
# Licensed to the Apache Software Foundation (ASF) under one
# or more contributor license agreements. See the NOTICE file
# distributed with this work for additional information
# regarding copyright ownership. The ASF licenses this file
# to you under the Apache License, Version 2.0 (the
# "License"); you may not u... | dmlc/tvm | tests/python/contrib/test_tensorrt.py | Python | apache-2.0 | 56,782 | [
"VisIt"
] | c0dc8800b22fad0c014d6d1287dd54fc9ca78202105e23d917ba3a2b0aefc9bf |
#!/usr/bin/env python2
# vim:fileencoding=UTF-8:ts=4:sw=4:sta:et:sts=4:ai
from __future__ import (unicode_literals, division, absolute_import,
print_function)
__license__ = 'GPL v3'
__copyright__ = '2011, Kovid Goyal <kovid@kovidgoyal.net>'
__docformat__ = 'restructuredtext en'
import re, th... | jelly/calibre | src/calibre/ebooks/metadata/sources/base.py | Python | gpl-3.0 | 22,537 | [
"VisIt"
] | 8d958c25dc86b4b115326561c298c4e78ea40472c90560fdaab4a52f718e23f3 |
# -*- coding: utf-8 -*-
# ###
# Copyright (c) 2013, Rice University
# This software is subject to the provisions of the GNU Affero General
# Public License version 3 (AGPLv3).
# See LICENCE.txt for details.
# ###
"""Database search utilties."""
import os
import re
from collections import Mapping, OrderedDict, Sequence
... | Connexions/cnx-archive | cnxarchive/search.py | Python | agpl-3.0 | 22,499 | [
"VisIt"
] | 3f3227530465a8999e9df065ec378def06abe585b5d47bb4fb4654117f1e6247 |
# -*- coding: utf-8 -*-
# <nbformat>3.0</nbformat>
# <codecell>
import pandas as pd
import sys
import os, os.path
sys.path.append('/home/will/PatientPicker/')
import LoadingTools
# <codecell>
redcap= LoadingTools.load_redcap_data().set_index(['Patient ID', 'VisitNum'])
# <codecell>
admit_no_drugs = [('Current-Dr... | JudoWill/ResearchNotebooks | AdmitExplanation.py | Python | mit | 2,967 | [
"VisIt"
] | 3c3527bfbf4bf195ed56c1119d72452321d6b955601f0fd100577466d731ec4a |
CONTAINER = [
"Docker",
"Rkt",
"LXC",
"Vagrant",
"OpenVZ",
"Kubernetes"
]
LICENSES = [
"Apache License, 2.0 (Apache-2.0)",
"The BSD 3-Clause License",
"The BSD 2-Clause License",
"GNU General Public License (GPL)",
"General Public License (LGPL)",
"MIT License (MIT)",
... | wikkiewikkie/elizabeth | elizabeth/intd/dev.py | Python | mit | 10,967 | [
"GULP"
] | 55101c4e29e6be65beae71f5302323fdf4dec43a466da446b2e6e4c0d06801d9 |
#BEGIN_HEADER
import sys
import os
import glob
import json
#sys.path.insert(0, '/kb/dev_container/modules/genome_util/lib/biokbase/genome_util')
import script_util
#from biokbase.workspace.client import Workspace
#from workspace.client import Workspace
#END_HEADER
class KBaseGenomeUtil:
'''
Module Name:
... | plane83/genome_util | lib/biokbase/genome_util/KBaseGenomeUtilImpl.py | Python | mit | 3,110 | [
"BLAST"
] | fc6a3e376f030efa39b7a77901529e345a69c513cf8aa7b568e77189a35afa6a |
import os
import struct
from io import StringIO
import vstruct
import vstruct.defs.pe as vs_pe
from . import ordlookup
IMAGE_FILE_RELOCS_STRIPPED = 0x0001
IMAGE_FILE_EXECUTABLE_IMAGE = 0x0002
IMAGE_FILE_LINE_NUMS_STRIPPED = 0x0004
IMAGE_FILE_LOCAL_SYMS_STRIPED = 0x0008
IMAGE_FILE_AGGRESSIVE_WS_TRIM = 0x00010
IMAGE_... | bat-serjo/vivisect | PE/__init__.py | Python | apache-2.0 | 43,419 | [
"VisIt"
] | c85b25be66af9963b9c151a59a29c695b2ae7141e4d5a2651abd9a7d841b88e5 |
#!/usr/bin/env python
# Script by Jason Kwong
# In silico serotyping for L.monocytogenes
import sys
import logging
import os
import click
import loguru
import pkg_resources
from Bio import SeqIO
from lissero.scripts.Sample import Samples
from lissero.scripts.Blast import Blast
from lissero.scripts.Serotype import Ser... | MDU-PHL/LisSero | lissero/run_lissero.py | Python | gpl-2.0 | 3,616 | [
"BLAST"
] | 8b141be0362217c6bd3ec90befa003e30666d68ab86bb33847fc1d99f73d7c51 |
# Author: Travis Oliphant
# 2003
#
# Feb. 2010: Updated by Warren Weckesser:
# Rewrote much of chirp()
# Added sweep_poly()
from __future__ import division, print_function, absolute_import
import numpy as np
from numpy import asarray, zeros, place, nan, mod, pi, extract, log, sqrt, \
exp, cos, sin, polyval, po... | gertingold/scipy | scipy/signal/waveforms.py | Python | bsd-3-clause | 21,065 | [
"Gaussian"
] | b40410f16fce2fdc5de31dc805556f5ef8b82ed9414fb68b9c37622d89f5d737 |
import numpy as np
import dolfin
from dolfin import *
from mpi4py import MPI as pyMPI
comm = pyMPI.COMM_WORLD
mpi_comm = MPI.comm_world
#mark whole boundary, inflow and outflow will overwrite)
class Noslip(SubDomain):
def inside(self, x, on_boundary):
return on_boundary
class Left(SubDomain):
def ins... | BradHub/SL-SPH | hdg_test/anistropic/cg_test.py | Python | mit | 2,561 | [
"ParaView"
] | b94806a950df7354b576384f58ac19b2201621fb482684779d72ac806302d2fe |
import logging
import random
import tba_config
from google.appengine.ext import deferred
from google.appengine.api import memcache
from consts.client_type import ClientType
from consts.notification_type import NotificationType
from helpers.notification_sender import NotificationSender
from sitevars.notifications_enab... | bdaroz/the-blue-alliance | notifications/base_notification.py | Python | mit | 6,868 | [
"VisIt"
] | bc82ea67e172f311921da4117f04e572ab6e6626476b878180c6768ee95ba14e |
"""StrongConnectivity.py
DFS-based algorithm for computing strongly connected components.
If G is a graph, then
- StronglyConnectedComponents(G) returns a list of
its components, each represented as a subgraph of G
- Condensation(G) returns a directed acyclic graph, the
vertices of which are strongly connected co... | jfinkels/PADS | pads/strong_connectivity.py | Python | mit | 3,363 | [
"VisIt"
] | e4152c46a18656c6b8cac5c370dc074a9d06d5805b251694fcde8bcb0d420bff |
"""
View for Courseware Index
"""
# pylint: disable=attribute-defined-outside-init
from datetime import datetime
from django.conf import settings
from django.contrib.auth.decorators import login_required
from django.contrib.auth.models import User
from django.core.context_processors import csrf
from django.core.urlreso... | waheedahmed/edx-platform | lms/djangoapps/courseware/views/index.py | Python | agpl-3.0 | 22,383 | [
"VisIt"
] | 07697068add4b6088833bf6ce540d5b31c944c445d07dc0ae5c359c4993b1cb7 |
# -*- coding: utf-8 -*-
"""\
Visualizing Parameters in a Modern Neural Network
=================================================
"""
from __future__ import (absolute_import, unicode_literals, print_function)
print(__doc__)
__author__ = 'Alex J. Champandard'
import sys
import time
import logging
import argparse
import... | gticket/scikit-neuralnetwork | examples/plot_mlp.py | Python | bsd-3-clause | 5,613 | [
"Gaussian"
] | 1a0d0eb7602e74c188bc140cdd1a45ccad2cc6c5637a7b14290479dbb4f0a256 |
from rauth.service import OAuth2Service
# Get a real consumer key & secret from:
# https://github.com/settings/applications/new
github = OAuth2Service(
client_id='8ae4946cc5a9af76f6d7',
client_secret='48aeb2b3c9226ae2b698eef4d7e6310473ccafa7',
name='github',
authorize_url='https://github.com/login/oaut... | arifgursel/rauth | examples/github-cli.py | Python | mit | 1,136 | [
"VisIt"
] | 8905ee5995a51247f2d6f36b17d29f8fcb1a1d311e8992333cb93f78de88807f |
# $HeadURL$
__RCSID__ = "$Id$"
from DIRAC.Core.DISET.private.Transports import PlainTransport, SSLTransport
gProtocolDict = { 'dip' : { 'transport' : PlainTransport.PlainTransport,
'sanity' : PlainTransport.checkSanity,
'delegation' : PlainTransport.dele... | Sbalbp/DIRAC | Core/DISET/private/Protocols.py | Python | gpl-3.0 | 636 | [
"DIRAC"
] | c06abb881288003de82d4d09df1ca9590adb2e4439f02f0bc79208c64f771b74 |
########################################################################
#
# (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 ... | levenlabs/ansible | lib/ansible/cli/galaxy.py | Python | gpl-3.0 | 30,101 | [
"Galaxy"
] | e28fcc90b896220d65e26a352bc7eb4fc0bfa2881bb8318a2f233b4aebbe8214 |
import pytest
import UWG
import os
import math
import pprint
from test_base import TestBase
class TestSimParam(TestBase):
def test_uwg_simparam_matlab_init(self):
""" Matlab value comparison for simparam initialization in main uwg """
# Initialize UWG from default initialize.uwg for 31 days simul... | saeranv/UWG_Python | tests/test_simparam.py | Python | gpl-3.0 | 6,096 | [
"EPW"
] | 33bda6e568f2bc4d046f0009fed06e0089cd2df69b9ffc4cdff8e023c36f4d1b |
from matplotlib import pyplot
from math import cos, sin, atan
class Neuron():
def __init__(self, x, y):
self.x = x
self.y = y
def draw(self, neuron_radius):
circle = pyplot.Circle((self.x, self.y), radius=neuron_radius, fill=False)
pyplot.gca().add_patch(circle)
class Layer()... | brenoarosa/projeto_final | plotters/neural_net.py | Python | mit | 4,008 | [
"NEURON"
] | 57206b9a71d635ee948e4764293e90e3f36fa8ce6da85bd4284094dea1a8108f |
# ---
# jupyter:
# jupytext:
# formats: ipynb,.pct.py:percent
# text_representation:
# extension: .py
# format_name: percent
# format_version: '1.3'
# jupytext_version: 1.3.3
# kernelspec:
# display_name: Python 3
# language: python
# name: python3
# ---
# %% [markdown]
... | GPflow/GPflow | doc/source/notebooks/basics/GPLVM.pct.py | Python | apache-2.0 | 5,263 | [
"Gaussian"
] | 9f870aa3741923abfe6e72296192f5171d1ecaf091cec54521a5e31d3ac3dfb8 |
'''
Illustrates the impact of viscosity on the assymptotical variances and convergence rate spectra.
(Reproduce figure 3 from the articla, section 3-b)
'''
import numpy as np
import matplotlib.pyplot as plt
from numpy import pi
from DM93 import Uncorrelated, Foar, Soar, Gaussian
from DM93 import spVarStationary, an... | martndj/DaleyMenard1993 | viscosity.py | Python | gpl-3.0 | 1,987 | [
"Gaussian"
] | bd9c8fd560db12fcf7c2341a45c4951e40fed54f95bb0dbad773292674617aa6 |
"Tools for working with parso ASTs."
from abc import ABC, abstractmethod
import io
import sys
import parso.python.tree
import parso.tree
class Visitor(ABC):
"""AST visitor for parso trees.
This supports both simple traversal as well as editing of the tree.
"""
def walk(self, node):
"Walk a... | sixty-north/cosmic-ray | src/cosmic_ray/ast/__init__.py | Python | mit | 2,775 | [
"VisIt"
] | ba1bd075d85655bf0b337bec4e18e0ed222d882f831f0a920758a8cef4ae7023 |
# $HeadURL: $
""" JobEfficiencyPolicy
Policy that calculates the efficiency following the formula:
( completed + done ) / ( completed + done + failed )
if the denominator is smaller than 10, it does not take any decision.
"""
from DIRAC import S_OK
from DIRAC... | Sbalbp/DIRAC | ResourceStatusSystem/Policy/JobEfficiencyPolicy.py | Python | gpl-3.0 | 2,430 | [
"DIRAC"
] | 09943d347c5897bf7d4065894b72d6b18fb20c42adca08df961800a2105f36a1 |
# Contributed by t0rm3nt0r to the Official L2J Datapack Project.
# With some minor cleanup by DrLecter.
# Visit http://forum.l2jdp.com for more details.
import sys
from com.l2scoria.gameserver.model.quest import State
from com.l2scoria.gameserver.model.quest import QuestState
from com.l2scoria.gameserver.model.quest.j... | zenn1989/scoria-interlude | L2Jscoria-Game/data/scripts/quests/18_MeetingWithTheGoldenRam/__init__.py | Python | gpl-3.0 | 2,398 | [
"VisIt"
] | f764fcec3e6d46c3f4e63aab50c1346f6fe8bf862a308501561c507cd2b29f74 |
# Copyright (c) 2020, Apple Inc. All rights reserved.
#
# Use of this source code is governed by a BSD-3-clause license that can be
# found in the LICENSE.txt file or at https://opensource.org/licenses/BSD-3-Clause
from ..var import Var
def _get_input_vars(op, only_nonconst_vars=False):
"""
Return type : ... | apple/coremltools | coremltools/converters/mil/mil/visitors/dot_visitor.py | Python | bsd-3-clause | 6,108 | [
"VisIt"
] | 80c82c6306824e019d0f689c06c8aeaf24f05ed5eef8e87d2bc12200f5d497c9 |
# (C) British Crown Copyright 2010 - 2018, Met Office
#
# This file is part of Iris.
#
# Iris 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 l... | dkillick/iris | lib/iris/__init__.py | Python | lgpl-3.0 | 16,714 | [
"NetCDF"
] | 01962fa38a9e8c9b611348b065c160dbccbcda834a0a4fbd832ff2e9e4cbbef8 |
#! coding: utf-8
import copy
import datetime
import inspect
import sys
from sqlalchemy import exc
from sqlalchemy import sql
from sqlalchemy import testing
from sqlalchemy import util
from sqlalchemy.sql import column
from sqlalchemy.sql.base import DedupeColumnCollection
from sqlalchemy.testing import assert_raises
... | zzzeek/sqlalchemy | test/base/test_utils.py | Python | mit | 94,962 | [
"MOE"
] | 1f053c929b78b168f548f75b1deea9a1334d55dccb1437a0828812d80bb6f2a7 |
import sys, os
from CodeGen.visitor import *
from CodeGen.irgenerator import IRGenerator
from CodeGen.compiler import IRCompiler
rtype = " - git-unstable"
def debug(msg):
if "--enable-debug" in sys.argv:
print(msg)
if __name__ == "__main__":
if len(sys.argv) < 2:
print()
print("LeFT... | LFUnion/left | compiler/leftc.py | Python | mit | 3,401 | [
"VisIt"
] | 0eedd724bc4a1a41ca82a19f0dec53f5b12056722cb8e4d1ee265d7108cb2182 |
from __future__ import print_function
import re, sys
info = """
This script collects the relevant simulation parameters and generates a
set of input options for `fft_test.x` that replicate the execution of
vloc_psi done in the production run.
This simplifies the identification of the optimal fft tasking paramete.
Us... | QEF/q-e_schrodinger | FFTXlib/gen_test_params.py | Python | gpl-2.0 | 3,021 | [
"CRYSTAL"
] | 696ca0f5e783444667618d8a1b5f5f37cbd2fac3ba6a70bc5e6593f3a9270b98 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import unicode_literals
import unittest2 as unittest
import os
import json
from pymatgen.electronic_structure.core import Spin, Orbital, OrbitalType
from pymatgen.electronic_structure.dos impo... | aykol/pymatgen | pymatgen/electronic_structure/tests/test_dos.py | Python | mit | 5,487 | [
"pymatgen"
] | eef4b373cf86093f93968eaaa8bbe97a431746de965e772b96b0036914a3b5b0 |
from __future__ import print_function
from __future__ import division
from past.utils import old_div
import unittest
import numpy as np
import statsmodels.api as sm
from statsmodels.genmod.tests.results.results_glm import InvGauss
from IOHMM import GLM
class PoissonTests(unittest.TestCase):
@classmethod
... | Mogeng/IO-HMM | tests/test_GLM.py | Python | mit | 67,433 | [
"Gaussian"
] | b30fe330f0b40be631af8ed953f36d4a1bfeac1d49131b9ee9da3ce5b40127e0 |
# Copyright (c) 2006-2011, 2013-2014 LOGILAB S.A. (Paris, FRANCE) <contact@logilab.fr>
# Copyright (c) 2011-2014 Google, Inc.
# Copyright (c) 2012 Tim Hatch <tim@timhatch.com>
# Copyright (c) 2013-2020 Claudiu Popa <pcmanticore@gmail.com>
# Copyright (c) 2014 Brett Cannon <brett@python.org>
# Copyright (c) 2014 Arun Pe... | ruchee/vimrc | vimfiles/bundle/vim-python/submodules/pylint/pylint/checkers/exceptions.py | Python | mit | 23,645 | [
"VisIt"
] | 96a5154e6aa3b6687a3cc101bc120907dbb5268b1f7671b22d863e5e618b5424 |
"""
Given a fasta file and a list of sequence IDs, write the whole file out but with those sequence IDs reverse complemented.
"""
import os
import sys
import argparse
import gzip
def stream_fasta(fastafile):
"""
Stream a fasta file, one read at a time. Saves memory!
:param fastafile: The fasta file to st... | linsalrob/crAssphage | bin/reverse_complement.py | Python | mit | 2,965 | [
"BLAST"
] | 75e15f789c122f3b1abdf6d687890cf96dc865fb731bb1b521972bf14ca1c2fb |
# -*- coding: utf-8 -*-
############################ Copyrights and license ############################
# #
# Copyright 2012 Andrew Bettison <andrewb@zip.com.au> #
# Copyright 2012 Dima Kukushkin <dima@kukushkin.me> ... | Vagab0nd/SiCKRAGE | lib3/github/Requester.py | Python | gpl-3.0 | 23,546 | [
"Brian"
] | c9e38b4a0d66b5525173a935cbe20441d8a26f493903b8156f508e5409a6b7b7 |
# -*- coding: utf-8 -*-
{
'(Recipient)': '(Empfänger)',
"'Cancel' will indicate an asset log entry did not occur": "'Abbrechen' zeigt an, dass ein Asset Log Eintrag nicht eingetreten ist",
"A location that specifies the geographic area for this region. This can be a location from the location hierarchy, or a 'group loc... | anurag-ks/eden | languages/de.py | Python | mit | 283,796 | [
"VisIt"
] | 21fb46317c7c45d9cd575f09ebf1b14a3f71fa42c0879a6388b0762909718153 |
# Illustration of Various Kernels
#----------------------------------
#
# This function wll illustrate how to
# implement various kernels in Tensorflow.
#
# Linear Kernel:
# K(x1, x2) = t(x1) * x2
#
# Gaussian Kernel (RBF):
# K(x1, x2) = exp(-gamma * abs(x1 - x2)^2)
import matplotlib.pyplot as plt
import numpy as np
i... | benjaminoh1/tensorflowcookbook | Chapter 04/svm_kernels.py | Python | mit | 5,157 | [
"Gaussian"
] | baa620774c404847e15a356844fe357e0b75716c202e5367aef51f2d41d41a1a |
#!/usr/bin/python
# -*- coding: utf-8 -*-
# Copyright: (c) 2016, Brian Coca <bcoca@ansible.com>
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
from __future__ import absolute_import, division, print_function
__metaclass__ = type
ANSIBLE_METADATA = {'metadata_version': '1... | rosmo/ansible | lib/ansible/modules/system/systemd.py | Python | gpl-3.0 | 21,285 | [
"Brian"
] | d4ba32067a582de74fa598ff3de398c0075e6460c63ed5e5280045af7beed0f0 |
# 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 Wgrib2(CMakePackage):
"""The wgrib2 package functionality for interacting with, reading,
... | LLNL/spack | var/spack/repos/builtin/packages/wgrib2/package.py | Python | lgpl-2.1 | 987 | [
"NetCDF"
] | f95f3c62085f31f06b8efef7a0555fa9bd7d56e884204d255deb0c0fff5c2f87 |
import pysam
import re
import sys
regex = re.compile('[0-9]+N[0-9]+D[0-9]+N')
sj = ''
infile = pysam.AlignmentFile(sys.argv[1], mode="rb")#, threads=4)
outfile = pysam.AlignmentFile(sys.argv[2], mode="wb", template=infile)#, threads=4) #
for s in infile:
s2 = s
if s2.has_tag('MQ'):
MQtag = s2.get_tag... | IARCbioinfo/mutect-nf | bin/correctNDN.py | Python | gpl-3.0 | 1,041 | [
"pysam"
] | 8f7e90dd27da8eeeedd61d96e59de82e0c736d426796ba4c2135d4ac540a77e2 |
"""
Reward function prior distributions
"""
from __future__ import division
import six
import scipy.stats
import numpy as np
from abc import abstractmethod, ABCMeta
from ...base import Model
__all__ = [
'RewardPriorBase',
'UniformRewardPrior',
'GaussianRewardPrior',
]
class RewardPriorBase(six.wit... | makokal/funzo | funzo/irl/birl/priors.py | Python | mit | 3,847 | [
"Gaussian"
] | 950db96e4aad15986b63e9ab3aeef88498b73476a6c5d13b9aff469b546a47dd |
# Copyright (C) 2019 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later versio... | mkuron/espresso | testsuite/python/features.py | Python | gpl-3.0 | 1,200 | [
"ESPResSo"
] | 9f12eb04e022fa1a34f4d5d7e182708950644de92ebd6887fe9f0755dfe869a3 |
import core.modules
import core.modules.module_registry
from core.modules.vistrails_module import Module, ModuleError
import numpy
import scipy
import scipy.ndimage
from Array import *
from Matrix import *
class ArrayImaging(object):
my_namespace = 'numpy|imaging'
class ExtractRGBAChannel(ArrayImaging, Module):
... | Nikea/VisTrails | contrib/NumSciPy/Imaging.py | Python | bsd-3-clause | 7,502 | [
"Gaussian"
] | 644ba2cbdec420f27aa54f66acffe98c06319f88301819502bf6f0cd644fe3fd |
##############################################################################
# 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... | mfherbst/spack | var/spack/repos/builtin/packages/r-agimicrorna/package.py | Python | lgpl-2.1 | 1,873 | [
"Bioconductor"
] | 7ae8ae5dbd81bb5984e30d745b3cd8ff220168b2e7d66ecbf29c7f5ce1b3170e |
# Authors: Denis A. Engemann <denis.engemann@gmail.com>
#
# License: BSD (3-clause)
# Parts of this code are taken from scikit-learn
import pytest
import numpy as np
from numpy.testing import assert_almost_equal
from scipy import stats
from scipy import linalg
from mne.preprocessing.infomax_ import infomax
from mn... | olafhauk/mne-python | mne/preprocessing/tests/test_infomax.py | Python | bsd-3-clause | 6,115 | [
"Gaussian"
] | ed6587ac33394ade73a2a6cede0e22a80d6c1b0c63df74afae39ac1c24a82d6a |
#!/usr/bin/env python
import logging
import capytaine as cpt
from capytaine.ui.vtk.animation import Animation
logging.basicConfig(level=logging.INFO, format="%(levelname)s:\t%(message)s")
# Generate the mesh of a sphere
full_sphere = cpt.Sphere(
radius=3, center=(0, 0, 0), # Size and positions
ntheta=20, n... | mancellin/capytaine | docs/user_manual/examples/animate_free_surface.py | Python | gpl-3.0 | 2,141 | [
"VTK"
] | 1aef5f19939b4109c8581d80d058bbadfb61df046c0333b30603b40a5c249a24 |
# ----------------------------------------------------------------------------
# Copyright (c) 2013--, scikit-bio development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file COPYING.txt, distributed with this software.
# --------------------------------------------... | jensreeder/scikit-bio | skbio/util/_decorator.py | Python | bsd-3-clause | 2,517 | [
"scikit-bio"
] | 2a1d1b6dd2610690a24daf3bf985913fcf206711b2b8e261bbbecd4a2cdabacf |
from flask import Flask, render_template, session, request, redirect
import random
app = Flask(__name__)
app.secret_key = 'my_secret_key'
@app.route('/')
def index():
if not 'gold' in session:
session['gold'] = 0
if not 'activities' in session:
session['activities'] = []
return render_temp... | jiobert/python | Apatira_Authman/Assignments/flaskolympics/olympics7/server.py | Python | mit | 1,018 | [
"CASINO"
] | c8020bbd6c59ce8614bc1d9144be36405460dbfefd7084400133f73f6ca3c2a9 |
### Effective medium theory calculator. ###
# encoding: utf-8
# Written by: Rasmus E. Christiansen, s072162
# Version 1.02
# Imported Packages
import sys
import numpy
from math import sqrt,exp
from ase.data import atomic_numbers, chemical_symbols
from ase.units import Bohr
from asap3 import FullNeighborList
# Gobal ... | auag92/n2dm | Asap-3.8.4/Python/asap3/EMT2011_py.py | Python | mit | 23,251 | [
"ASE",
"CRYSTAL"
] | a2c404ff3eee8b4adbbfce612b8e88f10a2a5e24232e59bb7ffc474b718d852e |
"""
Code to help with managing a TVTK data set in Pythonic ways.
"""
# Author: Prabhu Ramachandran <prabhu@aero.iitb.ac.in>
# Copyright (c) 2008, Enthought, Inc.
# License: BSD Style.
from enthought.traits.api import (HasTraits, Instance, Array, Str,
Property, Dict)
from enthought.tvtk.api im... | olivierverdier/sfepy | sfepy/postprocess/dataset_manager.py | Python | bsd-3-clause | 9,486 | [
"VTK"
] | c696c9de36d5bbe5bdc489b1a5eb8a17255b320ba66700820ed2cd7baa70d724 |
# -*- coding: utf-8 -*-
import itertools
import functools
import os
import re
import urllib
import logging
import pymongo
import datetime
import urlparse
from collections import OrderedDict
import warnings
import pytz
from flask import request
from django.core.urlresolvers import reverse
from modularodm import Q
from... | njantrania/osf.io | website/project/model.py | Python | apache-2.0 | 132,206 | [
"VisIt"
] | 1490ee7972ad2d83f9436c93cabfff918617586e674fc80886ddfbe73163e20e |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2012 Async Open Source <http://www.async.com.br>
## All rights reserved
##
## This program is free software; you can redistribute it and/or modify
## it under the terms of the GNU General Public License as published by
## the Free Software Foundati... | tiagocardosos/stoq | stoqlib/gui/test/test_commissionsearch.py | Python | gpl-2.0 | 4,304 | [
"VisIt"
] | b66c6ba66c34287e70f596df41a82b0bd3457ea442a28d5678301c4d1823228c |
# This file is part of PyEMMA.
#
# Copyright (c) 2015, 2014 Computational Molecular Biology Group, Freie Universitaet Berlin (GER)
#
# PyEMMA 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 vers... | gph82/PyEMMA | pyemma/coordinates/tests/test_featurereader_and_tica_projection.py | Python | lgpl-3.0 | 5,619 | [
"MDTraj"
] | 7a9fdd44082e91398d9307f084ea54dcd85e74faa4304dbdd13ccf172a1be633 |
"""Regression testing framework
This module will search for scripts in the same directory named
XYZtest.py. Each such script should be a test suite that tests a
module through PyUnit. (As of Python 2.1, PyUnit is included in
the standard library as 'unittest'.) This script will aggregate all
found test suites... | jhjguxin/PyCDC | Karrigell-2.3.5/test/regression.py | Python | gpl-3.0 | 1,292 | [
"VisIt"
] | d1850acdba91158b1a74706dc98b84da44c50466f3a58456c44f5897e39a3446 |
#!/usr/bin/env python
from mpl_toolkits.mplot3d import Axes3D
import matplotlib.cm as cm
from sklearn.metrics import silhouette_score, silhouette_samples
from sklearn.cluster import KMeans, DBSCAN
import msmexplorer as msme
import mdtraj
import argparse
from matplotlib import pyplot as plt
import numpy as np
import sea... | jeiros/Scripts | AnalysisMDTraj/cluster_ligands.py | Python | mit | 10,303 | [
"Amber",
"MDTraj"
] | a7bacec62a2fef9dd32df79ff6e7cf25a19cefa60dd54d79b748226f2394870d |
"""
VTK Animations
Usage:
vtkanim <file> --type=<type>
Options:
--type=<type> type that of grid (curvi, ugrid)
"""
import logging
import numpy as np
from mayavi.sources.vtk_data_source import VTKDataSource
from mayavi.modules.outline import Outline
from mayavi.modules.surface import Surface
from mayavi.modules... | openearth/vtkanim | vtkanim/commands.py | Python | gpl-3.0 | 2,949 | [
"Mayavi",
"VTK"
] | c68ad631902e9b41c6132065e0f6bb35afb8d42b9b091c0642d5e0af01f2b4e3 |
# Custom library
import data_reader
# Standard libraries
import datetime
import os
import sys
import time
# Third-party libraries
import numpy as np
import tensorflow as tf
# Short form of Boolean value
T, F = True, False
class optimise_hyperparameters :
def __init__(self, use_single_U = True, U = 5, U1 = 5, U... | kchng/Quantum_machine_learning | TF_HSF_CNN0f_core.py | Python | apache-2.0 | 28,818 | [
"NEURON"
] | c8607ef443ca5d23263dd396e77cf44aaa07a381bf1acf3a3ad88302dfdcbc38 |
# sql/expression.py
# Copyright (C) 2005-2011 the SQLAlchemy authors and contributors <see AUTHORS file>
#
# This module is part of SQLAlchemy and is released under
# the MIT License: http://www.opensource.org/licenses/mit-license.php
"""Defines the base components of SQL expression trees.
All components are derived ... | eunchong/build | third_party/sqlalchemy_0_7_1/sqlalchemy/sql/expression.py | Python | bsd-3-clause | 168,783 | [
"VisIt"
] | fad1797685569affcbb7e3e38ef4a25b992d6b3917a7ea4d81b401c18f48fa49 |
#!/usr/bin/python
from multiprocessing import Pool
import time
import os
import sys
import argparse
from Bio.Blast.Applications import NcbiblastxCommandline
# Copyright(C) 2014 David Ream
# Released under GPL version 3 licence. http://www.gnu.org/licenses/lgpl.html
# Do not remove this comment
# This exists to make... | schaefce/gene_block_evolution | blast_script.py | Python | gpl-3.0 | 7,010 | [
"BLAST"
] | 8c798e2be4d261a073f3d556784e27ef3af723b3f9fa8577c45925fa1bf918c7 |
import matplotlib.pyplot as plt
import os
from astropy.table import Table
import numpy as np
# setup information sources
degas = Table.read(os.path.join(os.environ['SCRIPTDIR'],'degas_base.fits'))
stack = Table.read('/lustre/cv/users/akepley/degas/stack_test/stack_IR6p0_mom1.fits')
plotDir = os.path.join(os.environ['... | low-sky/degas | scripts/plot_fdense_vs_mstar_combined_nolim.py | Python | gpl-3.0 | 2,115 | [
"Galaxy"
] | bc80fb405a0c86f033a13aaa186a3471e8761dd2f0d26b10bc4c188614193e7c |
"""
>>> import phoebe
Available environment variables:
* PHOEBE_ENABLE_PLOTTING=TRUE/FALSE (whether to import plotting libraries with phoebe: defaults to True)
* PHOEBE_ENABLE_SYMPY=TRUE/FALSE (whether to attempt to import sympy for constraint algebra: defaults to True if sympy installed, otherwise False)
* PHOEBE_ENA... | phoebe-project/phoebe2 | phoebe/__init__.py | Python | gpl-3.0 | 38,334 | [
"Gaussian"
] | ccfc0b984868f34095b77f9c0995a7f81c768c4f58ee98c7e1d0ab97237c8019 |
'''
Just playing around with graphs and classes and stacks and queues and stuff.
Nodes in a directed graph have values and children, a possibly other properties based on the situation.
'''
from queue import Queue
# .put() to put things in the queue and .get() to pop from the queue
class Node:
def __init__(self, valu... | chuckinator0/Projects | scripts/graphPlay.py | Python | gpl-3.0 | 2,124 | [
"VisIt"
] | a7e22bfb8db7dfeaabf6288db476b802ce7a78ad3d9c666b5003188bfe8a3356 |
# - Coding UTF8 -
#
# Networked Decision Making
# Development Sites (source code):
# http://code.google.com/p/global-decision-making-system/
# http://github.com/NewGlobalStrategy/NetDecisionMaking
#
# Demo Sites (Google App Engine)
# http://netdecisionmaking.appspot.com
# http://globaldecisionmaking.appspot.co... | NewGlobalStrategy/NetDecisionMaking | controllers/viewquest.py | Python | mit | 29,082 | [
"VisIt"
] | 784b51c4264f5fc107135f40d8e2457d6f3783b7905ae1a728c2b1130f24f752 |
from __future__ import annotations
import ast
from pre_commit_hooks.debug_statement_hook import Debug
from pre_commit_hooks.debug_statement_hook import DebugStatementParser
from pre_commit_hooks.debug_statement_hook import main
from testing.util import get_resource_path
def test_no_breakpoints():
visitor = Debu... | pre-commit/pre-commit-hooks | tests/debug_statement_hook_test.py | Python | mit | 1,786 | [
"VisIt"
] | 2b4ed2cd8b8bb697f5ab1ee69a092e0a329e4a1d8eead3b1f126923b8598f1c8 |
""" Selected plots commonly used in astronomy and active learning. """
import pandas as pd
import numpy as np
import ephem
import matplotlib as mpl
import matplotlib.pyplot as plt
import matplotlib.patches as mpatches
import seaborn as sns
from pandas import DataFrame
from matplotlib.ticker import FuncFormatter
from ... | yen223/mclass-sky | mclearn/viz.py | Python | bsd-3-clause | 23,490 | [
"Galaxy"
] | 8111a496a735f3699c1a3ec32b8ead6432a84bb5ff65ede4aa7a79048af6ec20 |
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