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 |
|---|---|---|---|---|---|---|---|
## Family Room AllPixel Adafruit DotStar program
## By Chip McClelland - chip@mcclellands.org - August 2015
## Uses sample code from the BiblioPixel library
## GPL v3 license
## Setup - Raspberry Pi running Raspian, Python 2.7, AllPixel and 164 LEDs.
## Here is what this program does:
## Turn on the strip at 6:00a... | chipmc/AllPixel-Scripts | FamilyRoomStrip.py | Python | mit | 7,580 | [
"Firefly"
] | 362f9535c69dde7fc90ab5f6c6122f348b2174a5bff434509dcd85d92d7813dc |
import ee
from ee_plugin import Map
from ee_plugin.contrib import utils, palettes
dem = ee.Image("AHN/AHN2_05M_RUW") \
.resample('bicubic') \
.focal_max(0.5, 'circle', 'meters') \
.convolve(ee.Kernel.gaussian(0.5, 0.25, 'meters'))
# See https://github.com/gee-community/ee-palettes
# for the full list of suppo... | gena/qgis-earthengine-plugin | examples/contrib/utils-hillshadeRgb.py | Python | mit | 1,360 | [
"Gaussian"
] | 24fa55b335ec0ea51a69efb93e080049f053f19f9bef169507a1cc63fb1b9e44 |
# Copyright 2014 Open Source Robotics Foundation, Inc.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law... | rhaschke/catkin_tools | catkin_tools/jobs/utils.py | Python | apache-2.0 | 8,769 | [
"VisIt"
] | 97bdcb39f61f7e793ecf80aab8d06b04e50593bccc8dea6cdac3b83e6793a5ce |
#!/usr/bin/env python
# ----------------------------------------------------------------------
# Copyright (C) 2014-2015, Numenta, Inc. Unless you have an agreement
# with Numenta, Inc., for a separate license for this software code, the
# following terms and conditions apply:
#
# This program is free software: you ca... | numenta/NAB | run.py | Python | agpl-3.0 | 7,497 | [
"Gaussian"
] | 97e56910494239307cc49ba9160f2446b10d473234c3d55ea9f0acdffd59c94c |
#
# Simple egg-box toy LogPDF.
#
# This file is part of PINTS (https://github.com/pints-team/pints/) which is
# released under the BSD 3-clause license. See accompanying LICENSE.md for
# copyright notice and full license details.
#
import numpy as np
import scipy.stats
from . import ToyLogPDF
class SimpleEggBoxLogPD... | martinjrobins/hobo | pints/toy/_simple_egg_box.py | Python | bsd-3-clause | 5,353 | [
"Gaussian"
] | 3f677b3d78cce996f00ffa1a57dc54367499f48a8630de53fa3701c3052ee3c8 |
#!/usr/bin/env python -Es
"""
Script to set up a custom genome for bcbio-nextgen
"""
from argparse import ArgumentParser
import os
from Bio import SeqIO
import toolz as tz
from bcbio.utils import safe_makedir, file_exists, chdir
from bcbio.distributed.transaction import file_transaction
from bcbio.provenance import do... | brainstorm/bcbio-nextgen | scripts/bcbio_setup_genome.py | Python | mit | 14,109 | [
"Galaxy"
] | 95b44e68331c9c93d17785835c72e13b3595892e23a966622a9b9ccf077e889e |
import fitsio
from astropy.table import Table, Column, vstack, hstack, join
from astropy.io import fits
import numpy as np
# TODO: These should be moved to a plotting library, rather than
# part of the class
#import corner
#from scipy.stats import norm
#import scipy.stats as stats
#import matplotlib.mlab as mlab
#impo... | sweverett/Balrog-GalSim | balrog/match.py | Python | mit | 36,632 | [
"Gaussian"
] | 2bdd22d2098a11ceb45ff697b8974b94c535cff51d063e33e7f064362675b9a2 |
""" This module expresses basis-dependent quantities in the plane-wave basis.
"""
import numpy as np
from numpy.fft import fftn, ifftn
def g(crystal):
"""Create an array of wave vectors that ensure the basis functions
are periodic.
Args:
crystal (Crystal): an instance of the Crystal class.
R... | jerjorg/dft | pydft/bases/planewave.py | Python | gpl-3.0 | 4,771 | [
"CRYSTAL"
] | e1bdd0045f4e8cf71cb8346d56b760caa8649704c9e94f8c88ab5138ccfd4159 |
#!/usr/bin/env python
import pygame
import time
import math
import sqlite3
import random
import pygame.font
from pygame.locals import *
import sys
class TextRectException:
def __init__(self, message = None):
self.message = message
def __str__(self):
return self.message
class PartsOfSpe... | jgerschler/ESL-Games | Multiple Pushbutton/Parts of Speech/PartsOfSpeech.py | Python | mit | 32,106 | [
"VisIt"
] | ec955316bfb09e7304b04bd0c9bfabb7587ab5f09b330216d95da45080e1bc7e |
#!/usr/bin/env python3
#* This file is part of the MOOSE framework
#* https://www.mooseframework.org
#*
#* All rights reserved, see COPYRIGHT for full restrictions
#* https://github.com/idaholab/moose/blob/master/COPYRIGHT
#*
#* Licensed under LGPL 2.1, please see LICENSE for details
#* https://www.gnu.org/licenses/lgp... | nuclear-wizard/moose | python/peacock/Execute/ExecuteRunnerPlugin.py | Python | lgpl-2.1 | 7,178 | [
"MOOSE"
] | e0e0ce063104bfd849f7692e15c7712691e526617a87097e698ae004f419bed5 |
# -*- python -*-
#
# This file is part of the cno package
#
# Copyright (c) 2012-2014 - EMBL-EBI
#
# File author(s): Thomas Cokelaer (cokelaer@ebi.ac.uk)
#
# Distributed under the GLPv3 License.
# See accompanying file LICENSE.txt or copy at
# http://www.gnu.org/licenses/gpl-3.0.html
#
# website: http://gith... | cellnopt/cellnopt | cno/io/sif.py | Python | bsd-2-clause | 14,961 | [
"Cytoscape"
] | 6ff10f51edc9dfe9218355da5f3d5e68f1290f6116cde1c40719228f8679478b |
# -*- coding: utf-8 -*-
#
# clopath_synapse_spike_pairing.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 ... | sdiazpier/nest-simulator | pynest/examples/clopath_synapse_spike_pairing.py | Python | gpl-2.0 | 6,039 | [
"NEURON"
] | d2405df435ac2c67f0ae3fc5f7bc31894aa575bda93eec78cbb1487c168f2cae |
# Copyright 2003-2009 by Bartek Wilczynski. All rights reserved.
# Copyright 2012-2013 by Michiel JL de Hoon. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
"""Tools for sequen... | Ambuj-UF/ConCat-1.0 | src/Utils/Bio/motifs/__init__.py | Python | gpl-2.0 | 18,193 | [
"Biopython"
] | 8118c856de9c092476a6f2e235d09526fb5f7e205930b4b501863f5eda727c99 |
# Generated from antlr4-python3-runtime-4.7.2/src/autogen/Grammar.g4 by ANTLR 4.7.2
from antlr4 import *
if __name__ is not None and "." in __name__:
from .GrammarParser import GrammarParser
else:
from GrammarParser import GrammarParser
# retorne Type.INT, etc para fazer checagem de tipos
class Type:
VOID... | damorim/compilers-cin | 2020_3/projeto3/GrammarCheckerVisitor.py | Python | mit | 13,953 | [
"VisIt"
] | acbbebb6fc795a6b7352ce47ce3314c13f61b19fe43d7cb8d8bddecb6fd8da6b |
from frappe import _
def get_data():
return [
{
"label": _("Sales Pipeline"),
"icon": "fa fa-star",
"items": [
{
"type": "doctype",
"name": "Lead",
"description": _("Database of potential customers."),
},
{
"type": "doctype",
"name": "Opportunity",
"description": _... | RandyLowery/erpnext | erpnext/config/crm.py | Python | gpl-3.0 | 3,105 | [
"VisIt"
] | 3e565e3578d7865bc6999ab5a5d09727999b837053ce0fd1de08b190c8fbc6c4 |
from pymol.wizard import Wizard
from pymol import cmd
import pymol
default_mode = 'labchg'
class Charge(Wizard):
def __init__(self,_self=cmd):
Wizard.__init__(self,_self)
self.modes = [
'labchg',
'addchg',
'cpychg',
'zrochg',
'... | gratefulfrog/lib | python/pymol/wizard/charge.py | Python | gpl-2.0 | 12,100 | [
"PyMOL"
] | 571d351736f5746125d66a96efb48cb0821454f09bece5960d811f898d0f5ee1 |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2007 Brian G. Matherly
# Copyright (C) 2010 Jakim Friant
# Copyright (C) 2011 Tim G L Lyons
#
# 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 Fr... | pmghalvorsen/gramps_branch | gramps/gen/plug/report/_bibliography.py | Python | gpl-2.0 | 10,644 | [
"Brian"
] | 734f48fb07b94c693c0779e1ec7fc3fe7e1c6820ed025812bbe80a5b9c223f0a |
#encoding=utf-8
"""
Instructor Dashboard Views
"""
import logging
import datetime
from opaque_keys import InvalidKeyError
from opaque_keys.edx.keys import CourseKey
import uuid
import pytz
from django.contrib.auth.decorators import login_required
from django.views.decorators.http import require_POST
from django.utils... | xuxiao19910803/edx-platform | lms/djangoapps/instructor/views/instructor_dashboard.py | Python | agpl-3.0 | 27,155 | [
"VisIt"
] | b98a05ddc24366ed39def8af093a140a167ab0bb843727d8194aec31fcd11c83 |
import json
import logging
import os
import re
import shutil
import string
import sqlalchemy.orm.exc
from galaxy import util
from galaxy.web import url_for
from galaxy.datatypes import checkers
from galaxy.model.orm import and_
from galaxy.model.orm import or_
from tool_shed.util import basic_util
from tool_shed.util... | mikel-egana-aranguren/SADI-Galaxy-Docker | galaxy-dist/lib/tool_shed/util/shed_util_common.py | Python | gpl-3.0 | 67,170 | [
"Galaxy"
] | 7b305c7d458965e123c5b31b3d2013d4073334739cd72068c24c2d14214ef245 |
# -*- coding: ISO-8859-15 -*-
# =============================================================================
# Copyright (c) 2004, 2006 Sean C. Gillies
# Copyright (c) 2007 STFC <http://www.stfc.ac.uk>
#
# Authors :
# Dominic Lowe <d.lowe@rl.ac.uk>
#
# Contact email: d.lowe@rl.ac.uk
# ========================... | b-cube/OwsCapable | owscapable/coverage/wcs100.py | Python | bsd-3-clause | 20,701 | [
"NetCDF"
] | 73f7a616c5dc4bab58320482fba640c47da9f113873f126a55fb77a5ba60d8de |
# $Id$
"""
To: amber@cgl.ucsf.EDU
Subject: esp to resp
Date: Wed, 21 Feb 96 13:09:38 -0800
From: "Jim Caldwell" <caldwell@heimdal.ucsf.EDU>
At long last:
To get electrostatic points from Gaussian94 in a form that
RESP understands follow the following simple recipe:
Add iop(6,33=2) to your gaussian command line viz.... | lidaobing/itcc | itcc/torsionfit/resp.py | Python | gpl-3.0 | 1,905 | [
"Amber",
"Gaussian"
] | 226a4aef773cf0caa9091c91d7ab66da7929852f27ba12ab3507d3b474fde2c4 |
"""
Define common steps for instructor dashboard acceptance tests.
"""
# pylint: disable=C0111
# pylint: disable=W0621
from __future__ import absolute_import
from django.conf import settings
from lettuce import world, step
from mock import patch
from nose.tools import assert_in # pylint: disable=E0611
from coursew... | nanolearning/edx-platform | lms/djangoapps/instructor/features/common.py | Python | agpl-3.0 | 4,569 | [
"VisIt"
] | b11444f2526f2be67ae7384b40ff6eb8f19e575ae1ba71a34941b2bcfbd3259f |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
######################################################################
#
# Create 3D vtk format file from ModEM output model file
# - changes units from meters to kilometers
#
# 16.12.2012
# EES
# LK
#
######################################################################... | MTgeophysics/mtpy | legacy/modem2vtk3d.py | Python | gpl-3.0 | 4,209 | [
"VTK"
] | 3af4374ac9bef0380a3ceab8bb83ad7d3d215f5652634f2a66751026de3a4bbe |
"""
==========================================================
Comparison of kernel ridge and Gaussian process regression
==========================================================
Both kernel ridge regression (KRR) and Gaussian process regression (GPR) learn
a target function by employing internally the "kernel trick... | DailyActie/Surrogate-Model | 01-codes/scikit-learn-master/examples/gaussian_process/plot_compare_gpr_krr.py | Python | mit | 5,196 | [
"Gaussian"
] | 6cd98dd6ea95fe2d1d6b5e1657188874dd227cd91b02aa48f9f5b2d80a1548b9 |
#!/usr/bin/env python
#
# Copyright 2006 The Closure Library Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
... | nwjs/chromium.src | third_party/google-closure-library/closure/bin/calcdeps.py | Python | bsd-3-clause | 18,573 | [
"VisIt"
] | 668b0690693afd7bdbb8c2f68ed2453d1dbcab22e99503226fcb7eee1b35573f |
# encoding=UTF-8
# stdlib
import itertools
import math
import logging
# 3p
import numpy as np
import scipy.stats
log = logging.getLogger(__name__)
class LRPD(object):
"""Local Road Pattern Descriptor.
Descriptor that computes a NxN set of histograms in the descriptor region
(following the concept of ... | GautierMinster/lrpd-geolocation | maps/lrpd.py | Python | gpl-3.0 | 20,508 | [
"Gaussian"
] | 4979bb6fb218b4f6fb65cd847cf3e07bc3616ff50a37facd9d960581d96c5df5 |
# $HeadURL: $
""" ComponentSynchronizer
Module that reads ComponentMonitoringDB.compmon_Components table and copies it
to a RSS-like family of status tables to make everything easier.
"""
from DIRAC import gConfig, gLogger, S_OK
from DIRAC.FrameworkSystem.DB.Com... | Sbalbp/DIRAC | ResourceStatusSystem/Utilities/ComponentSynchronizer.py | Python | gpl-3.0 | 3,249 | [
"DIRAC"
] | fd6f5f66b878da0063b72635d6f16c87eb9c6d79804a87262ccb193bdcc21eff |
from django.db import models
class Patient(models.Model):
first_name = models.CharField(max_length=30)
last_name = models.CharField(max_length=30)
address = models.CharField(max_length=60)
dob = models.DateField(default='1984-01-01')
class Medication(models.Model):
name = models.CharField(max_len... | kylewalters18/obulamu | server/app/models.py | Python | mit | 1,065 | [
"VisIt"
] | 29e27f67e6be8ca2cb905dc78a49ee21a4c926fc6e4617f60ca8504a6c0e8d57 |
try:
from setuptools import setup, Extension
use_setuptools = True
print('setuptools is used')
except ImportError:
from distutils.core import setup, Extension
use_setuptools = False
print('distutils is used')
import numpy
include_dirs_numpy = [numpy.get_include()]
def check_compiler():
i... | abelcarreras/DynaPhoPy | setup.py | Python | mit | 2,827 | [
"phonopy"
] | 0ab6dbf50aa11ea01e0d594ebbc15a5ec495e49269d87e5743517290b81b0a12 |
#!/usr/bin/env python
import os
import vtk
from vtk.test import Testing
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
# The current directory must be writeable.
#
try:
channel = open("mni-surface-mesh-binary.obj", "wb")
channel.close()
ren1 = vtk.vtkRenderer()
ren1.SetViewp... | HopeFOAM/HopeFOAM | ThirdParty-0.1/ParaView-5.0.1/VTK/IO/MINC/Testing/Python/TestMNIObjects.py | Python | gpl-3.0 | 4,667 | [
"VTK"
] | bd16a0baabecbe29dce1393cd50d32a5b060235148a7771963b5789c80c6a06b |
class VehicleInfo(object):
def __init__(self):
"""
make_target: option passed to make to create binaries. Usually sitl, and "-debug" may be appended if -D is passed to sim_vehicle.py
default_params_filename: filename of default parameters file. Taken to be relative to autotest dir.
... | davidfsh/ardupilot | Tools/autotest/pysim/vehicleinfo.py | Python | gpl-3.0 | 10,835 | [
"Firefly"
] | 7f283debce70b24774e760b10fe3a5f46ff803efbd8e35299c3abd00a0a55c0e |
"""
KeepNote
MultiEditor widget in main window
This editor contain multiple editors that can be switched based on
the content-type of the node.
"""
#
# KeepNote
# Copyright (c) 2008-2009 Matt Rasmussen
# Author: Matt Rasmussen <rasmus@alum.mit.edu>
#
# This program is free software; you can redi... | brotchie/keepnote | keepnote/gui/editor_multi.py | Python | gpl-2.0 | 7,212 | [
"VisIt"
] | d269b5d09e433b54cb9f1d41d98c1a97028089000e6bf73e425d9c21f3977e4a |
"""
Module to set up run time parameters for Clawpack.
The values set in the function setrun are then written out to data files
that will be read in by the Fortran code.
"""
import os
import numpy
import clawpack.geoclaw.topotools as topotools
#------------------------------
def setrun(claw_pkg='geoclaw'):
#-----... | mandli/fwave-swe | setrun.py | Python | mit | 16,050 | [
"Gaussian",
"NetCDF"
] | ed7cba8f600f98111d9e8bbb59a80bff0a085669e9b9ed8bb4729ecca9bd20ca |
# 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 RPhyloseq(RPackage):
"""Handling and analysis of high-throughput microbiome census data.
... | iulian787/spack | var/spack/repos/builtin/packages/r-phyloseq/package.py | Python | lgpl-2.1 | 2,462 | [
"Bioconductor"
] | 1bb90fdcf65d97fa4ff43ce0fe56485e6a19985c464cacc87d0647420281a2dd |
# -*- coding: utf-8 -*-
# Authors: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Mathieu Blondel <mathieu@mblondel.org>
# Robert Layton <robertlayton@gmail.com>
# Andreas Mueller <amueller@ais.uni-bonn.de>
# Philippe Gervais <philippe.gervais@inria.fr>
# Lars Buitinck ... | ElDeveloper/scikit-learn | sklearn/metrics/pairwise.py | Python | bsd-3-clause | 45,133 | [
"Gaussian"
] | 49a6d76c5a8b1f252cc47106951168a2e1e4b6ab193fed150a293eccde9418be |
# 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 t... | kkreis/espressopp | src/pmi.py | Python | gpl-3.0 | 49,078 | [
"ESPResSo"
] | 37f4859c2148feafb53cf4de3f6cc6906280348a71fd65deef31b6b60a4d97a7 |
type_bodies = {
'Muffalo': 'QuadrupedAnimalWithHooves',
'Gazelle': 'QuadrupedAnimalWithHooves',
'Iguana': 'QuadrupedAnimalWithClawsTailAndJowl',
'Rhinoceros': 'QuadrupedAnimalWithHoovesAndHorn',
'Dromedary': 'QuadrupedAnimalWithHoovesAndHump',
'GrizzlyBear': 'QuadrupedAnimalWithPaws',
'Polar... | afit/rimworld-save-migrator | versions/a17tables.py | Python | mit | 14,759 | [
"Elk"
] | a3a2041dc095a544d0b85fbdf49d6fc7182cfa914179221909ec04244c043da6 |
#!/usr/bin/env python
##################################################
## DEPENDENCIES
import sys
import os
import os.path
try:
import builtins as builtin
except ImportError:
import __builtin__ as builtin
from os.path import getmtime, exists
import time
import types
from Cheetah.Version import MinCompatib... | pli3/Openwebif | plugin/controllers/views/web/settings.py | Python | gpl-2.0 | 5,424 | [
"VisIt"
] | ae307fe3cc4a79cd617c3b8cefa801582d58c94dc9a960c56cb1f0d8f56feabb |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# Module Project Create Script
#
import os, sys, shutil, string, uuid, re, zipfile, glob
from string import capitalize
from StringIO import StringIO
from datetime import date
template_dir = os.path.abspath(os.path.dirname(sys._getframe(0).f_code.co_filename))
sdk_dir =... | gianina-ingenuity/titanium-branch-deep-linking | testbed/x/mobilesdk/osx/5.5.1.GA/module/module.py | Python | mit | 13,545 | [
"VisIt"
] | d5b9e6839a80923587d0401b4f485094b522e730e25d0b6da3fd1e86d2706a8e |
import unittest
import matplotlib.pyplot as plot
import numpy as np
import sys
sys.path.append('.') # T_T
from lib.rtnorm import rtnorm
class RtnormTest(unittest.TestCase):
longMessage = True
def test_histogram(self):
"""
This should plot a histogram looking like a gaussian
... I... | irap-omp/deconv3d | tests/rtnorm_test.py | Python | mit | 1,428 | [
"Gaussian"
] | 61365ed6656f3c74881ed5d1ba673bf3b302605ec07cdbe23904b3f2205796c4 |
import sys, os, re, types, HTMLParser, urllib2
import parser, db, data, constants
def _rune_cost(generator, filter_data, record, *args):
cost = 0
for rune_type in xrange(0, 4):
for i in xrange(0, getattr(record, 'rune_cost_%d' % (rune_type + 1))):
cost |= 1 << (rune_type * 2 + i)
retu... | eyeplum/simc | dbc_extract/dbc/generator.py | Python | gpl-3.0 | 173,755 | [
"BLAST",
"CRYSTAL"
] | 0185fedf8ec8e837804ae7fcd51b3f2f5e2cb0f69717fd77be04d5cb7d9ad054 |
# -*- coding: utf-8 -*-
#
# GromacsWrapper documentation build configuration file, created by
# sphinx-quickstart on Tue Jun 23 19:38:56 2009.
#
# This file is execfile()d with the current directory set to its containing dir.
#
# The contents of this file are pickled, so don't put values in the namespace
# that aren't ... | Becksteinlab/GromacsWrapper | doc/sphinx/source/conf.py | Python | gpl-3.0 | 7,494 | [
"Gromacs"
] | ec7920b7aef0e2feb7a6531824ec06e5bcd70d0e6cb79ce86f5e49bdb36dda2d |
# This file is part of the myhdl library, a Python package for using
# Python as a Hardware Description Language.
#
# Copyright (C) 2003-2009 Jan Decaluwe
#
# The myhdl library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public License as
# published by t... | forrestv/myhdl | myhdl/_always_comb.py | Python | lgpl-2.1 | 7,264 | [
"VisIt"
] | c3b7dfd2b356e4d42add9b987fd30f746294c787cb879b6cf319d365a5df80f2 |
# Copyright 2011, 2012, 2013 David Malcolm <dmalcolm@redhat.com>
# Copyright 2011, 2012, 2013 Red Hat, Inc.
#
# This is free software: you can redistribute it and/or modify it
# under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, o... | davidmalcolm/gcc-python-plugin | generate-gimple-c.py | Python | gpl-3.0 | 24,332 | [
"VisIt"
] | 6f9bcbff952b68efd07ff9b66acb98c7d5c10ae3c7ab76ac8e9566e3759f7941 |
# Copyright (c) 2013-2014 LOGILAB S.A. (Paris, FRANCE) <contact@logilab.fr>
# Copyright (c) 2013-2014 Google, Inc.
# Copyright (c) 2014-2020 Claudiu Popa <pcmanticore@gmail.com>
# Copyright (c) 2014 Cosmin Poieana <cmin@ropython.org>
# Copyright (c) 2014 Vlad Temian <vladtemian@gmail.com>
# Copyright (c) 2014 Arun Pers... | ruchee/vimrc | vimfiles/bundle/vim-python/submodules/pylint/pylint/checkers/stdlib.py | Python | mit | 19,843 | [
"VisIt"
] | 2fc09ca4e7656aee5bd29654e4d26694710815f20808a7a332792e9cbd609afd |
import numpy as np
import sklearn.datasets
from diogenes.read import (cast_np_nd_to_sa, describe_cols,)
from diogenes.display import (plot_correlation_scatter_plot,
plot_correlation_matrix,
plot_kernel_density,
plot_box_plot)... | dssg/diogenes | doc/notebooks/test_sklearn_iris.py | Python | mit | 3,232 | [
"Gaussian"
] | 77ebf1fe9f52d837f059efeed0418055cdcdda1c376f6c9db29c2b336ebb4cc9 |
# -*- coding: utf-8 -*-
#!/usr/bin/env python
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2007 Donald N. Allingham
# Copyright (C) 2007 Johan Gonqvist <johan.gronqvist@gmail.com>
# Copyright (C) 2007-2009 Gary Burton <gary.burton@zen.co.uk>
# Copyright (C) 2007-2009 Stephane Charet... | jralls/gramps | gramps/plugins/webreport/source.py | Python | gpl-2.0 | 12,112 | [
"Brian"
] | 2d9197a8138e9ce175c31de7d3bc9d593b0a5ffbe557d9469637c4f4126252c3 |
""" My module for various data analysis tasks.
:REQUIREMENTS: :doc:`numpy`, :doc:`tools` (for :func:`errxy`)
2008-07-25 16:20 IJC: Created.
2009-12-08 11:31 IJC: Updated transit flag in planet objects and
:func:`rveph` function.
2010-02-18 14:06 IJC: Added :func:`medianfilter`
2010-08-03 15... | profxj/xastropy | xastropy/phot/ian_analysis.py | Python | bsd-3-clause | 129,079 | [
"Gaussian"
] | b0a7a7733532d31db05a7184755a6ccc9ad031b6ddf8e0ab800d5e6a954c500d |
#!python
# coding=utf-8
from pyaxiom.netcdf import CFDataset
from pyaxiom import logger
class IndexedRaggedTimeseries(CFDataset):
@classmethod
def is_mine(cls, dsg):
try:
rvars = dsg.get_variables_by_attributes(cf_role='timeseries_id')
assert len(rvars) == 1
asser... | axiom-data-science/pyaxiom | pyaxiom/netcdf/sensors/dsg/timeseries/ir.py | Python | mit | 1,602 | [
"NetCDF"
] | 8e022d1cd25a898a35cd0ff86b6fe493cd204bdb9e9a479f6b084e77f5f53119 |
"""
potentialAGB_generic_app_v4.py
================================================================================
Produce layers for restoration opportunity cross-comparison against other data
layers (e.g. WRI world of opportunity maps)
"""
# Import general libraries
import os
import sys
import numpy as np
import xar... | DTMilodowski/EOlab | src/potentialAGB_generic_v4.py | Python | gpl-3.0 | 7,058 | [
"NetCDF"
] | c529c9b46c6b8b9ac013748b281e366c15a55a0ad604791a6404d4798aba25f4 |
__author__ = 'Dmitry Egorov'
__version__ = '0.3.0'
from .specs import GeneSpec, NumericParamSpec, NominalParamSpec, NetworkSpec
from .genes import NeuronGene, ConnectionGene, GeneticEncoding
from .operators import Mutator, crossover
from .utils import zip_with_probabilities, weighted_random
from .neat import NEAT, neu... | egdman/neat-lite | neat/__init__.py | Python | mit | 354 | [
"NEURON"
] | 950bfd76055e22a3c2bbf800169e329bfa6d36f7ecbcfebd04aa000862998c48 |
'''
Created on 2013-05-26
@author: brian
'''
import string
from src.util import Cardinal
from src.util import Vector2
import pygame
from pygame.locals import *
class Cast(object):
def __init__(self, player, ability):
self.player = player
self.projectile = None
self.spell = ability
... | Greymerk/python-rpg | src/actions/cast.py | Python | gpl-3.0 | 2,082 | [
"Brian"
] | 16577da08ac04852cd9df5f4114aeba8b99b666a5157932326e303853f6400c8 |
#!/usr/bin/env python
import sys
import math
import numpy as np
import matplotlib.pyplot as plt
import os.path
try:
import gi
gi.require_version('NumCosmo', '1.0')
gi.require_version('NumCosmoMath', '1.0')
except:
pass
from gi.repository import GObject
from gi.repository import NumCosmo as Nc
from gi.reposit... | NumCosmo/NumCosmo | examples/example_funnel.py | Python | gpl-3.0 | 5,108 | [
"Gaussian"
] | 30fc3a777b3844d4f7b8612d8678289cf95968ddd24ecd9e7b071b6b14740ff9 |
#!/usr/bin/env python
#JSON {"lot": "UKS/6-31G(d)",
#JSON "scf": "CDIISSCFSolver",
#JSON "er": "cholesky",
#JSON "difficulty": 6,
#JSON "description": "Basic UKS DFT example with MGGA exhange-correlation functional (TPSS)"}
import numpy as np
from horton import * # pylint: disable=wildcard-import,unused-wildcard-... | theochem/horton | data/examples/hf_dft/uks_methyl_mgga.py | Python | gpl-3.0 | 4,403 | [
"Gaussian"
] | 3a10803f8dc00916721e8d8fe7fc6c3eda5bdf301b0b9c594327fd868c70501b |
#
# This file is part of GreatFET
#
"""
Chipcon programmer for devices supporting the CC1110/CC2430/CC2510
Debug and Programming Interface Specification as defined in SWRA124.
"""
import time
from enum import IntFlag
from ..programmer import GreatFETProgrammer
FLASH_PAGE_SIZE = 1024 # 1KB
FLASH_WORD_SIZE ... | dominicgs/GreatFET-experimental | host/greatfet/programmers/chipcon.py | Python | bsd-3-clause | 12,651 | [
"CRYSTAL"
] | 679e8d655dcc462142d07f97ae28539fb1f19d2f7b6544205694eb80ccb0e0d7 |
# Copyright (c) 2012 OpenStack Foundation
# 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 ... | barnsnake351/nova | nova/tests/unit/compute/test_resource_tracker.py | Python | apache-2.0 | 59,254 | [
"exciting"
] | 44460028df6df4e94abcd071668d5581d2c80cc65254d0fae37dece6b6bd50c8 |
# $HeadURL: $
''' Test_RSS_Command_GOCDBStatusCommand
'''
import mock
import unittest
import DIRAC.ResourceStatusSystem.Command.GOCDBStatusCommand as moduleTested
from datetime import datetime, timedelta
__RCSID__ = '$Id: $'
################################################################################
clas... | avedaee/DIRAC | ResourceStatusSystem/Command/test/Test_RSS_Command_GOCDBStatusCommand.py | Python | gpl-3.0 | 10,917 | [
"DIRAC"
] | 624d813c80a39bb057ff664a5b963578a34d682afb00732c0e42f4dd215bc723 |
"""
Channel module
Copyright (c) 2009 John Markus Bjoerndalen <jmb@cs.uit.no>,
Brian Vinter <vinter@nbi.dk>, Rune M. Friborg <rune.m.friborg@gmail.com>.
See LICENSE.txt for licensing details (MIT License).
"""
# Imports
from pycsp.greenlets.scheduling import Scheduler
from pycsp.greenlets.channelend import Cha... | runefriborg/pycsp | pycsp/greenlets/channel.py | Python | mit | 6,454 | [
"Brian"
] | 75d6fe2b4dea15083d36f506cc136f5c8a59a27038088176f0d6c67b3b001b86 |
#!/usr/bin/env python
"""
mynetwork.py: Network client/server module.
Note that I based this on code from a book ["Python Network Programming" by ??].
There will be similarities to the original, but I
believe that this code is essentially mine.
Copyright 2016 Brian Romanchuk
Licensed under the Apache License, Ver... | brianr747/Simple4Xpygame | common/mynetwork.py | Python | apache-2.0 | 14,675 | [
"Brian"
] | e16518eff735b1a0489d117e1c6b6fe280ef986c2f0443f2cb1557f20e6e97cf |
#
# This file is part of Sequana software
#
# Copyright (c) 2016-2021 - Sequana Development Team
#
# Distributed under the terms of the 3-clause BSD license.
# The full license is in the LICENSE file, distributed with this software.
#
# website: https://github.com/sequana/sequana
# documentation: http://sequana.r... | sequana/sequana | sequana/freebayes_bcf_filter.py | Python | bsd-3-clause | 9,705 | [
"pysam"
] | 88a10a21a0a20f0e7e4555de81f83957ca80d7bf36d2d9cb798be5a5ae064108 |
# Copyright 2000 by Jeffrey Chang, Brad Chapman. All rights reserved.
# Copyright 2006-2008 by Peter Cock. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
"""Code to work with ... | NirBenTalLab/proorigami-cde-package | cde-root/usr/lib64/python2.4/site-packages/Bio/GenBank/__init__.py | Python | mit | 58,219 | [
"BioPerl",
"Biopython"
] | a61158c8e866a4626199f73982bdbfe9223aec2554d148cfa008e18851031e09 |
########################################################################
# File: ReplicateAndRegister.py
# Author: Krzysztof.Ciba@NOSPAMgmail.com
# Date: 2013/03/13 18:49:12
########################################################################
""" :mod: ReplicateAndRegister
==========================
.. mo... | fstagni/DIRAC | DataManagementSystem/Agent/RequestOperations/ReplicateAndRegister.py | Python | gpl-3.0 | 23,831 | [
"DIRAC"
] | 56eeb88cd15eeb6fd19c0567061c1dcebbb8a52a12b4b92f2aa439f665cd49a2 |
from __future__ import unicode_literals
import logging
from django.http.response import Http404
import rest_framework.status as status
from rest_framework.generics import GenericAPIView
from rest_framework.parsers import JSONParser
from rest_framework.response import Response
from data.data.data import Data
from dat... | ngageoint/scale | scale/diagnostic/views.py | Python | apache-2.0 | 12,519 | [
"CASINO"
] | 78fed45c359385a42fd605a45cb822be4c8620b7783c08bcc1c17bee13f5c0e9 |
import numpy as np
def affine_forward(x, w, b):
"""
Computes the forward pass for an affine (fully-connected) layer.
The input x has shape (N, d_1, ..., d_k) and contains a minibatch of N
examples, where each example x[i] has shape (d_1, ..., d_k). We will
reshape each input into a vector of dimen... | UltronAI/Deep-Learning | CS231n/reference/CS231n-master/assignment2/cs231n/layers.py | Python | mit | 23,547 | [
"NEURON"
] | f79edc2cffb0eb5dae3fa5a969610d8f332bad07741bdfbff54b20b53c922c5c |
# Copyright (c) 2012-2015 Netforce Co. Ltd.
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to use, copy, modify, merge, publ... | anastue/netforce | netforce_service/netforce_service/models/job.py | Python | mit | 20,893 | [
"VisIt"
] | 833a79bd97b6e2b91e65cb0b790d77e6548f54e02722d09be095297b505cec31 |
#########################################################################
## This program is part of 'MOOSE', the
## Messaging Object Oriented Simulation Environment.
## Copyright (C) 2013 Upinder S. Bhalla. and NCBS
## It is made available under the terms of the
## GNU Lesser General Public License version 2... | dilawar/moose-full | moose-examples/snippets/reacDiffConcGradient.py | Python | gpl-2.0 | 5,801 | [
"MOOSE"
] | ac03571aefb9a8c4950c4813b6f5ebd68a4ae84f96687fa32610b7debc118592 |
from crystal_dashboard.api import filters as api
from crystal_dashboard.dashboards.crystal import exceptions as sdsexception
from crystal_dashboard.dashboards.crystal.filters.dependencies import models as dependency_models
from crystal_dashboard.dashboards.crystal.filters.dependencies import tables as dependency_tables... | Crystal-SDS/dashboard | crystal_dashboard/dashboards/crystal/filters/tabs.py | Python | gpl-3.0 | 5,312 | [
"CRYSTAL"
] | 87dd4ae9cff7b5a2fa30462710ee2df7794414aaecbaff41bb6265056eb0739c |
import urllib.request
from bs4 import BeautifulSoup
import time
#This stores the set of all the ngos with their date_of_reg in the format name-date_of_reg
#so if there is any repetation of NGO then we can easily detect it
set_of_ngo = set()
def capitalize(string):
'''
Function for capitalizing the differ... | lambainsaan/NGO_Parser | parser.py | Python | mit | 5,853 | [
"ADF"
] | 67e5876b8fd232f59115dc0d0e8eccf41779c50b368206ded175cfacf47bdc57 |
# Copyright 2016 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | girving/tensorflow | tensorflow/python/autograph/core/converter.py | Python | apache-2.0 | 14,365 | [
"VisIt"
] | 9ae16cf01cc0fe500211d81a2b120d70b0c30a71e631be47ede6b5bd7a5791da |
import ase.units as units
from ase import *
from hotbit import *
from box.md import check_energy_conservation
from ase import io
M=7
atoms = Atoms('Au2',[(5,0,0),(5,2.5,0.3)],container='Wedge')
atoms.set_container(M=M,height=5.0)
calc=Hotbit(SCC=False,txt='-',kpts=(M,1,1))
atoms.set_calculator(calc)
e1 = atoms.get_po... | pekkosk/hotbit | hotbit/test/Au_chain.py | Python | gpl-2.0 | 702 | [
"ASE"
] | 5d5b25ea6dec94cb627b85d7879145c08526c8e521e328ad48fa590bccc3dbea |
#!/usr/bin/env python
#
# Created 12-Mar-2013 by Daniel Margala (University of California, Irvine) <dmargala@uci.edu>
#
# usage:
# Import libraries
import math
import os
import random
from itertools import cycle
import numpy as np
import pyfits as pf
import matplotlib as mpl
mpl.use('Agg')
from matplotlib import pyp... | dmargala/blupe | python/old/compareBlueCalibration.py | Python | mit | 15,694 | [
"Galaxy"
] | acbb4aada29040089098842c12cc2a7c7eb778c5056a75d1b946cfca4314fe9a |
# -*- coding: utf-8 -*-
#
# This file is a plugin for EventGhost.
# Copyright © 2005-2020 EventGhost Project <http://www.eventghost.net/>
#
# EventGhost 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 v... | tfroehlich82/EventGhost | plugins/X10/__init__.py | Python | gpl-2.0 | 10,254 | [
"Firefly"
] | 4e3013c706f70be463db074520ce236579a440402b3da5add9647f2397e2498a |
"""
.. _tut_compute_covariance:
Computing covariance matrix
===========================
Many methods in MNE, including e.g. source estimation and some classification
algorithms, require covariance estimations from the recordings.
In this tutorial we cover the basics of sensor covariance computations and
construct a n... | mne-tools/mne-tools.github.io | 0.15/_downloads/plot_compute_covariance.py | Python | bsd-3-clause | 8,522 | [
"Gaussian"
] | c7fd559b03944db8af22446d0709726ea7b067405f90a33c3eace0be23f5bbf7 |
# -*- coding:utf-8 -*
import requests
import json
import Public_Base_Method as pbm
import datetime
#获取员工画像
def getHuaxiang(baseurl,cookie):
print "获取员工画像"
url = "http://"+baseurl+"/report/faceTop1.action"
headers = {
"Content-Type": "application/x-www-form-urlencoded; charset=UTF-8",
"Use... | NJ-zero/Android | requests_demo/gljsc/Web_Method_gljsc.py | Python | mit | 5,031 | [
"VisIt"
] | f5b7c278067fc6b37645c1a9e115723c65ef4cf3c8cbe6be53d75c23056c6ffd |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
'''Views tests for the OSF.'''
from __future__ import absolute_import
import unittest
import json
import datetime as dt
import mock
import httplib as http
import math
import time
from nose.tools import * # noqa PEP8 asserts
from tests.test_features import requires_search... | ticklemepierce/osf.io | tests/test_views.py | Python | apache-2.0 | 186,543 | [
"Brian"
] | d29c8c056673f94e5bb898e28f79a644febbf7e1a00e5a899b1a87965de72462 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
'''
Documentation:
This file reformats NEST output in a convinient way.
'''
import os
import numpy as np
from glob import glob
from hybridLFPy import helpers
import tarfile
from pathlib import Path
from mpi4py import MPI
###################################
# Initializati... | espenhgn/hybridLFPy | examples/Hagen_et_al_2016_cercor/nest_output_processing.py | Python | gpl-3.0 | 4,330 | [
"NEURON"
] | b19ba4b13d9cc260aeb6cc39979bf04122f33b8773e6602188d031470144e8b6 |
# Copyright 2006 by Sean Davis. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
#
# $Id: __init__.py,v 1.12 2009-04-24 12:03:45 mdehoon Exp $
# Sean Davis <sdavis2 at mail dot ni... | BlogomaticProject/Blogomatic | opt/blog-o-matic/usr/lib/python/Bio/UniGene/__init__.py | Python | gpl-2.0 | 24,840 | [
"Biopython"
] | 0863c6eac47fb90e0b33726b6680e12c59ba005b730de94753e7dbe9090b8d20 |
#!/usr/bin/env python
"""
openmoltools: Tools for Small Molecules, Antechamber, OpenMM, and More.
COPYRIGHT AND LICENSE
@author John D. Chodera <jchodera@gmail.com>
@author Kyle A. Beauchamp <kyleabeauchamp@gmail.com>
@author David L. Mobley <dmobley@mobleylab.org>
All code in this repository is released under the ... | jchodera/openmoltools | openmoltools/__init__.py | Python | gpl-2.0 | 1,070 | [
"Amber",
"Gromacs",
"OpenMM"
] | c58094e5047c0102fcf26f7421665ead0d4cb5b33aa22b60d5ea66e57b7b596d |
import sys
from time import ctime
import numpy as np
from ase.parallel import paropen
from ase.units import Ha
from gpaw import GPAW
from gpaw.response.df0 import DF
from gpaw.utilities import devnull
from gpaw.kpt_descriptor import KPointDescriptor
from gpaw.mpi import rank, size, world
from gpaw.response.parallel imp... | robwarm/gpaw-symm | gpaw/xc/rpa_correlation_energy.py | Python | gpl-3.0 | 20,898 | [
"ASE",
"GPAW"
] | 3b5ec8f7681921f7f20ae1bd45d56f733b7ac27197e0dd79e0a6fab8eef4897f |
"""Smarter file opener that understands compression."""
import io
import os
from subprocess import Popen, PIPE
from pathlib import Path
import pysam
def spawn_compressor(exe, filename, mode, buffering=-1, encoding=None, errors=None, newline=None):
"""Spawn a subprocess to run a (de)compressor like gzip or bzip2... | bioinformed/vgraph | vgraph/smartfile.py | Python | apache-2.0 | 4,306 | [
"pysam"
] | ed78045568d3aa138da39ea34b62fcdadc66278bd55b8ef5699e1c7284dfceed |
# ----------------------------------------------------------------------------
# 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.
# --------------------------------------------... | demis001/scikit-bio | skbio/stats/evolve/tests/test_hommola.py | Python | bsd-3-clause | 8,058 | [
"scikit-bio"
] | 706174f90fbcbc75d4e5bc7a3a14bb1eb3dede2f4ff351ee1a2bd02fcc5816c8 |
"""
FASTA/QUAL format (:mod:`skbio.io.format.fasta`)
================================================
.. currentmodule:: skbio.io.format.fasta
The FASTA file format (``fasta``) stores biological (i.e., nucleotide or
protein) sequences in a simple plain text format that is both human-readable
and easy to parse. The fi... | demis001/scikit-bio | skbio/io/format/fasta.py | Python | bsd-3-clause | 38,087 | [
"BLAST",
"scikit-bio"
] | 52c80fe64a99bb53cf685b5411f38f15c195b2128ab234ae29753005e2bec19d |
# (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, either version 3 of the License, or
# (at your option) any later version.... | gtaylor/ansible | lib/ansible/runner/lookup_plugins/url.py | Python | gpl-3.0 | 1,588 | [
"Brian"
] | 9b69600768351a64e6b711d8c60d2dc4f362e173bd0ab650ecc242390c37c506 |
'''
Module : Main
Description : The main entry point for the program.
Copyright : (c) Bernie Pope, 2017
License : MIT
Maintainer : bjpope@unimelb.edu.au
Portability : POSIX
This program reads in a Common Workflow Language pipeline description
and generates a visualisation as output.
'''
from __future__... | m-gall/cwl_explorer | cwl_explorer/cwl_explorer.py | Python | mit | 5,826 | [
"Cytoscape"
] | e924e081bb1c0e775f2636eae59a32483550c15cc90bdd3ed862ef078f8bf010 |
"""
Module simplifying manipulation of XML described at
http://libvirt.org/formatdomain.html
"""
import logging
from .. import xml_utils
from .. import utils_misc
from ..libvirt_xml import base, accessors, xcepts
from ..libvirt_xml.devices import librarian
from ..compat_52lts import results_stdout_52lts, results_stde... | ldoktor/avocado-vt | virttest/libvirt_xml/vm_xml.py | Python | gpl-2.0 | 121,139 | [
"VisIt"
] | 0bc62b238dd3a4740319afc36c1f762dd00c608c132e801fcdbf0552d181cfb4 |
"""
====================
Active Contour Model
====================
The active contour model is a method to fit open or closed splines to lines or
edges in an image. It works by minimising an energy that is in part defined by
the image and part by the spline's shape: length and smoothness. The
minimization is done impl... | Hiyorimi/scikit-image | doc/examples/edges/plot_active_contours.py | Python | bsd-3-clause | 3,287 | [
"Gaussian"
] | 3d5d244e1e48c18d62012dedd13d87ba12a012dc39ad1a2d894fbbd6f48190c8 |
# -*- coding: utf-8 -*-
from __future__ import absolute_import
import re
from ast import parse as ast_parse
from ast import (
And, BitAnd, BitOr, BoolOp, Expression, Name, NodeTransformer, Or)
from keyword import kwlist
from warnings import warn
from cobra.core.species import Species
from cobra.util import reset... | zakandrewking/cobrapy | cobra/core/gene.py | Python | lgpl-2.1 | 9,762 | [
"VisIt"
] | 0dcb947449def15a0f0c0993cfc4fdb1919cdd7d9baacec37ee40f838a2d49b9 |
""" Collection of user jobs for testing purposes
"""
# pylint: disable=invalid-name
from __future__ import print_function
import os
from DIRAC import rootPath
from DIRAC.Interfaces.API.Job import Job
from DIRAC.Interfaces.API.Dirac import Dirac
from DIRAC.tests.Utilities.utils import find_all
# parameters
# Commo... | fstagni/DIRAC | tests/Utilities/testJobDefinitions.py | Python | gpl-3.0 | 5,317 | [
"DIRAC"
] | cf1cae8e408fc192ca83c7d69766591e26f9aad8b76e0c28843f920814e2bf72 |
#import sys
import re
import json
import random
import codecs
import datetime
from io import StringIO
from html.parser import HTMLParser
from docassemble.base.functions import word, get_currency_symbol, comma_and_list, server, custom_types
from docassemble.base.util import format_date, format_datetime
from docassemble.... | jhpyle/docassemble | docassemble_base/docassemble/base/standardformatter.py | Python | mit | 215,175 | [
"VisIt"
] | 5d999313ce5fb2295dcc9f5dba49bb3126cd1c51ebcaf0b7c8ecd7c994da9c28 |
# Pizza.py toolkit, www.cs.sandia.gov/~sjplimp/pizza.html
# Steve Plimpton, sjplimp@sandia.gov, Sandia National Laboratories
#
# Copyright (2005) Sandia Corporation. Under the terms of Contract
# DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government retains
# certain rights in this software. This software is... | nchong/icliggghts | tools/python/pizza/log.py | Python | gpl-2.0 | 9,584 | [
"LAMMPS"
] | fcd4dad697532993a955a267100a67b6eb70a117b7f38c44a934a615bd810359 |
# -------------------------------------------------------------------------
# Name: READ METEO input maps
# Purpose:
#
# Author: PB
#
# Created: 13/07/2016
# Copyright: (c) PB 2016
# -------------------------------------------------------------------------
from cwatm.management_modules.data_handling ... | CWatM/CWatM | cwatm/hydrological_modules/environflow.py | Python | gpl-3.0 | 6,137 | [
"NetCDF"
] | 186e09fb71c559f128a3c818a2456ada34593f0c0c714f584b8bea44273ac249 |
#!/usr/bin/env python
"""
Created by: Lee Bergstrand
Description: A program that extracts the proteins annotations from a Genbank file and as well as some
information about the organism in the file. Stores the protein annotations as a Fasta.
Appends organism info to a csv file.
Requirements: - This script... | LeeBergstrand/HMMER-DB | GenbankToFASTAandOrganismTableRow.py | Python | mit | 7,337 | [
"BLAST",
"Biopython"
] | 66f6b44dfe4a8832dbd9a1bfb9444a0ab5f4f16afe04a2f040465309a4b84f5f |
# GromacsWrapper
# Copyright (c) 2009-2010 Oliver Beckstein <orbeckst@gmail.com>
# Released under the GNU Public License 3 (or higher, your choice)
# See the file COPYING for details.
"""
GromacsWrapper Overview
=======================
**GromacsWrapper** (package :mod:`gromacs`) is a thin shell around the `Gromacs`_
... | Becksteinlab/GromacsWrapper | gromacs/__init__.py | Python | gpl-3.0 | 11,825 | [
"Gromacs"
] | 3e23bd52ebe94106acd395c06e41e7d4b0d286befbf21c3f99b88f7202d56d8b |
#!/usr/bin/env python
#-----------------------------------------------------------------------------
# Copyright 2012-2016 Claude Zervas
# email: claude@utlco.com
#-----------------------------------------------------------------------------
"""
An Inkscape extension to create quasicrystalline/Penrose tesselations.
==... | utlco/tcnc | tcnc/quasink.py | Python | lgpl-3.0 | 41,121 | [
"CRYSTAL"
] | d8ca32c8ad99a969a037d22ba5bba26cf0a161afad7a960206c3fb416eae9bcf |
""" core implementation of testing process: init, session, runtest loop. """
import re
import py
import pytest, _pytest
import os, sys, imp
try:
from collections import MutableMapping as MappingMixin
except ImportError:
from UserDict import DictMixin as MappingMixin
from _pytest.runner import collect_one_node... | uglyboxer/linear_neuron | net-p3/lib/python3.5/site-packages/_pytest/main.py | Python | mit | 26,325 | [
"VisIt"
] | c4d05c123a07e43929ad0b7d39f63456814bd50ea77a621471c3541c7991dcf5 |
"""
functions to access the data dictionary in a clearer way
"""
import os
import toolz as tz
from bcbio.utils import file_exists
from bcbio.log import logger
import sys
LOOKUPS = {
"config": {"keys": ['config']},
"num_cores": {"keys": ['config', 'algorithm', 'num_cores'],
"default": 1},
... | verdurin/bcbio-nextgen | bcbio/pipeline/datadict.py | Python | mit | 7,009 | [
"Galaxy"
] | d198a3d114d36566b9c8def04f852d8cd2740e40c657ff07ceb1eae2a0e9a978 |
# Copyright (C) 2011 by Brandon Invergo (b.invergo@gmail.com)
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
#
# This code is adapted (with permission) from the C source code of chi2.c,
# written by Z... | zjuchenyuan/BioWeb | Lib/Bio/Phylo/PAML/chi2.py | Python | mit | 3,371 | [
"Biopython"
] | 881424ae88c730be2e04bd48f1951010593c85fef6011f4032ccea18414ca695 |
r"""
.. warning:: This model and this model description are under review following
concerns raised by SasView users. If you need to use this model,
please email help@sasview.org for the latest situation. *The
SasView Developers. September 2018.*
Definition
----------
Calculates ... | SasView/sasmodels | sasmodels/models/sc_paracrystal.py | Python | bsd-3-clause | 6,760 | [
"CRYSTAL",
"Gaussian"
] | ecd73838d9bafc723c820a79c2df0633b0ea78b5192805a5365bcc1d6d724f22 |
#!/usr/bin/env python
from __future__ import print_function
import math
import vtk
# Available surfaces are:
SURFACE_TYPE = {"PLANE", "SPHERE", "PARAMETRIC_SURFACE"}
def WritePNG(ren, fn, magnification=1):
"""
Save the image as a PNG
:param: ren - the renderer.
:param: fn - the file name.
:par... | lorensen/VTKExamples | src/Python/Visualization/ElevationBandsWithGlyphs.py | Python | apache-2.0 | 12,567 | [
"VTK"
] | ab853a2b223d71493b6e50a8e3fd96216835947731ef0e418a713b4e43ffcfed |
import unittest
from paraview.simple import PointSource, Connect, Disconnect, Delete, Line
from simphony_paraview.core.paraview_utils import typical_distance
class TestTypicalDistance(unittest.TestCase):
def setUp(self):
Connect()
self.source = None
def tearDown(self):
if self.sour... | simphony/simphony-paraview | simphony_paraview/core/tests/test_typical_distance.py | Python | bsd-2-clause | 999 | [
"ParaView"
] | 8d526e54cba813a7b2ba5b1ce25adc7471ebfa80816ce214971610fa5a06f575 |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.