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# creates: bigpicture.pdf bigpicture.png
import os
from math import pi, cos, sin
import numpy as np
latex = r"""\documentclass[10pt,landscape]{article}
\usepackage[T1]{fontenc}
\usepackage[utf8]{inputenc}
\parindent=0pt
\pagestyle{empty}
%\usepackage{landscape}
\usepackage{pstricks-add,graphicx,hyperref}
\usepackage[... | qsnake/gpaw | doc/devel/bigpicture.py | Python | gpl-3.0 | 8,872 | [
"ASE",
"GPAW"
] | c6cae83bbc64c1dcdc0d42143ffdcb375fbe06401bcca51730769447a25667d9 |
#!/usr/bin/python
# -*- coding: utf-8
'''
This file is part of VetApp.
VetApp 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 ver... | mape90/VetApp | models/bill.py | Python | gpl-3.0 | 3,735 | [
"VisIt"
] | 2f7ae58b79335832a40c499885d44de20fd78907202c65f4b07b81c8d67149ae |
"""
Test for the dataset_manager.py module.
"""
# Author: Prabhu Ramachandran <prabhu@aero.iitb.ac.in>
# Copyright (c) 2008, Enthought, Inc.
# License: BSD Style.
import unittest
import numpy as N
from tvtk.api import tvtk
from mayavi.core.dataset_manager import DatasetManager
def make_data():
points = N.array(... | liulion/mayavi | mayavi/tests/test_dataset_manager.py | Python | bsd-3-clause | 7,371 | [
"Mayavi",
"VTK"
] | 90927b7fd9e0740194da32251b6c6cfbffabfabdbd6772cb6d9d5a399a97db96 |
import os
import ast
import xml.dom.minidom
#import xml.dom.ext # python 2.5 and later
import xml.etree.ElementTree as ET
#from xml.etree.ElementTree import Element, SubElement, Comment, parse
import numpy as np
import re
try:
from StringIO import StringIO
except ImportError:
from io import StringIO
class VTK... | frRoy/Heat | heat/vtktools.py | Python | bsd-2-clause | 11,919 | [
"VTK"
] | 3433d4db8f9d45bf8c62bef905c6d061ece7577fc1864047357387f92f0343cb |
########################################################################
# $HeadURL$
# File : Watchdog.py
# Author: Stuart Paterson
########################################################################
""" The Watchdog class is used by the Job Wrapper to resolve and monitor
the system resource consumption. ... | avedaee/DIRAC | WorkloadManagementSystem/JobWrapper/Watchdog.py | Python | gpl-3.0 | 32,902 | [
"DIRAC"
] | 5c52d44904e571bff63823a30420c95b30948107e344c42b13fdd77f5ca77e25 |
# class generated by DeVIDE::createDeVIDEModuleFromVTKObject
from module_kits.vtk_kit.mixins import SimpleVTKClassModuleBase
import vtk
class vtkGraphWriter(SimpleVTKClassModuleBase):
def __init__(self, module_manager):
SimpleVTKClassModuleBase.__init__(
self, module_manager,
vtk.vt... | nagyistoce/devide | modules/vtk_basic/vtkGraphWriter.py | Python | bsd-3-clause | 472 | [
"VTK"
] | a31bd40f545554e9f4387f465695b3253e40289627a15697df2bf35c86d44c1d |
#
# @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/qcdb/basislistother.py | Python | lgpl-3.0 | 32,066 | [
"ORCA",
"Psi4"
] | 0223939dfd0937573a9219d46c1f2855188ca378e4bbf8e38b94103d6411b37f |
# -*- coding: utf-8 -*-
# coding: utf-8
# emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
# vi: set ft=python sts=4 ts=4 sw=4 et:
import os
from shutil import rmtree
from tempfile import mkdtemp
from nipype.testing import (assert_equal, assert_raises, skipif,
assert... | carolFrohlich/nipype | nipype/algorithms/tests/test_mesh_ops.py | Python | bsd-3-clause | 2,901 | [
"VTK"
] | ffc73f0ae9751135d26aa064e634df804fbba8dc2924bc6cd316c32288031a92 |
from astropy.nddata import support_nddata, NDDataRef
from acalib import core
import numpy as np
from acalib.upi.axes import opening, features, axes_units
@support_nddata
def noise_level(data,mask=None,unit=None):
"""
Compute the RMS of data.
Parameters
----------
data : (M,N) nump... | GasparCorrea/acalib | acalib/upi/flux.py | Python | gpl-3.0 | 5,731 | [
"Gaussian"
] | 9703c4cc72353501e2e77022c272e213c635e147f85e8a96808d31c2bc19cdfc |
# This script will calculate Shannon entropy from a MSA.
# Dependencies:
# Biopython, Matplotlib, Math
"""
Shannon's entropy equation (latex format):
H=-\sum_{i=1}^{M} P_i\,log_2\,P_i
Entropy is a measure of the uncertainty of a probability distribution (p1, ..... , pM)
https://stepic.org/lesson/Scoring-... | jrjhealey/bioinfo-tools | Shannon.py | Python | gpl-3.0 | 6,290 | [
"Biopython"
] | 2d7821e222987e7d0affbc7d08caaa90190f82d6b39adbb052dacf42a6665abf |
#!/usr/bin/env python
# emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
# vi: set ft=python sts=4 ts=4 sw=4 et:
from __future__ import print_function # Python 2/3 compatibility
__doc__ = """
Example of a demo that fits a Bayesian Gaussian Mixture Model (GMM)
to a dataset.
Variational bayes and ... | bthirion/nipy | examples/algorithms/bayesian_gaussian_mixtures.py | Python | bsd-3-clause | 2,309 | [
"Gaussian"
] | 23e347cfc54c5a9f01553c73a4ccc335850e67e779614a15f5abdc01effda49e |
# Open SoundControl for Python
# Copyright (C) 2002 Daniel Holth, Clinton McChesney
#
# 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 Software Foundation; either
# version 2.1 of the License, or (at your opti... | arlowhite/kivy | kivy/lib/osc/OSC.py | Python | mit | 11,408 | [
"VisIt"
] | 9f51413c27d5491d922a4ec48cd41cdf8a91a3c8a93a0b0892f8ef622e89d35e |
# -----------------------------------------------------------------------------
# User configuration
# -----------------------------------------------------------------------------
convert_dir = [ '/Users/seb/Desktop/vtk_volume_v3/0_90', '/Users/seb/Desktop/vtk_volume_v3/0_0']
# --------------------------------------... | Kitware/tonic-data-generator | scripts/vtk/tests/convert-stack-to-sorted.py | Python | bsd-3-clause | 504 | [
"VTK"
] | 5b660b1a6797d35d08532477ca4d326f110d94c8e37ebc8f1e9f8aa9b7ab9c19 |
"""Provide the :class:`.UserSubreddit` class."""
import inspect
from typing import TYPE_CHECKING, Dict, Union
from warnings import warn
from ...util.cache import cachedproperty
from .subreddit import Subreddit, SubredditModeration
if TYPE_CHECKING: # pragma: no cover
import praw
class UserSubreddit(Subreddit):... | praw-dev/praw | praw/models/reddit/user_subreddit.py | Python | bsd-2-clause | 10,801 | [
"VisIt"
] | f40427f6f0938be03aaa77efd035678fd2e83b231c26d05828b5cd1f1e734a54 |
"""
Copyright 2013 Steven Diamond
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 in writing, software... | SteveDiamond/cvxpy | examples/expr_trees/1D_convolution.py | Python | gpl-3.0 | 2,013 | [
"Gaussian"
] | d0657dcbacc3c4ab106141070b4bf13622a219e9c4e1ae74849b6d5f4740735f |
"""User-friendly public interface to polynomial functions. """
from sympy.core import (
S, Basic, Expr, I, Integer, Add, Mul, Dummy, Tuple
)
from sympy.core.sympify import (
sympify, SympifyError,
)
from sympy.core.decorators import (
_sympifyit,
)
from sympy.polys.polyclasses import (
DMP, ANP, DMF... | Cuuuurzel/KiPyCalc | sympy_old/polys/polytools.py | Python | mit | 139,809 | [
"Gaussian"
] | bfd8e28d71c17d81447212f953c25e93664bb27a28dc74618a8cb022782eaa4e |
#!/usr/bin/env python
# Copyright (c) 2011-2015 Rusty Wagner
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the License, or
# (at your option) any later version.
#
# This ... | spthaolt/binaryninja-python | binja.py | Python | gpl-2.0 | 37,304 | [
"VisIt"
] | e5dabfb337a46c57425f0502c8726ec72618515253b14896d2ef984a46ff09ce |
# -*- coding: utf-8 -*-
import ast
import base64
import csv
import glob
import itertools
import logging
import operator
import datetime
import hashlib
import os
import re
import simplejson
import time
import urllib
import urllib2
import urlparse
import xmlrpclib
import pdb
import zlib
from xml.etree import ElementTree... | Capriatto/web | controllers/main.py | Python | agpl-3.0 | 68,836 | [
"VisIt"
] | f183c9ac11b79e95d15afdc43d823d1a57702b7f72b10f2872c4dbdfc224dda3 |
#!python
from __future__ import print_function # 2.X/3.X compatibility
class SkipObject:
def __init__(self, wrapped): # Save item to be used
self.wrapped = wrapped
def __iter__(self):
return SkipIterator(self.wrapped) # New iterator each time
class... | simontakite/sysadmin | pythonscripts/learningPython/skipper_2x.py | Python | gpl-2.0 | 1,339 | [
"VisIt"
] | 2fbcd1b71d72e4f063003f473293892a26ac26f5fc96c9b385502ec32e596baa |
import platform
import random
import time
from selenium import webdriver
from selenium.webdriver.common.by import By
from selenium.webdriver.support.ui import WebDriverWait # available since 2.4.0
from selenium.webdriver.support import expected_conditions as EC # available since 2.26.0
import SearchDistribute.Enums
imp... | ARDivekar/SearchDistribute | SearchDistribute/ProxyBrowser.py | Python | mit | 22,778 | [
"VisIt"
] | af4bcb7cc180e763ccb017d6e6eecda22cc4db5960b816709801c70eb2357439 |
# Copyright 2018 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/math/diag_jacobian.py | Python | apache-2.0 | 10,089 | [
"Gaussian"
] | 3b012055d73d16f9d6887963ca179faf326c6f01bbb644db2e7ff69e4fda2912 |
"""
Copyright 2020 Google LLC
Licensed under the Apache License, Version 2.0 (the "License");
you may not use this file except in compliance with the License.
You may obtain a copy of the License at
https://www.apache.org/licenses/LICENSE-2.0
Unless required by applicable law or agreed to in writing, software
di... | google/report2bq | application/classes/sa360_report_validation/visit.py | Python | apache-2.0 | 1,861 | [
"VisIt"
] | 8109e576861fa9802c76c0b2009d59eedf0cdb7a7f8008edde3f5756e9e5ac08 |
# -*- coding: utf-8 -*-
from __future__ import unicode_literals
import time
# !! This is the configuration of Nikola. !! #
# !! You should edit it to your liking. !! #
# ! Some settings can be different in different languages.
# ! A comment stating (translatable) is used to denote those.
# ! There are two ways to... | laurentperrinet/elasticite | conf.py | Python | mit | 44,778 | [
"VisIt"
] | 2712b8d2eea396b863c7106bf38ad8091f3e3e1fcde1d6bdc199cad0fc0d5530 |
#!/usr/bin/env python3
'''
Agent.py
Author: Rafael Zamora
Updated: 5/16/17
'''
# Import Packages
import deepdoomde
import json, sys, os
import vizdoom as vzd
import itertools as it
from contextlib import contextmanager
import numpy as np
from tqdm import tqdm
from random import sample
import keras.backend as K
K.set_... | rz4/DeepDoom-DE | src/deepdoomde/Agent.py | Python | mit | 25,251 | [
"Gaussian"
] | fe7400bc6c14ee4a0897daaa8958860550cd06ec7c853f0deded91b36608366d |
from volatility import debug
from volatility.renderers.basic import Renderer
__author__ = "gleeda"
try:
from openpyxl.workbook import Workbook
from openpyxl.writer.excel import ExcelWriter
from openpyxl.cell import get_column_letter
from openpyxl.styles import Color, Fill, Style, PatternFill, Border, ... | Cisco-Talos/pyrebox | volatility/volatility/renderers/xlsx.py | Python | gpl-2.0 | 1,857 | [
"VisIt"
] | a0417c5709cb2da4c117cf732ac2a91723446ffbcad1d24ebb43dda8346939d7 |
import logging
import networkx as nx
import numpy as np
import os
from deepchem.utils.dependencies import pdbfixer
from deepchem.utils.dependencies import simtk
from rdkit import Chem
from rdkit.Chem import AllChem
from rdkit.Chem import rdmolops
try:
from StringIO import StringIO
except ImportError:
from io imp... | rbharath/deepchem | deepchem/utils/rdkit_util.py | Python | mit | 11,626 | [
"OpenMM",
"RDKit"
] | 12d8a43d988a96109b00b5785aed459f86463bcee4d3906bbe1695bc2f412ff0 |
#!/usr/bin/env python
import vtk
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
arrayType = ['Bit', 'Char', 'Double', 'Float', 'Int', 'Long', 'Short',\
'UnsignedChar', 'UnsignedInt', 'UnsignedLong', 'UnsignedShort']
for array in arrayType:
print(array + ' array')
vtkClass = 'vtk' ... | HopeFOAM/HopeFOAM | ThirdParty-0.1/ParaView-5.0.1/VTK/Common/Core/Testing/Python/TestArrays.py | Python | gpl-3.0 | 1,468 | [
"VTK"
] | f650950ac36db61425ecaaf93d7aa09a50d590d474c9152a626e7c1631e95605 |
class Tree():
def __init__(self, root):
self.root = root
class BinaryNode():
def __init__(self, data, left = None, right = None):
self.data = data
self.left = left
self.right = right
self.visited = False
class BinaryNodeParent():
def __init__(self, data, left = None... | howardwkim/ctci | Chapter4_Trees_And_Graphs/Tree.py | Python | bsd-2-clause | 1,548 | [
"VisIt"
] | 35130ff00e9dfe1dc8d6eac27dfea4b875c42e07848295bb2b0cc95eadc31138 |
""" Methods related to offsets"""
import numpy as np
import pandas
from astropy import units
from astropy.coordinates import SkyCoord
from IPython import embed
def angular_offset(frb, galaxy, nsigma=5., nsamp=2000,
gal_sig=None):
"""
Warning: All calculations in arcsec -- Do not use for... | FRBs/FRB | frb/galaxies/offsets.py | Python | bsd-3-clause | 4,401 | [
"Galaxy",
"Gaussian"
] | ea844dd404af7b19e81a8e2918e02fa0178e498177855552228256ac748d271a |
from typing import Any
from django.db import ProgrammingError
from confirmation.models import generate_realm_creation_url
from zerver.lib.management import CommandError, ZulipBaseCommand
from zerver.models import Realm
class Command(ZulipBaseCommand):
help = """
Outputs a randomly generated, 1-time-use link... | showell/zulip | zerver/management/commands/generate_realm_creation_link.py | Python | apache-2.0 | 1,419 | [
"VisIt"
] | 945d38a25035c534fa78b8ab19b63e848c3d96c1116de09463bf3e29f8217196 |
# -*- coding: utf-8 -*-
import glob
import os
import json
import textwrap
from distutils.version import LooseVersion
import setuptools
import pytest
from . import reset_setup_helpers, reset_distutils_log # noqa
from . import run_cmd, run_setup, testpackage, create_testpackage
from ..utils import silence
TEST_SE... | dpshelio/astropy-helpers | astropy_helpers/tests/test_ah_bootstrap.py | Python | bsd-3-clause | 15,082 | [
"VisIt"
] | d2ba186ad3ae71a23ddcf65ef10ee3cb973c1bd8c86f91b718fab84cf0069a5f |
from gbf_bot.casino import Poker
class TestPoker:
def test_play(self):
# two pair
poker = Poker()
poker.new_game(("S2", "D2", "H3", "C3", "C5"))
poker.calculate()
assert poker.hold_cards_index == [0, 1, 2, 3]
# 3 kind
poker.new_game(("S2", "D2", "H2", "D4", ... | mythnc/gbf-bot | tests/test_casino.py | Python | mit | 6,074 | [
"CASINO"
] | 0e8236f604bcf2b586a9cacfc7d5a16f48424c5b65fe8d61569295d40b7e8acf |
from setuptools import setup
setup(
name="datename",
version="0.1",
description="This package is designed to organize files by modification date.",
url="https://github.com/tekemperor/datename",
author="Brian Lindsay",
author_email="tekemperor@gmail.com",
license="MIT",
packages=["datena... | tekemperor/datename | setup.py | Python | mit | 350 | [
"Brian"
] | a221304c6cd4e4bb99de9798ff77d09cf86874fdf2bed2a7ccc91eac4a31b198 |
# -*- coding: utf-8 -*-
import glob
import numpy as np
import matplotlib as mpl
import matplotlib.pyplot as plt
from matplotlib.animation import FuncAnimation
from itertools import izip, chain, permutations, product
from collections import OrderedDict
from mapos import mapBase, fieldplot, windplot, returnbounds, round_... | Chilipp/nc2map | _maps_old.py | Python | gpl-2.0 | 61,976 | [
"NetCDF"
] | 316742ffa4b9dd9be49d33451e0549c6ee5b08b91b7a3ae3d24059463d13b98b |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2012 Async Open Source <http://www.async.com.br>
## All rights reserved
##
## This program is free software; you can redistribute it and/or modify
## it under the terms of the GNU General Public License as published by
## the Free Software Foundati... | andrebellafronte/stoq | stoqlib/gui/test/test_purchaseitemeditor.py | Python | gpl-2.0 | 1,536 | [
"VisIt"
] | fa82a3de4b5b4f31852f8ef25f6145610de94f8ecd5a14f2f0f53f865ce72d91 |
"""
=========================================
Density Estimation for a Gaussian mixture
=========================================
Plot the density estimation of a mixture of two Gaussians. Data is
generated from two Gaussians with different centers and covariance
matrices.
"""
import numpy as np
import matplotlib.pyp... | RPGOne/Skynet | scikit-learn-0.18.1/examples/mixture/plot_gmm_pdf.py | Python | bsd-3-clause | 1,521 | [
"Gaussian"
] | 45a5e12b4181671e051130e26fcd83d072a7e60d86749a2fe108e7b367b9a06a |
#!/usr/bin/python
# -*- coding: utf-8 -*-
"""
Copyright 2015 Ericsson AB
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 l... | EricssonResearch/monad | OpenStreetMap/routeGenerator.py | Python | apache-2.0 | 6,615 | [
"VisIt"
] | 1147e84380d33836400150c1bdbe31560b50bd6b0be88bda612db273fbf2e920 |
#!/usr/bin/env python
__author__ = "Greg Caporaso"
__copyright__ = "Copyright 2011, The QIIME Project"
__credits__ = ["Rob Knight", "Greg Caporaso", "Kyle Bittinger", "Jens Reeder",
"William Walters", "Jose Carlos Clemente Litran",
"Adam Robbins-Pianka", "Jose Antonio Navas Molina"]
__lice... | wasade/qiime | qiime/pick_otus.py | Python | gpl-2.0 | 82,387 | [
"BLAST"
] | 90e5caeec3c41ac208425e67da3f6bfeb5a79dc3e62cb177fa2ee1857f2871e9 |
# -*- coding: utf-8 -*-
#
# Copyright 2008 - 2013 Brian R. D'Urso
#
# This file is part of Python Instrument Control System, also known as Pythics.
#
# Pythics 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, e... | LunarLanding/Pythics | pythics/libcontrol.py | Python | gpl-3.0 | 4,477 | [
"Brian"
] | 9e99deee9ee3b4a6642fe5eb1b254a886801630b33be54e30c0cb0a5b4cd2b6f |
from django.conf.urls import url
from crystal_dashboard.dashboards.crystal.nodes import views
urlpatterns = [
url(r'^$', views.IndexView.as_view(), name='index'),
url(r'^update/(?P<server>[^/]+)/(?P<node_id>[^/]+)/$', views.UpdateNodeView.as_view(), name='update')
]
| Crystal-SDS/dashboard | crystal_dashboard/dashboards/crystal/nodes/urls.py | Python | gpl-3.0 | 276 | [
"CRYSTAL"
] | f8c0ce7d9fdb76c48f2898359dfe041134280e11b72f4d87d43519d5d2fb5e79 |
# Copyright (c) 2012, James Hensman
# Licensed under the BSD 3-clause license (see LICENSE.txt)
from .posterior import Posterior
from ...util.linalg import jitchol, tdot, dtrtrs, dpotri, pdinv
from ...util import diag
import numpy as np
from . import LatentFunctionInference
log_2_pi = np.log(2*np.pi)
class FITC(Laten... | ptonner/GPy | GPy/inference/latent_function_inference/fitc.py | Python | bsd-3-clause | 3,137 | [
"Gaussian"
] | b4d4b5e24b904f01fb44a43a2008e68b5895dd7eb0514c98b4f7941e1e660c27 |
"""Miscellaneous utility functions
This program is part of "Dive Into Python", a free Python book for
experienced programmers. Visit http://diveintopython.org/ for the
latest version.
"""
__author__ = "Mark Pilgrim (mark@diveintopython.org)"
__version__ = "$Revision: 1.3 $"
__date__ = "$Date: 2004/05/05 21:57:20 $"
... | tapomayukh/projects_in_python | sandbox_tapo/src/refs/diveintopython-pdf-5.4/diveintopython-5.4/py/kgp/toolbox.py | Python | mit | 1,800 | [
"VisIt"
] | 69692c1758e3f3a6095672f675a5cfd7abd6fa51e593bfaba3091c747f07908a |
##############################################################################
# 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... | krafczyk/spack | var/spack/repos/builtin/packages/openbabel/package.py | Python | lgpl-2.1 | 3,329 | [
"Open Babel",
"Pybel"
] | 1a3e4a92c33f67fd93c8ad14174af2015d3e50153fbb85df3e223501e7ab74fe |
#!/usr/bin/python
# (c) 2013, Cove Schneider
# (c) 2014, Joshua Conner <joshua.conner@gmail.com>
# (c) 2014, Pavel Antonov <antonov@adwz.ru>
#
# 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... | jordiclariana/ansible | lib/ansible/modules/cloud/docker/_docker.py | Python | gpl-3.0 | 75,051 | [
"VisIt"
] | 93ee3f5ab06bfde62a1c5c3df0ead98154d8ad0236f93a7adf8097c9ea735499 |
# Copyright 2017 Google Inc.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, ... | TimoCrafter/aiyprojects-raspbian | src/action.py | Python | apache-2.0 | 8,978 | [
"Galaxy"
] | c131aa65207c103fbd5259b35732ba6e74fa219b11c4c87a5c9385ba240d600f |
#!/usr/bin/env python2
# -*- coding: utf-8 -*-
# tree.py
#
# Written by Doug Dahms
#
# Prints the tree structure for the path specified on the command line
# http://stackoverflow.com/questions/9727673/list-directory-tree-structure/9728478#9728478
import os
from os import listdir, sep
from os.path import abspath, basen... | cibinmathew/cbn_gits | misc/filesystem-to-tree.py | Python | gpl-3.0 | 2,614 | [
"Galaxy"
] | 1f6e4181fba02c77418151cc68f9504c6311b2e0892a7cf271af408292734c31 |
# lintory - keep track of computers and licenses
# Copyright (C) 2008-2009 Brian May
#
# 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 ... | VPAC/lintory | lintory/webs.py | Python | gpl-3.0 | 24,518 | [
"Brian"
] | 36e800079d011e53b122178130d465f5ca4adb0b77062e1dc996849c7d1a555c |
#!/usr/bin/env python
###############################################################################
#
# SageMathCloud: A collaborative web-based interface to Sage, IPython, LaTeX and the Terminal.
#
# Copyright (C) 2014, William Stein
#
# This program is free software: you can redistribute it and/or modify
# ... | evelynmitchell/smc | src/scripts/test_install.py | Python | gpl-3.0 | 2,775 | [
"Brian",
"NEURON"
] | 29041f75f89cc03ac770b2964f652679668377e85f077172e7ed5a1b2ad009b3 |
from octopus.plugins.plugin import OctopusPlugin
class DataDependenceCreator(OctopusPlugin):
def __init__(self, executor):
super().__init__(executor)
self._pluginname = 'datadependence.jar'
self._classname = 'bjoern.plugins.datadependence.DataDependencePlugin'
def __setattr__(self, ke... | octopus-platform/bjoern | python/bjoern-tools/bjoern/plugins/data_dependence.py | Python | gpl-3.0 | 465 | [
"Octopus"
] | 4c464ee9dcca0b1e33d435525affcb1f8043df18db18364572a3e2073717896a |
import collections
import logging
import os
import pyfaidx
import pysam
import sys
from svviz import annotations
from svviz import gff
from svviz import genomesource
def nameFromBamPath(bampath):
return os.path.basename(bampath).replace(".bam", "").replace(".sorted", "").replace(".sort", "").replace(".", "_").rep... | gatoravi/svviz | src/svviz/datahub.py | Python | mit | 4,937 | [
"pysam"
] | ec46a4a4d123a31c74d5a473059f30ceb5134054785c6ad9a9a4311da86824be |
#!/usr/bin/env python
"""
try to do ref-directed assembly for paired reads in a region of a .bam file
"""
import pysam,argparse,subprocess,sys,shutil,os,re
import parseamos
import datetime
from uuid import uuid4
def now():
return str(datetime.datetime.now())
def velvetContigs(dir):
assert os.path.exists(... | MischaLundberg/bamsurgeon | bamsurgeon/asmregion.py | Python | mit | 8,714 | [
"pysam"
] | 198e2c8f6461eec86dfb0ab68f3ea60569c1058275793c12736149046c155b24 |
from test import support
import unittest
import codecs
import sys, _testcapi, io
class Queue(object):
"""
queue: write bytes at one end, read bytes from the other end
"""
def __init__(self, buffer):
self._buffer = buffer
def write(self, chars):
self._buffer += chars
def read(s... | MalloyPower/parsing-python | front-end/testsuite-python-lib/Python-3.2/Lib/test/test_codecs.py | Python | mit | 63,565 | [
"FEFF"
] | a7d40c1338ff736225bc4bf1e3eea159a34fb9f5ab9729f9a2903628cfb6d7f8 |
from seleniumbase import BaseCase
class MyTestClass(BaseCase):
def test_basic(self):
self.open("https://store.xkcd.com/search")
self.type('input[name="q"]', "xkcd book")
self.click('input[value="Search"]')
self.assert_text("xkcd: volume 0", "h3")
self.open("https://xkcd.co... | mdmintz/SeleniumBase | examples/my_first_test.py | Python | mit | 5,669 | [
"VisIt"
] | 9fca9e1c2888ea6e4c5642432f7e00bdaf47c0401feae779ebbfbda5191771f9 |
# ----------------------------------------------------------------------------
# Copyright (c) 2016-2020, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file LICENSE, distributed with this software.
# ------------------------------------------------... | qiime2-plugins/feature-table | q2_feature_table/_summarize/_visualizer.py | Python | bsd-3-clause | 11,251 | [
"BLAST"
] | de7bbabe77f571145bfb043201fb5bfebde1c411c6dc0474aa4041758600a185 |
#!/usr/bin/env python
# Processes uploads from the user.
# WARNING: Changes in this tool (particularly as related to parsing) may need
# to be reflected in galaxy.web.controllers.tool_runner and galaxy.tools
from __future__ import print_function
import errno
import os
import shutil
import sys
from json import dump, l... | lappsgrid-incubator/GalaxyMods | tools/data_source/upload.py | Python | apache-2.0 | 13,428 | [
"Galaxy"
] | 37ea0283bce2f26e23cb7db33dbabd2a0ec6bc0ffc26099777025ae476adb900 |
# !usr/bin/env python
# -*- coding: utf-8 -*-
#
# Licensed under a 3-clause BSD license.
#
# @Author: Brian Cherinka
# @Date: 2017-08-07 11:38:53
# @Last modified by: Brian Cherinka
# @Last Modified time: 2017-08-30 10:37:04
from __future__ import print_function, division, absolute_import
import pytest
SkyQuery_T... | havok2063/SciScript-Python | python/sciserver/tests/test_skyquery.py | Python | apache-2.0 | 3,894 | [
"Brian"
] | db8e3a7c3be901e7b4189a560d70942b191f7d1da7c2ba599b8d4963c85204a5 |
import time
import miasm2.expression.expression as m2_expr
from miasm2.arch.x86.arch import mn_x86, deref_mem_ad, ParseAst, ast_int2expr, \
base_expr, rmarg, print_size
from miasm2.arch.x86.sem import ir_x86_16, ir_x86_32, ir_x86_64
from miasm2.core.bin_stream import bin_stream_str
for s in ["[EAX]",
"[0... | stephengroat/miasm | test/arch/x86/arch.py | Python | gpl-2.0 | 87,784 | [
"VisIt"
] | a721ac95c7481d574dfef13c14d32a78d69a548af0bc053580d258e647413c48 |
from mumax2 import *
from math import *
from mumax2_geom import *
# Test for LLB with 2TM
# Ni, just like in PRB 81, 174401 (2010)
Nx = 64
Ny = 64
Nz = 4
sX = 320-9
sY = 320e-9
sZ = 20e-9
hsX = 0.5 * sX
hsY = 0.5 * sY
hsZ = 0.5 * sZ
csX = sX/Nx
csY = sY/Ny
csZ = sZ/Nz
setgridsize(Nx, Ny, Nz)
setcellsize(csX, csY,... | mumax/2 | tests/heat-demag-simple.py | Python | gpl-3.0 | 2,740 | [
"Gaussian"
] | 0077b9725e534a172a4e820633070aa8c68a40b760c0b28d77c60d0675f68e93 |
# -*- coding: utf-8
# pylint: disable=line-too-long
"""
Classes for pan operations.
anvi-pan-genome is the default client using this module
"""
import os
import json
import math
import copy
import multiprocessing
import pandas as pd
from itertools import chain
import anvio
import anvio.utils as utils
import ... | merenlab/anvio | anvio/panops.py | Python | gpl-3.0 | 53,339 | [
"BLAST"
] | acc1218ec7590aa5441302ad0514ff74dce532a45d0810970a8f831144cc62c3 |
#!/usr/bin/env python
# Standard packages
import sys
import argparse
# Third-party packages
from toil.job import Job
# Package methods
from ddb import configuration
from ddb_ngsflow import gatk
from ddb_ngsflow import annotation
from ddb_ngsflow import pipeline
from ddb_ngsflow.align import bwa
from ddb_ngsflow.vari... | dgaston/ddb-ngsflow-scripts | workflow-var_annotate_exome_multi_lib.py | Python | mit | 1,703 | [
"BWA"
] | 963fab7b9f6465055a081bb5820ed185cb85d1db22052c7d4a13d0ae8816f533 |
# Copyright 2014 the National Renewable Energy Laboratory
#
# 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 ... | NREL/OpenWARP | source/automated_test/bemio/mesh_utilities/mesh.py | Python | apache-2.0 | 34,776 | [
"ParaView",
"VTK"
] | ba648f0b336a40b8233eaa874d93b8ef46865f5ade7f98a1961420efbcdcc6f3 |
# Copyright 2016 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | ghchinoy/tensorflow | tensorflow/python/autograph/converters/list_comprehensions.py | Python | apache-2.0 | 2,295 | [
"VisIt"
] | 0097204929dc658d918c5d8fb52f3061dd28308432fe092d0fe27eefe55d4136 |
# coding: utf-8
"""
Vericred API
Vericred's API allows you to search for Health Plans that a specific doctor
accepts.
## Getting Started
Visit our [Developer Portal](https://developers.vericred.com) to
create an account.
Once you have created an account, you can create one Application for
Production and an... | vericred/vericred-python | vericred_client/models/request_providers_search.py | Python | apache-2.0 | 20,407 | [
"VisIt"
] | d7aea5df65d10df34236477096363c094055844e8827d991bd2de91e644a3c4f |
import sys
import os.path
#sys.path.insert(0, '/home/andy/theano/tool_examples/theano-lstm-0.0.15')
from theano_lstm import Embedding, LSTM, RNN, StackedCells, Layer, create_optimization_updates, masked_loss
from utilities import *
import dill
import argparse
#import cPickle
import pickle
import numpy
from collections... | darongliu/Lstm_Turing_LM | lstm-neural-turing-machines-lm/v2/lm_v4.py | Python | mit | 25,410 | [
"NEURON"
] | 1801ac8cbd2b0800a583fff50e0763d8896732aa7a7cabb1324a65b26995ef4b |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
Module for graph representations of crystals.
"""
import warnings
import subprocess
import numpy as np
import os.path
import copy
from itertools import combinations
from pymatgen.core import Structure, La... | tschaume/pymatgen | pymatgen/analysis/graphs.py | Python | mit | 114,552 | [
"CRYSTAL",
"Jmol",
"pymatgen"
] | 4b061e4495e089334dcb8afe38f63423f0d47eabcaf7997592c0efa0e83f9707 |
"""Python test discovery, setup and run of test functions."""
import enum
import fnmatch
import inspect
import itertools
import os
import sys
import types
import warnings
from collections import Counter
from collections import defaultdict
from functools import partial
from pathlib import Path
from typing import Any
fro... | nicoddemus/pytest | src/_pytest/python.py | Python | mit | 64,390 | [
"VisIt"
] | 86419a4756c91e8690585ab06b2b78781506965d1b7202f53f49c5309fc19fb4 |
#!/usr/bin/python
#
# Created on Aug 25, 2016
# @author: Gaurav Rastogi (grastogi@avinetworks.com)
# Eric Anderson (eanderson@avinetworks.com)
# module_check: supported
# Avi Version: 17.1.1
#
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the te... | Tatsh-ansible/ansible | lib/ansible/modules/network/avi/avi_gslb.py | Python | gpl-3.0 | 5,306 | [
"VisIt"
] | cf4501665b6f5c0d24a00208b248ce1ef278a273c065e0533f4fac0f54e90d7c |
# -*- coding: utf-8 -*-
#!/usr/bin/env python
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2007 Donald N. Allingham
# Copyright (C) 2007 Johan Gonqvist <johan.gronqvist@gmail.com>
# Copyright (C) 2007-2009 Gary Burton <gary.burton@zen.co.uk>
# Copyright (C) 2007-2009 Stephane Charet... | prculley/gramps | gramps/plugins/webreport/thumbnail.py | Python | gpl-2.0 | 10,925 | [
"Brian"
] | 29194b5dbc63a9262711185c5ff74ab4eb2bad31e964f8712987b03b94ca2438 |
"""
"""
from __future__ import print_function
import numpy
from numpy import where, array, sqrt, exp, log, linspace, zeros
from numpy import isfinite, median
import ngmix
from ngmix import Observation
from .generic import srandu, PSFFailure, GalFailure
from ngmix.gexceptions import GMixRangeError
class Bootstrappe... | esheldon/great3 | great3/bootstrapper.py | Python | gpl-2.0 | 31,933 | [
"Galaxy",
"Gaussian"
] | a37761e90fa543ae69fc39322be801b7a25e0ac9551d4d985598d76b10b40e62 |
# Alan Richardson (Ausar Geophysical)
# 2017/01/31
import numpy as np
import scipy.signal
import pandas as pd
from sklearn import preprocessing, metrics
from sklearn.neighbors import KNeighborsClassifier, KNeighborsRegressor
from sklearn.base import clone
from matplotlib import pyplot as plt
import scipy.optimize
from... | seg/2016-ml-contest | ar4/ar4_submission3.py | Python | apache-2.0 | 27,730 | [
"Gaussian"
] | 78e444f068da0dd0cd32758698d05c3aca53df71057c4b1f42bf733f57d006ea |
import Constants
import subprocess
import traceback
import os
import glob
import h5py
import StringIO
import scipy.misc
import binascii
import numpy as np
from PIL import Image
import os.path
from shutil import copyfile
# XRF JOB ARGS KEYS
JOB_IS_LIVE_JOB = 'Is_Live_Job' # INTEGER
JOB_STANDARDS = 'Standards' # TEXT... | aglowacki/Taskington | modules/xrf_maps.py | Python | mit | 5,920 | [
"NetCDF"
] | a72fdec6489237bf9b958d34b951d3bb4db4ef020ba25b6485c69b014e5ed687 |
#
# gPrime - A web-based genealogy program
#
# Copyright (C) 2008 Brian G. Matherly
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at your option)... | sam-m888/gprime | gprime/plug/_export.py | Python | gpl-2.0 | 2,810 | [
"Brian"
] | b5a3a28221f8f8556243e992982e37bdcade876c01b9515ff28a6bf02ada7c09 |
from frappe import _
def get_data():
return {
'heatmap': True,
'heatmap_message': _('This is based on transactions against this Customer. See timeline below for details'),
'fieldname': 'customer',
'non_standard_fieldnames': {
'Payment Entry': 'party',
'Quotation': 'party_name',
'Opportunity': 'party... | frappe/erpnext | erpnext/selling/doctype/customer/customer_dashboard.py | Python | gpl-3.0 | 1,081 | [
"VisIt"
] | bbde900e534b2a4624341aad9e1d62ba90f34e067c994067703f1d1dda23c165 |
# ammoInfluenceCapNeed
#
# Used by:
# Items from category: Charge (465 of 899)
# Charges from group: Frequency Crystal (185 of 185)
# Charges from group: Hybrid Charge (209 of 209)
type = "passive"
def handler(fit, module, context):
# Dirty hack to work around cap charges setting cap booster
# injection amoun... | Ebag333/Pyfa | eos/effects/ammoinfluencecapneed.py | Python | gpl-3.0 | 528 | [
"CRYSTAL"
] | a6b490b1d7f7d430f2f1a0af980abccad5d4488dac4861ded8d82826ffab2412 |
"""
This is a DIRAC WMS administrator interface.
"""
__RCSID__ = "$Id$"
from DIRAC import gConfig, S_OK, S_ERROR
from DIRAC.Core.DISET.RequestHandler import RequestHandler
from DIRAC.ConfigurationSystem.Client.Helpers.Registry import getUsernameForDN
from DIRAC.WorkloadManagementSystem.DB.JobDB import JobDB
from DIR... | andresailer/DIRAC | WorkloadManagementSystem/Service/WMSAdministratorHandler.py | Python | gpl-3.0 | 22,080 | [
"DIRAC"
] | bfbf4f9aa85e99bc13b77e684b57425d09b791bcafe9a08cfc390b45a9b70d97 |
from django.conf import settings
from django.urls import include, re_path
from django.conf.urls.static import static
from django.contrib import admin
from django.views import defaults as default_views
from wagtail.admin import urls as wagtailadmin_urls
from wagtail.core import urls as wagtail_urls
from wagtail.document... | nfletton/bvspca | config/urls.py | Python | mit | 1,745 | [
"VisIt"
] | 3988efbddbe6ebab4c99983b347ddebc8835b1121ab74438740c13fd12d8947d |
import datetime
from kalliope import Utils
from kalliope.core.NeuronModule import NeuronModule, MissingParameterException
class Debug(NeuronModule):
def __init__(self, **kwargs):
super(Debug, self).__init__(**kwargs)
self.message = kwargs.get('message', None)
# check if parameters have b... | kalliope-project/kalliope | kalliope/neurons/debug/debug.py | Python | gpl-3.0 | 989 | [
"NEURON"
] | 9b4b5217a799ae81f1c7e519cce60a9ea3d88f2f9b8f99672856d362969c558c |
"""
Encapsulate reading and formatting of SureChEMBL
"""
import json
from Sdf import Sdf
from rdkit_utils import rdkit_standardize, rdkit_descriptors, rdkit_smiles
class Surechembl(Sdf):
def __init__(self, path, limit=None):
Sdf.__init__(self, path, limit)
def mol_to_dict(self, mol):
"""
... | nbateshaus/chem-search | mol-loader/Surechembl.py | Python | bsd-3-clause | 1,259 | [
"RDKit"
] | b0c8afd97898261fe1b51f51912c7a511cd87c0a982b6ac551481b7566db1a06 |
# Copyright 2009 by Cymon J. Cox. 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.
"""Command line wrapper for the multiple alignment program MUSCLE.
"""
from __future__ import p... | zjuchenyuan/BioWeb | Lib/Bio/Align/Applications/_Muscle.py | Python | mit | 29,017 | [
"BLAST",
"Biopython"
] | 0fd9895f4e06cbec7a94039cafe48dd602b8cb9c177bfa54bdf72965470d9511 |
# piddlePIL.py -- a Python Imaging Library backend for PIDDLE
# Copyright (C) 1999 Joseph J. Strout
#
# 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 Software Foundation; either
# version 2 of the License, ... | rdkit/rdkit-orig | rdkit/sping/PIL/pidPIL.py | Python | bsd-3-clause | 13,931 | [
"RDKit"
] | 630ecc78b2c3c738bb6ec38dac2812ff43c820917c042a8b9075cb71a8d72421 |
import argparse
import logging
import multiprocessing
import time
from functools import partial, update_wrapper
from defaults import EXTRACTION_MAX_READ_PAIRS, EXTRACTION_MAX_NM, EXTRACTION_MAX_INTERVAL_TRUNCATION, EXTRACTION_TRUNCATION_PAD
import pysam
compl_table = [chr(i) for i in xrange(256)]
compl_table[ord('A')... | chapmanb/metasv | metasv/extract_pairs.py | Python | bsd-2-clause | 7,896 | [
"pysam"
] | 88341eb836f22a5e5bebe337ef36c68192381fd45f7cbcebe21f400ee55f6a61 |
#!/usr/bin/python
# License:
# The MIT License (MIT)
#
# Copyright (c) 2013-2021 Brian Almeida <bma@thunderkeys.net>
#
# 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, in... | thunderkeys/pdfconvertme-public | bin/pdfconvertme-eml2pdf.py | Python | mit | 6,563 | [
"Brian"
] | 761a76a7c6c051e7fee384ab4c4f901d1eb63c740f89a11822ea8cc793552b1d |
# phrase = "Don't panic!"
# plist = list(phrase)
# letter = ['D', 'a', 'n', 'i', 'c', '!', ' ', 'n']
# plist.pop(3)
# for vobl in letter:
# plist.remove(vobl)
# plist.insert(1, 'n')
# plist.insert(2, ' ')
# plist.insert(4, 'a')
# new_phrase = ''.join(plist)
# print(new_phrase)
#=====================================... | Foxfanmedium/python_training | Book_courses/Berry_P/chapter_2/panic.py | Python | apache-2.0 | 1,235 | [
"Galaxy"
] | a990286c4a0ed86eed586147a195e3984258574d06d8fee68f163cc4d2ed053f |
# Copyright (c) 2013, GlaxoSmithKline Research & Development Ltd.
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are
# met:
#
# * Redistributions of source code must retain the above copyright
# ... | bp-kelley/rdkit | Contrib/fraggle/atomcontrib.py | Python | bsd-3-clause | 5,054 | [
"RDKit"
] | d267a60935ffd7071dd54606db701606396de68bedab02d1b2a4e735139e9703 |
######################################################################
## Filename: pySNIFS.py
## Version: $Revision$
## Description:
## Author: Emmanuel Pecontal
## Author: $Author$
## $Id$
######################################################################
from __future__ import print_fun... | snfactory/extract-star | extract_star/pySNIFS.py | Python | mit | 59,676 | [
"Gaussian"
] | 02792bb5f8eed58b9a765897749201269519d33416b850c2870fcf4b135c7b84 |
#!/usr/bin/env python
"""
Blast class specific tests
you must fetch databases before running blast
See the README.md file
"""
import sys,os,unittest,time,re,shutil
from Bio import SeqIO
from htsint.blast import Blast,ParseBlast,ParallelBlast
from htsint import __basedir__
from htsint import Configure
## test class ... | ajrichards/htsint | unittests/BlastTest.py | Python | bsd-3-clause | 2,543 | [
"BLAST"
] | 235f590141e0164b5537c06dc3148ae02dc8db1ab1974710d425b7a44601c941 |
from typing import Optional, Iterable, List, Union, Tuple
import numpy as np
from checklist.test_suite import TestSuite
from checklist.test_types import MFT, INV, DIR, Expect
from checklist.perturb import Perturb
from allennlp.confidence_checks.task_checklists.task_suite import TaskSuite
from allennlp.confidence_check... | allenai/allennlp | allennlp/confidence_checks/task_checklists/sentiment_analysis_suite.py | Python | apache-2.0 | 26,259 | [
"exciting"
] | fb91c37c1fe764e64312ca3afd0616aac129fcf031c1816d10110c507a15ce5f |
"""
Feedforward layers.
TODO: write more documentation
"""
__docformat__ = 'restructedtext en'
__authors__ = ("Razvan Pascanu "
"KyungHyun Cho "
"Caglar Gulcehre ")
__contact__ = "Razvan Pascanu <r.pascanu@gmail>"
import numpy
import copy
import theano
import theano.tensor as TT
from th... | neozhangthe1/coverage_model | groundhog/layers/ff_layers.py | Python | bsd-3-clause | 18,838 | [
"Gaussian"
] | 5bce576cf87cfe8d324adb02d2159e81a50920a96121fa7f79847c002adedf80 |
# -*- coding: utf-8 -*-
#
# This file is part of EventGhost.
# Copyright © 2005-2020 EventGhost Project <http://www.eventghost.net/>
#
# EventGhost is free software: you can redistribute it and/or modify it under
# the terms of the GNU General Public License as published by the Free
# Software Foundation, either versio... | tfroehlich82/EventGhost | eg/Classes/PluginInstall.py | Python | gpl-2.0 | 9,814 | [
"VisIt"
] | 3090de76ffe0035d58ce24fb1175e8434620540337566b4b9b3ea3a4a71833e7 |
# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
class PyBiomine(PythonPackage):
"""Bioinformatics data-mining."""
homepage = "https://githu... | LLNL/spack | var/spack/repos/builtin/packages/py-biomine/package.py | Python | lgpl-2.1 | 729 | [
"pysam"
] | a716c8b99964ff444d83ca60ae4285afab54ea75128e5decc199bb04dd3d3487 |
"""Convert to and from Roman numerals
This program is part of "Dive Into Python", a free Python book for
experienced programmers. Visit http://diveintopython.org/ for the
latest version.
"""
__author__ = "Mark Pilgrim (mark@diveintopython.org)"
__version__ = "$Revision: 1.3 $"
__date__ = "$Date: 2005/08/10 05:00:31 ... | zmughal/xerox-parc-uplib-mirror | python/uplib/roman.py | Python | gpl-2.0 | 2,168 | [
"VisIt"
] | 7da95fed73ae03e270bfd1b6106e77086e447a713b244a39d1204f7e7db932b6 |
#!/usr/bin/python2
# #
# pre-processing of raw downloaded CMIP5 data from the PCMDI portal to something that is standardized for
# use in later downscaling to ALFRESCO AK/Canada extent and resolution needs.
# # # # #
def group_input_filenames( prefix, root_dir ):
import fnmatch, functools, itertools, os, glob
imp... | ua-snap/downscale | snap_scripts/old_scripts/tem_iem_older_scripts_april2018/tem_inputs_iem/old_code/hur_ar5_model_data_preprocess.py | Python | mit | 11,351 | [
"NetCDF"
] | 10ef8291ad6c6515861736c21442572130d9d9768888d75af371d8441cbe41af |
# 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... | jhseu/tensorflow | tensorflow/python/autograph/converters/conditional_expressions.py | Python | apache-2.0 | 1,561 | [
"VisIt"
] | 186f5f044ce11acd299ed547e96c2c6ea1c8476c90d07bb0e443ea53d0465277 |
# python version 1.0 DO NOT EDIT
#
# Generated by smidump version 0.4.8:
#
# smidump -f python JUNIPER-MIB
FILENAME = "mib-jnx-chassis.txt"
MIB = {
"moduleName" : "JUNIPER-MIB",
"JUNIPER-MIB" : {
"nodetype" : "module",
"language" : "SMIv2",
"organization" :
"""J... | alexanderfefelov/nav | python/nav/smidumps/juniper_mib.py | Python | gpl-2.0 | 149,242 | [
"Amber"
] | e9fc344c98418b703eb3cff8336c96cfec0ac821d9835e59d3c80c8c46451088 |
# Hidden Markov Model Implementation
import pylab as pyl
import numpy as np
import matplotlib.pyplot as pp
#from enthought.mayavi import mlab
import scipy as scp
import scipy.ndimage as ni
import roslib; roslib.load_manifest('sandbox_tapo_darpa_m3')
import rospy
#import hrl_lib.mayavi2_util as mu
import hrl_lib.viz ... | tapomayukh/projects_in_python | classification/Classification_with_HMM/Single_Contact_Classification/force_codes/number_of_states/hmm_crossvalidation_force_50_states.py | Python | mit | 15,860 | [
"Gaussian",
"Mayavi"
] | 49c7a1d83f8faf70e0c4ee5ee89214e7fe40d3dac49e0379c4dd15f9ad8797db |
# coding: utf-8
"""
`%%unittest`, `%%unittest_testcase`, `%%unittest_main` magics for IPython
===========================================
This extension provides three cell magics.
First magic is `%%unittest_main`. This magic runs testcases defined in a cell
%%unittest_main
class MyTest(unittest.TestCase):
... | JoaoFelipe/ipython-unittest | ipython_unittest/magics.py | Python | mit | 18,202 | [
"VisIt"
] | 33ce0e7901c017fea6a3fbd15e70c74528edd0c1374783454e8a541b9cd0a585 |
# Copyright 2008-2015 Nokia Solutions and Networks
#
# 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 l... | wojciechtanski/robotframework | src/robot/model/testsuite.py | Python | apache-2.0 | 5,540 | [
"VisIt"
] | 7d112e99e0a98ee7dba537413f7e74a243161d5ef9b81456c4d795f9353e3ad8 |
from __future__ import annotations
import http.client
import json
import os
import select
import socket as pysocket
import sys
import urllib.error
import urllib.parse
import urllib.request
from multiprocessing.pool import ThreadPool
import libtbx.phil
from dxtbx.model.crystal import CrystalFactory
from dxtbx.util imp... | dials/dials | command_line/find_spots_client.py | Python | bsd-3-clause | 7,823 | [
"CRYSTAL"
] | d1df4d7bf6c9bf80d24e85cecab649ab59ae903d266224da1c4bc0dd5a47b76b |
#!/usr/bin/env python
# -*- coding=utf-8 -*-
import sys
import numpy as np
import matplotlib.pyplot as plt
from matplotlib.collections import LineCollection
from matplotlib.gridspec import GridSpec
from pymatgen.io.vasp.outputs import Vasprun
from pymatgen.electronic_structure.core import Spin, OrbitalType
def rgb... | gVallverdu/bandstructureplots | Cu_bands/bands_Cu.py | Python | mit | 4,900 | [
"VASP",
"pymatgen"
] | b92697b745490e1032b2749c99d457f88bade2dc2ce93995caeb18982ff3f512 |
# -*- coding: utf-8 -*-
"""
Bok choy acceptance tests for problems in the LMS
See also old lettuce tests in lms/djangoapps/courseware/features/problems.feature
"""
from textwrap import dedent
from nose.plugins.attrib import attr
from common.test.acceptance.fixtures.course import CourseFixture, XBlockFixtureDesc
from... | BehavioralInsightsTeam/edx-platform | common/test/acceptance/tests/lms/test_lms_problems.py | Python | agpl-3.0 | 37,864 | [
"VisIt"
] | ceeec04b0c0032f5e2bb218599dd4648fb37bf2df84cdc7ee261008535bd0580 |
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