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import time
from itertools import product
import emcee
import matplotlib.patches as mpatches
from pymultinest.solve import solve
from scipy.cluster.vq import whiten, kmeans2
from scipy.optimize import leastsq, minimize
from tqdm.auto import tqdm
from dwelf import MPLSTYLE
from dwelf.priors import *
from dwelf.utils i... | dioph/dwelf | dwelf/model.py | Python | mit | 28,643 | [
"DIRAC"
] | d978ce90d49228e6dd78265ba1975298a126111db97597fb3b818f7e2f0df852 |
# Copyright (C) 2013, Thomas Leonard
# See the README file for details, or visit http://0install.net.
from __future__ import print_function
import os, subprocess, sys
from os.path import join, dirname, relpath, basename, abspath
from xml.dom import minidom, Node
import base64
from collections import namedtuple
from ... | pombredanne/0repo | repo/build.py | Python | lgpl-2.1 | 5,915 | [
"VisIt"
] | 8e12f1230b9be5229064fbdfbd82b58001a846c9d2d979e4e0d2e158b4d4f972 |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding: utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
""" Module: FreeVolume
==================
"""
from __future__ import print_function
import numpy as np
from scipy.spatial import cKDTree
from MDAnalysis.core.groups import Atom, AtomGroup,... | balazsfabian/pytim | pytim/observables/free_volume.py | Python | gpl-3.0 | 5,361 | [
"MDAnalysis"
] | cd6371622b65f4908d6fa68146e04c1c7a315ab75434beb1ba855727d507fef1 |
#!/usr/bin/env python3
# @property
class C:
def __init__(self):
self._x = None
@property
def x(self):
""" Get x value"""
print('Get x value')
return self._x
@x.setter
def x(self, new_value):
"""Set the x value"""
print('Set x value')
self.... | jingwangian/tutorial | python/class/class_one.py | Python | gpl-3.0 | 982 | [
"VisIt"
] | bc8e7fbd7a01de6d8908af93e1c3adfeacd39fb5079e0c07c47a5c3fe38f4a7b |
# 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 (t... | apache/incubator-allura | Allura/allura/command/create_trove_categories.py | Python | apache-2.0 | 136,967 | [
"CRYSTAL"
] | 4581985540b62d7165e20fea7a6d992aab706d87ee18d213e0f70e371f1385c5 |
"""A setuptools based setup module.
See:
https://packaging.python.org/en/latest/distributing.html
https://github.com/pypa/sampleproject
"""
# Always prefer setuptools over distutils
from setuptools import setup, find_packages
# To use a consistent encoding
from codecs import open
from os import path
here = path.abspa... | BreizhGeek/wavedrompy | setup.py | Python | mit | 6,921 | [
"VisIt"
] | f8a3d6aa6946e33acc9bdea7d18c58e71df59a1650143639a998ebbc1d32fe83 |
from __future__ import division, print_function
import numpy as np, scipy.ndimage, sys, fabio
from ImageD11 import cImageD11, labelimage
def gauss_1d( N, center, fwhm ):
"""
Normalised 1D gaussian peak
"""
sigma = fwhm / 2.35482
dx = (np.arange(0, N, 1, dtype=np.float32 ) - center)/sigma
f = n... | jonwright/ImageD11 | sandbox/sharpen_search.py | Python | gpl-2.0 | 4,894 | [
"Gaussian"
] | be6ff0f1e5a943cf4a5702ff870fb97aec71de74c3351bdf2ad4d54b1961d1dc |
##############################################################################
# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | mfherbst/spack | var/spack/repos/builtin/packages/r-annotationforge/package.py | Python | lgpl-2.1 | 2,123 | [
"Bioconductor"
] | 953a9b46d7c440c53d411287bcd95f53b40b7275de69d28d343bcedc2b962165 |
# -*- coding: utf-8 -*-
from flask import request, jsonify, g, url_for, Blueprint, render_template, redirect, flash
from flask.ext.login import login_required, current_user
from project.application.entities import db, auth
from project.application.entities.lessons.forms import CreateLessonForm, UpdateLessonForm, Visit... | Warprobot/diplom | project/application/entities/lessons/views.py | Python | cc0-1.0 | 7,434 | [
"VisIt"
] | 940d2888480bc810e7f7cc50accbf523f2f9a61ed788147534e2b80818d020f0 |
import parmed.unit as units
from intermol.decorators import accepts_compatible_units
from intermol.forces.abstract_angle_type import AbstractAngleType
class CosineAngleType(AbstractAngleType):
__slots__ = ['k', 'c']
@accepts_compatible_units(None, None, None,
k=units.kilojoule... | shirtsgroup/InterMol | intermol/forces/cosine_angle_type.py | Python | mit | 1,110 | [
"LAMMPS"
] | c7b3fa67bbbbf31c1c2499308de54456a637197b340541d842b8483a397333c9 |
## Copyright (c) 2001-2009, Scott D. Peckham
## January 2009 (converted from IDL)
## September, October, November 2009
#-----------------------------------------------------------------------
#
# unit_test()
#
# class erosion_component
# __init__()
#-----------------------------
# initialize(... | csdms-contrib/erode | erosion_base.py | Python | apache-2.0 | 76,564 | [
"Gaussian"
] | 060c27e629e7f94c96c6db43106d7d326f4a3eb47d1d0d82180d962d2c931a59 |
import warnings
import joblib
import numpy as np
import pandas as pd
import pymc3 as pm
import pymc3.stats
import pymc3.model
import theano.tensor as tt
import tqdm
from .hotdists import *
def _log_like_trace(trace, model, progressbar=False):
"""Calculate the elementwise log-likelihood for the sampled trace.
... | justinbois/bebi103_utils | bebi103/deprecated/pm.py | Python | mit | 21,252 | [
"Gaussian"
] | 4b24f39b0f1158338c23493cd6b39e19b20c2dff775b9c439e509011f2a3d521 |
#!/usr/bin/env python
###############################################################################
###############################################################################
## Created on February 1st 2017 to remove singletons from paired-end BAM file
###########################################################... | ewels/NGI-ChIPseq | bin/bampe_rm_orphan.py | Python | mit | 5,807 | [
"pysam"
] | 55a02dd9f9fb99ef228cba0f325455742cc6edf0265427ee9bd1dadaafd291ae |
#!/usr/bin/env python3
import os
import pickle
import numpy as np
import gzip
import random
from collections import defaultdict,OrderedDict
from pysam import VariantFile
from .Tools import log
from .Variant import Variant
from .Allele import Allele
import pandas as pd
class VCFHeader(OrderedDict):
def __init__... | schae234/PonyTools | ponytools/VCF.py | Python | mit | 15,893 | [
"pysam"
] | 29f5b7182c8a396854ab87ce4848c15907d5ec865b5d022da4704ff50b1009bc |
#!/usr/bin/env python
__author__ = 'Brian McKenna <bmckenna@asascience.com>'
import json
import os
import tempfile
import time
import numpy as np
from nose.plugins.attrib import attr
from webtest import TestApp
from gevent.event import Event
from interface.services.coi.iservice_gateway_service import ServiceGatewaySe... | ooici/coi-services | ion/services/dm/test/test_uploads.py | Python | bsd-2-clause | 22,188 | [
"Brian",
"NetCDF"
] | 7d57fb61a2dd20f775378255ed1906df8c44dd147346e6f2256f73ff23e59c03 |
##############################################################################
# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | skosukhin/spack | var/spack/repos/builtin/packages/moab/package.py | Python | lgpl-2.1 | 7,858 | [
"NetCDF",
"VTK"
] | 9fd06fad35fdcb9aa70dda4cb706a89d1e6652449fde12b4ad88962d94ef67ff |
# coding: utf-8
from __future__ import unicode_literals, division
import glob
import logging
import shlex
import socket
import re
import time
from pkg_resources import parse_version
"""
This module implements basic kinds of jobs for QChem runs.
"""
import os
import shutil
import copy
import subprocess
from pymatgen... | xhqu1981/custodian | custodian/qchem/jobs.py | Python | mit | 17,756 | [
"pymatgen"
] | 31fc87b1c3536f28772174b36d8386cc6de623112335e719ce4e78a971652201 |
#
# Tree data structures
#
# Contains special features for representing phylogeny.
# See compbio.phylo for more.
#
#
# python libs
import copy
import sys
import StringIO
# rasmus libs
try:
from rasmus import util
util
except ImportError:
import util
try:
from rasmus import textdraw
except ImportError... | abhishekgahlot/compbio | rasmus/treelib.py | Python | mit | 67,611 | [
"VisIt"
] | 6614cf507ffaa661924ef93ef10b9ca497f7a13ae4acc001c0a329eced635b9d |
__author__ = 'tylin'
__version__ = '2.0'
# Interface for accessing the Microsoft COCO dataset.
# Microsoft COCO is a large image dataset designed for object detection,
# segmentation, and caption generation. pycocotools is a Python API that
# assists in loading, parsing and visualizing the annotations in COCO.
# Pleas... | plaidml/plaidml | mlperf/pycoco.py | Python | apache-2.0 | 18,967 | [
"VisIt"
] | 3f4bfb628fa971b9d95e7bd68f70bb2198d9568e8006b28a7d26d7589e5323f5 |
# Natural Language Toolkit: Corpus Reader Utilities
#
# Copyright (C) 2001-2013 NLTK Project
# Author: Steven Bird <stevenbird1@gmail.com>
# Edward Loper <edloper@gmail.com>
# URL: <http://nltk.org/>
# For license information, see LICENSE.TXT
import os
import bisect
import re
import tempfile
from functools imp... | TeamSPoon/logicmoo_workspace | packs_sys/logicmoo_nlu/ext/pldata/nltk_3.0a3/nltk/corpus/reader/util.py | Python | mit | 30,711 | [
"VisIt"
] | e3fb6986d6953cbdb9d91612762540876d979013c7c33ed53059a07046d7497c |
import wandb
from wandb import data_types
from wandb.sdk.data_types.base_types.media import _numpy_arrays_to_lists
import numpy as np
import pytest
import PIL
import os
import six
import sys
import glob
import platform
from click.testing import CliRunner
from . import utils
from .utils import dummy_data
import matplotl... | wandb/client | tests/test_data_types.py | Python | mit | 37,169 | [
"RDKit"
] | 329c41714b849138f7da70880289a4cbb60adf88d542879c261441f509e0aae0 |
from setuptools import setup
setup(description = 'Pileup',
author = 'B. Arman Aksoy',
url = 'https://github.com/armish/pileup',
download_url = 'https://github.com/armish/pileup/releases',
author_email = 'arman@aksoy.org',
license = 'http://www.apache.org/licenses/LICENSE-2.0.html',
... | armish/pileup | setup.py | Python | apache-2.0 | 614 | [
"pysam"
] | 67949f837cb3bd78b142053382bb34fecefbcd38f02e84439a8db95fe8c54d10 |
from __future__ import print_function
import sys
import os
from builtins import range
sys.path.insert(1, "../../../")
import h2o
from tests import pyunit_utils
from h2o.estimators.deeplearning import H2ODeepLearningEstimator
class Test_PUBDEV_2980_deeplearning:
"""
PUBDEV-2980: deeplearning return the fiel... | mathemage/h2o-3 | h2o-py/dynamic_tests/testdir_algos/deeplearning/pyunit_PUBDEV_2980_deeplearning_badfields_NOPASS.py | Python | apache-2.0 | 4,755 | [
"Gaussian"
] | e661136f05b4268137b82d35618d708a75d71d7d9ee10491e2c145573fd06b95 |
# -*- coding: utf-8 -*-
"""
==============================
1D Wasserstein barycenter demo
==============================
This example illustrates the computation of regularized Wassersyein Barycenter
as proposed in [3].
[3] Benamou, J. D., Carlier, G., Cuturi, M., Nenna, L., & Peyré, G. (2015).
Iterative Bregman pro... | aje/POT | examples/plot_barycenter_1D.py | Python | mit | 3,366 | [
"Gaussian"
] | 5f8396f1113c15d8f1268206436de967f5b02b402b38647094b2d16b51b88057 |
"""This module adds support to easily import and export NumPy
(http://numpy.scipy.org) arrays into/out of VTK arrays. The code is
loosely based on TVTK (https://svn.enthought.com/enthought/wiki/TVTK).
This code depends on an addition to the VTK data arrays made by Berk
Geveci to make it support Python's buffer protoc... | Wuteyan/VTK | Wrapping/Python/vtk/util/numpy_support.py | Python | bsd-3-clause | 7,821 | [
"VTK"
] | f996d73679c1ce6cf63ba5e1077fb765768c2077ce536070ea260a526795a5ad |
"""
Not actually tests, but benchmarks.
"""
from __future__ import print_function
from PyOpenWorm.neuron import Neuron
from PyOpenWorm.connection import Connection
from PyOpenWorm import connect, disconnect
def setup():
connect(configFile='tests/data_integrity_test.conf')
def teardown():
disconnect()
def ... | gsarma/PyOpenWorm | tests/ProfileTest.py | Python | mit | 920 | [
"NEURON"
] | f208c9d85f0b4f6596293f858e419bdcea22380c4d3feef35a68d135e7829455 |
import json
from django.test import TestCase, RequestFactory
from django.contrib.auth.models import AnonymousUser, User
from django.contrib.contenttypes.models import ContentType
from ..models import Like
from ..views import like_toggle
class LikeToggleTestCase(TestCase):
def setUp(self):
self.factory... | rizumu/pinax-likes | phileo/tests/test_views.py | Python | mit | 4,608 | [
"Brian"
] | d0c75c83b88034179d499addcc95d63841d260ce742a45504ead2012cd356adc |
# 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 | smug_saliency/utils.py | Python | apache-2.0 | 39,556 | [
"NEURON"
] | 2b15c91a113d2fb1eeb106094dbc60c0f72d4d33c47a74cc791480fe3223e3e7 |
#!python
# -*- Python -*-
# Copyright 2014-2015 Brian Olson
#
# 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 applicabl... | RobotWebTools/rosbridge_suite | rosbridge_library/src/rosbridge_library/util/cbor.py | Python | bsd-3-clause | 13,915 | [
"Brian"
] | c7c355b3793fe133d951e353d0240f8a97a808c30e24db62c8547ad2535d7ca6 |
import os
import re
from setuptools import find_packages, setup
this_dir = os.path.abspath(os.path.dirname(__file__))
with open(os.path.join(this_dir, "README.md"), encoding="utf-8") as f:
long_description = f.read()
with open("megnet/__init__.py", encoding="utf-8") as fd:
try:
lines = ""
f... | materialsvirtuallab/megnet | setup.py | Python | bsd-3-clause | 2,200 | [
"RDKit",
"pymatgen"
] | d5a995f2210131852efaa4383a5f820ffc23f2166c6157473ce51461f6a5b570 |
# 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/contrib/learn/python/learn/estimators/__init__.py | Python | apache-2.0 | 12,738 | [
"Gaussian"
] | 1814a982d15fa201a6d7ab25d4e30a6f364739546b8acd2ca61b3523dc04f425 |
import numpy as np
class RadialBasisFunctionNeurons(object):
"""
Abstract class for defining radial basis function neurons that populate
the hidden layer of a radial basis function network.
"""
def __init__(self):
# Intermediate values used during training
self.c = None
def ge... | bgalbraith/pyrbfn | pyrbfn.py | Python | apache-2.0 | 6,599 | [
"Gaussian"
] | 52d28ae8a48d59e18175ae3dcdccaf73af561ff01ba6e468fabf1bffc46c39a7 |
#!/usr/bin/env python
import os
import re
import urllib
import csv
import datetime
from string import Template
from optparse import OptionParser
username = 'xclaesse'
upload_server = 'master.gnome.org'
template = '''\
$name $version is now available for download from:
$download
$md5sums
What is it?
===========
$abo... | matrixise/empathy-with-import-gajim-account | release.py | Python | gpl-2.0 | 8,349 | [
"VisIt"
] | fcbe1bb0c23b0adccaa8adc9d43fc5fdafe138f0765962d877250e4de6881fcc |
""" Models for the shopping cart and assorted purchase types """
from collections import namedtuple
from datetime import datetime
from decimal import Decimal
import pytz
import logging
import smtplib
from boto.exception import BotoServerError # this is a super-class of SESError and catches connection errors
from dja... | LearnEra/LearnEraPlaftform | lms/djangoapps/shoppingcart/models.py | Python | agpl-3.0 | 38,046 | [
"VisIt"
] | 04a66d6c05a5771e8140ba78fe16944f82ab02b55772260173e3ff795134277c |
# EmphysemaViewerFrame by Corine Slagboom & Noeska Smit
# Description
#
# Based on SkeletonAUIViewerFrame:
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
import cStringIO
from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor
import wx
# wxPython 2.8.... | chrisidefix/devide | modules/user/EmphysemaViewer/EmphysemaViewerFrame.py | Python | bsd-3-clause | 9,579 | [
"VTK"
] | 4b8629b7e421c5eee51fa891c3c25ef730838c86377738337bfa2fec86aa7a05 |
"""
Module containing NetCDF file reading functions
"""
from cis.exceptions import InvalidVariableError
from cis.utils import listify
import logging
def get_netcdf_file_attributes(filename):
"""
Get all the global attributes from a NetCDF file
:param filename: The filename of the file to get the variables... | zak-k/cis | cis/data_io/netcdf.py | Python | gpl-3.0 | 11,992 | [
"NetCDF"
] | 81207fba26a3d8d4aa6a7769d51b7c8b987721820c8545179085fbfcf1702404 |
# -*- coding: utf-8 -*-
##
## ftp_ecmwf_download.py
## spt_compute
##
## Created by Alan D. Snow.
## Copyright © 2015-2016 Alan D Snow. All rights reserved.
## License: BSD-3 Clause
import datetime
from glob import glob
import os
from shutil import rmtree
#local imports
from .extractnested import ... | erdc-cm/spt_ecmwf_autorapid_process | spt_compute/imports/ftp_ecmwf_download.py | Python | bsd-3-clause | 7,005 | [
"NetCDF"
] | 9e446e312980d8566824278f409cc277e81e794449581b24fb1f84dfaa408318 |
import unittest, json, os
import numpy as np
from pymatgen import Structure, Element
from copy import deepcopy
from veidt.elsie.spectra_similarity import *
from pymatgen.analysis.xas.spectrum import XANES
Al2O3_cif = os.path.join(os.path.dirname(__file__), 'alpha_Al2O3.cif')
LiCoO2_cif = os.path.join(os.path.dirname(_... | czhengsci/veidt | veidt/elsie/tests/test_spectra_similarity.py | Python | bsd-3-clause | 11,718 | [
"pymatgen"
] | 4f32da2e955f3a432a2d4416a2107ccd9345f313a37104392ab8fa5226d83b35 |
try:
from setuptools import setup, Command
except:
from distutils.core import setup, Command
import sys
import os
import glob
import shutil
import importlib
bioservices_cache_linux = ".cache/bioservices/"
bioservices_cache_darwin = "Library/Caches/bioservices/"
bioservices_cache_win = "AppData/Lo... | daniaki/pyPPI | setup.py | Python | mit | 4,189 | [
"Biopython"
] | 2a66cea9714ddb29218f7b80e704c39ee10bced7158e40ce71dc8b667d307d44 |
# this program corresponds to special.py
### Means test is not done yet
# E Means test is giving error (E)
# F Means test is failing (F)
# EF Means test is giving error and Failing
#! Means test is segfaulting
# 8 Means test runs forever
### test_besselpoly
### test_mathieu_a
### test_mathieu_even_coef
##... | aarchiba/scipy | scipy/special/tests/test_basic.py | Python | bsd-3-clause | 135,074 | [
"Elk"
] | fce42191c9330fc52d3338bbcd9be3c8cdb631aed9d8611287759f3bd0163dd8 |
# 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... | npuichigo/ttsflow | third_party/tensorflow/tensorflow/contrib/learn/python/learn/estimators/__init__.py | Python | apache-2.0 | 12,396 | [
"Gaussian"
] | ab09043b9824df738f9e81c16d0ec23d0fa42abce46af6cfedaae0e25097a542 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
easyguimenu.py
demonstration of a game menu with easygui.
The gamemenu can change resolution, call a pygame
program (the screensaver), return values (the playtime),
write and display a highscore list
Url: http://ThePythonGameBook.com/en:part2:pygame:start
Aut... | horstjens/ThePythonGameBook | en/pygame/024_easyguimenu.py | Python | gpl-3.0 | 5,465 | [
"VisIt"
] | 7547c570c13bb2e651551adc6a2db09ae87726e6cce6c3b123ea969f5cf0cccb |
import unittest, os, shutil
from datetime import datetime
import numpy as np
import SimpleITK as sitk
from ContinuousRegistration.Source.metrics import tre, label_overlap
from ContinuousRegistration.Source.util import warp_point_set, warp_image_simpleitk
def tmp_file_name(output_directory, ext=".nii"):
os.makedir... | kaspermarstal/SuperElastix | ContinuousRegistration/Source/test.py | Python | apache-2.0 | 5,613 | [
"VTK"
] | 0d3f20270b859fb525cb8a7e8c722572d8400eeb9feb858b2b1956f372ce5d2f |
# Copyright (C) 2010-2011 Richard Lincoln
#
# 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... | rwl/PyCIM | CIM14/IEC61968/AssetModels/DistributionWindingTest.py | Python | mit | 3,001 | [
"exciting"
] | c10a859e6e8f0da37b2f3a865229939e0074ee70263b4a84eac712dfb996ee59 |
##############################################################################
# Copyright (c) 2017 Mark Olesen, OpenCFD Ltd.
#
# This file was authored by Mark Olesen <mark.olesen@esi-group.com>
# and is released as part of spack under the LGPL license.
# LLNL-CODE-647188
#
# For details, see https://github.com/llnl/s... | lgarren/spack | var/spack/repos/builtin/packages/openfoam-com/package.py | Python | lgpl-2.1 | 29,536 | [
"ParaView"
] | 6d410c425ba698d53d34ed5c000abf5e20d709bb75cbbe33a89695b063783c1b |
# $Id$
#
# Copyright (C) 2003-2006 Rational Discovery LLC
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
"""basic unit testing code for the Bon... | soerendip42/rdkit | rdkit/Chem/UnitTestChemBond.py | Python | bsd-3-clause | 1,717 | [
"RDKit"
] | c6cc06cea5908e62157214957e6031e33f68dbfbd8b6ae128edaeabdb105f23c |
# pylint: disable=C0111
# pylint: disable=W0621
from __future__ import absolute_import
from lettuce import world, step
from lettuce.django import django_url
from django.contrib.auth.models import User
from django.core.urlresolvers import reverse
from student.models import CourseEnrollment
from xmodule.modulestore imp... | XiaodunServerGroup/ddyedx | lms/djangoapps/wechat/features/common.py | Python | agpl-3.0 | 6,519 | [
"VisIt"
] | 4ac391398304fcc0182ae3fcb8102d7b573c36b89440f267dfece0edbd217751 |
# -*- coding: utf-8 -*-
#
# Author: Travis Oliphant 2002-2011 with contributions from
# SciPy Developers 2004-2011
#
import warnings
from collections.abc import Iterable
from functools import wraps
import ctypes
import numpy as np
from scipy._lib.doccer import (extend_notes_in_docstring,
... | grlee77/scipy | scipy/stats/_continuous_distns.py | Python | bsd-3-clause | 297,829 | [
"CRYSTAL",
"Gaussian"
] | da102cd6fed721610e61c04a97e05cb9010c30611ae70a99463bb1f1a48f3f42 |
from tool_shed.base.twilltestcase import ShedTwillTestCase, common, os
datatypes_repository_name = 'emboss_datatypes_0110'
datatypes_repository_description = "Galaxy applicable data formats used by Emboss tools."
datatypes_repository_long_description = "Galaxy applicable data formats used by Emboss tools. This reposit... | mikel-egana-aranguren/SADI-Galaxy-Docker | galaxy-dist/test/tool_shed/functional/test_0110_invalid_simple_repository_dependencies.py | Python | gpl-3.0 | 10,037 | [
"Galaxy"
] | 46f1eb670cfcb1d9669ab23b46be35d5a8e9e5aff313dfb8f87cbd45e9234687 |
"""Synthesize, plot, and play ripple sounds.
"""
import numpy as np
import sounddevice as sd
import matplotlib.pyplot as plt
from scipy.interpolate import interp1d
from scipy.io import wavfile
a0 = 1e-5 # reference amplitude
sr = 44100 # sample rate
def ripple_sound(dur, n, omega, w, delta, phi, f0, fm1, l=70):... | sammosummo/sammosummo.github.io | assets/scripts/ripple-sounds.py | Python | mit | 5,900 | [
"VisIt"
] | db2be624cab66b7df6589413850b5da4cdb2d46714c9fe20be03c63ce91b1458 |
# pylint: disable=arguments-differ
""" Models for the shopping cart and assorted purchase types """
import csv
import json
import logging
import smtplib
import StringIO
from collections import namedtuple
from datetime import datetime, timedelta
from decimal import Decimal
from io import BytesIO
import analytics
impor... | BehavioralInsightsTeam/edx-platform | lms/djangoapps/shoppingcart/models.py | Python | agpl-3.0 | 91,895 | [
"VisIt"
] | b3c326f30a62b65ebca595abd15df438dd12b44e6d3a08c1d5014349e0adc7fb |
# Copyright 2012, 2013 The GalSim developers:
# https://github.com/GalSim-developers
#
# This file is part of GalSim: The modular galaxy image simulation toolkit.
#
# GalSim 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... | mardom/GalSim | tests/deprecated/test_ellipse.py | Python | gpl-3.0 | 9,002 | [
"Galaxy"
] | dd04c317e192c6bb51f315feffad5ef5802770fcf736d1466a5071b69daa1020 |
"""Module managing picking events."""
import logging
import weakref
import numpy as np
import pyvista
from pyvista import _vtk
from pyvista.utilities import try_callback
class PickingHelper:
"""An internal class to hold picking related features."""
picked_cells = None
picked_point = None
picked_pa... | akaszynski/vtkInterface | pyvista/plotting/picking.py | Python | mit | 25,790 | [
"VTK"
] | 9063d282f8ce82b98f96ac295a9313a3f12189cc44a72eb5b6721150aa9cb1da |
# i really liked it
# a python program to blast off a timeed bomb ;-)
# an example of while stmnt
# the flow of execution for a while stmnt is:
# a. evaluate the condition, yielding True of False
# b. if the condition is false, exit the while stmnt and continue execution at the next stmnt
# c. if the condition is tr... | SurAnand/pyuthon | bomb.py | Python | gpl-2.0 | 431 | [
"BLAST"
] | a3380c88c47031cad0b656249bb981e7869644bcc435d2ac7c35172391bd06aa |
#!/usr/bin/env python
from functions import *
import argparse
import datetime
import time
from Bio import SeqIO
from Bio.Seq import Seq, translate
from Bio.SeqRecord import SeqRecord
from Bio.Alphabet.IUPAC import IUPACUnambiguousDNA
from Bio.SeqFeature import FeatureLocation, SeqFeature
parser = argparse.ArgumentPars... | pjtatlow/geneysis | python/geneysis.py | Python | mit | 8,036 | [
"BLAST"
] | e98dde5865b3c9e68865923b4fe38afc72b88266688ac0f46f5f1b3b7d741db4 |
#!/usr/bin/env python3
import os
import sys
import tempfile
import vtk
import fluidity.diagnostics.debug as debug
import fluidity.diagnostics.filehandling as filehandling
import fluidity.diagnostics.fluiditytools as fluiditytools
import fluidity.diagnostics.vtutools as vtktools
if not len(sys.argv) == 2:
print("Us... | FluidityStokes/fluidity | tools/genpvtu.py | Python | lgpl-2.1 | 1,342 | [
"VTK"
] | 1f563aec2f6d9c3bbb7b0110baf0e7f93fce215bd722cbd5ff6ff7d5d33bfbdb |
from __future__ import print_function, division, absolute_import
import sys
import os
import pickle
import numpy as np
import mdtraj as md
import itertools
from pkg_resources import iter_entry_points
from msmbuilder.reduce import tICA
from msmbuilder.metrics import (RMSD, Dihedral, BooleanContact,
... | msmbuilder/msmbuilder-legacy | MSMBuilder/metrics/parsers.py | Python | gpl-2.0 | 13,078 | [
"MDTraj"
] | 457dfdd9047f44d29a8e62bfa703df180d6b533aeb4c5ffa8c563b9fd03d1ecc |
from vtk import *
from numeric import *
# Define script parameters
numbvert = 20
edgeprob = 0.50
# Create a random graph
rgsource = vtkRandomGraphSource()
degree = vtkVertexDegree()
# Set number of vertices and the probability of an edge existing between any two vertices
rgsource.SetNumberOfVertices(numbvert)
rg... | arnaudgelas/VTK | Examples/Infovis/Python/variance.py | Python | bsd-3-clause | 1,345 | [
"VTK"
] | df827dc4779b0ffd1754c1641a0322400a4cc82862b106170b0e1a9a5ca7b9f2 |
# -*- coding: utf-8 -*-
import copy
import re
from django.test import SimpleTestCase
from corehq.apps.app_manager.const import APP_V2
from corehq.apps.app_manager.models import (
Application, AutoSelectCase, AUTO_SELECT_USER, AUTO_SELECT_CASE, LoadUpdateAction, AUTO_SELECT_FIXTURE,
AUTO_SELECT_RAW, WORKFLOW_MOD... | puttarajubr/commcare-hq | corehq/apps/app_manager/tests/test_suite.py | Python | bsd-3-clause | 51,834 | [
"VisIt"
] | b3d196178f69a12c6557b0c39b3d1b692a9d09956182b0c86bff131cf950b058 |
import math
import numpy as np
from .searcher import Searcher
from pychemia import pcm_log
class FireFly(Searcher):
def __init__(self, population, params=None, generation_size=32,
stabilization_limit=10, target_value=None):
"""
Implementation fo the Firefly algorithm for global m... | MaterialsDiscovery/PyChemia | pychemia/searcher/firefly.py | Python | mit | 8,231 | [
"Firefly"
] | e29b65e4831a48c6a73b8b9ba551ee707c6a4753e31240eba9b5940f0d1cb1b2 |
#!/usr/bin/env python
'''
mpirun -np 2 python 04-parallel_mol_hf.py
'''
import numpy
from pyscf import gto, scf
from mpi4pyscf import scf as mpi_scf
mol = gto.M(atom='''O 0. 0. 0.
H 0. -0.757 0.587
H 0. 0.757 0.587''',
basis='cc-pvtz')
mf... | sunqm/mpi4pyscf | examples/04-parallel_mol_hf.py | Python | gpl-3.0 | 1,171 | [
"PySCF"
] | 78ed43e35260b14523123122302f7ed3dbb1a535bb2ec8bc6a5e1a6f70578bd2 |
#!/usr/bin/python
#
# Created on Aug 25, 2016
# @author: Gaurav Rastogi (grastogi@avinetworks.com)
# Eric Anderson (eanderson@avinetworks.com)
# module_check: supported
#
#
# 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... | kbrebanov/ansible | lib/ansible/modules/network/avi/avi_serviceengine.py | Python | gpl-3.0 | 5,740 | [
"VisIt"
] | 324a6d4a786e96d514f34fc7e5f6e70b1b902905ddabd91fa18148caab0b7d3f |
# Copyright (C) 2010-2018 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later v... | mkuron/espresso | testsuite/python/constraint_shape_based.py | Python | gpl-3.0 | 34,495 | [
"ESPResSo"
] | 9fb83116087873a01a6cea6450193d7fd0b00f44a8b00395a236e056178d7578 |
__all__ = ["OptimizationResults", "ParameterEstimation", "PSDParEst",
"SamplingResults"]
# check whether matplotlib is installed for easy plotting
import matplotlib.pyplot as plt
from matplotlib.ticker import MaxNLocator
# check whether emcee is installed for sampling
try:
import emcee
can_samp... | StingraySoftware/stingray | stingray/modeling/parameterestimation.py | Python | mit | 71,252 | [
"Gaussian"
] | 411894213ae09be7660a3973731ab24e88f2bb2fcba2e7dff7af465e0ddd3c84 |
#!/usr/bin/env python
# pmx Copyright Notice
# ============================
#
# The pmx source code is copyrighted, but you can freely use and
# copy it as long as you don't change or remove any of the copyright
# notices.
#
# ----------------------------------------------------------------------
# pmx is Copyright (C... | Alwnikrotikz/pmx | scripts/mutate_beta45.py | Python | lgpl-3.0 | 17,594 | [
"Amber",
"CHARMM"
] | cb2116c97d77680c5269c18b1d65469c8a649d28f7b2190fd4c524f9cd639d6e |
#!/usr/bin/env python
#
# Author: Paul J. Robinson <pjrobinson@ucla.edu>
#
'''
IBO generation, cube generation, and population analysis of benzene
'''
import numpy
from pyscf import gto, scf, lo, tools
from functools import reduce
benzene = [[ 'C' , ( 4.673795 , 6.280948 , 0.00 ) ],
[ 'C' , ( 5.90119... | gkc1000/pyscf | examples/local_orb/04-ibo_benzene_cubegen.py | Python | apache-2.0 | 2,223 | [
"PySCF"
] | 9e9644aadda7fc37f2161e8150c2ab4dac9cbd6ebca6b2d334907d127c013bc4 |
##############################################################################
# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | wscullin/spack | var/spack/repos/builtin/packages/py-mdanalysis/package.py | Python | lgpl-2.1 | 2,740 | [
"Amber",
"Biopython",
"CHARMM",
"DL_POLY",
"Gromacs",
"LAMMPS",
"MDAnalysis",
"NAMD",
"NetCDF"
] | e61c45596226bda0098424f85252292043069aab08f4a1fa1d9936c6b2b5a6fc |
import os, glob, csv, shelve, datetime, subprocess as sp
from Bio import SeqIO
"""
These values are the defaults that will be used.
"""
E_VALUE_THRESHOLD = 1e-10
"""
These variables are internal to the library.
"""
TIME_STACK = []
LOCAL_CDS_DATABASE = dict()
LOCAL_PEP_DATABASE = dict()
def start_timing():
"""
... | q10/gene | geneutils.py | Python | bsd-3-clause | 12,755 | [
"BLAST"
] | 06da80c897bedd0f6b41d196afe2821f0015c4855a6bd2d63c993ac8c2c85b53 |
"""Subtract background from ifu images."""
import argparse
import os
import numpy as np
import astropy.io.fits as pf
import sys
import shutil
import SEDMr.IO as IO
from scipy.ndimage.filters import gaussian_filter
def estimate_background(fine, infile, gausswidth=100, outname=None,
outint=Fal... | scizen9/kpy | SEDMr/SubtractBackground.py | Python | gpl-2.0 | 5,209 | [
"Gaussian"
] | 0d587356b52fc415838b3b6e2e14cf6550f74d7b402d7163a89010b850c937cb |
###############################################################################
##
## Copyright (C) 2011-2014, NYU-Poly.
## Copyright (C) 2006-2011, University of Utah.
## All rights reserved.
## Contact: contact@vistrails.org
##
## This file is part of VisTrails.
##
## "Redistribution and use in source and binary for... | Nikea/VisTrails | scripts/gen_vtk_examples/vtk_imposter.py | Python | bsd-3-clause | 4,382 | [
"VTK"
] | 4d9d74a217cfd2258ed610d2f9140d86a2c98c5bcb4de558f125db6988beb5ba |
#!/usr/bin/env python
"""
Code for extracting data about cities from NEX climate data.
Performs the following pipeline:
1. Read the file netCDF file from S3
2. Run nex2json on the dataset
3. Upload result to the appropriate bucket
"""
import argparse
import os
import re
import shutil
import tempfile
import logging
f... | azavea/nex2json-ingest | chunker/process_dataset.py | Python | apache-2.0 | 3,546 | [
"NetCDF"
] | 52edd340bdabad4d9f6c7298aa0ea56876380b5cb3a9786877e59d1b2087846f |
#!/usr/bin/python
# -*- coding: utf-8 -*-
import json
import os
import subprocess
import sys
import tempfile
from six.moves import urllib
# To be extracted to separate module
class MicrosoftTranslator(object):
def __init__(self, client_id, client_secret, language):
self._name = "microsofttranslator"
... | sq6jnx/sr0wx.py | pl_microsoft/microsoft_translator_downloader.py | Python | apache-2.0 | 3,816 | [
"VisIt"
] | 0ffa177c075c860cc857d6d4750bf39d8a05dcea1f274d79108fc6e57c895360 |
#!/usr/bin/env python3
"""
Created on 20 Feb 2017
@author: Bruno Beloff (bruno.beloff@southcoastscience.com)
DESCRIPTION
The led utility is used to control a two-colour (red / green) LED mounted on the South Coast Science free-to-air
SHT board.
On some Praxis device configurations, a free-to-air temperature and hum... | south-coast-science/scs_dev | src/scs_dev/led.py | Python | mit | 3,246 | [
"Amber"
] | 225c7b54b3ce19eb7ddf8f938bf5ced00be450f449bcf735c68df8882e1a9da3 |
#!/usr/bin/env python
import argparse
import itertools
import os
import re
import sys
from collections import defaultdict
from use_lldb_suite import lldb_root
parser = argparse.ArgumentParser(
description='Analyze LLDB project #include dependencies.')
parser.add_argument('--show-counts', default=False, action='s... | google/llvm-propeller | lldb/scripts/analyze-project-deps.py | Python | apache-2.0 | 7,361 | [
"VisIt"
] | b8180b708705f56ca8ded8fb45a6faf8aabef3ab7b0d2522fe278b9a3b9e1c0d |
import moose
from squid import *
mean_injection_current = 0.1e-6 # in Ampere
noise_variance = 0.1 # percentage of the mean
class NoisySquid(moose.Neutral):
"""A model for recording from squid giant axon compartment with
current injection that is white noise"""
def __init__(self, *args):
global mean_in... | BhallaLab/moose-thalamocortical | DEMOS/pymoose/ray_bhalla_2008/squid_fft/model.py | Python | lgpl-2.1 | 4,673 | [
"MOOSE"
] | 92dbe4e3d746fe66fc0984600b233ba4f5f19feb3a03e684c79d4a50ad4a7f26 |
# -*- coding: utf8 -*-
"""
This file contains configuration for Poloniex stock.
"""
__author__ = "Jan Seda"
__copyright__ = "Copyright (C) Jan Seda"
__credits__ = []
__license__ = ""
__version__ = "0.1"
__maintainer__ = "Jan Seda"
__email__ = ""
__status__ = "Production"
import urllib.parse
import sys
from ... impo... | Honzin/ccs | ccs/poloniex/public/__init__.py | Python | agpl-3.0 | 27,719 | [
"VisIt"
] | 9afb6bd5925d1105f4384c26b952fde04dbd06eb532b76901ae1f1434ec0ab09 |
"""Next-gen sequencing alignment with Novoalign: http://www.novocraft.com
For BAM input handling this requires:
novoalign (with license for multicore)
samtools
"""
import os
import subprocess
from bcbio import bam, utils
from bcbio.ngsalign import alignprep, postalign
from bcbio.pipeline import config_utils
from ... | brainstorm/bcbio-nextgen | bcbio/ngsalign/novoalign.py | Python | mit | 6,239 | [
"Galaxy"
] | 1f2c31b27bb1e3a8bb45b8b8fb61dc2a6d97b236360823dd101d189d219e47a0 |
# -*- coding: utf-8 -*-
# Copyright (c) 2015-2022, Exa Analytics Development Team
# Distributed under the terms of the Apache License 2.0
"""
Basis Function Manipulation
################################
Functions for managing and manipulating basis set data.
Many of the ordering schemes used in computational codes can ... | exa-analytics/exatomic | exatomic/algorithms/basis.py | Python | apache-2.0 | 23,605 | [
"Gaussian",
"MOLCAS",
"NWChem"
] | c45be16f4ccaedc41063afcad4ddbe693bc0ea6e666e642cff7924b7e8080abf |
#!/usr/bin/env python
########################################################################
# $HeadURL$
########################################################################
"""
Set the status of the replicas of given files at the provided SE
"""
__RCSID__ = "$Id$"
from DIRAC.Core.Base import Script
Script.setU... | Sbalbp/DIRAC | DataManagementSystem/scripts/dirac-dms-set-replica-status.py | Python | gpl-3.0 | 2,728 | [
"DIRAC"
] | 8cecba91eeb6f6bcdbac822e1cd91d90e2633066b448632e9ab393e4dec8feff |
# -*- coding: utf-8 -*-
#
# Neo4j.rb documentation build configuration file, created by
# sphinx-quickstart on Mon Mar 9 22:41:19 2015.
#
# 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
# autogenerated file.
#
# ... | leviwilson/neo4j | docs/conf.py | Python | mit | 10,890 | [
"Brian"
] | 47ec3d65ea2e411d81fdbfd45d252c65f1f5b9558012e5fa03a9c937591c9742 |
"""Install or upgrade a bcbio-nextgen installation.
"""
from __future__ import print_function
import os
import subprocess
import sys
import yaml
from bcbiovm.docker import manage, mounts
DEFAULT_IMAGE = "chapmanb/bcbio-nextgen-devel"
def full(args, dockerconf):
"""Full installaction of docker image and data.
... | brainstorm/bcbio-nextgen-vm | bcbiovm/docker/install.py | Python | mit | 5,693 | [
"Galaxy"
] | 35eb1a59feb9781c20674640f07af7655a5efb80044e9d3b342e7cc4e4a976a9 |
# Copyright (C) 2010-2018 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later v... | hmenke/espresso | testsuite/python/particle_slice.py | Python | gpl-3.0 | 16,230 | [
"ESPResSo"
] | 5029d1dc15b39992943620a7c70fae8595f3dfa9d5ce02b3083c1535a9d70271 |
# Copyright (c) 2012-2013, Philip A.D. Bentley
# All rights reserved.
# This software is made available under a BSD 3-clause license.
# Please refer to the accompanying LICENSE.TXT file.
"""
A python parser for reading files encoded in netCDF-3 CDL format. The parser is based upon the
flex and yacc files used by the nc... | rockdoc/cdlparser | cdlparser.py | Python | bsd-3-clause | 37,174 | [
"NetCDF",
"VisIt"
] | a8dfd0ad432eaee9174c389f5c2b534a9f872b6e19213754965b30432a061839 |
import ast
import sys
class RemoveAnnotations(ast.NodeTransformer):
"""
Remove type annotations from source
"""
def __call__(self, node):
if sys.version_info < (3, 0):
return node
return self.visit(node)
def visit_FunctionDef(self, node):
if hasattr(node, 'ret... | listyque/TACTIC-Handler | thlib/side/python_minifier/transforms/remove_annotations.py | Python | epl-1.0 | 2,463 | [
"VisIt"
] | dbf00f262fef9114ad1ac5b66ac141dbea08fbdef8c9b5b5206acfb29523b8e2 |
import subprocess
import struct
import math
class Particle:
fmtstr = struct.Struct("dddddddddddd")
def __init__(self, string="", x=0.0, y=0.0, z=0.0,
vx=0.0, vy=0.0, vz=0.0,
ax=0.0, ay=0.0, az=0.0,
m=0.0, r=0.0, lastcollision=0.0):
if len(string) > 0:... | xkxx/last-voyage | sim.py | Python | mit | 12,675 | [
"Gaussian"
] | ce7695093e3db7a524305b9103d8540746d1d8974f48c844bb40fa466025a9f6 |
# 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... | snyderr/robotframework | src/robot/output/console/dotted.py | Python | apache-2.0 | 3,192 | [
"VisIt"
] | 5e59389b6c431afc3786e809ed50fe4c5f67507ee46b78fa557cd91319ed3d23 |
import os
from datetime import datetime
from hashlib import sha1
#from robot.api import ExecutionResult
from robot.result.executionresult import CombinedResult
from robot.api import ExecutionResult, ResultVisitor
from robot.errors import DataError
# suite_name #payload_folder
# suite_test_count
# test_names ... | Tallisado/pyrofactory | src/pyro_factory/robot_results_parser.py | Python | apache-2.0 | 6,210 | [
"VisIt"
] | a33ec0380477da8884adaad037508685d78a2578f51fb8c687257fa8998c379b |
# -*- coding: utf-8 -*-
# notice: this module cannot be sanely written to take use of
# unicode_literals, bc some of the arguments need to be str on
# both python2 and 3
from __future__ import absolute_import, division, print_function
import ast
from ast import *
from collections import Iterable
import warnings
from... | ztane/Tonnikala | tonnikala/languages/python/generator.py | Python | apache-2.0 | 23,550 | [
"VisIt"
] | d76b9924591c07f9c20565ceccfd05f9004dd0166308c3bc8820f05ddc066a5a |
"""
This module defines the base class for accessing netCDF files and using them
with Stride Search.
"""
from netCDF4 import Dataset
from abc import ABCMeta, abstractmethod
from Event import print_copyright
from datetime import date, datetime, timedelta
from IdentCriteria import MaxCriterion, MinCriterion
from numpy im... | pbosler/StrideSearch | python/Data.py | Python | gpl-2.0 | 8,675 | [
"NetCDF"
] | 41482585479fdd1f160b473f9693286ce8907ae50d7061bd1774e5e71b6a7625 |
#!/usr/bin/env python3
from Bio.PDB.PDBParser import PDBParser
from Bio.PDB.Polypeptide import three_to_one
from Bio.PDB.Polypeptide import is_aa
from Bio import pairwise2
from multiprocessing import Pool, cpu_count
from functools import partial
import scipy.cluster.hierarchy
import numpy as np
import sys, argparse, ... | gnina/scripts | clustering.py | Python | bsd-3-clause | 15,787 | [
"RDKit"
] | a4a2fa6be435a6f05649bdee0753c8ea2984fc702d65ec2b269a0dc046d2e676 |
# -*- coding: utf-8 -*-
from south.utils import datetime_utils as datetime
from south.db import db
from south.v2 import SchemaMigration
from django.db import models
class Migration(SchemaMigration):
def forwards(self, orm):
# Adding field 'Service.code'
db.add_column(u'clinics_service', 'code',
... | myvoice-nigeria/myvoice | myvoice/clinics/migrations/0007_auto__add_field_service_code.py | Python | bsd-2-clause | 11,756 | [
"VisIt"
] | 92dbafc214944a8d60cef3f733748dcaec8726f7e2182fa89780424dd0f3c0ac |
#
# Copyright (c) 2015 nexB Inc. and others. All rights reserved.
# http://nexb.com and https://github.com/nexB/scancode-toolkit/
# The ScanCode software is licensed under the Apache License version 2.0.
# Data generated with ScanCode require an acknowledgment.
# ScanCode is a trademark of nexB Inc.
#
# You may not use... | ened/scancode-toolkit | src/licensedcode/models.py | Python | apache-2.0 | 16,108 | [
"VisIt"
] | bce1fb089acee36ecec5e3d7b8abf562a903440b304dc9574dfee3c30b07ddda |
import plotly.plotly as py
import plotly.figure_factory as ff
data_table = [['Phases', 'Values'],
['Visit', 13873],
['Sign-up', 10553],
['Selection', 5443],
['Purchase', 3703],
['Review', 1708]]
table = ff.create_table(data_table)
py.iplot(tab... | useabode/redash | funnel.py | Python | bsd-2-clause | 323 | [
"VisIt"
] | 646e9c950563c814a00dce1f52cc7ab77e0b27db9424b67341a6ae96244cdc9c |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# pyresample, Resampling of remote sensing image data in python
#
# Copyright (C) 2010-2020 Pyresample developers
#
# This program 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
... | pytroll/pyresample | pyresample/test/test_geometry.py | Python | lgpl-3.0 | 138,519 | [
"NetCDF"
] | bd8947a3b8a1a03968871236a5e494bd965bef6739cbbadfd4fbee22fd609a85 |
import six
import operator as op
from functools import wraps
from collections import Iterable
from syn.base_utils import nearest_base, is_hashable, tuple_prepend, \
get_fullname, get_mod, get_typename, AttrDict, hasmethod, import_module, \
quote_string, iteration_length, escape_for_eval, compose, safe_vars
#--... | mbodenhamer/syn | syn/types/a/base.py | Python | mit | 13,391 | [
"VisIt"
] | a59da7c5587c154f0f29ca8e4d51b0c8fa9d2b136718735e5aa51cce42b7c832 |
# -*- coding: utf-8 -*-
#
# hl_api_info.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the License, or... | SepehrMN/nest-simulator | pynest/nest/lib/hl_api_info.py | Python | gpl-2.0 | 12,714 | [
"VisIt"
] | 90cfcefa57aff8800c87305d7eb24852d9b2206484330e3ea27b5bfb2016e347 |
#!/usr/bin/env python
# ===========================================================================================#
# This script builds a set of models, saves the models into an XML file and loads the
# models back into memory.
# ========================================================================================... | cdeil/gammalib | test/example_model_xml_io.py | Python | gpl-3.0 | 2,064 | [
"Gaussian"
] | 0605d1d960de36b2ce53c0d9814eef844c40ef749bb806d937725aa1e72be6fc |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2006 Donald N. Allingham
# Copyright (C) 2008 Brian G. Matherly
# Copyright (C) 2010 Jakim Friant
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as publi... | arunkgupta/gramps | gramps/plugins/tool/patchnames.py | Python | gpl-2.0 | 23,238 | [
"Brian"
] | b6e1e0ab05ede99b80ac0bfdddae95507c6354daac03f8a9e9045dbace45836b |
# Copyright 2017 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | nburn42/tensorflow | tensorflow/contrib/autograph/pyct/static_analysis/activity.py | Python | apache-2.0 | 14,162 | [
"VisIt"
] | 979fc046ccdeeba316095ef17a251112a94e9185543d6e7264507941f3bce003 |
#! /usr/bin/env python
#
# voltage_trace.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the License, o... | gewaltig/cython-neuron | pynest/nest/voltage_trace.py | Python | gpl-2.0 | 6,758 | [
"NEURON"
] | 0cca9856ddb1b78284db175171adf298fb81083dbd0da28fff5c007992a9a705 |
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