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TRACK_ONE = {
'TrackId': 1,
'UnitPrice': 0.99,
'Composer': 'Angus Young, Malcolm Young, Brian Johnson',
'Bytes': 11170334,
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'Name': 'For Those About To Rock (We Salute You)',
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RESOURCE_ETAGS = (
'"8a4a9037a1eb... | jeffknupp/sandman2 | tests/resources.py | Python | apache-2.0 | 1,153 | [
"Brian"
] | 107dc558fde4851a700afeef8daa3bfcf19c5bbab9989d8bf2a13c3a27b8a6fa |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
"""
TODO: Modify module doc.
"""
__author__ = "Shyue Ping Ong"
__copyright__ = "Copyright 2012, The Materials Project"
__version__ = "0.1"
__maintainer__ = "Shyue Ping Ong"
__email__ = "shyuep@gmail.com"
__da... | dongsenfo/pymatgen | pymatgen/analysis/tests/test_molecule_matcher.py | Python | mit | 6,397 | [
"pymatgen"
] | 07f3d7bff41ef094fc5a0de1b736be808b26b39a34a96574e69ebce75fd51da3 |
#!/usr/bin/env python3
#
# Tests the log likelihood classes.
#
# This file is part of PINTS (https://github.com/pints-team/pints/) which is
# released under the BSD 3-clause license. See accompanying LICENSE.md for
# copyright notice and full license details.
#
import unittest
import pints
import pints.toy
import numpy... | martinjrobins/hobo | pints/tests/test_log_likelihoods.py | Python | bsd-3-clause | 77,747 | [
"Gaussian"
] | d7a18cb3d95918da626a16094b464190a03b70e6dc02451f5e3a8d04c3af684d |
# -*- coding: utf-8 -*-
"""
Created on Wed May 6 18:04:03 2015
@author: anderson
"""
from pyhfo.core import eegfilt, hfoObj, EventList, DataObj
from pyhfo.sim import STenergy, Hilbert_energy, RMS, line_lenght
import numpy as np
import math
import scipy.signal as sig
import itertools
import h5py
def findHFO_filtH... | britodasilva/pyhfo | pyhfo/core/findHFO.py | Python | mit | 22,549 | [
"Gaussian"
] | 42d9a1c37b5b1c33c67391f0afd40bf1b9826743ded8c269b213a1e02dfebf80 |
# -*- coding: utf-8 -*-
""" Analysis module for the interrogation of integrated diffraction profiles.
The foundation of the pyXe package, allowing for single peak fitting and, more
recently, a Pawley type refinement of the complete diffracted profile. The
peak fitting is completed at each acquisiion point for every az... | casimp/edi12 | pyxe/peak_analysis.py | Python | mit | 20,301 | [
"Gaussian"
] | 47e7bc6668ffee085a4f2a7b0d72db7db235fb40ca0416771a8ca89d14f15330 |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2010 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 Lesser General Public License as published by
## the Free Software F... | andrebellafronte/stoq | stoqlib/gui/dialogs/loandetails.py | Python | gpl-2.0 | 2,811 | [
"VisIt"
] | 1a9bec4f82c143e0b17c94ac1c5f456e861ca18c584d09c76daa0b79bd6ec76d |
#convert a centerlines object to one that can segmented into sections
#currently able to create lines, but not poly lines yet
import vtk
import networkx as nx
import sys
import copy
import os
from writeNodesEdges import writeObjects, writePolyLine
file_dir = "/home/sansomk/caseFiles/ultrasound/tcd/case_debaun/vmtk... | kayarre/Tools | vmtk/vtk2networkx2.py | Python | bsd-2-clause | 6,131 | [
"VTK"
] | eb0ed25ed0361f9220e92c1c664ff17306f7c235984265ebfd347f69920544fe |
import ast
from django.conf import settings
from symmetric.functions import underscore_to_camel_case
default_token_mapping = {
ast.Add: '+', ast.Sub: '-', ast.Mult: '*', ast.Div: '/', ast.Mod: '%', ast.LShift: '<<', ast.RShift: '>>', ast.BitOr: '|', ast.BitXor: '^', ast.BitAnd: '&', ast.And: '&&', ast.Or: '||',... | symmetricapi/django-symmetric | symmetric/management/translate.py | Python | mit | 11,206 | [
"VisIt"
] | 2d0fc3f0ae5b0c6ed544a4ea995a6b44c2f114ef5ceed29818e1a57d622a74fe |
"""
velvet datatypes
James E Johnson - University of Minnesota
for velvet assembler tool in galaxy
"""
from __future__ import absolute_import
from galaxy.datatypes import data
import logging
import os
import re
import sys
from galaxy.datatypes import sequence
from galaxy.datatypes.text import Html
from galaxy.datatype... | icaoberg/cellorganizer-galaxy-tools | datatypes/assembly.py | Python | gpl-3.0 | 9,171 | [
"Galaxy"
] | 633a46a4986edc357167ed1de3a8138c9eafc880b6cb7c535beb222fc38edc82 |
import bpy
from io_scene_cs.utilities import rnaType, rnaOperator, B2CS, EnumProperty, SHADERS
from io_scene_cs.utilities import RemovePanels, RestorePanels
class csMaterialPanel():
bl_space_type = 'PROPERTIES'
bl_region_type = 'WINDOW'
bl_context = "material"
b2cs_context = "material"
REMOVED = []
... | baoboa/Crystal-Space | scripts/blender/io_scene_cs/ui/material.py | Python | lgpl-2.1 | 2,539 | [
"CRYSTAL"
] | 5d976c7cf8d1fb9df85b607b12dc40f4d9fe4554d4833676b0b38266a61921c4 |
"""
Acceptance tests for course in studio
"""
from nose.plugins.attrib import attr
from .base_studio_test import StudioCourseTest
from ...pages.studio.auto_auth import AutoAuthPage
from ...pages.studio.users import CourseTeamPage
from ...pages.studio.index import DashboardPage
@attr('shard_2')
class CourseTeamPageT... | IndonesiaX/edx-platform | common/test/acceptance/tests/studio/test_studio_course_team.py | Python | agpl-3.0 | 14,194 | [
"VisIt"
] | badfcdf40f1bd2c597a8c647dde03db5ac475082b86b8b96ffc091b3d5e23620 |
#!/usr/bin/env python
import sys
import argparse
import numpy as np
import networkx as nx
from respirnet import complete_prebot
## constants
ntypes = 4
def main(argv=None):
if argv is None:
argv = sys.argv
# parse arguments
parser = argparse.ArgumentParser(prog="genER",
... | kharris/prebotc-graph-model | graphs/genComplete.py | Python | bsd-3-clause | 2,352 | [
"NEURON"
] | 2e95d54457dc3957fcaadc124352a04d5a6930650efb543ad06347d3e7395710 |
"""ABCs."""
# Authors: Guillaume Favelier <guillaume.favelier@gmail.com
# Eric Larson <larson.eric.d@gmail.com>
#
# License: Simplified BSD
from abc import ABC, abstractmethod, abstractclassmethod
from contextlib import nullcontext
import warnings
from ..utils import tight_layout
class _AbstractRenderer(A... | rkmaddox/mne-python | mne/viz/backends/_abstract.py | Python | bsd-3-clause | 24,939 | [
"Mayavi"
] | 195e12ff282ef2d45f8a3f60f42aa549f3e2b63b3ac0cdfde1d16ab5ef4a234c |
#!/usr/bin/python
"""
# Created on July 24, 2017
#
# @author: Vilian Atmadzhov (vilian.atmadzhov@paddypowerbetfair.com) GitHub ID: vivobg
#
# module_check: not supported
#
# Copyright: (c) 2017 Gaurav Rastogi, <grastogi@avinetworks.com>
# Vilian Atmadzhov, <vilian.atmadzhov@paddypowerbetfair.com>
# ... | anryko/ansible | lib/ansible/modules/network/avi/avi_api_version.py | Python | gpl-3.0 | 2,692 | [
"VisIt"
] | 55755f1261ae10cf9138804cabe4e9aeb008dc3910b362472bb705679baac24d |
# Copyright 2014-2018 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by appl... | gkc1000/pyscf | pyscf/nao/m_tddft_iter_gpu.py | Python | apache-2.0 | 6,847 | [
"PySCF"
] | 2f007008f65f176c1614abbea740564bb245eb64753138f787169217760b8355 |
# ----------------------------------------------------------------------------
# Copyright (c) 2013--, scikit-bio development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file COPYING.txt, distributed with this software.
# --------------------------------------------... | johnchase/scikit-bio | skbio/alignment/_alignment.py | Python | bsd-3-clause | 60,785 | [
"scikit-bio"
] | 37e6059db0ea2225558413d19ce640992db4348405b02a324c6ad686e263ded6 |
import ast
from pylint.interfaces import IRawChecker
from pylint.checkers import BaseChecker
from logilab.common.testlib import unittest_main
from astroid import test_utils
from pylint.testutils import CheckerTestCase, Message
MSGS = {
'W1611': (
'Unused import %s',
'nnx-unused-import',
... | LA-Toth/dwa | pylintcheckers/unusedimports.py | Python | gpl-3.0 | 4,079 | [
"VisIt"
] | 6e87960c23f3a9d70d836864b5b5f0b7ada583a2083c98d5a7edbebd8ce34ad1 |
"""Tests for visit tracking middleware."""
# pylint: disable=invalid-name
from django.conf import settings
from django.contrib.auth import get_user_model
from django.core.urlresolvers import reverse
from django.test import TestCase, RequestFactory
from django.test.utils import override_settings
from mock import Mock
f... | lpatmo/actionify_the_news | open_connect/middleware/tests/test_visit_tracking.py | Python | mit | 3,264 | [
"VisIt"
] | cb8be2dbf0d806b2829cbb845ff15b23811ac32c68ff148659a5b87ca383b371 |
# -*- coding: utf-8 -*-
"""upload_docs
Implements a Distutils 'upload_docs' subcommand (upload documentation to
PyPI's packages.python.org).
"""
import os
import socket
import zipfile
import httplib
import base64
import urlparse
import tempfile
import sys
from distutils import log
from distutils.errors import Distut... | grepme/CMPUT410Lab01 | virt_env/virt1/lib/python2.7/site-packages/distribute-0.6.24-py2.7.egg/setuptools/command/upload_docs.py | Python | apache-2.0 | 6,174 | [
"VisIt"
] | f37cef73154b4f7368924938ff16042f6fa84ba6afe76c95887352d430d88789 |
__author__ = 'duarte'
from modules.parameters import ParameterSet, ParameterSpace, extract_nestvalid_dict
from modules.input_architect import EncodingLayer
from modules.net_architect import Network
from modules.io import set_storage_locations
from modules.signals import iterate_obj_list
from modules.analysis import sin... | rcfduarte/nmsat | projects/examples/scripts/single_neuron_dcinput.py | Python | gpl-2.0 | 7,658 | [
"NEURON"
] | c58ce210c012e6ddcb2fbff03647224dfa593789c10c35a00c85a16bdaa61016 |
# -*- coding: utf-8 -*-
#
# Copyright (C) 2014-2015 edX
#
# This software's license gives you freedom; you can copy, convey,
# propagate, redistribute and/or modify this program under the terms of
# the GNU Affero General Public License (AGPL) as published by the Free
# Software Foundation (FSF), either version 3 of th... | GbalsaC/bitnamiP | venv/src/xblock-utils/xblockutils/base_test.py | Python | agpl-3.0 | 7,770 | [
"VisIt"
] | c086357c06ef7df006f8013b0e1dad037bba85bb97ff1746803f92a7d90dce52 |
###############################################################################
# Settings file for birdie stress tests
###############################################################################
# base URL of installation
BASE_URL='http://localhost:6543'
DATABASE={
'drivername': 'sqlite',
'database': 'fa... | gr-/birdie | birdie_stress/birdie_stress/settings.py | Python | mit | 1,653 | [
"VisIt"
] | 84b7c316280c674ad01578279c30726532fe5be4dbeaf2315e73f31e676de12b |
#!/usr/bin/python
import pysam
import os
import sys
import csv
import operator
import logging
import collections
from itertools import chain
log = logging.getLogger('pipeline')
def converter(input_f, output_f):
'''
Converts a vcf that has been annotated using intersectBed with a
genes.gtf file into a mo... | d-quinn/bio_quinn2013 | gene_estimates/snp2gene.py | Python | mit | 20,448 | [
"pysam"
] | a024a6904e529951da3c9a7bf30d358cd13e3a22333d2bd1bb2278f6e2587b6b |
"""
AtomSpace Publisher Extension for socket.io
Extends: http://wiki.opencog.org/wikihome/index.php?title=AtomSpace_Event_Publisher
Forwards ZeroMQ messages from the AtomSpace Publisher module
to a socket.io socket accessible from web applications using
JavaScript and JQuery, including cross-domain requests
Dependenc... | rodsol/opencog | opencog/python/web/socketio/atomspace_publisher.py | Python | agpl-3.0 | 3,468 | [
"VisIt"
] | 1f5f4d4b1b383f9db772354675da4dbf835597bfba8e22a3bafdfc6629e2fb3e |
from flask import Flask, render_template, session, request, redirect
import random
app = Flask(__name__)
app.secret_key = 'my_secret_key'
@app.route('/')
def index():
if not 'gold' in session:
session['gold'] = 0
if not 'activities' in session:
session['activities'] = []
return render_temp... | jiobert/python | raj_chetan/flask_olympics/olympics8/server.py | Python | mit | 1,841 | [
"CASINO"
] | 4352db6ea14fd5c77262b0c946ddf672d14bd0958f4ada739f0b9f95608781cf |
'''
Created on Mar 12, 2015
@author: orvanano
'''
'''
Created on May 7, 2014
outputs the structure with the voronoi points
'''
import random
from pymatgen.symmetry.analyzer import SpacegroupAnalyzer
from voronoi import VoronoiInsertionTransformation
from pymatgen import Structure
#structure1 = Structure, name = stri... | tchen0965/structural_descriptors_repo | Voronoi_sites.py | Python | mit | 2,516 | [
"pymatgen"
] | 3922d47cdbd17fa149e7fc3aefa75151c6fb70a1ba3080cec99d7916d8cce9bf |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import division, unicode_literals, print_function
"""
Classes for reading/manipulating/writing VASP ouput files.
"""
__author__ = "Shyue Ping Ong, Geoffroy Hautier, Rickard Armiento, " + \
... | sonium0/pymatgen | pymatgen/io/vasp/outputs.py | Python | mit | 101,411 | [
"CRYSTAL",
"VASP",
"pymatgen"
] | 58e79a8501238c16b6255a28ffff9611e53f4a113339579b2e9bbc9da992ace9 |
# coding: utf-8
# In[411]:
import numpy as np
import matplotlib.pyplot as plt
import scipy.interpolate as inter
from scipy.optimize import curve_fit
from time import time
#get_ipython().magic('matplotlib inline')
# Function definitions and some other parameters
# In[723]:
res = 10000 # 1 sample is 1/res*1.6ms, 1... | quantumfx/binary-lens | oldcode/lens_simulation_gauss_pulse.py | Python | gpl-3.0 | 10,313 | [
"Gaussian"
] | abcd6ea4508ffd3e7ad09cbd7217c0eb065a77a3b98af3b760de40c2e8baa2b3 |
import logging
import mailchimp
import uuid
from datetime import datetime, date, timedelta
from django.core.mail import send_mail
from corehq.apps.accounting.models import (
SoftwarePlanEdition, DefaultProductPlan, BillingAccount,
BillingAccountType, Subscription, SubscriptionAdjustmentMethod, Currency,
)
from ... | SEL-Columbia/commcare-hq | corehq/apps/registration/utils.py | Python | bsd-3-clause | 14,680 | [
"VisIt"
] | 0aea12aa2a95fe82d34d10990684c1e8ea1e0fb7ce177d5c20ff75177d5b4073 |
#!/usr/bin/env python
##################################################
## DEPENDENCIES
import sys
import os
import os.path
try:
import builtins as builtin
except ImportError:
import __builtin__ as builtin
from os.path import getmtime, exists
import time
import types
from Cheetah.Version import MinCompatib... | MOA-2011/e2openplugin-OpenWebif | plugin/controllers/views/web/recordnow.py | Python | gpl-2.0 | 5,187 | [
"VisIt"
] | da8bc9530d7188193c97eaffa6d6e397d3a25f48ee6ce5c9deed3036680d4e14 |
import numpy as np
from scipy.stats import gaussian_kde
class Log_kde(gaussian_kde):
r"""Represents a one-dimensional Gaussian kernel density estimator
conducted in log-space, according to the formula
.. math::
\frac{dN}{d\ln x}(\ln x) = x \frac{dN}{dx}(x)
The KDE occurs on the left-hand-s... | farr/plotutils | plotutils/log_kde.py | Python | mit | 1,231 | [
"Gaussian"
] | d81ed9e2bc86af865024d6f3dc68f1b8078acdee067ff1b52672ef4a5839b436 |
import numpy as np
from pypcsim import *
def findInputPool(pools):
for pool in pools:
if pool["type"] == "input":
return pool
class NeuronsPool:
"""
Represents a pool of same neurons: input, excitatory, inhibitory
"""
def __init__(self, net, **kwds):
"""
net : PCSIM... | zjonke/EImotif | eim/pool.py | Python | mit | 2,711 | [
"NEURON"
] | 70802302238bf7c917d43db3513265844ab9fefb86bbb8b25fbcca0e84fddb7d |
"""
module for setting global variables
* | use sparse the scipy.sparse module instead of numpy arrays
| __sparse__ = False
* | directory for saving field files
| __FIELDDIR__ = ""
* | directory of output files
| __OUTDIR__ = ""
* | directory to save vtk files of iterations
... | bencesomogyi/pyCFD | pyCFD_config/config.py | Python | gpl-3.0 | 1,305 | [
"VTK"
] | aa2daca15dd98e41906086475adbe00d33ba69c5a2e5615635bd5d320d099045 |
from __future__ import print_function
from builtins import range
"""
SECTION 1 : Load and setup data for training and testing
the datasets separated in two files from originai datasets:
iris_train.csv = datasets for training purpose, 80% from the original data
iris_test.csv = datasets for testing purpose, 20% from t... | rianrajagede/simplesamplecode | Tensorflow/iris_tf_estimator.py | Python | mit | 3,592 | [
"NEURON"
] | a43b873ad859dc0e3413580da815d1841011098469f0773b86ee58602004a4f2 |
# from py4j.clientserver import ClientServer, JavaParameters, PythonParameters
# from py4j.java_gateway import DEFAULT_ADDRESS
# import logging, os, sys, traceback, array, time, socket
# import cdms2
# import numpy as np
#
# def getIntArg( index, default ): return int(sys.argv[index]) if index < len( sys.argv ) else d... | nasa-nccs-cds/EDAS | python/test/icdas2.py | Python | gpl-2.0 | 8,010 | [
"Gaussian"
] | 717b48ca2c076c6fbad39be6638a074aceb8141dfcf940284a2e468c0510fafd |
"""Driver for gradient calculations."""
from __future__ import print_function
import six.moves.builtins as builtins
import logging
import time
import warnings
import numpy # for numeric_grad
from six import itervalues
import theano
from theano import gof
from theano.gof import Variable
from theano.compat import Ord... | nke001/attention-lvcsr | libs/Theano/theano/gradient.py | Python | mit | 79,573 | [
"VisIt"
] | b95fae32ab65dae8ef24d04cad7e5432c0e1e55947c22e12b72bca216d8a0b8e |
"""
django-feature-labs, a complementary app to django-feature-flipper. Allows
users to visit a 'labs' page and flip features on and off.
"""
__version_info__ = {
'major': 0,
'minor': 1,
'micro': 0,
'releaselevel': 'alpha',
'serial': 1
}
def get_version():
"""
Return the formatted version ... | snswa/django-feature-labs | featurelabs/__init__.py | Python | apache-2.0 | 659 | [
"VisIt"
] | 83bc7444187aea1f174584ec2636f329fc052f3a986ef735a4b5c016c60a4971 |
import logging
from dipy.align import floating
import numpy as np
import numpy.linalg as npl
import scipy.ndimage.filters as filters
logger = logging.getLogger(__name__)
class ScaleSpace(object):
def __init__(self, image, num_levels,
image_grid2world=None,
input_spacing=None,
... | FrancoisRheaultUS/dipy | dipy/align/scalespace.py | Python | bsd-3-clause | 17,257 | [
"Gaussian"
] | a4f3d3e8100770f7646929d178a879b0a0dda20ddba13b742c0ec3cd27752259 |
import numpy as np
from Bio import Seq, SeqRecord
alphabet_synonyms = {'nuc':'nuc', 'nucleotide':'nuc', 'aa':'aa', 'aminoacid':'aa',
'nuc_nogap':'nuc_nogap', 'nucleotide_nogap':'nuc_nogap',
'aa_nogap':'aa_nogap', 'aminoacid_nogap':'aa_nogap',
'DNA':'nuc',... | neherlab/treetime | treetime/seq_utils.py | Python | mit | 14,020 | [
"Biopython"
] | dbf39ba3c6518fb1b7a6c931b575f099a8214bea1b9111d4534aaa304314837d |
PINS = [False] * 100
class Pin(object):
def __init__(self, number):
self._number = number
def on(self):
self.value = True
def off(self):
self.value = False
def _get_value(self):
return PINS[self._number]
def _set_value(self, value):
PINS[self._number] = b... | waveform80/presentations | traffic_lights/gpiozero.py | Python | cc0-1.0 | 1,710 | [
"Amber"
] | 4b7550014325a197e72826d69962c1cad8301cab966863689f267c3c1028a5e7 |
import os
import copy
import warnings
import numpy as np
import pandas as pd
import pyemu
from .pyemu_warnings import PyemuWarning
SEED = 358183147 # from random.org on 5 Dec 2016
np.random.seed(SEED)
class Loc(object):
"""thin wrapper around `pandas.DataFrame.loc` to make sure returned type
is `Ensemble` ... | jtwhite79/pyemu | pyemu/en.py | Python | bsd-3-clause | 59,849 | [
"Gaussian"
] | 5a10833f793f94e803ca8212f806934e8f91c55c3674d3d1d1eb4efb80b365af |
"""
This file contains view functions for wrapping the django-wiki.
"""
import logging
import re
import cgi
from django.conf import settings
from django.contrib.sites.models import Site
from django.core.exceptions import ImproperlyConfigured
from django.shortcuts import redirect
from django.utils.translation import ug... | jazkarta/edx-platform-for-isc | lms/djangoapps/course_wiki/views.py | Python | agpl-3.0 | 4,632 | [
"VisIt"
] | 1cf6017d19a1ff2c35451e95fd40f560e4aa4c611e3accbf515f18034a07c80d |
#!/usr/bin/env python
from setuptools import setup
setup(name='pynpact',
version='0.5',
description='Python N-Profile Analysis Computation Tool',
author='Luciano Brocchieri and Nathan Bird',
author_email='nathan@acceleration.net',
url='http://genome.ufl.edu/npact/',
packages=['pynpa... | victor-lin/npact | pynpact/setup.py | Python | bsd-3-clause | 536 | [
"Biopython"
] | fe1e87ad6eef8f6f8be2b72e696210bd3a0323f71ba5a4d9184b4df6a63e16a3 |
# -*- coding: utf-8 -*-
#
# BitcoinLib - Python Cryptocurrency Library
# Unit Tests for Wallet Class
# © 2016 - 2021 March - 1200 Web Development <http://1200wd.com/>
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU Affero General Public License as
... | 1200wd/bitcoinlib | tests/test_wallets.py | Python | gpl-3.0 | 136,207 | [
"BLAST",
"Jaguar"
] | 504cb21afcfeb3cb8b8a7ff159f3baf68a1697a3231479737b4f0f5a07ca0bed |
########################################################################
#
# (C) 2013, James Cammarata <jcammarata@ansible.com>
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software ... | fossilet/ansible | lib/ansible/cli/galaxy.py | Python | gpl-3.0 | 31,596 | [
"Galaxy"
] | 0707bd977404b5baec4fe6026ca85a554e186d751ebeb11d3541371e82ccfbd1 |
import re
from django.contrib.auth.models import User, Group
from datetime import datetime
from django_liveserver.testcases import LiveServerTestCase
import psycopg2
from splinter import Browser
import sys
from poll.models import Poll
def create_group(driver, name):
driver.open('/admin/auth/group/')
driver.bro... | mbanje/ureport_uganda | ureport_project/e2e.py | Python | bsd-3-clause | 4,220 | [
"VisIt"
] | 05fef364657b686d1aad812de5bb7963c25df5710677193978980253ca721988 |
"""
Geosoft aggregate images
:Classes:
======================== ====================================================
:class:`Aggregate_image` image constructed from one or more grid/image layers
======================== ====================================================
Geosoft aggregates are "aggr... | GeosoftInc/gxpy | geosoft/gxpy/agg.py | Python | bsd-2-clause | 17,281 | [
"Gaussian"
] | e7c8c9d7e70e3f15078c4f31f2e4b1c056840c6c763a2109e66f7b1e74d68b38 |
import genson
def test_dumps():
gson = """
{
"test0": 4,
"test1" : <0,1,2>,
"test2" : { "nested": gaussian(0,1,draws=1) },
"test3" : <"a", "b", uniform(0,1)>,
("test4", "test5") : (0, 1),
("test6", "test7") : 1,
... | davidcox/genson | test/test_dumps.py | Python | mit | 1,077 | [
"Gaussian"
] | 45646ca8197a62b6d693c1aad9b80f0662e90767742ba92e78a06d1feb744b36 |
# revset.py - revision set queries for mercurial
#
# Copyright 2010 Matt Mackall <mpm@selenic.com>
#
# This software may be used and distributed according to the terms of the
# GNU General Public License version 2 or any later version.
from __future__ import absolute_import
import heapq
import re
from .i18n import _... | dscho/hg | mercurial/revset.py | Python | gpl-2.0 | 123,368 | [
"VisIt"
] | 7894890590572b8a53d1457f718634ab5addb00bf836493fbc5294c4183aecd8 |
"""
Bootstrap the Galaxy framework.
This should not be called directly! Use the run.sh script in Galaxy's
top level directly.
"""
import os, sys
assert sys.version_info[:2] >= ( 2, 4 )
new_path = [ os.path.join( os.getcwd(), "lib" ) ]
new_path.extend( sys.path[1:] ) # remove scripts/ from the path
sys.path = new_p... | dbcls/dbcls-galaxy | scripts/paster.py | Python | mit | 582 | [
"Galaxy"
] | 5ed65bf505864cdc33bb2919aaaaa4791893c8ba0d6aa8566d651d21c3cf4b0c |
from math import tan
def solve_sle(A):
"""Solves a system of linear equations using the Gaussian elimination method.
The system should be specified as an augmented matrix
[
[a_1_1, a_1_2, ..., b_1],
[a_2_1, a_2_2, ..., b_2],
...
[a_n_1, a_n_2, ..., b_n]
],
... | mikhaildubov/Rhinoceros-Python-Scripts | code/utils/math_utils.py | Python | mit | 1,804 | [
"Gaussian"
] | 3016717becd29ac5d889803fae8794f32b76fe7d60b39c6611a19f83e2716d6a |
'''
MMD functions implemented in tensorflow.
'''
from __future__ import division
import tensorflow as tf
import numpy as np
from tf_ops import dot, sq_sum
_eps=1.0e-5
_check_numerics=False
_debug = False
mysqrt = lambda x: tf.sqrt(tf.maximum(x + _eps, 0.))
#########################################################... | mbinkowski/opt-mmd | gan/mmd.py | Python | bsd-3-clause | 24,767 | [
"Gaussian"
] | ad3535f5ad4fe67d2592f3730e18ccf9a6cc3a30eec702e6c0631f312704d7d9 |
# -*- coding: UTF-8 -*-
#retriever
from pkg_resources import parse_version
from retriever.lib.models import Table, Cleanup, correct_invalid_value
from retriever.lib.templates import Script
try:
from retriever.lib.defaults import VERSION
except ImportError:
from retriever import VERSION
class main(Script):
... | henrykironde/deletedret | scripts/pantheria.py | Python | mit | 2,998 | [
"Amber"
] | b01787df5558c7662e8301e739d4a43a2814b1cc27f22db19fa84aed401d655e |
# -*- coding: utf-8 -*-
# <nbformat>3.0</nbformat>
# <codecell>
import pandas as pd
import sys
import os, os.path
sys.path.append('/home/will/PatientPicker/')
# <codecell>
import LoadingTools
# <codecell>
redcap_data = LoadingTools.load_redcap_data()
# <codecell>
test_cols = [col for col in redcap_data.column... | JudoWill/ResearchNotebooks | PIckNewCanabPatients.py | Python | mit | 4,728 | [
"VisIt"
] | aa597fe165caf303efcfa7ddbcedbfd1e268f55a0006b1af192d04f8ecfe03bf |
#!/usr/bin/python
#-------------------------------------------------------------------------------
#License GPL v3.0
#Author: Alexandre Manhaes Savio <alexsavio@gmail.com>
#Grupo de Inteligencia Computational <www.ehu.es/ccwintco>
#Universidad del Pais Vasco UPV/EHU
#Use this at your own risk!
#-----------------------... | alexsavio/aizkolari | aizkolari_measure.py | Python | bsd-3-clause | 16,654 | [
"Gaussian"
] | 8ce0427e6afe158b9d0df98177151f61cb53a2800eb50a2a369ec8a7cd6a5792 |
import unittest
from catkit.gen.surface import SlabGenerator
from ase.build import bulk
import numpy as np
class TestSlabGenerator(unittest.TestCase):
"""Test features of catkit.gen.surface"""
def test_slab_generator(self):
"""Test that no exception is raised when running SlabGenerator."""
at... | jboes/CatKit | catkit/gen/tests/test_surfaces.py | Python | gpl-3.0 | 1,920 | [
"ASE"
] | a0211f51eefe3ab2ff3267cb0dff248ff541a6eda6c7386146e614367b58b583 |
#!/usr/bin/env python
##################################################
## DEPENDENCIES
import sys
import os
import os.path
try:
import builtins as builtin
except ImportError:
import __builtin__ as builtin
from os.path import getmtime, exists
import time
import types
from Cheetah.Version import MinCompatib... | pli3/Openwebif | plugin/controllers/views/web/timerdelete.py | Python | gpl-2.0 | 5,237 | [
"VisIt"
] | 10784418a1ae113bcf9789bf777d55728ece11474ed0e801b65fb449e150ae5f |
#----------------------------------------------------------------------------
# Classes for new input type `MEDSCatalog`; intended for use with Balrog.
# Similar to GalSim's native RealGalaxyCatalog class, but with structural
# differences due to how MEDS stores it's postage stamp images.
# Some methods and naming choi... | sweverett/Balrog-GalSim | balrog/meds_catalog.py | Python | mit | 59,648 | [
"Galaxy",
"Gaussian"
] | 0107480a28ce037703ac3995e4e8cabeb24681b2153aeedc86daa11d0b3b616c |
##############################################################################
# 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/gaussian/package.py | Python | lgpl-2.1 | 3,366 | [
"Gaussian"
] | 30c7d36b01350261a86784112d113560c2a5c90e94a83d90b4abd34f576acc5d |
import PyOpenWorm as P
from PyOpenWorm import Cell
class Muscle(Cell):
"""A single muscle cell.
See what neurons innervate a muscle:
Example::
>>> mdr21 = P.Muscle('MDR21')
>>> innervates_mdr21 = mdr21.innervatedBy()
>>> len(innervates_mdr21)
4
Attributes
-------... | hnunner/PyOpenWorm | PyOpenWorm/muscle.py | Python | mit | 935 | [
"NEURON"
] | d6ac688932530c359b2ed6d87bc848ab0cabe2f7eb3183dfe3952fb45175652d |
'''
Hodgkin-Huxley equations (1952).
'''
import os
import matplotlib
matplotlib.use('Agg')
from brian2 import *
import brian2cuda # cuda_standalone device
name = os.path.basename(__file__).replace('.py', '')
codefolder = os.path.join('code', name)
print('runing example {}'.format(name))
print('compiling model in {}'.... | brian-team/brian2cuda | examples/compartmental/hodgkin_huxley_1952_cuda.py | Python | gpl-2.0 | 2,480 | [
"NEURON"
] | 92ee8d383540ccdf4fb26fd14b6b4c6e669d52426560799c6723792717822f21 |
#!/usr/bin/env python3
import functools
import json
import logging
import sys
from collections import defaultdict
from itertools import groupby
from pathlib import Path
import pysam
from paleomix.common.argparse import ArgumentParser
from paleomix.common.logging import initialize_console_logging
from paleomix.common... | MikkelSchubert/paleomix | paleomix/pipelines/ngs/tools/finalize_bam.py | Python | mit | 16,353 | [
"pysam"
] | fec404fe19d0d545c0f804b7383cd8e45c40fcb70f1071730460bd2929b019e7 |
import discord
from discord.ext import commands
import asyncio
import youtube_dl
import random
class Voice(commands.Cog):
def __init__(self, bot):
self.bot = bot
self.channels = [
"http://stream01.iloveradio.de/iloveradio1.mp3,I Love Radio,iloveradio",
"http://br-br1-obb.... | PilleniusMC/Pixeldrohne | pxldrn/music.py | Python | lgpl-2.1 | 14,182 | [
"Galaxy"
] | c6abe3f676ac7dba00ee2cc0d31258ff3286fa833136ae371dff4c162706d934 |
import os
from gpaw.mpi import rank
machine = os.environ.get('MACHINE', 'TEST')
ncores = os.environ.get('NCORES', 8)
if rank == 0:
os.chdir(machine)
os.system('STARTCORES=%d &&. ../run_numactl.sh' % ncores)
#os.system('. ../run_numactl.sh') # full memory benchmark
| qsnake/gpaw | doc/devel/memory_bandwidth/run_numactl.py | Python | gpl-3.0 | 278 | [
"GPAW"
] | 8a30089d79cc3d1f5b05028e624e779ad9a67034169a96c6272f684bd3cf8c3d |
from __future__ import print_function
import matplotlib
import numpy as np
import copy
import re
import warnings
from astropy import log
from astropy import units as u
from six.moves import xrange
from six import string_types
from ..config import mycfg
from ..config import ConfigDescriptor as cfgdec
from . import uni... | low-sky/pyspeckit | pyspeckit/spectrum/fitters.py | Python | mit | 94,501 | [
"Gaussian"
] | 02b2f4753cb6456f2f049fbd95f26eaa62532cfecaa9a3fa5bf826e38ac7fe00 |
from __future__ import division, print_function
import abc
import numpy as np
from menpo.image import Image
from menpo.feature import sparse_hog
from menpo.visualize import print_dynamic, progress_bar_str
from menpofit.base import noisy_align, build_sampling_grid
from menpofit.fittingresult import (NonParametricFittin... | mrgloom/menpofit | menpofit/regression/trainer.py | Python | bsd-3-clause | 22,957 | [
"Gaussian"
] | c9486ae41466fda633976e17954e233afc3337b70450b60b0706ba39e4318007 |
from flask import Flask, jsonify, make_response
from flask_cors import cross_origin
from tractatus import Tractatus
app = Flask(__name__)
# Set the correct origin
# app.config['CORS_ORIGINS'] = ['http://wittgenste.in']
# app.config['CORS_METHODS'] = ['GET']
# app.config['CORS_MAX_AGE'] = [0]
@app.route("/")
def hel... | AFFogarty/wittgenstein | src/api/wittapi.py | Python | mit | 1,204 | [
"VisIt"
] | eb206b278bbd242b0a0bc5ba97a2697dcaab1355671fdf2138f6639e04f418e7 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
#!/usr/bin/env python
from __future__ import division, unicode_literals
"""
#TODO: Write module doc.
"""
__author__ = 'Shyue Ping Ong'
__copyright__ = 'Copyright 2013, The Materials Virtual Lab'
__version__ =... | Bismarrck/pymatgen | pymatgen/io/feffio_set.py | Python | mit | 611 | [
"FEFF",
"pymatgen"
] | efec0dda4602a891b048b150174462c06aec2ba6757ab91ac601c2608a4a8084 |
#!/usr/bin/env python
# Copyright 2014-2020 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# U... | sunqm/pyscf | pyscf/pbc/mp/test/test_dm.py | Python | apache-2.0 | 2,549 | [
"PySCF"
] | d2723b0fce7e8cc3de3883e5ec76f5da62c28cbe2ce495fa670b4085535fb6e4 |
"""Benchmarking module for AlignmentFile functionality"""
import os
import pysam
import unittest
from TestUtils import make_data_files, BAM_DATADIR, IS_PYTHON3, force_str, flatten_nested_list
import PileupTestUtils
def setUpModule():
make_data_files(BAM_DATADIR)
class TestPileupReadSelection(unittest.TestCase):... | pysam-developers/pysam | tests/AlignmentFilePileup_test.py | Python | mit | 16,021 | [
"pysam"
] | dd21bba51ef5a67f3245f9c0ddf90fc03c0b7718599d2f021b27dbf3126714e5 |
import enum
import inspect
import pydoc
import unittest
from collections import OrderedDict
from enum import Enum, IntEnum, EnumMeta, unique
from io import StringIO
from pickle import dumps, loads, PicklingError, HIGHEST_PROTOCOL
# for pickle tests
try:
class Stooges(Enum):
LARRY = 1
CURLY = 2
... | Microvellum/Fluid-Designer | win64-vc/2.78/python/lib/test/test_enum.py | Python | gpl-3.0 | 60,867 | [
"MOE"
] | 19a2ef1dbc6dd78f99632d1edd8fea853cbb849adcd8952dc5a6b96e9582a72c |
###############################
# This file is part of PyLaDa.
#
# Copyright (C) 2013 National Renewable Energy Lab
#
# PyLaDa is a high throughput computational platform for Physics. It aims to make it easier to submit
# large numbers of jobs on supercomputers. It provides a python interface to physical input, suc... | pylada/pylada-light | src/pylada/jobfolder/forwarding_dict.py | Python | gpl-3.0 | 12,457 | [
"CRYSTAL",
"VASP"
] | e83e0b03a1ef9110b0e7c46b849e023d9517d857ebe50166cc7304ee36e22cf1 |
import json
#!!! This giant block of imports should be something simpler, such as:
# from great_exepectations.helpers.expectation_creation import *
from great_expectations.execution_engine import (
PandasExecutionEngine,
SparkDFExecutionEngine,
SqlAlchemyExecutionEngine,
)
from great_expectations.expectati... | great-expectations/great_expectations | contrib/experimental/great_expectations_experimental/expectations/expect_column_values_number_of_decimal_places_to_equal.py | Python | apache-2.0 | 9,439 | [
"VisIt"
] | 555b1b3157edcbbd031738417db399bb8224e8045f17f7fb02a50ba959a9eb42 |
"""
Testing for Gaussian Process module (sklearn.gaussian_process)
"""
# Author: Vincent Dubourg <vincent.dubourg@gmail.com>
# Licence: BSD 3 clause
from nose.tools import raises
from nose.tools import assert_true
import numpy as np
from sklearn.gaussian_process import GaussianProcess
from sklearn.gaussian_process ... | chaluemwut/fbserver | venv/lib/python2.7/site-packages/sklearn/gaussian_process/tests/test_gaussian_process.py | Python | apache-2.0 | 6,093 | [
"Gaussian"
] | f57d0576289fc28463da36ae68ef64ed2b0aec04bca19b8b7c7c212a15dd26b7 |
# Placeholder because transformations moved
# Remove this in version 1.0
from __future__ import absolute_import
import warnings
with warnings.catch_warnings():
warnings.simplefilter('always', DeprecationWarning)
warnings.warn(("transformations has moved to MDAnalysis.lib.transformations "
"a... | kain88-de/mdanalysis | package/MDAnalysis/core/transformations.py | Python | gpl-2.0 | 442 | [
"MDAnalysis"
] | 94a26a1b5e676f8149c94d9d3d29b94678a766e6fa4a9d1238d99ff171dc5bb4 |
#!/usr/bin/python
# Copyright: (c) 2020, Ansible Project
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
from __future__ import (absolute_import, division, print_function)
__metaclass__ = type
ANSIBLE_METADATA = {
'metadata_version': '1.1',
'status': ['preview'],
... | BondAnthony/ansible | test/integration/targets/ansible-galaxy-collection/library/setup_collections.py | Python | gpl-3.0 | 6,170 | [
"Galaxy"
] | 849b369b53e68ea2912ca67c95be1c45415dc381120184b90f1e29abfb325ebb |
"""
====================================================================
K-means clustering and vector quantization (:mod:`scipy.cluster.vq`)
====================================================================
Provides routines for k-means clustering, generating code books
from k-means models, and quantizing vectors ... | sargas/scipy | scipy/cluster/vq.py | Python | bsd-3-clause | 25,558 | [
"Gaussian"
] | bd822cea2a115761e4129734b619e8bb462f218a71ec139de51f483b3d871afa |
# Copyright (c) Anand Patil, 2007
__docformat__='reStructuredText'
from numpy import *
from GPutils import regularize_array, trisolve
__all__ = ['Mean','zero_fn']
class Mean(object):
"""
M = Mean(eval_fun, **params)
A Gaussian process mean.
:Arguments:
- `eval_fun`: A function tha... | matthew-brett/pymc | pymc/gp/Mean.py | Python | mit | 3,498 | [
"Gaussian"
] | e8b0121e2c5f20962f81a7abb5527e062c20a460c464e79e4f3a2aa7bfb369fa |
import itertools
import json
import os
import subprocess
import unittest
import netCDF4
import numpy as np
import rdflib
import rdflib.compare
import requests
import bald
from bald.tests import BaldTestCase
class Test(BaldTestCase):
def setUp(self):
self.cdl_path = os.path.join(os.path.dirname(__file__),... | binary-array-ld/bald | lib/bald/tests/integration/test_cdl_rdfgraph.py | Python | bsd-3-clause | 17,693 | [
"NetCDF"
] | bc2525f23428e74ede47705c99f51ac388efddf8f018c1d7b3db752353ca03d1 |
# -*- coding: utf-8 -*-
# YAFF is yet another force-field code.
# Copyright (C) 2011 Toon Verstraelen <Toon.Verstraelen@UGent.be>,
# Louis Vanduyfhuys <Louis.Vanduyfhuys@UGent.be>, Center for Molecular Modeling
# (CMM), Ghent University, Ghent, Belgium; all rights reserved unless otherwise
# stated.
#
# This file is pa... | molmod/yaff | yaff/external/libplumed.py | Python | gpl-3.0 | 9,257 | [
"LAMMPS"
] | 1900c2dab9841539f461891b32b2b948eb38643c6563ed561ed81d6f2f5c8b8e |
# -*- coding: utf-8 -*-
__author__ = 'Brian Choate'
__email__ = 'brian.choate@gmail.com'
__version__ = '0.0.1'
| brianchoate/chef2ldif | chef2ldif/__init__.py | Python | bsd-3-clause | 112 | [
"Brian"
] | 1916ea89f6b5528d56e0192ca3743ed8afcd96b5d36b7fa6d4df2149f67c7bad |
from collections import namedtuple
from copy import deepcopy
from redux.ast import FunctionDefinition, BitfieldDefinition, ReturnStmt, Assignment, VarRef
from redux.intrinsics import get_intrinsic_functions, IntrinsicFunction, GetAchronalField, SetAchronalField
from redux.types import is_numeric, common_arithmetic_type... | Muon/redux | redux/typeannotate.py | Python | mit | 10,096 | [
"VisIt"
] | 59f3467e11338c36b010b6089f13169a7fa2eada53bec67bf310d5f61a3bb941 |
'''
Figures and analysis highlighting anomalous gas features
'''
from spectral_cube import SpectralCube
from astropy import units as u
import numpy as np
import matplotlib.pyplot as plt
from aplpy import FITSFigure
from astropy.visualization import AsinhStretch
from astropy.visualization.mpl_normalize import ImageNo... | e-koch/VLA_Lband | 14B-088/HI/analysis/HI_offrotation_components.py | Python | mit | 14,651 | [
"Galaxy"
] | 117342d6e9315e57053ae17ec5340d7aa4ebe2ceacf7e48f693a0175a063f70c |
"""
Gaussian process likelihood models
========================
"""
try:
__import__('pkg_resources').declare_namespace(__name__)
except ImportError:
from pkgutil import extend_path
__path__ = extend_path(__path__, __name__)
#import covar_base
from likelihood_base import *
| PMBio/pygp | pygp/likelihood/__init__.py | Python | gpl-2.0 | 287 | [
"Gaussian"
] | 4946f71a936eba016f7c83265e248e78ee0538f1ee206271d53d49df3fd893e8 |
# $Id$
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
import module_utils
import vtk
import wx
class pngRDR(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._reader = vtk.vtkPNG... | nagyistoce/devide | modules/readers/pngRDR.py | Python | bsd-3-clause | 3,502 | [
"VTK"
] | 97eca648c4fbb291d3dd7fd8cf26554aaea7e3dc6bf13fd93221683284063f21 |
# -*- coding: utf-8 -*-
"""setup.py: setuptools control."""
import re
from setuptools import setup
version = re.search(
'^__version__\s*=\s*"(.*)"',
open('longdist/longdist.py').read(),
re.M
).group(1)
with open("README.md", "rb") as f:
long_descr = f.read().decode("utf-8")
setup(
name="longdi... | hugowschneider/longdist.py | setup.py | Python | gpl-3.0 | 938 | [
"Biopython"
] | 47b9a4d44e60c0d1197763688a240e5d139b87c5c49935b270fe58595a6cd74a |
#!/usr/bin/env python
import vtk
from vtk.test import Testing
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
# Interpolate onto a volume
# Parameters for debugging
res = 100
# create pipeline
#
extent = [0,56, 0,32, 0,24]
pl3d = vtk.vtkMultiBlockPLOT3DReader()
pl3d.SetXYZFileName(VTK_DATA_... | keithroe/vtkoptix | Filters/Points/Testing/Python/TestPointInterpolator2.py | Python | bsd-3-clause | 2,720 | [
"Gaussian",
"VTK"
] | db9ef9a061c0640eef5eb172677f9336af4ab92f4608a3d03204e3c24640f659 |
"""
This module contains code for running a full reciprocal BLAST analysis in Goat,
including running the forward search, parsing the output and getting the
intermediate queries, running the reverse search, parsing the output, and then
summarizing the results of both the forward and reverse search.
"""
from tkinter im... | chris-klinger/Goat | analyses/reciprocal_blast.py | Python | gpl-3.0 | 4,535 | [
"BLAST"
] | 8e22d5a5c6faabcd208eb71f8893219c7180dcd207bedb0df624c19c6232850d |
import time
import logging
import numpy as np
from scipy.stats import mstats, ks_2samp
from astroML.utils import check_random_state
from plotting_functions import plot_CDFs_and_KS_results
from io_grb_pop import read_column
log = logging.getLogger(__name__)
def draw_from_cdf_file(filename, N_draws, **args):
"""
... | JPalmerio/GRB_population_code | grbpop/stats.py | Python | gpl-3.0 | 31,314 | [
"Gaussian"
] | 3b429e44fd8ab1f72c231cf998aaf894456dfe47956d4dcf9d2e46c9589a2424 |
from aiida import load_dbenv
load_dbenv()
from aiida.orm import Code, DataFactory
import numpy as np
StructureData = DataFactory('structure')
ParameterData = DataFactory('parameter')
codename = 'lammps_force@boston'
############################
# Define input parameters #
############################
# GaN
cell ... | abelcarreras/aiida_extensions | plugins/launcher/launch_lammps_force_gan.py | Python | mit | 3,383 | [
"LAMMPS"
] | 4d770a834ecde5599633f19e28254d4072149a70a50717e0789c93944da3cd05 |
###############################################################################
#
# Copyright (c) 2011 Ruslan Spivak
#
# 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, inc... | niwinz/cobrascript | cobra/compiler.py | Python | bsd-3-clause | 12,829 | [
"VisIt"
] | 1cb99ea73ea42b26952bfe9232889c7c4f2ebe4ddd7aae9bf925085ffed2978b |
from theano import function, shared
from theano import tensor as TT
import theano
sharedX = (lambda X, name:
shared(numpy.asarray(X, dtype=theano.config.floatX), name=name))
def kinetic_energy(vel):
"""Returns the kinetic energy associated with the given velocity
and mass of 1.
Parameters
... | DartML/SteinGAN | mnist/logz/hmc_single.py | Python | mit | 15,607 | [
"Gaussian"
] | 4c55334af1f129328f53862e9dad2a9b0b1555d11367c7225b6a0ffd38ae4a1e |
"""
Classes for iterating variants with sequence context
"""
import pysam
class Variant(object):
"""
A pysam.VariantRecord wrapper, with up- and down-stream sequence context.
"""
def __init__(self, record, upstream_sequence=None, downstream_sequence=None):
self._record = record
self.u... | stekaz/flankextractor | flankextractor/variant_readers.py | Python | gpl-3.0 | 4,273 | [
"pysam"
] | c0b82736dec3984d74b089b9bc0a8630bbee6ca9e764b23bcd1116fc3b1b858c |
CLASSIFIERS = {
"Development Status :: 1 - Planning",
"Development Status :: 2 - Pre-Alpha",
"Development Status :: 3 - Alpha",
"Development Status :: 4 - Beta",
"Development Status :: 5 - Production/Stable",
"Development Status :: 6 - Mature",
"Development Status :: 7 - Inactive",
"Envi... | regebro/pyroma | pyroma/classifiers.py | Python | mit | 45,278 | [
"CDK",
"Napari"
] | f6bc43ac39fbb5e230d910d134fc9d632eb7f189f45184c209d8a03cb4726eca |
""" Summary plots of SHAP values across a whole dataset.
"""
from __future__ import division
import warnings
import numpy as np
import scipy as sp
from scipy.stats import gaussian_kde
try:
import matplotlib.pyplot as pl
except ImportError:
warnings.warn("matplotlib could not be loaded!")
pass
from ._label... | slundberg/shap | shap/plots/_beeswarm.py | Python | mit | 41,023 | [
"Gaussian"
] | 62f359f5db8499f5b60d89d75eae9525878c50a3b27d1225ae3bf34146d15f64 |
from frappe import _
data = [
{
"label": _("Documents"),
"icon": "icon-star",
"items": [
{
"type": "doctype",
"name": "Support Ticket",
"description": _("Support queries from customers."),
},
{
"type": "doctype",
"name": "Customer Issue",
"description": _("Customer Issue against... | gangadhar-kadam/hrerp | erpnext/config/support.py | Python | agpl-3.0 | 1,517 | [
"VisIt"
] | 6ed3779c0921082dee115bf0ea6847a3323b3fd8cc0c7c880d275fa3a40813b1 |
# This file is part of Buildbot. Buildbot 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, version 2.
#
# This program is distributed in the hope that it will be useful, but WITHOUT
# ANY WARRANTY; without eve... | wainersm/buildbot | master/buildbot/test/unit/test_steps_shell.py | Python | gpl-2.0 | 40,271 | [
"exciting"
] | 324f6a140172dada9428132d969bfe0dfb617121d86ab9e1966cbc2e6567085b |
# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4 fileencoding=utf-8
#
# MDAnalysis --- http://www.mdanalysis.org
# Copyright (c) 2006-2016 The MDAnalysis Development Team and contributors
# (see the file AUTHORS for the full list of names)
#
... | kain88-de/mdanalysis | testsuite/MDAnalysisTests/coordinates/test_timestep_api.py | Python | gpl-2.0 | 7,089 | [
"LAMMPS",
"MDAnalysis",
"NetCDF"
] | 7387c711d7e619fb77d9123179aae4d469e8d0b977a21a366cf85d6a8fb8a979 |
# ============================================================================
#
# Copyright (C) 2007-2012 Conceptive Engineering bvba. All rights reserved.
# www.conceptive.be / project-camelot@conceptive.be
#
# This file is part of the Camelot Library.
#
# This file may be used under the terms of the GNU General... | jeroendierckx/Camelot | camelot/view/import_utils.py | Python | gpl-2.0 | 16,886 | [
"VisIt"
] | b77879b21e3ce8fb2bec865b4b334a98eee621b4753259b7e565e6678f77e0a0 |
############################################################
# Copyright 2010 Sandia Corporation.
# Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
# the U.S. Government retains certain rights in this software.
############################################################
# Contact: Philippe Pebay... | Wuteyan/VTK | Examples/Infovis/Python/haruspex.py | Python | bsd-3-clause | 18,434 | [
"VTK"
] | ead647307b1d318c0a31e10d7ca22e1f2c08c51d6817ae76b9f46bed4bffcc2b |
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