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#!/usr/bin/env python
# Copyright 2015 The Kubernetes 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 appli... | Stackdriver/heapster | vendor/k8s.io/kubernetes/cluster/juju/layers/kubernetes-master/reactive/kubernetes_master.py | Python | apache-2.0 | 71,563 | [
"CDK"
] | ddb0c0f8d8acfd9b91ec4c93dc4df65ee70efdbc39f5355ffa3716aef4538fee |
"""A test that subscribes to NumPy arrays.
Currently the timing of this example is not accurate as it depends on the
subscriber and publisher being started at exactly the same moment. We should
use a REQ/REP side channel to synchronize the two processes at the beginning.
"""
#-----------------------------------------... | mgadi/naemonbox | sources/psdash/pyzmq-13.1.0/examples/pubsub/subscriber.py | Python | gpl-2.0 | 1,795 | [
"Brian"
] | 2b04762e36f92e33a195fede0176353ed1cfc8eecdb3847254aadc0ddc889fa2 |
import os
import sys
import pybel
import openbabel as ob
from rfscore.config import config, logger
def get_molecule(path):
"""
Reads a molecular structure with Open Babel.
"""
if os.path.exists(path):
# DETERMINE FILE FORMAT
filename, filetype = os.path.splitext(path)
... | huizhuzhao/rfscore | ob.py | Python | mit | 2,854 | [
"Open Babel",
"Pybel"
] | 1e6b4a374b1014523cfab0715b7f2f432f7898c699511c1cbaef9f6310a6db23 |
'''Utilities.py - Tools for writing reproducible scripts
=========================================================
The :mod:`Utilities` modules contains utility functions for argument
parsing, logging and record keeping within scripts.
This module is imported by most UMI-tools tools. It provides convenient
and consis... | CGATOxford/UMI-tools | umi_tools/Utilities.py | Python | mit | 56,155 | [
"Galaxy"
] | df93387cf40e799d62ce2502d5173a0a604eedf222849223a105541f6b9e4d4e |
"""Actions to save and load a MayaVi2 visualization file.
"""
# Author: Prabhu Ramachandran <prabhu_r@users.sf.net>
# Copyright (c) 2005, Enthought, Inc.
# License: BSD Style.
# Standard library imports.
import sys
from os.path import isfile
# Enthought library imports.
from pyface.api import FileDialog, OK
from pyf... | liulion/mayavi | mayavi/action/save_load.py | Python | bsd-3-clause | 4,447 | [
"Mayavi"
] | 821d8916c360a64b36e0375f08c97cc5024cb05415b0bb338044a2de2c2e7207 |
'''
.. Created on Nov 25, 2013
.. codeauthor:: Robert Langlois <rl2528@columbia.edu>
'''
import scipy.fftpack
import numpy
import logging
import math
_logger = logging.getLogger(__name__)
_logger.setLevel(logging.DEBUG)
try:
from ..spi import _spider_ctf
_spider_ctf;
except:
_spider_ctf=None
from arac... | ezralanglois/arachnid | arachnid/core/image/ctf/correct.py | Python | gpl-2.0 | 8,199 | [
"Gaussian"
] | 73d780c84ea445f3d910d34466acb559a2a2f0291153a29bf75c91071f81a103 |
import vtk
from numpy import random
import numpy as np
import vtk.util.numpy_support as converter
import time
import cv2
import itertools
class VtkText:
def __init__(self, text, pos):
self.text = text
self.pos = pos
def get_vtk_text(self):
txt = vtk.vtkTextActor()
txt.SetInput... | sameeptandon/sail-car-log | process/VtkRenderer.py | Python | bsd-2-clause | 10,375 | [
"VTK"
] | 521fb10daf6d3f51a22849bb39f2e877b6a5f653afb6d140c4bccb2d4e066490 |
# coding=utf-8
# Copyright 2022 The Google Research 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 applicab... | google-research/google-research | smu/parser/smu_utils_lib_test.py | Python | apache-2.0 | 55,448 | [
"RDKit"
] | 2d9a88e7e2f57f2d6d6090e4fc9fb7c0d9a23c8122c65bcfbd860821149a63e7 |
#!/usr/bin/env python
"""genericReports.py: Reports common to all openHDS-based HDSS sites."""
__email__ = "nicolas.maire@unibas.ch"
__status__ = "Alpha"
import os
from difflib import SequenceMatcher
from datetime import date, datetime
import csv
import operator
import xlwt
import reportLib as rL
def get_all_visit... | SwissTPH/openhds-su2 | su2/lib/genericReports.py | Python | gpl-2.0 | 37,642 | [
"VisIt"
] | 1c13b1a9b718cc74f9732f4c60825add3d0b614a28a10e3b73d52e54936f50e3 |
# A Tinkerer's Assembler for the 6502/65c02/65816 in Forth
# Scot W. Stevenson <scot.stevenson@gmail.com>
# First version: 24. Sep 2015
# This version: 24. Dec 2016
# 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 S... | scotws/tinkasm | old/tinkasm_201612.py | Python | gpl-3.0 | 67,750 | [
"TINKER"
] | d4e14ec2bdb7d33a7a9408939309bf78ccb5fe58c4e5ccafb60d22056a90740d |
# -*- coding: utf8 -*-
#-----------------------------------------------------------------------------
# Copyright (c) 2010-2012 Brian Granger, Min Ragan-Kelley
#
# This file is part of pyzmq
#
# Distributed under the terms of the New BSD License. The full license is in
# the file COPYING.BSD, distributed as part o... | ellisonbg/pyzmq | zmq/tests/test_message.py | Python | lgpl-3.0 | 12,196 | [
"Brian"
] | 77a0e10583410fd4a2ec1fcb77526c413dd8a4e7d7c129dab611b4b0b8a76f30 |
#!/usr/bin/env python
# coding=utf-8
from biopredyn import resources, workflow, result as res
from matplotlib import colors, pyplot as plt
import numpy as np
from scipy.stats import f
from scipy.linalg import svd
from scipy.stats import norm
from COPASI import CCopasiMethod
# required inputs
simulation_file = "genera... | TheCoSMoCompany/biopredyn | Prototype/scripts/parameter_estimation.py | Python | bsd-3-clause | 5,307 | [
"COPASI"
] | 2a82814319f236c78b40e3a4866c21a9ba73fac3c3c255900e0c43339ab65dc0 |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding: utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
"""A python based tool for interfacial molecules analysis
"""
# To use a consistent encoding
import codecs
import os
import sys
# Always prefer setuptools over distutils
try:
from setupt... | balazsfabian/pytim | setup.py | Python | gpl-3.0 | 5,679 | [
"MDAnalysis"
] | fb2c79a4230c06b08afe45a00f88863735a40780318c94982136b7b13ccbc629 |
import os
import sys
import require
from parallel import command
def check_run(fname, func, *args, **kwargs):
"""
Checks if fname exists first before executing func.
"""
if os.path.exists(fname):
print 'Skipped, using %s' % fname
return fname
else:
return func(*args, **kwar... | sujason/thomas | libraries/imgtools.py | Python | mit | 15,644 | [
"Brian"
] | 33b67430c84c0f1103b256cc91f8189ab7b0436f346135a7736c7a84963bef80 |
"""Classes to compute zred with a color-based red sequence model.
"""
import numpy as np
import esutil
import scipy.integrate
import scipy.interpolate
import copy
from .galaxy import GalaxyCatalog
from .utilities import interpol, sample_from_pdf
class ZredColor(object):
"""
Class to compute zred galaxy photom... | erykoff/redmapper | redmapper/zred_color.py | Python | apache-2.0 | 12,361 | [
"Galaxy"
] | 03f10cae29c18450b47182f786a4cd643769bb52e8bc96ea8fe3eaa4f6046671 |
# -*- coding: utf-8 -*-
# Copyright (c) 2006-2015 LOGILAB S.A. (Paris, FRANCE) <contact@logilab.fr>
# Copyright (c) 2008 Fabrice Douchant <Fabrice.Douchant@logilab.fr>
# Copyright (c) 2009 Mads Kiilerich <mads@kiilerich.com>
# Copyright (c) 2009 Vincent
# Copyright (c) 2011-2014 Google, Inc.
# Copyright (c) 2012 Kevin ... | axbaretto/beam | sdks/python/.tox/lint/lib/python2.7/site-packages/pylint/lint.py | Python | apache-2.0 | 59,153 | [
"VisIt"
] | 7a2608ec1d1b2126dd7a428e958ec5324e6c6d9e7515e282d9a0ed43aee9635c |
"""
This module contains code for detection of doors.
"""
import freenect
import cv2
import numpy as np
import time
import serial
import math
import matplotlib.mlab as mlab
from matplotlib import pyplot as plt
import sys
sys.path.append('/usr/lib/python2.7/dist-packages')
__name__ = "Kinect"
DOOR_FLAG = False
DOOR_COU... | amirajdhawan/eYSIP_2015_Depth_Mapping_Kinect | Research/Final Code/Kinect.py | Python | cc0-1.0 | 39,038 | [
"Gaussian"
] | 039dda0483e38ea3b1bfb5693d2af0f43f018c8fc71adefbc53d6b4df9ab0fe7 |
"""Utilities used in the Kadenze Academy Course on Deep Learning w/ Tensorflow.
Creative Applications of Deep Learning w/ Tensorflow.
Kadenze, Inc.
Parag K. Mital
Copyright Parag K. Mital, June 2016.
"""
from __future__ import print_function
import matplotlib.pyplot as plt
import tensorflow as tf
import urllib
import... | AlunAlun/synthetic_machine_learning | tensor_flow/libs/utils.py | Python | gpl-3.0 | 21,361 | [
"Gaussian"
] | 0d7a1ac9ed87ff9d08e21afa9d838078ed4a75bad41868ea9d6b82944b79f0c0 |
#!/usr/bin/env python
# Based heavily on the Bowtie 2 data manager wrapper script by Dan Blankenberg
from __future__ import print_function
import argparse
import json
import os
import subprocess
import sys
DEFAULT_DATA_TABLE_NAME = "kallisto_indexes"
def get_id_name(params, dbkey, fasta_description=None):
# TOD... | galaxyproject/tools-iuc | data_managers/data_manager_kallisto_index_builder/data_manager/kallisto_index_builder.py | Python | mit | 3,466 | [
"Bowtie"
] | 901ebf9bed3904c9b360c462bb214f289b9d0aa1b6d6290571a8a2171a89b59a |
# -*- coding: utf-8 -*-
"""
Batch visualize skel and surface vtk files
"""
import sys
import os
import os.path as op
import matplotlib.pyplot as plt
from mayavi import mlab
from pipeline.make_networkx import makegraph as mg
from mombud.vtk_viz import vtkvizfuncs as vf
import wrappers as wr
import cPickle as pickle
# py... | moosekaka/sweepython | cell_pick_viz/vtk_make_many_figs-tester.py | Python | mit | 1,735 | [
"Mayavi",
"VTK"
] | 07c609a2835b31687f1f8ea0fd3e8b383533a730eb6e2a6a6a0141d266ff2d4d |
#!/usr/bin/python
#
# Copyright (c) 2017 Ansible Project
#
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
ANSIBLE_METADATA = {'metadata_version': '1.1',
'status': ['preview'],
'supported_by': 'community'}
DOCUMENTATION = """
---
mod... | wrouesnel/ansible | lib/ansible/modules/cloud/amazon/elasticache.py | Python | gpl-3.0 | 20,816 | [
"Dalton"
] | 8664065111d72f49be56affc44bd9d844f74e7cd6fd61029c7d098aaf57abfd6 |
#
# Copyright 2018 Analytics Zoo 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 or agreed to... | intel-analytics/analytics-zoo | pyzoo/test/zoo/orca/learn/ray/mxnet/conftest.py | Python | apache-2.0 | 892 | [
"ORCA"
] | c5a39308c520618059e209bb23776ef9bbc2a674b16b25f8517b86fb6b6ba667 |
# This is the translator that converts Tcl test to python.
# Not all Tcl test are translatable.
# To ensure that a test can be translated :
# 1) do not use Tcl arrays
# 2) do not use string substitution except in variable names
# eg. obj${i} GetOutput is okay
# obj12 GetOutputAs${i} is not okay.
# 3) d... | hlzz/dotfiles | graphics/VTK-7.0.0/Utilities/vtkTclTest2Py/vtkTclToPyConvertor.py | Python | bsd-3-clause | 19,271 | [
"VTK"
] | 3b6b41ed351b28a7a565ad76d75e2ec3a54cb9b2e50cac10150d89d4e38b7672 |
#!/usr/bin/python3
"""
Binary heat map generator
``binheat`` converts a description of a binary relation into a PDF image of the
relation as a binary heat map (a.k.a. matrix display, adjacency matrix,
comparison chart, and probably a bunch of other names as well).
Each line of the input (except for blank lines and co... | jwodder/binheat | src/binheat.py | Python | mit | 12,371 | [
"VisIt"
] | 4864db67f83195b07371c235d30c36e65476972440b6c94ad79255e23c54c37e |
#!/usr/bin/env python
#pylint: disable=missing-docstring
#################################################################
# DO NOT MODIFY THIS HEADER #
# MOOSE - Multiphysics Object Oriented Simulation Environment #
# #... | yipenggao/moose | python/chigger/tests/clipping/clip_change.py | Python | lgpl-2.1 | 1,634 | [
"MOOSE",
"VTK"
] | c58fc46bea94fb5eca2308a84b00da05adc9726b781f922549ffe4c8c6b60f75 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# --- BEGIN_HEADER ---
#
# restartexe - Back end to restart one or more resource exe units
# Copyright (C) 2003-2009 The MiG Project lead by Brian Vinter
#
# This file is part of MiG.
#
# MiG is free software: you can redistribute it and/or modify
# it under the terms of the... | heromod/migrid | mig/shared/functionality/restartexe.py | Python | gpl-2.0 | 5,729 | [
"Brian"
] | d5ecaec8674a36aeab73fa3d15b617bcb75aa3f84b423631e0e3b9077861eeb7 |
#
# Licensed to the Apache Software Foundation (ASF) under one or more
# contributor license agreements. See the NOTICE file distributed with
# this work for additional information regarding copyright ownership.
# The ASF licenses this file to You under the Apache License, Version 2.0
# (the "License"); you may not us... | jlopezmalla/spark | python/pyspark/ml/regression.py | Python | apache-2.0 | 61,258 | [
"Gaussian"
] | 37c207fe7e6ec478eb2b587fd666e97d8d348d41179b55b0fb8bb50e1d6f58d0 |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4 fileencoding=utf-8
#
# MDAnalysis --- http://www.mdanalysis.org
# Copyright (c) 2006-2016 The MDAnalysis Development Team and contributors
# (see the file AUTHORS for the full list of names)
#
... | kain88-de/mdanalysis | testsuite/MDAnalysisTests/plugins/memleak.py | Python | gpl-2.0 | 3,568 | [
"MDAnalysis"
] | be5487318287c7680ec83c8aa1eafab84849702a526b010acc1e15a1d71b55ce |
from choldate._choldate import cholupdate
from kernel_exp_family.estimators.finite.gaussian import compute_b
from kernel_exp_family.kernels.kernels import rff_feature_map_grad2_d, \
rff_feature_map_grad_d, rff_feature_map_grad2, rff_feature_map_grad, \
rff_feature_map, rff_feature_map_single
import numpy as np... | karlnapf/kernel_exp_family | kernel_exp_family/estimators/finite/develop/gaussian.py | Python | bsd-3-clause | 4,504 | [
"Gaussian"
] | 5709b1b3882a7fcd5fe97d016c7af4be68761d1b8ad18dcd4b62dde26e9b61b1 |
##
# Copyright 2013 Ghent University
#
# This file is part of EasyBuild,
# originally created by the HPC team of Ghent University (http://ugent.be/hpc/en),
# with support of Ghent University (http://ugent.be/hpc),
# the Flemish Supercomputer Centre (VSC) (https://vscentrum.be/nl/en),
# the Hercules foundation (http://w... | ULHPC/modules | easybuild/easybuild-easyblocks/easybuild/easyblocks/d/dl_poly_classic.py | Python | mit | 2,191 | [
"DL_POLY"
] | adf25f88e413e503ea30a16c9a8df20aa1fc5b9d6e160adfd878ae8346cecffd |
import json
import os
import os.path
import sys
from collections import defaultdict
from distutils.command.build_scripts import build_scripts as BuildScripts
from distutils.command.sdist import sdist as SDist
try:
from setuptools import setup, find_packages
from setuptools.command.build_py import build_py as ... | Tatsh-ansible/ansible | setup.py | Python | gpl-3.0 | 7,514 | [
"Galaxy"
] | 3aac9fd281a3bc9fa92d33fee922cd623401d31216db0889e14bcc9dce21edfe |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
import sys
import hashlib
import time
import re
import listparser
import feedparser
import urlnorm
from pylyskom import kom, komauxitems, komsession
# TODO:
#
# - presentation för skapade möten
# - länk till bloggen från presentationen
# - länk till blogginlägget från ... | osks/komfeeder | feedimporter.py | Python | gpl-2.0 | 12,013 | [
"ESPResSo"
] | 5e9b13d3893325284c5fdf2ce76d3768f27c92b89436804d382271d1b9ef4006 |
#!/galaxy/home/mgehrin/hiclib/bin/python
"""
Read data in UCSC wiggle format and write it to an "array tree" file.
usage: %prog array_length output.array_tree < input.wig
"""
from __future__ import division
import sys
from bx.arrays.array_tree import *
from bx.arrays.wiggle import WiggleReader
def main():
... | bxlab/HiFive_Paper | Scripts/HiCLib/bx-python-0.7.1/build/scripts-2.7/wiggle_to_array_tree.py | Python | bsd-3-clause | 820 | [
"Galaxy"
] | e0562c3a11b8edf6593c26eea8f231ff25a392b2070d54491a6f269bedaff5e8 |
"""
This is a procedural interface to the matplotlib object-oriented
plotting library.
The following plotting commands are provided; the majority have
MATLAB |reg| [*]_ analogs and similar arguments.
.. |reg| unicode:: 0xAE
_Plotting commands
acorr - plot the autocorrelation function
annotate - annotate som... | unnikrishnankgs/va | venv/lib/python3.5/site-packages/matplotlib/pylab.py | Python | bsd-2-clause | 10,782 | [
"Gaussian"
] | a083a4410c5a4e0b74f763b2734ef085c2e7d711158295ceacda69756391b1fc |
import abc
import datetime
import enum
import typing
import jsii
import jsii.compat
import publication
from jsii.python import classproperty
import aws_cdk.assets
import aws_cdk.aws_iam
import aws_cdk.aws_s3
import aws_cdk.core
import aws_cdk.cx_api
__jsii_assembly__ = jsii.JSIIAssembly.load("@aws-cdk/aws-s3-assets"... | randyzingle/tools | kub/services/archive/cdk/python/sample-app/.env/lib/python3.6/site-packages/aws_cdk/aws_s3_assets/__init__.py | Python | apache-2.0 | 15,430 | [
"CDK"
] | 501a0c1a17f197a246f479d05609d78171e01eafa6f74b8c945e4da1d8478fa1 |
#!/usr/bin/env py27
from ecmwfapi import ECMWFDataServer
import numpy as np
import datetime as dt
import calendar
server = ECMWFDataServer()
dir = "/automount/agh/Projects/skiefer/"
year_first = 1957
year_last = 1957
years_vec = np.arange(year_first, (year_last + 1))
months_vec = np.arange(1, 13)
for i in range(... | sebaki/clim-jet-stream | 01-code/01-ecmwf-py/a-get-era-40-daily-by-month.py | Python | mit | 1,312 | [
"NetCDF"
] | 6b3a535ba7a5e485ecc689987cda0cde215d8d50d0d011ece88ba7b5b5b33d1f |
#!/usr/bin/env python
# Testing the new parallel scanner class
import os
backupdir = os.getcwd()
import numpy as np
import pysces
tbox=pysces.PyscesUtils.TimerBox()
import time
m=pysces.model('isola2a')
ser = pysces.Scanner(m)
print "Serial execution..."
print "Start: ", tbox.normal_timer('SER')
... | asttra/pysces | pysces/examples/testparscanner.py | Python | bsd-3-clause | 2,865 | [
"PySCeS"
] | aa85b1c6afb22ebcd4803261f5c37d488188f359d8f4a61976260c192bdeccce |
# coding: utf-8
import time
import logging
import json
import io
import bz2
from BlobTree import Blob
from BlobTree import Tree
import storj
import Cache
class StorjFS:
def __init__(self):
self.dirty=False
self.cache=Cache.Cache(self)
try:
with open('storjfs.json') as f:
... | utamaro/StorjPoint | StorjPoint/StorjFS.py | Python | mit | 6,325 | [
"MOE"
] | 31a06cc5f8d1cbad5477fe4467910cba0ef2a03cc18346943ba34c242678c001 |
# -*- coding: utf-8 -*-
# HORTON: Helpful Open-source Research TOol for N-fermion systems.
# Copyright (C) 2011-2015 The HORTON Development Team
#
# This file is part of HORTON.
#
# HORTON is free software; you can redistribute it and/or
# modify it under the terms of the GNU General Public License
# as published by th... | eustislab/horton | horton/io/iodata.py | Python | gpl-3.0 | 17,091 | [
"CP2K",
"Gaussian",
"Molpro",
"VASP"
] | ddea47b62c2488abb3487eb29fc83ad50f362d44d287998e5921cf6b7835d28a |
# Copyright 2015 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... | frreiss/tensorflow-fred | tensorflow/python/ops/nn_ops.py | Python | apache-2.0 | 252,704 | [
"Gaussian"
] | 0736b1eec24751ec0cd58dd1824c5e3c299338667f00958bd171b8ca0e53a831 |
# Author: Travis Oliphant 2001
# Author: Nathan Woods 2013 (nquad &c)
import sys
import warnings
from functools import partial
from . import _quadpack
import numpy
from numpy import Inf
__all__ = ['quad', 'dblquad', 'tplquad', 'nquad', 'quad_explain',
'IntegrationWarning']
error = _quadpack.error
class ... | scipy/scipy | scipy/integrate/_quadpack_py.py | Python | bsd-3-clause | 37,352 | [
"Gaussian"
] | 7757f71e49b29d05ee987afac1450732dc80a0e939a9963c503bb36e7c6b8217 |
# Copyright 2012 by Wibowo Arindrarto. 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.
"""Tests for SearchIO ExonerateIO parsers."""
import os
import unittest
from Bio import ... | updownlife/multipleK | dependencies/biopython-1.65/Tests/test_SearchIO_exonerate.py | Python | gpl-2.0 | 92,795 | [
"BLAST",
"Biopython"
] | 3559c50c5e744c0a5ee4bb0a3377048f85f918c30982d04c17938297e19b7730 |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2021 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of Psi4.
#
# Psi4 is free software; you can redistribute it and/or modify
#... | lothian/psi4 | psi4/driver/procrouting/dft/dft_builder.py | Python | lgpl-3.0 | 19,652 | [
"Psi4"
] | b729d2384a89ba4c441a2b2dd7c6b82d0a85e529d2af111633b16b66c6aa18b2 |
# -*- coding: utf-8 -*-
"""
Copyright (C) 2013-2021 ITB - CNR
This file is part of isoSegmenter.
isoSegmenter is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License... | bunop/isoSegmenter | setup.py | Python | gpl-3.0 | 6,367 | [
"Biopython"
] | 860a7a968a1521f7ffc4ec7f82977208d65f83ceb8e13523f804862ff4719b6a |
#!/usr/bin/env python
""" load mWGS Raw Seq Set into OSDF using info from data file """
import os
import re
from cutlass.WgsRawSeqSet import WgsRawSeqSet
import settings
from cutlass_utils import \
load_data, get_parent_node_id, list_tags, format_query, \
write_csv_headers, values_to_node_dict, write... | JAX-GM/osdf_submit | nodes/WgsRawSeqSet.py | Python | gpl-3.0 | 6,097 | [
"VisIt"
] | 51c3fc942e5d9d04a84714918e3d58e7dea3cf96127c881df212c1915d7aa5cd |
# -*- coding:utf-8 -*-
# Copyright (c) 2015, Galaxy Authors. All Rights Reserved
# Use of this source code is governed by a BSD-style license that can be
# found in the LICENSE file.
#
# Author: wangtaize@baidu.com
# Date: 2015-04-06
import logging
from sofa.pbrpc import client
from galaxy import master_pb2
STATE_MAP=... | leoYY/galaxy | console/backend/src/galaxy/sdk.py | Python | bsd-3-clause | 9,272 | [
"Galaxy"
] | f42ef27be13d7edab266ddab612b0f6278c10d9f9b8dd9c853841341dfcab884 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# 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.
... | rosmo/ansible-modules-core | windows/win_lineinfile.py | Python | gpl-3.0 | 6,606 | [
"Brian"
] | d0a5d595c2e9282c179fa2bdeaebad6a79604ea6821dd98b9b9d544a5b8970a7 |
# Copyright (c) 2014 Evalf
#
# 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, publish, distribute, s... | wijnandhoitinga/nutils | nutils/element.py | Python | mit | 43,460 | [
"VTK"
] | 55b36bfc28a9345e418e8048dd84f34e83a4dfaf0e5cdd8cd2795a45f3288d78 |
#!/usr/bin/env python
"""
Script to test the AMFM_decompy package.
Version 1.0.11
23/Jan/2021 Bernardo J.B. Schmitt - bernardo.jb.schmitt@gmail.com
"""
import amfm_decompy
import amfm_decompy.pYAAPT as pyaapt
import amfm_decompy.pyQHM as pyqhm
import amfm_decompy.basic_tools as basic
import os.path
# Declare the var... | bjbschmitt/AMFM_decompy | bin/AMFM_test.py | Python | mit | 1,427 | [
"Gaussian"
] | 94a99c0901ba095d6ac5754542e73f3026338ace254d9af02cef53eab99c2016 |
# Version: 0.15+dev
"""
HEADS UP!
=========
You are looking at a heavily modified version of the original
[Versioneer](https://github.com/warner/python-versioneer), customized
to fit the development of [OctoPrint](https://github.com/foosel/OctoPrint).
This version adds
* support for inclusion of the current bran... | Salandora/OctoPrint | versioneer.py | Python | agpl-3.0 | 80,296 | [
"Brian"
] | ec4c17dfa362cc47b51f28e757e09e32e4c7fbdc1837d0d08012822b6b59c34c |
#!/usr/bin/env python
# coding=utf-8
#
# IRC Bot to moderate a game of "Werewolf".
#
# Werewolf is a traditional party game, sometimes known as 'Mafia',
# with dozens of variants. This bot is following Andrew Plotkin's rules:
# http://www.eblong.com/zarf/werewolf.html
#
# Code originally based on example bot and irc-b... | Liag/wolfbot | wolfbot.py | Python | gpl-2.0 | 74,754 | [
"CRYSTAL"
] | ef0563df49c8f0d117ea22c74b66e4c794e8246626c885bc1d68a00b367018fb |
# Example: Modified non-recursive implementation using
# a special Visit() class to signal what should be visited next
import types
class Node:
pass
class Visit:
def __init__(self, node):
self.node = node
class NodeVisitor:
def visit(self, node):
stack = [ Visit(node) ]
last_res... | tuanavu/python-cookbook-3rd | src/8/implementing_the_visitor_pattern_without_recursion/example3.py | Python | mit | 2,634 | [
"VisIt"
] | ecd54b2f5afe8e065750689aee5cc8b48fdd6aa7c9a9e9482780097b37264620 |
# First-Visit MC Policy Evaluation
# Author: Yiheng Zhu
# Date: 23th/Nov/2017
import numpy as np
import Gridworld
########################
# Deterministic Policy #
########################
# hyperparameters
GAMMA = 0.9 # discount rate
NUM_EPISODES = 50 # number of episodes
def play_one_episode(gridworld, policy):
... | GitYiheng/reinforcement_learning_test | test03_monte_carlo/first_visit_policy_evaluation.py | Python | mit | 4,025 | [
"VisIt"
] | b5cc6bace92bfde7ab63180e4a099245e4b58ce0a764ae8ace76cf986af1ed03 |
#!/usr/bin/env python
#
# Appcelerator Titanium Plugin Packager
#
#
import os, sys, glob, string
import zipfile
cwd = os.path.abspath(os.path.dirname(sys._getframe(0).f_code.co_filename))
required_plugin_keys = ['version','pluginid','description','copyright','license','minsdk']
plugin_defaults = {
'description':'My p... | gianina-ingenuity/titanium-branch-deep-linking | testbed/x/mobilesdk/osx/5.5.1.GA/plugin/all/build.py | Python | mit | 3,034 | [
"VisIt"
] | 0d1416cb52c1276c7acda6fe83c1f0486f06ff2895e8b873c9fd2c60ecff571c |
# Copyright 2013 OpenStack Foundation
#
# 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 ... | sebrandon1/nova | nova/virt/xenapi/client/objects.py | Python | apache-2.0 | 4,742 | [
"VMD"
] | a7c273df6fa212c43b07f1e2e434ca9ce202aad9592ecb2b902d744d78371fa6 |
#!/usr/bin/env python
import urllib
from Bio import Phylo
import sys,os
from collections import defaultdict
class PrepareTree:
def __init__(self,build):
self.rings={'crystal': {'include':'False', 'order':6, 'colours':{'crystal_true':'#6dcde1','crystal_false':'#EEE'}, 'color_type':'single', 'item... | protwis/protwis | phylogenetic_trees/PrepareTree.py | Python | apache-2.0 | 17,154 | [
"CRYSTAL"
] | cc810e6a5293f4f019b9495deac02a192b669ef4c39d66a1e0ecb08f3e292a89 |
from collections import deque
import os
from .test_utils import TempDirectoryTestCase
from pulsar.client.test.test_common import write_config
from pulsar.client import submit_job, ClientJobDescription
from pulsar.client import ClientOutputs
from galaxy.tool_util.deps.dependencies import DependenciesDescription
from ga... | galaxyproject/pulsar | test/client_staging_test.py | Python | apache-2.0 | 8,642 | [
"Galaxy"
] | 85bd95ad7eb5d987266a7a417752a35fe61eca2d4dbe21467eb7fb220c191d3d |
from django.core.management.base import NoArgsCommand
from django.http import HttpResponseRedirect, HttpResponse
from django.template import loader, Context
from django.conf import settings
import csv
from datetime import datetime
from django.core.mail import send_mail
from badges.models import *
from users.models impo... | forallsystems/21stbadgepathways | badges/management/commands/bulkIssueQueue.py | Python | gpl-2.0 | 4,327 | [
"VisIt"
] | 1b00cd3f754a2421416d0081c914e85e6e94357ec5892ea8d18b7b42412bb806 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
from setuptools import setup
with open('README.rst') as readme_file:
readme = readme_file.read()
with open('HISTORY.rst') as history_file:
history = history_file.read()
requirements = [
'venusian'
]
test_requirements = [
# TODO: put package test require... | brianthelion/plugnparse | setup.py | Python | mit | 1,517 | [
"Brian"
] | ed485038c08d30ae6dccf23b01c5a2ddd4a8d1df08562014ac9ac75df49801ba |
""" RemoveComprehension turns list comprehension into function calls. """
from pythran.analyses import ImportedIds
from pythran.passmanager import Transformation
import pythran.metadata as metadata
import gast as ast
from functools import reduce
class RemoveComprehension(Transformation):
"""
Turns all list... | serge-sans-paille/pythran | pythran/transformations/remove_comprehension.py | Python | bsd-3-clause | 5,710 | [
"VisIt"
] | cc9529956d0e0c2959b17593c54a08cc83d555d565d86c332da03fb0f66f6c3e |
#!/usr/bin/python2.7
"""
Do mapping comparisons on a set of graphs
Currently needs to be run as follows: scripts/eval-ec2.py
"""
import os, sys, subprocess, argparse
def parse_args(args):
parser = argparse.ArgumentParser(description=__doc__,
formatter_class=argparse.RawDescriptionHelpFormatter)
pa... | glennhickey/toil-vg | scripts/mapeval-ec2.py | Python | apache-2.0 | 3,371 | [
"BWA"
] | 2ce6130ecda4fa27e61ef199c4903ff0fd91e8ed694657c28fd58c2e83584b39 |
"""
Top-level functions to mutate the astroid nodes with `end_col_offset` and
`end_lineno` properties.
Where possible, the `end_col_offset` property is set by that of the node's last child.
fromlineno
- existing attribute
- one-indexed
end_lineno
- new attribute
- one-indexed
... | RyanDJLee/pyta | python_ta/transforms/setendings.py | Python | gpl-3.0 | 22,884 | [
"VisIt"
] | 489c87bed4a7a44df1facd1c2cf8724c3508621feaa637def68c4a6ef04c684c |
__author__ = 'george'
import os
import sys
import pysam
### My imports ###
from fluff.color import parse_colors
from fluff.plot import profile_screenshot
from fluff.util import process_groups
def profile(args):
interval = args.interval
datafiles = [x.strip() for x in args.datafiles]
annotation = args.ann... | simonvh/fluff | fluff/commands/profile.py | Python | mit | 2,024 | [
"pysam"
] | cc2723b01024d336314dbaa8ee32075fad812b85cfcb439fae2c81eee91d94e4 |
# Copyright 2008-2010 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.
"""Multiple sequence alignment input/output as alignment objects.
The Bio.AlignIO interface... | bryback/quickseq | genescript/Bio/AlignIO/__init__.py | Python | mit | 20,615 | [
"BioPerl",
"Biopython"
] | f59d094d357784a7c4c698c94c926422d30c05f49e362ec608e09d28c92734ad |
"""Each ElkM1 area will be created as a separate alarm_control_panel."""
from elkm1_lib.const import AlarmState, ArmedStatus, ArmLevel, ArmUpState
from elkm1_lib.util import username
import voluptuous as vol
from homeassistant.components.alarm_control_panel import (
ATTR_CHANGED_BY,
FORMAT_NUMBER,
AlarmCon... | mezz64/home-assistant | homeassistant/components/elkm1/alarm_control_panel.py | Python | apache-2.0 | 9,801 | [
"Elk"
] | 6e56db7142aab50b0dffdf52ad121e87a98d631e23ef24ae3554e82215962344 |
# Frame for peri-stimulus time histogram analysis.
#
# Copyright (C) 2010-2012 Huang Xin
#
# See LICENSE.TXT that came with this file.
from __future__ import division
import wx
import scipy
import threading
import Pyro.core
import numpy as np
import matplotlib
matplotlib.use('WXAgg')
import matplotlib.gridspec as gri... | chrox/RealTimeElectrophy | Experimenter/GUI/PSTHTuning.py | Python | bsd-2-clause | 27,859 | [
"Gaussian"
] | 70b8e95f7c6a2ba54d46ae29e63182f90a5361f27d91ea10551ddcbf48abf8e7 |
# -*- coding: utf-8 -*-
from nose.tools import eq_
import bot_mock
from pyfibot.modules import module_wolfram_alpha
from utils import check_re
config = {"module_wolfram_alpha":
{"appid": "3EYA3R-WVR6GJQWLH"}} # unit-test only APPID, do not abuse kthxbai
bot = bot_mock.BotMock(config=config)
def test_simp... | EArmour/pyfibot | tests/test_wolfram_alpha.py | Python | bsd-3-clause | 981 | [
"Galaxy"
] | 9b726268e4b379c0d5b6133a7ddc6b65c250859709fb3bbe56011586c15138eb |
# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
import collections
import os.path
class Plumed(AutotoolsPackage):
"""PLUMED is an open source library for free energ... | LLNL/spack | var/spack/repos/builtin/packages/plumed/package.py | Python | lgpl-2.1 | 10,060 | [
"Amber",
"ESPResSo"
] | aa90cb70ad46bf4e7c672fd727e50fc974728fcf8f0de43da1f0d72c2892049f |
"""
A lightweight implementation of an isotropic GSM.
"""
__license__ = 'MIT License <http://www.opensource.org/licenses/mit-license.php>'
__author__ = 'Lucas Theis <lucas@theis.io>'
__docformat__ = 'epytext'
from distribution import Distribution
from numpy.random import rand, randint, randn
from numpy import *
from ... | lucastheis/isa | code/models/gsm.py | Python | mit | 5,163 | [
"Gaussian"
] | e95f73c6f98c04e6c858063f9dfc0eb2de87e0b831093051556d479812b6ad0c |
"""
A variety of utility functions that are used across a wider framework. Only elements applicable to developing and
testing TheanoBatchDTW are present here and some changes from the original framework have been made to allow this code
to operate outside the rest of the framework. As a result of this approach, some of... | danielrenshaw/TheanoBatchDTW | theano_batch_dtw/utility.py | Python | apache-2.0 | 2,600 | [
"Gaussian"
] | ea55fcde85dd41a1c0ffd3e1a4e39700ed2f5f51517a1d016b8f928d2ed79619 |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2022 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of Psi4.
#
# Psi4 is free software; you can redistribute it and/or modify
#... | psi4/psi4 | psi4/driver/procrouting/findif_response_utils/__init__.py | Python | lgpl-3.0 | 1,235 | [
"Psi4"
] | d847e43a99db0aaffe5a47d1b698d6175461227bb76e8ed441771db38c769376 |
""" py.test test of ExecutorDispatcher
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
# pylint: disable=protected-access
__RCSID__ = "$Id$"
from DIRAC.Core.Utilities.ExecutorDispatcher import (
ExecutorState,
ExecutorQueues,
)
execState = E... | ic-hep/DIRAC | src/DIRAC/Core/Utilities/test/Test_ExecutorDispatcher.py | Python | gpl-3.0 | 3,478 | [
"DIRAC"
] | 1eea2d304389c9efa7c61044c737b0f455f9f68785da221d745a82f0c9195ff6 |
# -*- coding: utf-8 -*-
# Generated by Django 1.10 on 2016-10-14 19:01
from __future__ import unicode_literals
from django.db import migrations, models
class Migration(migrations.Migration):
dependencies = [
('order', '0010_auto_20161012_1921'),
]
operations = [
migrations.AlterField(
... | savoirfairelinux/sous-chef | src/order/migrations/0011_auto_20161014_1901.py | Python | agpl-3.0 | 1,854 | [
"VisIt"
] | a59fee3a6ca13d4783884229865b6e6bcf2f43b883401cccc198aa951055afb9 |
# Script to plot data from a NetCDF file onto a Basemap
from netCDF4 import Dataset
import numpy as np
import matplotlib.pyplot as plt
from mpl_toolkits.basemap import Basemap
# Change the strings according to your dataset
nc = Dataset('../data/pottmp.2014.1time.nc')
pottmp = nc.variables['pottmp']
lons = n... | jonblower/python-viz-intro | Lesson 4. Mapping using the Basemap library/plotmap.py | Python | bsd-3-clause | 913 | [
"NetCDF"
] | 25df50d708463fc6c26bef8c570a2e6d20348ebfa44d3f2525025ad13df26d48 |
#
# @file TestL3Model.py
# @brief L3 Model unit tests
#
# @author Akiya Jouraku (Python conversion)
# @author Sarah Keating
#
# $Id$
# $HeadURL$
#
# ====== WARNING ===== WARNING ===== WARNING ===== WARNING ===== WARNING ======
#
# DO NOT EDIT THIS FILE.
#
# This file was generated automatically by converting th... | alexholehouse/SBMLIntegrator | libsbml-5.0.0/src/bindings/python/test/sbml/TestL3Model.py | Python | gpl-3.0 | 8,988 | [
"VisIt"
] | c4d304627ac55a8e03fd9fcfb6ca9a92cfa3c35350be2a5d3aaaf98f931bc462 |
# Script for visualizing extractMin on a minHeap, step-by-step.
# The initial heap is stored in the myHeap variable (in the bottom of the script)
# Created by Brian Pedersen
def min_heapify(heap, i):
left = i * 2 + 1
right = i * 2 + 2
if left < len(heap) and heap[left] < heap[i]:
smallest = left
else:
small... | PeterSR/DM507-Exam | Heaps/extractMin.py | Python | mit | 936 | [
"Brian"
] | a416fb017398f8df09a20502076ddf2a0c49c3ea0b3a14dd17905ee56cb114f0 |
#!/usr/bin/env python
import numpy
import vtk
def main():
nc = vtk.vtkNamedColors()
# Make a 32 x 32 grid
size = 32
rn = vtk.vtkMinimalStandardRandomSequence()
rn.SetSeed(1)
# Define z values for the topography (random height)
topography = numpy.zeros([size, size])
for i in range(s... | lorensen/VTKExamples | src/Python/PolyData/SmoothMeshGrid.py | Python | apache-2.0 | 4,533 | [
"VTK"
] | d6f4ad381317949ae722ff5644d1c6d653abb989f8acf77bc5a95026efeac77e |
# 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.
"""Provides an interface to communicate with the device via the adb command.
Assumes adb binary is currently on system path.
"""
# pylint: disable-all
... | TeamEOS/external_chromium_org | build/android/pylib/android_commands.py | Python | bsd-3-clause | 73,459 | [
"Galaxy"
] | 565e1b99686429414ba32f82ee5b9a06ba2afa01f4b147203984cbd69d771c15 |
# This is only meant to add docs to objects defined in C-extension modules.
# The purpose is to allow easier editing of the docstrings without
# requiring a re-compile.
# NOTE: Many of the methods of ndarray have corresponding functions.
# If you update these docstrings, please keep also the ones in
# core... | dwf/numpy | numpy/add_newdocs.py | Python | bsd-3-clause | 212,282 | [
"Brian"
] | 654f36f621b23bfc1a8c27e8424eee59363d192b2cd264b9af02fa741d569387 |
#!/usr/bin/env python
#
# Appcelerator Titanium Module Packager
#
#
import os, subprocess, sys, glob, string
import zipfile
from datetime import date
cwd = os.path.abspath(os.path.dirname(sys._getframe(0).f_code.co_filename))
os.chdir(cwd)
required_module_keys = ['name','version','moduleid','description','copyright','... | hyperlab/TiFXBlurView | iphone/build.py | Python | mit | 7,581 | [
"VisIt"
] | 88d5e086ea5841a86a5dbb0bad108b167b9ceaf06124705adfe23507d5f37777 |
import subprocess
import sys
import py
import _pytest
import pytest
MODSET = [
x
for x in py.path.local(_pytest.__file__).dirpath().visit("*.py")
if x.purebasename != "__init__"
]
@pytest.mark.parametrize("modfile", MODSET, ids=lambda x: x.purebasename)
def test_fileimport(modfile):
# this test ens... | txomon/pytest | testing/test_modimport.py | Python | mit | 930 | [
"VisIt"
] | ed1eeec8011debcf1233384af20b47e8991ee78809e142e12a1ac40f96d62173 |
import lrkit.canonical
from lrkit import Parser, Rule, rule, SnError
from sys import exit
specials = {
"*": "*",
"/": "/",
"%": "%",
"+": "+",
"-": "-",
"0": "0",
"(": "(",
")": ")",
",": ",",
}
rules = [
rule("Program", "Expr"),
rule("Pr... | cheery/lrkit | demo_raw_grammar.py | Python | mit | 1,529 | [
"VisIt"
] | b0a58b7d79f24525b8edbb262873350a182abc946686c72bacb24a76c8c24ed0 |
import tensorflow as tf
from .rbm import RBM
from .util import sample_bernoulli, sample_gaussian
class BGRBM(RBM):
def __init__(self, n_visible, n_hidden, sample_visible=False, sigma=1, **kwargs):
self.sample_visible = sample_visible
self.sigma = sigma
RBM.__init__(self, n_visible, n_hidd... | pandeydivesh15/AVSR-Deep-Speech | util/RBM/bgrbm.py | Python | gpl-2.0 | 2,242 | [
"Gaussian"
] | 9fca5810598c901f556f07a8dac8370154397e38babc0e74033052f7d8520d85 |
'''
Functions and classes to help build a Fedora Service.
'''
__all__ = ('client', 'json', 'tg1utils', 'tg2utils', 'widgets',
'identity', 'utils', 'visit')
| nirik/python-fedora | fedora/tg/__init__.py | Python | gpl-2.0 | 168 | [
"VisIt"
] | df5f7ebb603646712615fa3d94511ed1dc62ee7f60aca833677fd575e02d3dc2 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import warnings
import copy
from pymatgen.core.structure import Molecule
from pymatgen.analysis.graphs import MoleculeGraph
from monty.dev import requires
try:
import openbabel as ob
import pybel as p... | dongsenfo/pymatgen | pymatgen/io/babel.py | Python | mit | 13,034 | [
"Open Babel",
"Pybel",
"pymatgen"
] | 6226438000b2bc7a2df6efd5649c42f20e691d6f31858195c08b6beeee72da3f |
"""A component that provides a selection of implicit widgets
to be used by various modules.
"""
# Author: Suyog Dutt Jain <suyog.jain@aero.iitb.ac.in>
# Prabhu Ramachandran <prabhu at aero.iitb.ac.in>
# Copyright (c) 2009, Enthought, Inc.
# License: BSD Style.
import cPickle
from traits.api import (Instance, ... | liulion/mayavi | mayavi/components/implicit_widgets.py | Python | bsd-3-clause | 10,110 | [
"Mayavi",
"VTK"
] | 6a6ed9c41052e6e0d7aa40a086e61438b1c0347346490ff0c3db0d35d04e17b3 |
"""
@name: Modules/House/Family/Hue/_test/test_Hue_device.py
@author: D. Brian Kimmel
@contact: D.BrianKimmel@gmail.com
@copyright: (c) 2017-2018 by D. Brian Kimmel
@license: MIT License
@note: Created on Dec 18, 2017
@summary: Test
Passed all 2 tests - DBK - 2018-01-27
"""
from Modules.Core.Utilit... | DBrianKimmel/PyHouse | Project/src/Modules/House/Family/Hue/_test/test_Hue_device.py | Python | mit | 2,397 | [
"Brian"
] | 6393943a8b48ddf35975aff7db4559e62d82ace25da704c7a783e1d64e683c0b |
"""Additional docstring for the DErrno module."""
import textwrap
MODULE = 'DIRAC.TransformationSystem.Client.Transformation'
class CustomTransformation(object): # pylint: disable=too-few-public-methods
"""Add the ERRNO constants to the docstring automatically."""
def __init__(self):
"""Create a string co... | fstagni/DIRAC | docs/diracdoctools/CustomizedDocs/CustomTransformation.py | Python | gpl-3.0 | 1,596 | [
"DIRAC"
] | 40e68a82e7cda6cc05b8ccf7332b8f4a0e02f25c1d66dbb18953cc6c5cc9db91 |
#!/usr/bin/env python
import numpy as np
import math
def compute_kl(mean_1, log_prec_1, mean_2, log_prec_2):
"""
compute KL between two Gaussian distributions
"""
mean_1 = np.asarray(mean_1)
log_prec_1 = np.asarray(log_prec_1)
mean_2 = np.asarray(mean_2)
log_prec_2 = np.asarray(log_prec_2... | balajiln/mondrianforest | src/utils.py | Python | mit | 8,057 | [
"Gaussian"
] | c03de5ffa74fc6958969b0c330b558f22850e0b55c1dd14411fd863f011d281e |
#!/usr/bin/env python
from setuptools import setup, Command
import versioneer
commands = versioneer.get_cmdclass().copy()
class Trial(Command):
description = "run trial"
user_options = []
def initialize_options(self):
pass
def finalize_options(self):
pass
def run(self):
... | david415/foolscap | setup.py | Python | mit | 2,428 | [
"Brian"
] | 15ebf300e87eff2242a85feb006905772281bc4be676b565851b0bce8384f998 |
from six import print_ as xprint
from six.moves import input
import random
HANGMANPICS = ['''
+---+
| |
|
|
|
|
=========''', '''
+---+
| |
O |
|
|
|
=========''', '''
+---+
| |
O |
| |
|
|
=========''', '''
+---+
| |
O |... | Chennaipy/hangman | gallows.py | Python | bsd-2-clause | 5,109 | [
"MOOSE"
] | 96d16257195a7066330c851854f63bdb9c60d708129a0f47388fe41ab4240bcf |
#!usr/bin/env python
from numba import jit
import numpy as np
from scipy import sparse as sps
try:
from numba import jit, njit, prange
except:
njit = jit = lambda x: x
prange = xrange
from multiprocessing.pool import ThreadPool as Pool
from threading import Thread
#from Queue import Queue
from time import... | Rinoahu/fastclust | lib/deprecate/spmm.py | Python | gpl-3.0 | 15,349 | [
"VisIt"
] | 18f8df4315f07620fb6101092160c665ba8b51789a9ebda67d6d26d40eabf8a9 |
import deepchem as dc
import numpy as np
import tensorflow as tf
import deepchem.models.tensorgraph.layers as layers
from tensorflow.python.eager import context
from tensorflow.python.framework import test_util
class TestLayersEager(test_util.TensorFlowTestCase):
"""
Test that layers function in eager mode.
"""... | ktaneishi/deepchem | deepchem/models/tensorgraph/tests/test_layers_eager.py | Python | mit | 34,231 | [
"RDKit"
] | ef9b74fbd39c1e8bb15badb05f6a2ab6662ea3b04622ab306ef9c8713c7e0a91 |
# Version: 0.12
"""
The Versioneer
==============
* like a rocketeer, but for versions!
* https://github.com/warner/python-versioneer
* Brian Warner (modified by Florian Wilhelm and Felix Wick)
* License: Public Domain
* Compatible With: python2.6, 2.7, 3.2, 3.3, 3.4, and pypy
[![Build Status](https://travis-ci.org... | andsor/pydevs | versioneer.py | Python | apache-2.0 | 37,945 | [
"Brian"
] | be51df2046fa92b5d6aae768da40fe25b24f3855fb4654192e2239808cf2311a |
__package__ = 'archivebox'
import os
import sys
import shutil
import platform
from pathlib import Path
from datetime import date
from typing import Dict, List, Optional, Iterable, IO, Union
from crontab import CronTab, CronSlices
from django.db.models import QuerySet
from .cli import (
list_subcommands,
run_... | pirate/bookmark-archiver | archivebox/main.py | Python | mit | 50,857 | [
"VisIt"
] | 10d18430bdb01362c4d1e490b1dbd1eaf7cd071f83e0a74740851834178a92e6 |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
#
# home documentation build configuration file, created by
# sphinx-quickstart on Fri Mar 28 08:27:53 2014.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this
# autog... | d0ugal-archive/home | docs/source/conf.py | Python | bsd-3-clause | 10,676 | [
"VisIt"
] | 60225d43c5eaf04eee39eee3d5063b7fe1671e452d2e4eda0e5f26b75f2f7520 |
##############################################################################
# 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-simpleaffy/package.py | Python | lgpl-2.1 | 2,221 | [
"Bioconductor"
] | 1cfd6b92d4d5348273721cc1fb62157a46ce34fdaba54811e18aca47efec7740 |
"""
=================================
Plotting EEG sensors on the scalp
=================================
In this example, digitized EEG sensor locations are shown on the scalp.
"""
# Author: Eric Larson <larson.eric.d@gmail.com>
#
# License: BSD (3-clause)
import mne
from mne.viz import plot_alignment
from mayavi im... | adykstra/mne-python | examples/visualization/plot_eeg_on_scalp.py | Python | bsd-3-clause | 797 | [
"Mayavi"
] | 27e2c17c2fdc968ca4cfcc0156fe8ddc67b05a323f1901f28f4b350411f82f69 |
import astnode as ast
import visitor
import astprint
from parser import calvin_parse
from codegen import query, ReplaceConstants
class ExpandRules(object):
"""docstring for ExpandRules"""
def __init__(self, issue_tracker):
super(ExpandRules, self).__init__()
self.issue_tracker = issue_tracker
... | EricssonResearch/calvin-base | calvin/csparser/dscodegen.py | Python | apache-2.0 | 8,968 | [
"VisIt"
] | 4552b4ac2b49ef7d3f59d21d01a0f0f30a29c32df9c9749a4261916c9c113e23 |
# Copyright (c) 2008-2015 MetPy Developers.
# Distributed under the terms of the BSD 3-Clause License.
# SPDX-License-Identifier: BSD-3-Clause
r'''The Common Data Model (CDM) is a data model for representing a wide array of data. The
goal is to be a simple, universal interface to different datasets. This API is a Pytho... | deeplycloudy/MetPy | metpy/io/cdm.py | Python | bsd-3-clause | 13,161 | [
"NetCDF"
] | e24688be137b987918689a77b342a8a667ae6e292e2864eda77add39f811647f |
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