text stringlengths 12 1.05M | repo_name stringlengths 5 86 | path stringlengths 4 191 | language stringclasses 1
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|---|---|---|---|---|---|---|---|
"""
Copyright (c) 2014 Brian Muller
Copyright (c) 2015 OpenBazaar
"""
import heapq
from operator import itemgetter
from protos import objects
class Node:
def __init__(self, id, ip=None, port=None, signed_pubkey=None,
vendor=False):
self.id = id
self.ip = ip
self.port = p... | jorik041/Network | dht/node.py | Python | mit | 3,684 | [
"Brian"
] | 5776d4b759dfdf69168c32f3fdf95cd6643c5555548ddadf47fc8d7738a616b4 |
#!/usr/bin/env python
import sys
import tornado
from DIRAC import gConfig, S_OK
from DIRAC.Core.Base import Script
from DIRAC.ConfigurationSystem.Client.LocalConfiguration import LocalConfiguration
from DIRAC.FrameworkSystem.Client.Logger import gLogger
from WebAppDIRAC.Core.App import App
if __name__ == "__main__":
... | zmathe/WebAppDIRAC | scripts/dirac-webapp-run.py | Python | gpl-3.0 | 1,166 | [
"DIRAC"
] | 526dd6705325bfc567c21f82687c65195c1688673cf44d82dd46c3ac1f232bc9 |
# Setup script for megaman: scalable manifold learning
# LICENSE: Simplified BSD https://github.com/mmp2/megaman/blob/master/LICENSE
import io
import os
import re
import sys
import subprocess
PY2 = sys.version_info[0] == 2
PY3 = not PY2
if PY3:
import importlib.machinery
def read(path, encoding='utf-8'):
pa... | jmcq89/megaman | setup.py | Python | bsd-2-clause | 3,912 | [
"VisIt"
] | 66a2a18fd324bb1c1e0a9d1a3999152e1ad5d99afc4c35593a0cb249378cec4f |
import click
from parsec.cli import pass_context, json_loads
from parsec.decorators import custom_exception, json_output
@click.command('get_current_user')
@pass_context
@custom_exception
@json_output
def cli(ctx):
"""Display information about the user associated with this Galaxy connection.
Output:
a dicti... | galaxy-iuc/parsec | parsec/commands/users/get_current_user.py | Python | apache-2.0 | 423 | [
"Galaxy"
] | 1c7fe37a3a0b95e3fa913c0775bdab3a15ca26c8dd0fed07ae3381454ce63de3 |
# -*- encoding:utf-8 -*-
from __future__ import division, absolute_import, print_function
import sys, textwrap
from numpydoc.docscrape import NumpyDocString, FunctionDoc, ClassDoc
from numpydoc.docscrape_sphinx import SphinxDocString, SphinxClassDoc
from nose.tools import *
if sys.version_info[0] >= 3:
sixu = la... | rubennj/pvlib-python | docs/sphinx/sphinxext/numpydoc/tests/test_docscrape.py | Python | bsd-3-clause | 19,792 | [
"Gaussian"
] | 608014a5a6ddb640e2a98311e98d0027c5c99abcbfacb6b44cacf551d798d9d2 |
# -*- coding: utf-8 -*-
#
# Copyright (C) 2014 Red Hat, Inc.
#
# This copyrighted material is made available to anyone wishing to use,
# modify, copy, or redistribute it subject to the terms and conditions of
# the GNU General Public License v.2, or (at your option) any later version.
# This program is distributed in ... | bcl/anaconda | tests/pyanaconda_tests/simpleconfig_test.py | Python | gpl-2.0 | 5,281 | [
"Brian"
] | 6dd8e63baaa41d77aef1c4773ee36e932b813d11e8925da76775ea1a4060c6a4 |
# -*- coding: utf-8 -*-
# Copyright 2008-2014 Jaap Karssenberg <jaap.karssenberg@gmail.com>
'''This module defines the ExportTemplateContext, which is a dictionary
used to set the template parameters when exporting.
Export template parameters supported::
generator
.name -- "Zim x.xx"
.user
title
naviga... | fabricehong/zim-desktop | zim/export/template.py | Python | gpl-2.0 | 14,460 | [
"VisIt"
] | 40d4bb8c1c1231dec7bbddb63dafb0fe395aa210f622d5b66a700f8b6928a6c3 |
#!/usr/bin/env python
#
# MIMEHandler.py
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License version 2 as
# published by the Free Software Foundation.
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANT... | qistoph/thug | src/DOM/MIMEHandler.py | Python | gpl-2.0 | 30,176 | [
"NetCDF"
] | 701b9533ed8d8487895a6c49d5cb1806d9a0fed0a5ecdaa5f0ffdd305490d01d |
r"""
Example of central limit theorem
--------------------------------
Figure 3.20.
An illustration of the central limit theorem. The histogram in each panel shows
the distribution of the mean value of N random variables drawn from the (0, 1)
range (a uniform distribution with :math:`\mu = 0.5` and W = 1; see eq. 3.39... | gtrichards/PHYS_T480 | code/fig_central_limit.py | Python | mit | 2,845 | [
"Gaussian"
] | 16a0fd2cede79983358d30329bd12c35da0226dc27fa2e50787623252e72fc92 |
import json
from ace_overlay.widgets import AceOverlayWidget
from django import forms
from django.db.models import Q
from django.forms import ModelForm, Textarea
from guardian.shortcuts import get_objects_for_user
from accounts.queries import compile_expression
from studies.models import Lab, Response, Study
from stu... | CenterForOpenScience/lookit-api | studies/forms.py | Python | apache-2.0 | 15,530 | [
"VisIt"
] | f7fc9dbf40fb28e08972cc38dadb3bf467de5d4146d421408b320cb917b4a0e0 |
# coding=utf-8
"""
Common methods for this project.
"""
from __future__ import print_function, division
# Util Methods #
import argparse
import collections
import csv
import difflib
import glob
from datetime import datetime
import re
import shutil
import errno
import fnmatch
from itertools import chain, islice
import... | team-mayes/md_utils | md_utils/md_common.py | Python | bsd-3-clause | 48,535 | [
"CP2K",
"LAMMPS"
] | c9747256ccb8bbcb566d7f8ad3aba92e339ecacd43fa83437aab3afb2c5465e4 |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding: utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
""" Location of data files for Pytim examples and tests
====================================================
Real MD simulation data are stored in the ``data/`` subdirectory.
Exampl... | Marcello-Sega/pytim | pytim/datafiles/__init__.py | Python | gpl-3.0 | 12,583 | [
"Amber",
"CHARMM",
"GROMOS",
"Gromacs",
"LAMMPS",
"MDAnalysis"
] | f4a11b9f60b737fd8becffe1f9cf1ee77110dcf6865335048a8bc7a7f4f122c5 |
# -*- coding: utf-8 -*-
# Copyright 2010 Dirk Holtwick, holtwick.it
#
# 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 ... | ibyer/xhtml2pdf | xhtml2pdf/parser.py | Python | apache-2.0 | 25,074 | [
"VisIt"
] | cee610398c21d65e33eae0d2173b2de2d4d5356738b9113d531fa12f1675ce89 |
# Copyright 2008-2009 Brian Boyer, Ryan Mark, Angela Nitzke, Joshua Pollock,
# Stuart Tiffen, Kayla Webley and the Medill School of Journalism, Northwestern
# University.
#
# This file is part of django-facebookconnect.
#
# django-facebookconnect is free software: you can redistribute it and/or modify
# it under the te... | ryszard/django-facebookconnect | facebookconnect/templatetags/facebook_tags.py | Python | gpl-3.0 | 6,440 | [
"Brian"
] | 89d3805116da19e0b39b9bc52c6c5945879a78c2513b819b061f1ffec7312c09 |
import sys
import os
from io import StringIO
import numpy as np
import matplotlib
# Force matplotlib to not use any Xwindows backend.
matplotlib.use('Agg')
import matplotlib.gridspec as gridspec
from matplotlib import pylab
import matplotlib.pyplot as plt
import scipy as sp
from scipy.interpolate import interp1d
def p... | yuginboy/from_GULP_to_FEFF | feff/libs/plot_data.py | Python | gpl-3.0 | 2,856 | [
"FEFF"
] | d866b9f1bae23540a1c776b348fcdb6b7e7ef78d8e412f4080f4abd6d8ceab3f |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
from __future__ import with_statement
from acq4.devices.DAQGeneric import DAQGeneric, DAQGenericTask, DAQGenericTaskGui
from acq4.util.Mutex import Mutex, MutexLocker
#from acq4.devices.Device import *
from PyQt4 import QtCore, QtGui
import time
import numpy as np
from acq4... | hiuwo/acq4 | acq4/devices/MockClamp/MockClamp.py | Python | mit | 14,370 | [
"NEURON"
] | 7edae6590b8e9a109d2c629f09397331fd09445393533e82db041a7e1c2ff8f3 |
import numpy as np
import resource, multiprocessing
import os, sys, glob, time, shutil
from itertools import izip
from collections import defaultdict, Counter
from ete2 import Tree
from Bio import Phylo, SeqIO, AlignIO
from Bio.Seq import Seq
from Bio.SeqRecord import SeqRecord
from Bio.Align import MultipleSeqAlignmen... | neherlab/pan-genome-analysis | scripts/sf_geneCluster_align_makeTree.py | Python | gpl-3.0 | 31,005 | [
"Biopython"
] | 7f2182a11512c8c12d579daa137f0bae280cfb6f8cd155733a39d428e8078ea6 |
#################################################################
# $HeadURL$
#################################################################
"""
.. module:: Pfn
:synopsis: ProcessPool and related classes
ProcessPool
ProcessPool creates a pool of worker subprocesses to handle a queue of tasks
much like the produce... | fstagni/DIRAC | Core/Utilities/ProcessPool.py | Python | gpl-3.0 | 33,005 | [
"DIRAC"
] | 6c7169b9bfcbe7f5f42e6fdb531ce01f5359411185b050c1cd97e4d400f688d4 |
"""
Tests for discussion pages
"""
import datetime
from pytz import UTC
from uuid import uuid4
from nose.plugins.attrib import attr
from .helpers import UniqueCourseTest
from ..pages.lms.auto_auth import AutoAuthPage
from ..pages.lms.courseware import CoursewarePage
from ..pages.lms.discussion import (
Discussion... | xiandiancloud/edxplaltfom-xusong | common/test/acceptance/tests/test_discussion.py | Python | agpl-3.0 | 24,307 | [
"VisIt"
] | 3c2daafd3d608be90129d5ce746d50d2aba2383a2c9e37d9c74f9984dcc74434 |
#!/usr/bin/env python
import numpy as np
from astropy.io import fits
class Up_parse:
"""
The class is to parse a UVES_popler output file.
It provides wavelength, flux, sigma_error, mask (valid pixels) arrays.
"""
def __init__(self, path_to_fits,off_set=0.0):
shift = 1. + off_set/2997... | ezavarygin/specplot | specplot_tools/up_parse.py | Python | mit | 2,000 | [
"Gaussian"
] | badc6e2e0ef79582d59260b2edb57ffd6e2a77523171102558a79bc986818681 |
#!/usr/bin/env python
# -*- coding: utf8 -*-
# *****************************************************************
# ** PTS -- Python Toolkit for working with SKIRT **
# ** © Astronomical Observatory, Ghent University **
# *****************************************************************
##... | SKIRT/PTS | modeling/fitting/reinitialization.py | Python | agpl-3.0 | 6,747 | [
"Galaxy"
] | 72bf6a5089b0eabd4c15f7b464505989a881fb9f65af45fb8a9e0fcdedc0d9b9 |
from ANNarchy.core.Projection import Projection
from ANNarchy.core.Synapse import Synapse
import ANNarchy.core.Global as Global
import numpy as np
from ANNarchy.generator.Utils import tabify # _generate_bank_code, _generate_convolve_code
# Indices used for each dimension
indices = ['i', 'j', 'k', 'l', 'm', 'n']
###... | ANNarchy/ANNarchy | ANNarchy/extensions/weightsharing/SharedProjection.py | Python | gpl-2.0 | 51,558 | [
"NEURON"
] | 2322917244c94ccbd49f7170b2e08af171ac9a11665d644fb51f67c5bf442a5e |
# numkit --- data fitting
# Copyright (c) 2010 Oliver Beckstein <orbeckst@gmail.com>
# Released under the "Modified BSD Licence" (see COPYING).
"""
:mod:`numkit.fitting` --- Fitting data
======================================
The module contains functions to do least square fits of functions of
one variable f(x) to da... | CTCNano/GromacsWrapper | numkit/fitting.py | Python | gpl-3.0 | 10,025 | [
"Gaussian"
] | ce78bc13fbbb5d75bb657fdb9d4f9443ef1b817473bf848c2be417999cf31a52 |
"""Forest of trees-based ensemble methods
Those methods include random forests and extremely randomized trees.
The module structure is the following:
- The ``BaseForest`` base class implements a common ``fit`` method for all
the estimators in the module. The ``fit`` method of the base ``Forest``
class calls the ... | rishikksh20/scikit-learn | sklearn/ensemble/forest.py | Python | bsd-3-clause | 67,993 | [
"Brian"
] | 684509af9361c7e627de7cf7264a58768a132df0a66495d17f3d3ed28c81af65 |
"""Tests for LogFilters."""
import pytest
from DIRAC.FrameworkSystem.private.standardLogging.LogLevels import LogLevels
from DIRAC.Resources.LogFilters.PatternFilter import PatternFilter
from DIRAC.Resources.LogFilters.ModuleFilter import ModuleFilter, LEVEL
class Record(object):
def __init__(self, msg, varmessa... | chaen/DIRAC | Resources/LogFilters/test/Test_PatternFilter.py | Python | gpl-3.0 | 2,081 | [
"DIRAC"
] | 47af82493636a2d868e4cb341f21efa0175720d91594848833330f572f1e1533 |
""" DIRAC Transformation DB
Transformation database is used to collect and serve the necessary information
in order to automate the task of job preparation for high level transformations.
This class is typically used as a base class for more specific data processing
databases
"""
import re, time, thre... | marcelovilaca/DIRAC | TransformationSystem/DB/TransformationDB.py | Python | gpl-3.0 | 68,496 | [
"DIRAC"
] | 0232987408b9e22ebe2b00e1d1fa02c4fbdc344599319a64c44a20554a205fbc |
# $Id: nodes.py 7788 2015-02-16 22:10:52Z milde $
# Author: David Goodger <goodger@python.org>
# Maintainer: docutils-develop@lists.sourceforge.net
# Copyright: This module has been placed in the public domain.
"""
Docutils document tree element class library.
Classes in CamelCase are abstract base classes or auxilia... | jmwright/cadquery-freecad-module | Libs/docutils/nodes.py | Python | lgpl-3.0 | 77,350 | [
"VisIt"
] | 364512a9b611d744996d5126fa9a01d0822675f598c5bf49602081379feea35d |
# Copyright 2020 The TensorFlow Probability Authors.
#
# 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 o... | tensorflow/probability | tensorflow_probability/python/experimental/sts_gibbs/gibbs_sampler.py | Python | apache-2.0 | 39,186 | [
"Gaussian"
] | 108909f65619070077de296717f3118ae3684c7a8dacded2a5fa03eb93b003a3 |
# univariate linear regression
import numpy as np
# http://blog.csdn.net/anneqiqi/article/details/64125186
import matplotlib.pyplot as plt
# %matplotlib inline
'''
# test
r1 = np.linspace(0, 10, 1000)
s1 = np.random.normal(0, 0.1, 1000) # Gaussian distribution
s2 = 100 * s1
#print("r1:", r1)
#print("s1:", s1)
plt.his... | yejingfu/samples | ml/lession1/linearregression.py | Python | mit | 2,833 | [
"Gaussian"
] | 71252bea28978f5c9889dca501489959e5947346e5f8f5960c910a56d216da7b |
#!/usr/bin/env python
"""
This file demonstrates drawing graphs using circular vertices via
vtkRenderedGraphRepresentation.
"""
from vtk import *
#------------------------------------------------------------------------------
# Script Entry Point
#--------------------------------------------------------------... | hlzz/dotfiles | graphics/VTK-7.0.0/Examples/Infovis/Python/circular_vertices.py | Python | bsd-3-clause | 1,383 | [
"VTK"
] | e7efe3f6895eda12164f1df5c1e07759565f1afc3f732703cbf1d3abd7071da7 |
# -*- coding: utf-8 -*-
"""
Unit tests for instructor.api methods.
"""
import datetime
import functools
import io
import json
import random
import shutil
import tempfile
import ddt
import pytest
from boto.exception import BotoServerError
from django.conf import settings
from django.contrib.auth.models import User
from... | ahmedaljazzar/edx-platform | lms/djangoapps/instructor/tests/test_api.py | Python | agpl-3.0 | 230,248 | [
"VisIt"
] | 033bfd68ad230d26209767734876e25f26db694f12e887eba85493292b44863c |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# Copyright (C) 2009-2011 Umeå University
#
# 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... | natebeacham/saml2 | src/saml2/attribute_resolver.py | Python | bsd-2-clause | 2,892 | [
"exciting"
] | f802010e38b64bd263f5148a01f623fb3fb5cb0fa12d7d7b516f158abdddba62 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# Copyright (c) 2019 Satpy developers
#
# This file is part of satpy.
#
# satpy 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... | pytroll/satpy | satpy/readers/viirs_edr_active_fires.py | Python | gpl-3.0 | 5,530 | [
"NetCDF"
] | 1baed7dabb44317edc027ecf6efe3b6138c4f60cd2d1fed0d4557f485a7a912b |
# Copyright 2004, Magnus Hagdorn
#
# This file is part of GLIMMER.
#
# GLIMMER is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at your option) any later version.
#
# G... | glimmer-cism/PyCF | PyCF/CF_options.py | Python | gpl-2.0 | 14,671 | [
"NetCDF"
] | 2fb71ebd18957c0c313fc79f97145da3a569fd13bbd4734a076342eaa224c461 |
# Orca
#
# Copyright (C) 2010-2013 Igalia, S.L.
#
# Author: Alejandro Pinheiro Iglesias <apinheiro@igalia.com>
# Author: Joanmarie Diggs <jdiggs@igalia.com>
#
# This library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free S... | ruibarreira/linuxtrail | usr/lib/python3/dist-packages/orca/scripts/apps/gnome-shell/script.py | Python | gpl-3.0 | 6,767 | [
"ORCA"
] | 6a1cd19e8bf904c69dafa1251d7d322d695be4e8baeb530bd374fb2273344726 |
#!/usr/bin/env python
import math, numpy as np
#from enthought.mayavi import mlab
import matplotlib.pyplot as pp
import matplotlib.cm as cm
import matplotlib
import scipy.linalg as lin
import scipy.ndimage as ni
import roslib; roslib.load_manifest('sandbox_tapo_darpa_m3')
import rospy
import tf
#import hrl_lib.mayav... | tapomayukh/projects_in_python | sandbox_tapo/src/skin_related/Cody_Data/time_varying_data_two_objects_new.py | Python | mit | 13,725 | [
"Mayavi"
] | e65831564908fe9457fee61ba4696918be0fe8c4df242bf29a6740e8218c4279 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
# ramaplot.Ramaplot.py
#
# Copyright (C) 2015 Karl T Debiec
# All rights reserved.
#
# This software may be modified and distributed under the terms of the
# BSD license. See the LICENSE file for details.
"""
Generates one or more Ramachandran figures to specification... | ASinanSaglam/Ramaplot | Ramaplot.py | Python | bsd-3-clause | 20,979 | [
"Amber"
] | d6ec7396349972014879225d132ca052e2be9397e27af6c9ad3e8a8e887bec98 |
import os
from os import path
from fsgamesys.amiga.amiga import Amiga
# from fsgamesys.amiga.amigaconfig import AmigaConfig
from fsgamesys.amiga.amigaconstants import AmigaConstants
from fsgamesys.amiga.config import Config
from fsgamesys.amiga.launchhandler import (
amiga_path_to_host_path,
encode_file_comme... | FrodeSolheim/fs-uae-launcher | fsgamesys/amiga/harddrives.py | Python | gpl-2.0 | 13,642 | [
"ADF"
] | 5c934655ad36ab7b1f3d0634c957de8a315b089f3b07887fbde688f22926e1ca |
"""
=======================================
Purpose: make a histogram of fits image
=======================================
Input: fits image file
Output: histogram of pixel values
-------------------
*By: Jianrong Deng 20170601
-------------------
"""
import numpy as np
###########################################... | jianrongdeng/LAMOST | ana/scripts/histogram_fits-image.py | Python | gpl-3.0 | 2,680 | [
"Gaussian"
] | 5d8773f3d141d979ced02613a18ccfd0ce34213fe53d464823b8aa6b567e7362 |
import math
import re # Used to fix SVG exporting
from PyQt4 import QtCore, QtGui, QtSvg
import qt4_circular_render as crender
import qt4_rect_render as rrender
from main import _leaf, NodeStyle, _FaceAreas
from qt4_gui import _NodeActions as _ActionDelegator
from qt4_face_render import update_node_faces, _FaceGroup... | xguse/ete | ete_dev/treeview/qt4_render.py | Python | gpl-3.0 | 35,308 | [
"VisIt"
] | 11963b43292567c912cdaa79ecc99d8732faf03f3f7f8795eecab31890baa687 |
"""
A set of misc. methods in pure python to perform generic operations over datasets,
vectors, strings, etc. I have added a lot of stuff in it, and a little is used as of now.
You are free to take and use anything you like.
"""
from __future__ import division
import sys
import random
from numpy.linalg import inv, det
... | saifuddin778/pwperceptrons | tools.py | Python | mit | 10,032 | [
"BLAST"
] | 57183b32dfca4228ee1d486242e4cef2158226b3602c89d77fb45fd10c236bfa |
"""Support for control of ElkM1 lighting (X10, UPB, etc)."""
from homeassistant.components.light import (
ATTR_BRIGHTNESS, SUPPORT_BRIGHTNESS, Light)
from homeassistant.components.elkm1 import (
DOMAIN as ELK_DOMAIN, ElkEntity, create_elk_entities)
DEPENDENCIES = [ELK_DOMAIN]
async def async_setup_platform(
... | HydrelioxGitHub/home-assistant | homeassistant/components/elkm1/light.py | Python | apache-2.0 | 1,678 | [
"Elk"
] | c47da9e960f5941d95c38758a2be3d559c7a77e0391b1325f07ee2d9d974ca68 |
#!/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... | robclark/chromium | tools/checklicenses/checklicenses.py | Python | bsd-3-clause | 15,399 | [
"Galaxy"
] | a0c84b5bf341ea35d2f7c7bf66a24ecf37e5e67f15e90b0f45bcbb6e1e3a3c7d |
#! /usr/bin/env python3
# -*- coding: utf-8 -*-
# checkprgver.py file is part of spman
#
# spman - Slackware package manager
# Home page: https://github.com/MyRequiem/spman
#
# Copyright (c) 2018 Vladimir MyRequiem Astrakhan, Russia
# <mrvladislavovich@gmail.com>
# All rights reserved
# See LICENSE for details.
"""
... | MyRequiem/spman | src/checkprgver.py | Python | mit | 2,260 | [
"VisIt"
] | 22f1582c458cf2d20f0007c76a6c0e031acb8fdd6f2e88e8c1ebd3ef8732d020 |
# -*- coding:Utf-8 -*-
import doctest
import os
import logging
import pdb
import sys
import numpy as np
import scipy as sp
import scipy.io as io
import scipy.signal as si
import scipy.linalg as la
import matplotlib.pylab as plt
import pylayers.signal.bsignal as bs
from pylayers.measures import mesuwb
class Waveform(di... | dialounke/pylayers | pylayers/signal/waveform.py | Python | mit | 10,616 | [
"Gaussian"
] | 000046847467ed04f9e1c128c4de08ad530f96bfae34a0a9b83d5a5f7ce593d9 |
"""
Acceptance tests for grade settings in Studio.
"""
from common.test.acceptance.pages.studio.settings_graders import GradingPage
from common.test.acceptance.tests.studio.base_studio_test import StudioCourseTest
from common.test.acceptance.fixtures.course import XBlockFixtureDesc
from bok_choy.promise import EmptyPro... | philanthropy-u/edx-platform | common/test/acceptance/tests/studio/test_studio_grading.py | Python | agpl-3.0 | 12,145 | [
"VisIt"
] | cc33ee00a58c1a5b14222fdf6d3f61ce56665559c6381a482751c0ec8ccab78c |
# Code for astronomically useful functions -- especially functions dealing
# with surface-brightness or similar (e.g., spectroscopic) profiles.
#
# For consistency, all of the main functions should have the following
# signature:
#
# functionName( rValuesVector, parameterList, mag=True, magOutput=True )
#
# where rV... | perwin/imfit | python/imfit_funcs.py | Python | gpl-3.0 | 16,771 | [
"Gaussian"
] | 5bb1a229411aa8d5d4c79b54401bcc48c993e9fe738d90eb41444ff8e42af7f1 |
from parsimonious.grammar import Grammar
from parsimonious.nodes import *
from decimal import Decimal
# ===================================================================
class Percentage(Decimal):
pass
# ===================================================================
class ConditionVisitor(NodeVisitor):
... | DanielBaird/climas-global | webapp/climasng/parsing/conditionparser.py | Python | apache-2.0 | 9,530 | [
"VisIt"
] | 1532aa7ac928126c7b812a053e2551dd65c18c25f16bf87490530ae767765d5e |
from aiida.parsers.parser import Parser
from aiida.parsers.exceptions import OutputParsingError
from aiida.orm.data.array import ArrayData
from aiida.orm.data.parameter import ParameterData
import numpy as np
def parse_FORCE_CONSTANTS(filename):
fcfile = open(filename)
num = int((fcfile.readline().strip().sp... | abelcarreras/aiida_extensions | plugins/parsers/phonopy.py | Python | mit | 2,752 | [
"phonopy"
] | 3e509cd6d1125979f679883a963c30cc6d362eaadab7c191d8b4b9f7d6483e9a |
#
# Copyright 2014 Lars Pastewka (U. Freiburg)
# 2014 James Kermode (Warwick U.)
#
# matscipy - Materials science with Python at the atomic-scale
# https://github.com/libAtoms/matscipy
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public Licen... | libAtoms/matscipy | examples/fracture_mechanics/energy_barrier_multiple/params.py | Python | lgpl-2.1 | 1,694 | [
"ASE",
"Matscipy"
] | 6c50fd237a63523de699bf0b747656cd175f1047b112d0aa3f1dd47de3899eea |
#!/usr/bin/env python3.5
###############################################################################
# TransportLayerBot - An all-in-one user bot for Discord. #
# Copyright (C) 2016 TransportLayer #
# ... | TransportLayer/TransportLayerBot-Discord | main.py | Python | agpl-3.0 | 16,517 | [
"VisIt"
] | 7caba217ca5a6020a63cd416a94d87602fda0a15d8379132deb5145adf94c24d |
# from helpers import download_mesh
# import meshplex
#
# import numpy as np
# import unittest
#
#
# class GradientTest(unittest.TestCase):
#
# def setUp(self):
# return
#
# def _run_test(self, mesh):
# num_nodes = len(mesh.points)
# # Create function 2*x + 3*y.
# a_x = 7.0
# ... | nschloe/voropy | tests/mesh_tri/test_gradient.py | Python | mit | 1,254 | [
"VTK"
] | 04fa3eec10e8a792fd5e2930fc8f34068db6b184576f7c6be07271c480f4383b |
#!/usr/bin/env python3
"""
Template by pypi-mobans
"""
import os
import sys
import codecs
import locale
import platform
from shutil import rmtree
from setuptools import setup, Extension
# Work around mbcs bug in distutils.
# http://bugs.python.org/issue10945
# This work around is only if a project supports Python ... | pyexcel/libxlsxwpy | setup.py | Python | bsd-3-clause | 3,872 | [
"VisIt"
] | cb151fd0d3d67e6b7873125929627113f242a9330439ab217cb94480fe13a526 |
import logging
import time
import pysam
from mitty.lib.bedfile import read_bed
logger = logging.getLogger(__name__)
# NOTE TO SELF: Though it seems like we could convert the psyam variant handling structures to something
# that looks like it is more useful for us re: read generation, it is not worth the effort and... | sbg/Mitty | mitty/lib/vcfio.py | Python | apache-2.0 | 8,078 | [
"pysam"
] | 2908e881b96e1ed735a6f94c47473fe0c34a243e0aeafbd80d16431c4ce17985 |
"""Only External Repos url specific constants module"""
CUSTOM_FILE_REPO = 'https://fixtures.pulpproject.org/file/'
CUSTOM_KICKSTART_REPO = 'http://ftp.cvut.cz/centos/8/BaseOS/x86_64/kickstart/'
CUSTOM_RPM_REPO = 'https://fixtures.pulpproject.org/rpm-signed/'
CUSTOM_RPM_SHA_512 = 'https://fixtures.pulpproject.org/rpm... | rplevka/robottelo | robottelo/constants/repos.py | Python | gpl-3.0 | 1,532 | [
"Galaxy"
] | b6376f900b9896fd252d8eb178ecdb83bcf166e665130da4caf1f741ab1d85a4 |
import numpy as np
from evaluate import binary_metrics, precision_recall
import matplotlib.pyplot as plt
from matplotlib.pyplot import cm
def plot_retina_results(predicted, event, max_angle, search_traces = None, against = 'true'):
thetas, phis, response = event.get_grid()
m, test, predicted_mapping, test_mappi... | maxim-borisyak/pyretina | pyretina/plot.py | Python | mit | 4,355 | [
"Mayavi"
] | d1833a815cc89afdca7387cba6fe53d96dd79e24f84b80e4b16fdf44a2ee4f53 |
import json
from coalib.bearlib import deprecate_settings
from coalib.bearlib.abstractions.Linter import linter
from coalib.bears.requirements.NpmRequirement import NpmRequirement
from coala_utils.param_conversion import negate
def bool_or_str(value):
try:
return bool(value)
except:
return st... | dosarudaniel/coala-bears | bears/js/JSHintBear.py | Python | agpl-3.0 | 20,188 | [
"VisIt"
] | f0e16fa4a4d653db26e4f0bbb009d47cf79e8930ad96ad4ec2acfd9fe5ae46f3 |
from setuptools import setup
setup(
name='metasort',
version='0.3.6.3',
packages=['metasort', ],
license='MIT',
url='http://github.com/phelimb/metasort',
description='Filter reads based on taxonomy assignment from One Codex.',
author='Phelim Bradley, Gil Goncalves',
author_email='wave@p... | Phelimb/metasort | setup.py | Python | mit | 537 | [
"Biopython"
] | cfb1d7ff5cefc3258c8fdc5162c5dfd18bebafc3a38f2d9f75f0f074ba681a13 |
#!/usr/bin/env python
"""Shows how to view data created by `tvtk.tools.mlab` with
mayavi2.
"""
# Author: Prabhu Ramachandran <prabhu@aero.iitb.ac.in>
# Copyright (c) 2006-2007, Enthought Inc.
# License: BSD Style.
import numpy
from mayavi.scripts import mayavi2
from tvtk.tools import mlab
from mayavi.sources.vtk_dat... | dmsurti/mayavi | examples/mayavi/advanced_visualization/surf_regular_mlab.py | Python | bsd-3-clause | 1,366 | [
"Mayavi"
] | b668fffed00badfef65767d2529f3457f46e6f15a6bbbab18bef731dc095e862 |
#!/usr/bin/env python
import argparse
import logging
import sys
from BCBio import GFF
from Bio import SeqIO
from Bio.Seq import Seq
from Bio.SeqFeature import (
FeatureLocation,
SeqFeature
)
from Bio.SeqRecord import SeqRecord
logging.basicConfig(level=logging.INFO)
log = logging.getLogger(__name__)
def par... | dpryan79/tools-iuc | tools/progressivemauve/xmfa2gff3.py | Python | mit | 5,764 | [
"Biopython"
] | 6141168b8c591383578a6e859cbcbec35a5c60fb3984f769e136568dfb5420dc |
# Copyright 2011 Rackspace
# Copyright (c) 2011 X.commerce, a business unit of eBay Inc.
# Copyright 2013 IBM Corp.
# 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
#
# ... | akash1808/nova | nova/tests/unit/network/test_manager.py | Python | apache-2.0 | 160,748 | [
"FEFF"
] | dba8716a433bc6d1a7fc4f3309493d34f3956cacad00641278c3d5592a63593b |
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(... | dewtx29/python_ann | python/pydev_ann/LearnNN/learnNN6.py | Python | gpl-3.0 | 3,999 | [
"NEURON"
] | 8fca13405026b6d402f9c819fd91d85a04a7086d441ddc1018da938df7971e06 |
tutorial_tests = """
Let's try a simple generator:
>>> def f():
... yield 1
... yield 2
>>> for i in f():
... print i
1
2
>>> g = f()
>>> g.next()
1
>>> g.next()
2
"Falling off the end" stops the generator:
>>> g.next()
Traceback (most recent call la... | adaussy/eclipse-monkey-revival | plugins/python/org.eclipse.eclipsemonkey.lang.python/Lib/test/test_generators.py | Python | epl-1.0 | 49,410 | [
"VisIt"
] | 8e827bf8c4ace6a9f0278b2540a0761be32314f9fa87b0fe145e26de9aac5439 |
# Copyright 2017 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | nburn42/tensorflow | tensorflow/contrib/seq2seq/python/ops/attention_wrapper.py | Python | apache-2.0 | 61,484 | [
"DIRAC"
] | 99e476b6791c6b78262e89d83dde0f5be8dd4444cc7dba8d339a2adabb17e547 |
# Copyright 2014-2018 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by appl... | gkc1000/pyscf | pyscf/nao/m_ao_matelem.py | Python | apache-2.0 | 5,878 | [
"PySCF"
] | c66714f2551b27c3e1f7ad9c3fa379929a7c6e3bf3b2e899b4799aeada94ef05 |
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import os
import warnings
from pymatgen.core.structure import Structure
from pymatgen.core.units import Ha_to_eV, bohr_to_ang
from pymatgen.io.abinit.abiobjects import *
from pymatgen.util.testing import PymatgenTest
class ... | vorwerkc/pymatgen | pymatgen/io/abinit/tests/test_abiobjects.py | Python | mit | 7,463 | [
"ABINIT",
"pymatgen"
] | 8d2195dcfca17469d572591f8652f944f4815ce1b6d191a6c1ef87a5a8c359ce |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
A Flow is a container for Works, and works consist of tasks.
Flows are the final objects that can be dumped directly to a pickle file on disk
Flows are executed using abirun (abipy).
"""
from __future__ impo... | xhqu1981/pymatgen | pymatgen/io/abinit/flows.py | Python | mit | 105,989 | [
"ABINIT",
"pymatgen"
] | ce357298f6d62cb96159327ebf6d8006309936f1401a3f6ecbab8227d507c279 |
"""
This module gathers tree-based methods, including decision, regression and
randomized trees. Single and multi-output problems are both handled.
"""
# Authors: Gilles Louppe <g.louppe@gmail.com>
# Peter Prettenhofer <peter.prettenhofer@gmail.com>
# Brian Holt <bdholt1@gmail.com>
# Noel Da... | jmschrei/scikit-learn | sklearn/tree/tree.py | Python | bsd-3-clause | 40,412 | [
"Brian"
] | cd8a8a72712f77237fb1a1b0c06a0877a07282027c232739130cb16de797dd2c |
""" DIRAC FileCatalog Database """
__RCSID__ = "$Id$"
from DIRAC import gLogger, S_OK, S_ERROR
from DIRAC.Core.Base.DB import DB
from DIRAC.DataManagementSystem.DB.FileCatalogComponents.DirectoryMetadata import DirectoryMetadata
from DIRAC.DataManagementSystem.DB.FileCatalogComponents.FileMetadata import FileMetadata... | andresailer/DIRAC | DataManagementSystem/DB/FileCatalogDB.py | Python | gpl-3.0 | 39,108 | [
"DIRAC"
] | 66eacd375b48ce8d25efe48e8fbb1aebd13da65b93f3e1c38c379605cf8f6fc7 |
#
# Copyright (c) 2008--2014 Red Hat, Inc.
#
# This software is licensed to you under the GNU General Public License,
# version 2 (GPLv2). There is NO WARRANTY for this software, express or
# implied, including the implied warranties of MERCHANTABILITY or FITNESS
# FOR A PARTICULAR PURPOSE. You should have received a c... | moio/spacewalk | backend/server/rhnChannel.py | Python | gpl-2.0 | 70,026 | [
"VisIt"
] | fcae0832c1895d2c86d4ceb8d81b6a6af59450af2c1f101c06d139ca76437ed4 |
#
# Copyright (C) 2013-2019 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... | fweik/espresso | samples/electrophoresis.py | Python | gpl-3.0 | 9,523 | [
"ESPResSo"
] | 5fb82f4d9cb5f9be0df809ab0e163bac4d4a0eec07650d77303c75ab3dc11658 |
# $HeadURL: $
''' AccountingCacheCommand
The AccountingCacheCommand class is a command module that collects command
classes to store accounting results in the accounting cache.
'''
from datetime import datetime, timedelta
from DIRAC import S_OK, S_ERROR
from... | Sbalbp/DIRAC | ResourceStatusSystem/Command/AccountingCacheCommand.py | Python | gpl-3.0 | 34,774 | [
"DIRAC"
] | c0ed4ac83473eb104ceccb4d5bca45b950d9473a6f45143d4472d45e029d9a00 |
import numpy as np
from gpaw.io.tar import Writer, Reader
class IncrementalWriter(Writer):
_iterkey = 'niter'
_partkey = 'part'
_iterpattern = '/%06d.part'
def __init__(self, name):
Writer.__init__(self, name)
self.dims[self._iterkey] = 0
self.dims[self._partkey] = 1
... | robwarm/gpaw-symm | gpaw/io/tarext.py | Python | gpl-3.0 | 5,602 | [
"GPAW"
] | bf80a9db2d5f73b495af7f5f7602577d40bc1871a9172b3bcdd5d68fa81c5bef |
print("Hello")
def downsample(w_m, f_m, w_TRES):
'''Given a model wavelength and flux (w_m, f_m) and the instrument wavelength (w_TRES), downsample the model to
exactly match the TRES wavelength bins. '''
spec_interp = interp1d(w_m, f_m, kind="linear")
@np.vectorize
def avg_bin(bin0, bin1):
... | BrownDwarf/Starfish | attic/old_code.py | Python | bsd-3-clause | 13,197 | [
"Gaussian"
] | cbe422c4a6f5697935996787e3a5a4d01bd1dc95501ced0b8d3978a2ca15fba2 |
"""This contains a set of tests for paratemp.coordinate_analysis"""
########################################################################
# #
# This test was written by Thomas Heavey in 2018. #
# theavey@bu.edu thom... | theavey/ParaTemp | tests/test_coordinate_analysis.py | Python | apache-2.0 | 12,849 | [
"MDAnalysis"
] | ea09fc53c0ca734458a759f8ecf4cb0c35ae1f6dbdad559ad570f43908be769a |
from django.shortcuts import get_object_or_404, redirect, render
from django.http import HttpResponse, JsonResponse
from django.contrib.auth.decorators import login_required
from django.contrib.auth.models import User
from django.contrib.syndication.views import Feed
from django.core.urlresolvers import reverse
from dj... | michcioperz/nyuuu | hug/views.py | Python | apache-2.0 | 7,756 | [
"Amber"
] | 274faf92af94be213f9790ab14f7f0661b1e766bf2eee5c3f44c68d1459e1820 |
#!/usr/bin/env python
import sys
import gfxprim.core as core
import gfxprim.loaders as loaders
import gfxprim.filters as filters
def main():
if len(sys.argv) != 3:
print("usage: blur blur-radii image")
sys.exit(1)
radii = float(sys.argv[1])
# Load Image
img = loaders.load(sys.argv[2]... | gfxprim/gfxprim | demos/py_simple/blur.py | Python | lgpl-2.1 | 497 | [
"Gaussian"
] | d059bc31a63f3d2843d3be9b744a54ae04f8788232ab8b454c1d95c84f7a77c0 |
import numpy as np
from alis import almsgs
from alis import alfunc_base
import astropy.units as u
msgs = almsgs.msgs()
try:
from linetools.spectra.lsf import LSF as ltLSF
except ImportError:
msgs.warn("linetools is not installed. Install it if you wish to use LSF")
class LSF(alfunc_base.Base) :
"""
Co... | rcooke-ast/ALIS | alis/alfunc_lsf.py | Python | gpl-3.0 | 14,125 | [
"Gaussian"
] | 0560f432a9b24c8749028557bc111d34c9eb3445844004d043f673bd86d57014 |
# -*- coding: utf-8 -*-
#
#
# TheVirtualBrain-Scientific Package. This package holds all simulators, and
# analysers necessary to run brain-simulations. You can use it stand alone or
# in conjunction with TheVirtualBrain-Framework Package. See content of the
# documentation-folder for more details. See also http://ww... | rajul/tvb-library | tvb/simulator/plot/tools.py | Python | gpl-2.0 | 37,849 | [
"Gaussian",
"Mayavi"
] | 69144efd17b94943be1833d4adfe3fa516d2b3a30e440777feaa0cb304a7494d |
#-*- encoding: utf-8 -*-
from urllib2 import Request, urlopen, URLError
from urllib import urlencode
from cStringIO import StringIO
from gzip import GzipFile
import time, sys, os
import argparse
def getArgs():
parser = argparse.ArgumentParser()
parser.add_argument('url', help="the url to visit")
parser.a... | dlutxx/memo | curl/test.py | Python | mit | 586 | [
"VisIt"
] | cde3d2a7d8a4994ead4307761233d8bae4b3acf60f5f726ff95da6fccfcf8b46 |
# Copyright 2004 by Bob Bussell. 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.
"""NOEtools: For predicting NOE coordinates from assignment data.
The input and output are model... | zjuchenyuan/BioWeb | Lib/Bio/NMR/NOEtools.py | Python | mit | 3,420 | [
"Biopython"
] | ee15a5cc23f96c4f2d2d49756a039077431d16dca663312d64ad53dbb6b5bdef |
# Copyright (C) 2014 Jian-Ming Tang <jmtang@mailaps.org>
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later versio... | jianmingtang/PIC-tools | Python/Figure/Figure3D.py | Python | gpl-3.0 | 5,619 | [
"VTK"
] | 142e40ced68dbb1f8c73dcd8d164dd11149a1d7e8b5d242bb4718add1f21bd92 |
##############################################################################
# MDTraj: A Python Library for Loading, Saving, and Manipulating
# Molecular Dynamics Trajectories.
# Copyright 2012-2013 Stanford University and the Authors
#
# Authors: Kyle A. Beauchamp
# Contributors: Robert McGibbon
#
# MDTraj i... | ctk3b/mdtraj | mdtraj/geometry/tests/test_alignment.py | Python | lgpl-2.1 | 1,884 | [
"MDTraj"
] | 683a7ea0cf91826da8b8944fdc43d0ff2f6d25882d6a31cae5babc6d68703136 |
from go_to_adjacent_systems import *
from go_somewhere_significant import *
import vsrandom
import launch
import faction_ships
import VS
import Briefing
import universe
import unit
import Director
import quest
import gettext
class defend (Director.Mission):
def __init__ (self,factionname,numsystemsaway, enemyquanti... | costalfy/Vega-Strike | data/modules/missions/defend.py | Python | gpl-2.0 | 8,780 | [
"VisIt"
] | f3d9ee8fa82faeccab6e64b76b6a93e9e7a7d8f21012528b15724a4c0d4f7992 |
# -*- coding: utf-8 -*-
# Copyright 2010 Dirk Holtwick, holtwick.it
#
# 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 ... | Bounder/xhtml2pdf | xhtml2pdf/parser.py | Python | apache-2.0 | 24,031 | [
"VisIt"
] | 0849a42763bbf988b52b3f5dd2989cd510452eb327cc872d01edcf97c214a2c0 |
"""
Tests PatternGenerator (position and orientation), and some of the
basic patterns.
Original written as a unit test as part of the Topographica project.
"""
import os
import unittest
cwd = os.path.abspath(os.path.split(__file__)[0])
import param
import numpy as np
from numpy.testing import assert_array_equal
fr... | ioam/imagen | tests/testpatterngenerator.py | Python | bsd-3-clause | 8,450 | [
"Gaussian"
] | 634d0d9bf720e0f5efb29d4b74b539af6d58f53568e9ef9bcf2950efc97c2341 |
##############################################################################
# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | skosukhin/spack | var/spack/repos/builtin/packages/r-deseq2/package.py | Python | lgpl-2.1 | 2,540 | [
"Bioconductor"
] | 13f648bf5911986ea72ac04b1f8fe0e785c6722a495e35ec50ebc44fba8ebf54 |
#!/usr/bin/env python
helptext ='''This script will take a list of FASTA files and concatenate them for use in
phylogenetic inference. The sequence headers (up until the first space) must be identical
in each individual FASTA file.
Individual gene sequences should be aligned prior to running this script!
This scrip... | mossmatters/HybPiper | fasta_merge.py | Python | gpl-3.0 | 5,712 | [
"Biopython"
] | 4b5394e7cf77be750529234e3fdaad7172a1e81f38a6cbb43d970c1f321e4c8c |
"""
Read/write functions for Gaussian.
Written by:
Glen R. Jenness
University of Wisconsin - Madison
See accompanying license files for details.
"""
import numpy as np
import ase.units
from ase.atoms import Atoms
from ase.atom import Atom
from ase.calculators.singlepoint import SinglePointCalculator
from ase.... | grhawk/ASE | tools/ase/io/gaussian.py | Python | gpl-2.0 | 3,516 | [
"ASE",
"Gaussian"
] | 3f71f84f10774c40d84097338dad9dadbbab0e7524c3224250ebfd577a446e1c |
#########################################################################
#
# perceptron.py - This file is part of the Spectral Python (SPy) package.
#
# Copyright (C) 2001-2014 Thomas Boggs
#
# Spectral Python is free software; you can redistribute it and/
# or modify it under the terms of the GNU General Publ... | ohspite/spectral | spectral/algorithms/perceptron.py | Python | gpl-2.0 | 16,914 | [
"NEURON"
] | a8559bb196e216907a0abd9fd77bd0834851cf828a46d58a5084a8d010506b0a |
# 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 ... | igemsoftware/SYSU-Software2013 | project/Python27_32/Lib/site-packages/pypm/external/2/sqlalchemy/sql/expression.py | Python | mit | 153,547 | [
"VisIt"
] | a0b9de762105560e598c17082025921599fc40a8c82eb1232b8cf1a37b0397d6 |
##############################################################################
# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | EmreAtes/spack | var/spack/repos/builtin/packages/r-graph/package.py | Python | lgpl-2.1 | 1,712 | [
"Bioconductor"
] | 421ee35875d9a271086f79b775908f7cf2d101ffaeb44b34e14991e03b00c18e |
import logging
from autotest.client.shared import error
from virttest import virsh
try:
from virttest.staging import utils_memory
from virttest.staging import utils_cgroup
except ImportError:
from autotest.client.shared import utils_memory
from autotest.client.shared import utils_cgroup
def run(test,... | PandaWei/tp-libvirt | libvirt/tests/src/virsh_cmd/domain/virsh_memtune.py | Python | gpl-2.0 | 5,890 | [
"VisIt"
] | dee0451860cdc8b4e1b2936286294690f572c09936aea610ef2c6ed91979d753 |
import matplotlib
matplotlib.use('Agg')
import numpy as np
import supp_functions as fce
import sys
import os
import xarray as xr
import pandas as pd
import argparse
import time
import platform
import statsmodels.api as sm
import statsmodels.stats.stattools as sms
i... | kuchaale/X-regression | scripts/lin_reg_univ_ccmi_xarray.py | Python | gpl-3.0 | 10,655 | [
"NetCDF"
] | 71aa6e92a049a09d886292372ed47be7ee2edb1d8e061c8013fe4533aad83120 |
# coding: utf-8
"""Test mdn.compatibility."""
from __future__ import unicode_literals
from django.utils.six import text_type
from mdn.compatibility import (
CellVersion, CompatFeatureVisitor, CompatFootnoteVisitor,
CompatSectionExtractor, CompatSupportVisitor, Footnote,
compat_feature_grammar, compat_supp... | mdn/browsercompat | mdn/tests/test_compatibility.py | Python | mpl-2.0 | 41,629 | [
"VisIt"
] | caffc8daa02c79a8bc02abb26a12184618911578624d2dc195d70f53672c5d27 |
# Copyright (C) 2017 Alex Nitz
#
#
# This program is free software; you can redistribute it and/or modify it
# under the terms of the GNU General Public License as published by the
# Free Software Foundation; either version 3 of the License, or (at your
# option) any later version.
#
# This program is distributed in t... | cmbiwer/pycbc | pycbc/noise/reproduceable.py | Python | gpl-3.0 | 6,976 | [
"Gaussian"
] | 1eafff912da454982ef923632404b6be199e30f7d4a708c2ba7ceb95a9c1bb2c |
import sys
sys.path.insert(1, "../../../")
import h2o
def link_correct_default(ip,port):
print("Reading in original prostate data.")
h2o_data = h2o.upload_file(path=h2o.locate("smalldata/prostate/prostate.csv.zip"))
print("Compare models with link unspecified and canonical link specified.")
print("GAUSSIAN: ... | PawarPawan/h2o-v3 | h2o-py/tests/testdir_algos/glm/pyunit_link_correct_default_largeGLM.py | Python | apache-2.0 | 1,986 | [
"Gaussian"
] | b0759b726ec6288c3fe914f0504f781b688e91540542322b53f93eb2eba1bb41 |
#!/usr/bin/env python3
# -*- Mode: Python; coding: utf-8; indent-tabs-mode: nil; tab-width: 4 -*-
#
# LOLO: add an empty array for SSH in output netcdf file !!!
## + same... | brodeau/aerobulk | python/misc/download_prepare_ERA5_for_SASF.py | Python | gpl-3.0 | 17,247 | [
"NetCDF"
] | d5e29cf044577ff71ed8910b1ab40bde3d4f7773dbe15298c4d21a4f14a48785 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Created on Tue Feb 16 17:56:14 2016
@author: agiovann
"""
from __future__ import division
from __future__ import print_function
from past.builtins import basestring
from builtins import zip
from builtins import map
from builtins import str
from builtins import range
... | simonsfoundation/CaImAn | use_cases/granule_cells/utils_granule.py | Python | gpl-2.0 | 44,321 | [
"NEURON"
] | e38fca532daf0a1d1f8a6da82e4ce2403d50549c9d3316ec1e91e2c8e56dab12 |
"""
Assesment of Generalized Estimating Equations using simulation.
This script checks Gaussian models.
See the generated file "gee_gaussian_simulation_check.txt" for
results.
"""
from statsmodels.compat.python import lrange
import scipy
import numpy as np
from itertools import product
from statsmodels.genmod.familie... | bashtage/statsmodels | statsmodels/genmod/tests/gee_gaussian_simulation_check.py | Python | bsd-3-clause | 9,902 | [
"Gaussian"
] | de4f0460ae3a0fab5607f7f30099172196207f97703c0913e59d5a32ed0244a6 |
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