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# -*- coding: utf-8 -*-
#to kill python processes use -- pkill python
from __future__ import print_function
from builtins import str
from builtins import range
from builtins import object
import time
import datetime
import sys,os
import serial
import logging
# variable below is a flag to avoid send procedure to run... | Hydrosys4/Master | serialcmdmod.py | Python | gpl-3.0 | 10,085 | [
"CRYSTAL"
] | 508a5321edc44e1777e1b73e16cfbfa60c9c994826de18bcf22633d5968f62fd |
bbox = 'bbox'
centroid = 'out meta center qt;'
all_requests = {
'missing_cuisine': [
'node["name"~".*"]["amenity"~"restaurant|fast_food"]["cuisine"!~".*"]'+bbox+';',
'way["name"~".*"]["amenity"~"restaurant|fast_food"]["cuisine"!~".*"]' + bbox + ';'+centroid
],
'opening_hours': [
... | kort/kort-core | database/mission_creator/overpass_queries.py | Python | mit | 1,980 | [
"CASINO"
] | ebbcd72ea09413ef7e311cf6bf7f897bc397f7bf364b2fa38ff991e19b360d0c |
'''
rewrite on 14/09/16:
W is only a vector
'''
from numpy import *
import theano
import theano.tensor as T
import gzip
import cPickle
import numpy
import time
class neuron(object):
def __init__(self, rng, input, n_in = None, n_out = None,
activation = T.nnet.sigmoid, W = None, b... | PiscesDream/Ideas | ML/single_ann/single_ann.py | Python | apache-2.0 | 9,652 | [
"NEURON"
] | 066e7d20bfff8c9cb4c1e4922f123f87ff8eccd4194e1779f501a415379be492 |
import json
import sys
def get_root(body) :
for part in body["part"] :
if part["root"] :
return part
def get_part(id_, body) :
for part in body["part"] :
if part["id"] == id_ :
return part
#def fix_param(val) :
# return round(val * 10000)/10000.0
def write_pa... | jauerb/robogen | python/json_converter.py | Python | gpl-3.0 | 3,816 | [
"NEURON"
] | 9967d8d7f9054e44cdd9a1295a732a5fb1481028b7aec98536c40adff414c542 |
__all__ = [
'AddPdfNorm',
'AddPdf',
'BinnedChi2',
'BinnedLH',
'BlindFunc',
'Chi2Regression',
'Convolve',
'Extended',
'Normalized',
'Polynomial',
'HistogramPdf',
'UnbinnedLH',
'argus',
'cruijff',
'cauchy',
'rtv_breitwigner',
'crystalball',
'describe... | mtresch/probfit | probfit/__init__.py | Python | mit | 1,415 | [
"Gaussian"
] | 946f6cddc54a9b06a87b7298bec19c1dce3f49f3fef5bac19f14868d7b741ce7 |
""" Interacts with sqlite3 db
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
import six
import sqlite3
import os
import hashlib
import time
import DIRAC
from DIRAC import gLogger, S_OK, S_ERROR
from DIRAC.FrameworkSystem.private.monitoring.Activity imp... | yujikato/DIRAC | src/DIRAC/FrameworkSystem/private/monitoring/MonitoringCatalog.py | Python | gpl-3.0 | 17,613 | [
"DIRAC"
] | 53efde2635152ce4536fcab42c17db11128c6d3fa167b43f72c4a66fc6668fe4 |
"""Module for parsing and representing dates in gedcom format.
"""
__all__ = [
"DateValueTypes", "DateValue",
"DateValueAbout", "DateValueAfter", "DateValueBefore", "DateValueCalculated",
"DateValueEstimated", "DateValueFrom", "DateValueInterpreted", "DateValuePeriod",
"DateValuePhrase", "DateValueRang... | andy-z/ged4py | ged4py/date.py | Python | mit | 27,727 | [
"VisIt"
] | b35bd7d52700c00f67cb3a39aeaec65c6d3c75b610842b486c57a5bbc7c6c975 |
#!/bin/python3
# coding: utf-8
"""chios setup file."""
# To use a consistent encoding
from codecs import open
from os import path
from setuptools import find_packages, setup
from chios import __version__
here = path.abspath(path.dirname(__file__))
# Get the long description from the README file
with open(path.join... | kallimachos/chios | setup.py | Python | gpl-3.0 | 1,395 | [
"Brian"
] | 8eefb263a9fb2a466349dcdb352f205780c5400fdba6476518998c4b9fdd4b50 |
def SubmitMCDec( eventNumber, prod_filter = "*", batch_submit = False):
from fnmatch import fnmatch
Application = DaVinci()
Application.version = 'v38r1p1'
JobName = ""
datafiles = []
DSTs = []
nfiles = 5
if len( eventNumber ) == 8:
try:
eventType = int( eventNumber )
except:
print "Invalid eve... | iwansmith/FutureLHCb | GridJobs/Ganga_Submit.py | Python | gpl-3.0 | 2,848 | [
"DIRAC"
] | 6e0526dbf1c5f90545a8e31d392990937c5c6db8312e23e07dd70565111d0c50 |
from __future__ import unicode_literals
from django.utils.encoding import python_2_unicode_compatible
from django.conf import settings
try:
from django.contrib.contenttypes.fields import GenericForeignKey
except ImportError:
from django.contrib.contenttypes.generic import GenericForeignKey
from django.contrib.c... | selwin/Django-facebook | django_facebook/models.py | Python | bsd-3-clause | 23,939 | [
"VisIt"
] | a66fcc5798396ac8b85f7050f5c567d8bc171e37ded4f1851c77ca0c1d51cb72 |
# version code ef5291f09f60+
# pass = ZzBcTmfdMK
coursera = 1
# Please fill out this stencil and submit using the provided submission script.
## 1: (Task 1) Minutes in a Week
minutes_in_week = 7*24*60
## 2: (Task 2) Remainder
#For this task, your expression must use //
remainder_without_mod = 2304811 // 47
#... | baocongchen/Coding-the-Matrix-Linear-Algebra-through-Computer-Science-Applications | python_lab.py | Python | mit | 7,211 | [
"MOE"
] | 7e18dea3458aec8e14d447b28566507e69a2ed2c21316365135136ba0932c2bc |
from __future__ import absolute_import
from __future__ import print_function
import numpy as nm
from .bspline import BSpline
from sfepy.base.base import Struct
from six.moves import range
class SplineBox(Struct):
"""
B-spline geometry parametrization. The geometry can be modified
by moving spline control ... | lokik/sfepy | sfepy/mesh/splinebox.py | Python | bsd-3-clause | 15,678 | [
"VTK"
] | 41c7913cc632c137e88df9d644cf45c24b45dd7c99e0720999cea6f4c9a079ef |
#
# @BEGIN LICENSE
#
# Psi4: an open-source quantum chemistry software package
#
# Copyright (c) 2007-2017 The Psi4 Developers.
#
# The copyrights for code used from other parties are included in
# the corresponding files.
#
# This file is part of Psi4.
#
# Psi4 is free software; you can redistribute it and/or modify
#... | rmcgibbo/psi4public | psi4/driver/qcdb/p4regex.py | Python | lgpl-3.0 | 1,282 | [
"Psi4"
] | b0cfa83be82c0302d63c335632f776bf45b91674250f65a43dea158a39e86b26 |
"""Functions to plot M/EEG data on topo (one axes per channel)."""
# Authors: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Denis Engemann <denis.engemann@gmail.com>
# Martin Luessi <mluessi@nmr.mgh.harvard.edu>
# Eric Larson <larson.eric.d@gmail.com>
#
# License: Simplified BSD
from c... | kambysese/mne-python | mne/viz/topo.py | Python | bsd-3-clause | 39,324 | [
"Gaussian"
] | 387fb01e46154ba59a7482bc2fb59f3a9a9c5c6cc851e94ff6bbda68472e63f4 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
"""
========================================================================
Gaussian Processes regression: goodness-of-fit on the 'diabetes' dataset
========================================================================
This example consists in fitting a Gaussian Process m... | flightgong/scikit-learn | examples/gaussian_process/gp_diabetes_dataset.py | Python | bsd-3-clause | 2,020 | [
"Gaussian"
] | 2cb667fc95bb3b4d4d49c7a307968532877d4024b145e243f64d456a466c86d5 |
# (c) 2017 Gregor Mitscha-Baude
"""Generic framework to define, fit, sample, and plot statistical models;
especially suited for compound models, models which include complicated
machinery, and generally models that are not analytically tractable.
Uses simulated annealing as generic parameter search (fitting) procedure.... | mitschabaude/nanopores | nanopores/tools/statistics.py | Python | mit | 25,823 | [
"Gaussian"
] | bc31ee9190ca85f9fdcc8f2f2b15d60a436fa90aa5dcddece755e6726f51bee8 |
"""
Test of lpi.blast module
"""
from __future__ import division, absolute_import, print_function
from nose.tools import assert_raises
from nose import tools as nt
import json
from lpi import blast
from . import helpers
def test_seqid_type():
'''Test that the SeqID type behaves as expected.'''
def _do_seqid(... | kdmurray91/lpipy | lpi/tests/test_blast.py | Python | lgpl-3.0 | 3,187 | [
"BLAST"
] | 1d8c3f8e792003387aac6720061638ce2b25ea34856f11b727e16dde78e1e28f |
# -----------------------------------------------------------------------------
# User configuration
# -----------------------------------------------------------------------------
outputDir = '/Users/seb/Desktop/Geometry-can/'
inputFile = '/Users/seb/Downloads/ParaViewData-3.10.1/Data/can.ex2'
# --------------------... | Kitware/arctic-viewer | scripts/examples/paraview/samples/Geometry-can.py | Python | bsd-3-clause | 1,857 | [
"ParaView"
] | bb68cd4a30a5082cb8f693ff62711c77365ba5e4037932d6dd4532fbf3500c8b |
""" Contains the ShotGroup base class."""
# shot_group.py
# Mission Pinball Framework
# Written by Brian Madden & Gabe Knuth
# Released under the MIT License. (See license info at the end of this file.)
# Documentation and more info at http://missionpinball.com/mpf
from collections import deque
from mpf.system.devic... | qcapen/mpf | mpf/devices/shot_group.py | Python | mit | 15,787 | [
"Brian"
] | d5b20fbdd87691208a1654a2a05a7961e692c3cf2c38d6fb74f6934b8eb11384 |
"""
Usage of ThreadPool
ThreadPool creates a pool of worker threads to process a queue of tasks
much like the producers/consumers paradigm. Users just need to fill the queue
with tasks to be executed and worker threads will execute them
To start working with the ThreadPool first it has to be instanced::
threadPo... | DIRACGrid/DIRAC | src/DIRAC/Core/Utilities/ThreadPool.py | Python | gpl-3.0 | 11,510 | [
"DIRAC"
] | 011155c5c54fe9f19c166fb23bfd16c75ceb1d8844035862addd5f89221307f9 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
A wrapper for Google's Places API.
See: http://code.google.com/apis/maps/documentation/places/
Based on python-googlegeocoder by The Los Angeles Times Data Desk / Ben Welsh
https://github.com/datadesk/python-googlegeocoder
"""
import urllib
import urllib2
from decimal... | kerin/python-googleplaces | googleplaces/api.py | Python | bsd-3-clause | 10,868 | [
"CASINO"
] | 07f581fc96a9be30add38fca582dfc042b3c1d7bfe3a52a4ed537fdbc05df797 |
"""Read and write ASE2's netCDF trajectory files."""
from scipy.io.netcdf import NetCDFFile
from ase.atoms import Atoms
from ase.calculators.singlepoint import SinglePointCalculator
def read_netcdf(filename, index=-1):
nc = NetCDFFile(filename)
dims = nc.dimensions
vars = nc.variables
positions = v... | suttond/MODOI | ase/io/netcdf.py | Python | lgpl-3.0 | 2,937 | [
"ASE",
"NetCDF"
] | 9e67ad3a3c38ce502a90ac1a4fe3b1c5d94ab60b00fc26d1d578d74558f7d3e2 |
#!/usr/bin/env python
#
# texttable - module for creating simple ASCII tables
# Copyright (C) 2003-2015 Gerome Fournier <jef(at)foutaise.org>
#
# This library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free Software Foundat... | chenhsiu/texttable | texttable.py | Python | lgpl-3.0 | 18,898 | [
"Brian"
] | 728d1668f22f861cd57cda626caac9b353bbadc3d1de0533c1f6c41bf2443a41 |
# -*- coding: utf-8 -*-
#
# 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 ... | pombredanne/scancode-toolkit | tests/cluecode/test_copyrights.py | Python | apache-2.0 | 179,302 | [
"Brian",
"VisIt"
] | 9f4e373ad6c2ed3542353b19973b8dc857f5905a10babf9cb187575b584c8b56 |
from __future__ import division,print_function
import numpy as np
import sys
def error(message,errortype):
print(message)
exit(errortype)
periodic_table = [
"h","he","li","be","b","c","n","o","f","ne","na","mg","al","si","p","s","cl","ar",
"k","ca","sc","ti","v","cr","mn","fe","co","ni","cu","zn","ga","ge","a... | bbusemeyer/mainline | utils/autogen/crystal2qmc.py | Python | gpl-2.0 | 28,230 | [
"CRYSTAL",
"GAMESS",
"Gaussian"
] | 948749493ea728a35330ff983454b50e28e87436286b02a764950e19465721cc |
from ase.test import NotAvailable
from ase.lattice import bulk
from ase.calculators.calculator import get_calculator
required = {'abinit': dict(ecut=200, toldfe=0.0001, chksymbreak=0),
'aims': dict(sc_accuracy_eev=5.e-3),
'elk': dict(tasks=0, rgkmax=5.0),
'gpaw': dict(mode='pw')}
... | grhawk/ASE | tools/ase/test/al.py | Python | gpl-2.0 | 1,194 | [
"ABINIT",
"ASE",
"Elk",
"GPAW"
] | f0fd09fbd932f4ca66e64e56eb23ccdd1b1292bf60cd0f1ed79ddd5ec9b6b080 |
# -*- coding: utf-8 -*-
from wms.models.style import Style
from wms.models.group import Group
from wms.models.server import Server
from wms.models.variable import Variable
from wms.models.layer import Layer, VirtualLayer
from wms.models.datasets.netcdf import NetCDFDataset
from wms.models.datasets.base import Dataset
... | ayan-usgs/sci-wms | wms/models/__init__.py | Python | gpl-3.0 | 473 | [
"NetCDF"
] | 49bbb6d861a3b7727699b236ff9e93ded2eb6f9c799429d33c0448605a2ace85 |
from typing import Callable, List, Sequence, Tuple
import numpy as np
import pytest
import scipy
import tensorflow as tf
from _pytest.fixtures import SubRequest
import gpflow
import gpflow.inducing_variables.multioutput as mf
import gpflow.kernels.multioutput as mk
from gpflow import set_trainable
from gpflow.base im... | GPflow/GPflow | tests/gpflow/conditionals/test_multioutput.py | Python | apache-2.0 | 31,704 | [
"Gaussian"
] | ab34ef8c60d9f6ede8a12ec873bccf99d99d68e2405684e4ba68afc98b3403cb |
class Solution(object):
def findWords(self, board, words):
"""
:type board: List[List[str]]
:type words: List[str]
:rtype: List[str]
"""
def dfs(i, j, prefix, trie):
if board[i][j] not in trie:
return
if None in trie[board[i][j]... | zqfan/leetcode | algorithms/212. Word Search II/solution.py | Python | gpl-3.0 | 1,297 | [
"VisIt"
] | b3b82e6923c28ad79bd9679c28e13f5d287fee6a2c7975c9839ec5af0380e1d7 |
"""
Mousemat class
"""
from razer_daemon.hardware.device_base import RazerDeviceBrightnessSuspend as __RazerDeviceBrightnessSuspend
class RazerFireFly(__RazerDeviceBrightnessSuspend):
"""
Class for the Razer Firefly (2013)
"""
USB_VID = 0x1532
USB_PID = 0x0C00
HAS_MATRIX = True
MATRIX_DIMS... | z3ntu/razer-drivers | daemon/razer_daemon/hardware/mouse_mat.py | Python | gpl-2.0 | 1,184 | [
"Firefly"
] | 2983c54039df2347bd2b78ade4be81860849a9708f21b9e1b02a2f03cb50da6a |
import nengo.nef_theano as nef
net=nef.Network('Two Neurons') # Create the network
net.make_input('input',[-0.45]) # Create a controllable input
# with a starting value of -.45
net.make('neuron',neurons=2,dimensions=1, # Make 2 neurons representing
max_rat... | ctn-waterloo/nengo_theano | examples/twoneurons.py | Python | mit | 1,036 | [
"NEURON"
] | 002ab1ed8ee02258349756a947b1f6e9f181e1ce2ddb5397cbe8d1b01c6af790 |
#!/usr/bin/env python
import os
import sys
import numpy as np
import matplotlib.pyplot as plt
def expected_nc01():
# these data were generated by Mathematica
data = [
[1, 1.9987388658953044e6],
[2, 1.997473003356622e6],
[3, 1.9961992552635241e6],
[4, 1.9949144459053434e6],
... | katyhuff/moose | modules/porous_flow/doc/tests/newton_cooling.py | Python | lgpl-2.1 | 8,446 | [
"MOOSE"
] | e854c7915f020d71389381484334fc14207d72b607bb9c5e3bfeacbacfa00571 |
from django.test import TestCase
from django.test.client import Client
from hq.tests.util import create_user_and_domain
from hq.models import ExtUser, Domain
from graphing.models import *
class ViewsTestCase(TestCase):
def setUp(self):
create_user_and_domain()
self.client.login(username='brian... | commtrack/commtrack-old-to-del | apps/graphing/tests/views.py | Python | bsd-3-clause | 2,039 | [
"Brian"
] | a6b19bf8a79358df7bd3bd199de04819a0fa27a75212093f23df22d9c5dcb43d |
#!/usr/bin/env python3
#==============================================================================
# author : Pavel Polishchuk
# date : 26-06-2019
# version :
# python_version :
# copyright : Pavel Polishchuk 2019
# license :
#===========================================... | DrrDom/crem | crem/guacamol_crem_test.py | Python | bsd-3-clause | 12,411 | [
"RDKit"
] | 5b110a153252d482205e303a3812b572c7f95afe5be95d8612047b65a67d23af |
# -*- coding: utf-8 -*-
"""
Created on Tue Apr 29 15:42:37 2014
@author: benschneider
- creates a 3d matrix.
"""
import scipy.ndimage
import scipy.signal as signal
from scipy.optimize import curve_fit
import equations as eq
import numpy as np
def get_ringdown_X(w_array, w_res, t, Q):
X = np.zeros([len(w_array),... | benschneider/dephasing_ringdown_sim | simulation_functions.py | Python | gpl-2.0 | 10,869 | [
"Gaussian"
] | 9c787e56f40ffd311490869a863d098f59e58da971d672fa4bc4a0eeead43af9 |
"""
This is used to test the MySQLDB module.
"""
import time
import pytest
import DIRAC
from DIRAC import gLogger, gConfig
from DIRAC.Core.Utilities import Time
from DIRAC.Core.Utilities.MySQL import MySQL
# Useful methods
def setupDB():
"""Get configuration from a cfg file and instantiate a DB"""
gLogger.... | DIRACGrid/DIRAC | tests/Integration/Core/Test_MySQLDB.py | Python | gpl-3.0 | 9,729 | [
"DIRAC"
] | c94ba230b89dee6551e25416695ee9bd4afc38af4680fbb847a75a8d016d2c07 |
"""
An efficient implementation of the triple-plane view showing 3 cut planes
on volumetric data, and side views showing each cut, with a cursor to
move the other cuts.
This is an example of complex callback interaction. It builds on the
:ref:`example_volume_slicer` but has more complex logic. You should try
to unders... | liulion/mayavi | examples/mayavi/interactive/volume_slicer_advanced.py | Python | bsd-3-clause | 11,552 | [
"Mayavi",
"VTK"
] | a2b5ea4350993514b3276a6b97c7f7acea1bf91412d21c93eb010287491c1bc5 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
###########################################################################
# #
# ESPResSo++ Python script for tabulated GROMACS simulation #
# ... | capoe/espressopp.soap | examples/simpleGromacs/simpleGromacs.py | Python | gpl-3.0 | 7,452 | [
"ESPResSo",
"Gromacs"
] | 77e138ca97a76371a9670b634154c04ea6e8947483a40e7bed5de0688d7256ae |
# -*- coding: utf-8 -*-
# pybec v0.1.0 Copyright © 2012
# Kevin C. Wright
# Licensed under the terms of the GNU Public License v 3.0 (see LICENSE.txt)
# pylint: disable-msg=C0103
"""
pybec.fit1D v0.1
Kevin C. Wright - May 2011
1D curve fitting functions
"""
from __future__ import division
from numpy impo... | kevincwright/quagmire | fit1D.py | Python | gpl-3.0 | 8,468 | [
"Gaussian"
] | 69ff5884ddf60c4c8af247a32d69e028e7ab9c20ff38b57e93250e8e9cfd3903 |
#!/usr/bin/env python
########################################################################
# $HeadURL$
# File : dirac-dms-pfn-accessURL
# Author : Stuart Paterson
########################################################################
"""
Retrieve an access URL for a PFN given a valid DIRAC SE
"""
from __fut... | chaen/DIRAC | Interfaces/scripts/dirac-dms-pfn-accessURL.py | Python | gpl-3.0 | 1,455 | [
"DIRAC"
] | ef1405cdbaaa5f2efc130c4dae9cd88be4cf7a804656fdd850e824389f37f336 |
"""
any DFT interface can be added here, as long as two functions listed below are implemented
* parse_dft_input(dft_input)
* dft_module.run_dft_par(dft_input, structure, dft_loc, no_cpus)
"""
from flare.dft_interface import qe_util, cp2k_util
dft_software = {"qe": qe_util, "cp2k": cp2k_util}
try:
import pymatg... | mir-group/flare | flare/dft_interface/__init__.py | Python | mit | 436 | [
"CP2K",
"VASP",
"pymatgen"
] | 694ac4a54288ab3419bd12e9f0eb4a4b62f1090ff9d432e64067abf701503eba |
"""This module defines an ASE interface to FHI-aims.
Felix Hanke hanke@liverpool.ac.uk
Jonas Bjork j.bjork@liverpool.ac.uk
"""
from general import Calculator
import os
import sys
from os.path import join, isfile, islink
import numpy as np
import ase
float_keys = [
'charge',
'charge_mix_param',
'default... | slabanja/ase | ase/calculators/aims.py | Python | gpl-2.0 | 19,481 | [
"ASE",
"FHI-aims"
] | 38b1f6eaa685ec9c640291ffeb3f74f5e6d1230bb8106f1fefc532fc8b0599be |
# 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 | src/python/espressomd/constraints.py | Python | gpl-3.0 | 14,033 | [
"ESPResSo"
] | f452ba73e61a82eed4f3181585669c1307fac41681ca21636e91e81f00e24416 |
#!/usr/bin/python3
from Bio import SearchIO
import os
# fetch files in current working directory
files = [f for f in os.listdir('.') if os.path.isfile(f)]
#print(files)
def convert_to_tab():
for f in files:
if f.endswith('.xml'):
# print(f)
# print(f.replace('.xml', '.xml.tab')
print("converting ", f, " to... | manasb/genomics | 469/RESULTS/3_DEC_2015/xml-to-tab.py | Python | gpl-3.0 | 820 | [
"BLAST"
] | b595f667238d74871c827b170d83cd6c65cc91b0b6ee4e3416abf0b02cf39530 |
# Authors: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Mathieu Blondel <mathieu@mblondel.org>
# Olivier Grisel <olivier.grisel@ensta.org>
# Andreas Mueller <amueller@ais.uni-bonn.de>
# License: BSD 3 clause
from itertools import chain, combinations
import numbers
import numpy as np
f... | flightgong/scikit-learn | sklearn/preprocessing/data.py | Python | bsd-3-clause | 38,683 | [
"Gaussian"
] | f596c877e0c6464ba2f944353d5a809fefeaebd6496fc05358e801872ef0eec0 |
# coding: utf-8
from __future__ import unicode_literals
import itertools
import json
import re
from .common import InfoExtractor
from ..compat import compat_urllib_parse_unquote
from ..utils import (
int_or_none,
parse_duration,
remove_end,
try_get,
)
class MailRuIE(InfoExtractor):
IE_NAME = 'ma... | vinegret/youtube-dl | youtube_dl/extractor/mailru.py | Python | unlicense | 11,526 | [
"Galaxy"
] | 6560e65b49918d76f83e84c4c774805675764bb1b08fd6187d54065019752fe3 |
#-------------------------------------------------------------------------------
# Cloud-COPASI
# Copyright (c) 2013 Edward Kent.
# All rights reserved. This program and the accompanying materials
# are made available under the terms of the GNU Public License v3.0
# which accompanies this distribution, and is available... | edkent/cloud-copasi | cloud_copasi/web_interface/aws/ec2_tools.py | Python | gpl-3.0 | 36,502 | [
"COPASI"
] | 75ba59b178275d264e17c7ec7e23603c1ad7e9e928ec2ba1711474dd94f63c79 |
from sklearn.datasets import make_classification
from sklearn.feature_extraction import FeatureHasher
from sklearn import svm, discriminant_analysis
from sklearn.linear_model import LogisticRegression, Perceptron
from sklearn.ensemble import RandomForestClassifier, GradientBoostingClassifier
from sklearn.naive_bayes im... | mlrequest/sklearn-json | test/test_classification.py | Python | mit | 7,605 | [
"Gaussian"
] | 3c428b6e3fc672d96045f6ccdc4ddb349690081c5b1b6e478e82cda4f5d0e3cb |
"""
Russell Richie 2016
github.com/drussellmrichie
drussellmrichie@gmail.com
This allows evaluation of students' answers for excitatory and inhibitory weights such
that an output neuron does and doesn't fire given certain conditions. Can easily be
modified according to those conditions.
"""
import pandas as pd
impo... | drussellmrichie/TATools | COGSTools/brainAndHebbPSTool.py | Python | gpl-3.0 | 3,617 | [
"NEURON"
] | 7c8ed97eda8fd24885059aec9f31ce98024a8d603f0cfa46753cc72f543adb02 |
#!/usr/bin/env python
import sys
import os
def runfail(cmd):
print "Running : %s" % cmd
if not 0 == os.system(cmd):
sys.exit("Failed : %s " % cmd)
if not len(sys.argv) >= 2:
sys.exit("blast.py query.fa reference.fa")
if len(sys.argv) == 3:
query_file, ref_file = sys.argv[1:3]
no_ref = Fa... | jgurtowski/nanocorr | nanocorr.py | Python | lgpl-3.0 | 2,480 | [
"BLAST"
] | 401319ff1a604393ce0741b178a44787781b5fe66f12608b4c7354e8dde3f246 |
from aiida import load_dbenv
load_dbenv()
from aiida.orm import load_node, load_workflow
from aiida.orm import Code, DataFactory
import matplotlib.pyplot as plt
StructureData = DataFactory('structure')
ParameterData = DataFactory('parameter')
ArrayData = DataFactory('array')
KpointsData = DataFactory('array.kpoints'... | abelcarreras/aiida_extensions | workflows/tools/plot_qha.py | Python | mit | 9,447 | [
"phonopy"
] | 6aba646e76a20a3cf4a2c633fdf34545cc7a93b7a08b1dddf7035d69e5343077 |
#!/usr/bin/env python
#filename: pyMODE_TASK.py
import matplotlib
matplotlib.use('Agg')
import Tkinter
from Tkinter import *
import subprocess
from ttk import Separator, Style
import ttk
import Pmw
import tkMessageBox, tkFileDialog
import os
import webbrowser
import pymol
from pymol import cmd
import sys,os,math,re, f... | nizamibilal/pyMODE-TASK | pyMODE_TASK.py | Python | gpl-3.0 | 83,547 | [
"Amber",
"Gromacs",
"PyMOL"
] | ffb3b8cc5467113b3968a275915c335cac2ce6c931df25a2aa13d7ba5a8c1e66 |
# -*- coding: utf-8 -*-
"""
Unit tests for instructor.api methods.
"""
# pylint: disable=E1111
import unittest
import json
import requests
import datetime
import ddt
import random
from urllib import quote
from django.test import TestCase
from nose.tools import raises
from mock import Mock, patch
from django.conf import... | LearnEra/LearnEraPlaftform | lms/djangoapps/instructor/tests/test_api.py | Python | agpl-3.0 | 131,361 | [
"VisIt"
] | 4948b21e2549e38eeb1762f4f6107ebd454b1414af712d31818aaad9e8f0e2ea |
from __future__ import division
__author__ = 'Zack Gainsforth'
__copyright__ = 'Copyright 2016, Zack Gainsforth'
__email__ = 'zsg@gainsforth.com'
#numpy.set_printoptions(threshold=numpy.nan) # Makes arrays print fully when they are large.
from collections import OrderedDict
# Planck's constant [eV-s]
h = 4.135667517... | ZGainsforth/StoichiometryFitter | PhysicsBasics.py | Python | epl-1.0 | 4,670 | [
"Avogadro"
] | 0c1fa2a6e4b8fd9e6299e1c14d3d3a71c036843a114c5542cfcb641dc2a73e34 |
# 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... | yanchen036/tensorflow | tensorflow/contrib/autograph/converters/builtin_functions.py | Python | apache-2.0 | 2,553 | [
"VisIt"
] | d0cca033f10b35f28b4d8a19b2d5b7be90238ef8c6a14841844dd0aa5cc16f80 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# Copyright 2010 British Broadcasting Corporation and Kamaelia Contributors(1)
#
# (1) Kamaelia Contributors are listed in the AUTHORS file and at
# http://www.kamaelia.org/AUTHORS - please extend this file,
# not this notice.
#
# Licensed under the Apache License, Ve... | sparkslabs/kamaelia_ | Code/Python/Kamaelia/Kamaelia/Codec/Dirac.py | Python | apache-2.0 | 10,580 | [
"DIRAC"
] | 4e9e3a7b5af888dd90eba776204e859ce22e8eb2e659497e74ca482abfdae406 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
from __future__ import (absolute_import, division, print_function)
__metaclass__ = type
#
# Copyright (C) 2017 Lenovo, Inc.
#
# 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 Licens... | tsdmgz/ansible | lib/ansible/modules/network/cnos/cnos_bgp.py | Python | gpl-3.0 | 19,494 | [
"VisIt"
] | e8bf792d4279e93328764d4c4808538febf51c8fa07ce67f90afd01ddb8d0154 |
# Generated from SQLite.g4 by ANTLR 4.5.1
from antlr4 import *
if __name__ is not None and "." in __name__:
from .SQLiteParser import SQLiteParser
else:
from SQLiteParser import SQLiteParser
# This class defines a complete generic visitor for a parse tree produced by SQLiteParser.
class SQLiteVisitor(ParseTre... | ZoomerAnalytics/catalyst | catalyst/json_dbapi/sqlparser/SQLiteVisitor.py | Python | mit | 14,953 | [
"VisIt"
] | 31eb9d3b07a15fd1d8db00693ee9797a2d97299d50b4db434e905302a6413e9b |
#!/usr/bin/env python
# Setup script
"""Description
Setup script for seriesoftubes
Copyright (c) 2010-2013 Benjamin Schiller <benjamin.schiller@ucsf.edu>,
University of California, San Francisco
All rights reserved.
"""
import os
import sys
from setuptools import setup, Extension
try:
... | benjschiller/seriesoftubes | setup.py | Python | artistic-2.0 | 2,466 | [
"Biopython",
"pysam"
] | 46b068bc19215d623d9316327cc772408cf38a09a628fab0e018cbfcf956bf0c |
# Copyright 2019 Brian Quinlan
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# https://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writin... | brianquinlan/learn-machine-learning | well_bouncer/well_bouncer_game.py | Python | mit | 5,000 | [
"Brian"
] | 7644ceb8b63c9865b9d33ff3368b5bc800bf3a3e9e225c27212c07245ce96dc2 |
from . import tempdir as td
import os.path
import pybol
from gromacs.utilities import in_dir
from mdpow.run import equilibrium_simulation
from mdpow.config import get_configuration
from . import RESOURCES
class TestEquilibriumScript(object):
def setup(self):
self.tmpdir = td.TempDir()
self.old_... | Becksteinlab/MDPOW | mdpow/tests/test_equilibration_script.py | Python | gpl-3.0 | 1,546 | [
"Gromacs"
] | 8c356e7e9757f8032b3a81426e7253baf2ce84660eee9d86fcab7c18f65b36de |
"""Openbabel conformer generation wrapper - Maybe use Pybel someday"""
# TODO - sometimes obabel conformation generation bugs out
# consider converting to zmatrix prior to conformer generation
from subprocess import check_output
import os
import shlex
try:
import six
except ImportError:
raise ImportErro... | ben-albrecht/qcl | qcl/obconformers.py | Python | mit | 3,438 | [
"Pybel"
] | 3fcb5fcfa3aee70db0d7dac2e5a068f4999f347bd82f7990d83cde6aefb52082 |
"""
Module for generating random pet names from a large set.
call get_random_name()
"""
import random
NAMES = """
Abbey Moon
Abby
Abel
Abigail
Abigale
Abihu
Able
Abner
Aboo
Abster
ACDC
Ace
Achak
Acorn
Acrobat
Adam Ant
Adamall
Adele
Adelheid Hildegard
Adelor
Adia
Adoc
Adoc Peregrin
Adora
Adrie... | bobintetley/asm3 | src/asm3/animalname.py | Python | gpl-3.0 | 44,867 | [
"Amber",
"Brian",
"CRYSTAL",
"FLEUR",
"MOE",
"MOOSE",
"TINKER"
] | a2710e7a632c8fb941a9eed7781e544e259362a317564c1c0fa6b046af4ca727 |
# Copyright 2017 Autodesk Inc.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing... | Autodesk/molecular-design-toolkit | setup.py | Python | apache-2.0 | 3,184 | [
"VisIt"
] | a4a8490917a36b1e1266f207062c79e7b57add148aa25202e79a412abff669cf |
########################################################################
# Creates a Machine Learning Problem Dataset
# Suitable for assigning to a student for a homework assignment
# Mostly convenience code for sklearn's make_classification routines
#
#
################################################################... | mbernico/snape | snape/make_dataset.py | Python | apache-2.0 | 18,731 | [
"Gaussian"
] | 379492cb64b4251411e0c2144e26a035c501d88e18000c76120f802973630e42 |
#!/usr/bin/python
"""
Copyright 2016 Paul Willworth <ioscode@gmail.com>
This file is part of Galaxy Harvester.
Galaxy Harvester is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of th... | druss316/G-Harvestor | html/udPassword.py | Python | gpl-3.0 | 2,697 | [
"Galaxy"
] | 07838402209e369ffd57d14f0fa871ac4a5f0c3448bc107c17858aac583989c4 |
import numpy as np
def affine_forward(x, w, b):
"""
Computes the forward pass for an affine (fully-connected) layer.
The input x has shape (N, d_1, ..., d_k) and contains a minibatch of N
examples, where each example x[i] has shape (d_1, ..., d_k). We will
reshape each input into a vector of dimension D = ... | halexan/cs231n | assignment2/cs231n/layers.py | Python | mit | 22,996 | [
"NEURON"
] | 61119aa15a4201f94e18a0e32fa76e6f35826b9a0b8517c5fb8efb136ef2b75d |
# -*- coding: utf-8 -*-
# Generated by Django 1.9.7 on 2016-06-05 10:12
from __future__ import unicode_literals
from django.db import migrations, models
import django.db.models.deletion
class Migration(migrations.Migration):
initial = True
dependencies = [
('users', '0001_initial'),
('place... | anhelus/emw-museum-output | visit/migrations/0001_initial.py | Python | gpl-3.0 | 1,316 | [
"VisIt"
] | 4b75177d993e4ae32a8a0ce77fc84a914b5db06939e37c6cefc19451eb7f0ea0 |
import numpy as np
import matplotlib.pyplot as plt
from scipy.signal import argrelextrema
def analytical_gravity(z0, v0, t0, t):
g = 9.81
return z0 + v0*(t-t0) - 0.5*g*(t-t0)**2
def read_data(logfile='./log.lammps',
datafile='./thermo_output.txt'):
#Get data from file
with open(logfil... | Crompulence/cpl-library | test/lammps/single/wall_force/constant_force/bouncing.py | Python | gpl-3.0 | 1,297 | [
"LAMMPS"
] | 5f802cb5bbba02516d893c16840168841b89897982e72ca027236818b853c613 |
""" K-means Clustering and Vector Quantization Module
Provides routines for k-means clustering, generating code books
from k-means models, and quantizing vectors by comparing them with
centroids in a code book.
The k-means algorithm takes as input the number of clusters to
generate, k, and a set o... | stefanv/scipy3 | scipy/cluster/vq.py | Python | bsd-3-clause | 25,932 | [
"Gaussian"
] | a6562af476cd93048f2636edef7eeefb5dcb6fe9a976bb959ff2c211cbaa1391 |
# Microcosmos: an antsy game
# Copyright (C) 2010 Cyril ADRIAN <cyril.adrian@gmail.com>
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, version 3 exclusively.
#
# This program is distrib... | cadrian/microcosmos | src/net/cadrian/microcosmos/model/grid/object.py | Python | gpl-3.0 | 1,931 | [
"VisIt"
] | 5a5e494e8d4d8e2361b2950d6904be9eb4911c1ba4ffc65acd33f7279582b6e5 |
#!/usr/bin/python
# (c) 2013, Cove Schneider
# (c) 2014, Joshua Conner <joshua.conner@gmail.com>
# (c) 2014, Pavel Antonov <antonov@adwz.ru>
#
# This file is part of Ansible,
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the... | dataxu/ansible-modules-core | cloud/docker/docker.py | Python | gpl-3.0 | 74,853 | [
"VisIt"
] | dafb7fd5d2bd62bcd0961f3356e35073409d1d1191bfafdb2763f6f06fa78ae7 |
"""
Gaussian calculator for ASE written by:
Glen R. Jenness
University of Wisconsin - Madison
Based off of code written by:
Glen R. Jenness
Kuang Yu
Torsten Kerber, Ecole normale superieure de Lyon (*)
Paul Fleurat-Lessard, Ecole normale superieure de Lyon (*)
Martin Krupicka
(*) This wo... | grhawk/ASE | ase/calculators/gaussian.py | Python | gpl-2.0 | 8,568 | [
"ASE",
"Gaussian"
] | d07d01280bc986c832166075de6ab0ad30d44b4a2b396bde37e54b7c8ef38a75 |
#
# Licensed to the Apache Software Foundation (ASF) under one or more
# contributor license agreements. See the NOTICE file distributed with
# this work for additional information regarding copyright ownership.
# The ASF licenses this file to You under the Apache License, Version 2.0
# (the "License"); you may not us... | BryanCutler/spark | python/pyspark/pandas/tests/test_dataframe.py | Python | apache-2.0 | 220,991 | [
"Elk"
] | 2b7aea4ec988fa29bdec44b35641da0250bb5b77987b7cf90ea1686949527b78 |
"""
pyLDAvis Prepare
===============
Main transformation functions for preparing LDAdata to the visualization's data structures
"""
from collections import namedtuple
import json
import logging
from joblib import Parallel, delayed, cpu_count
import numpy as np
import pandas as pd
import scipy.spatial.distance as dist
... | bloody76/pyLDAvis | pyLDAvis/_prepare.py | Python | bsd-3-clause | 15,281 | [
"scikit-bio"
] | cf955417be36f054d27bbb363703a21ea0add7dc0ed9805adef6c29663ee8064 |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2011 Async Open Source <http://www.async.com.br>
## All rights reserved
##
## This program is free software; you can redistribute it and/or modify
## it under the terms of the GNU General Public License as published by
## the Free Software Foundati... | andrebellafronte/stoq | stoqlib/lib/appinfo.py | Python | gpl-2.0 | 1,144 | [
"VisIt"
] | 088c4f23c9cf85e987a33a596aed6012da5c42c7282a23b0436e815c715ed9b4 |
# -*- coding: utf-8 -*-
# Copyright (c) 2015, Vispy Development Team.
# Distributed under the (new) BSD License. See LICENSE.txt for more info.
import numpy as np
from os import path as op
from ..util import load_data_file
# This is the package data dir, not the dir for config, etc.
DATA_DIR = op.join(op.dirname(__f... | dchilds7/Deysha-Star-Formation | vispy/io/datasets.py | Python | bsd-3-clause | 2,327 | [
"Gaussian"
] | 319af9f2d3e9874de7a8e4723bc35df91e1bd5446634c4a2521cc93e89b6bc4d |
#! /usr/bin/env python
# need to get this library
from Bio.Blast import NCBIXML
# this is the direction to the blast results
result_handle = open("meth_staph.xml")
# initiate the parser
blast_records = NCBIXML.parse(result_handle)
E_VALUE_THRESH = 0.04
# this instruction is for a looping task
for blast_record in bla... | fernan9/RBH | script_BioBlastExploration.py | Python | mit | 1,063 | [
"BLAST"
] | b7f4550c6d482b670da687963892ccd034a8f8afaaa978844273aa2811bcf313 |
# CrystalDock is released under the GNU General Public License (see http://www.gnu.org/licenses/gpl.html).
# If you have any questions, comments, or suggestions, please don't hesitate to contact me,
# Jacob Durrant, at jdurrant [at] ucsd [dot] edu.
#
# If you use CrystalDock in your work, please cite [REFERENCE HERE]
... | platinhom/CADDHom | python/program/crystal_dock.py | Python | gpl-2.0 | 67,828 | [
"MOOSE"
] | d52d3dc22f67f1b0a1c6dc6a788fddcfb2939c80d8f6e5b3e966a18bf3a71f38 |
"""
sphinx.ext.autosummary.generate
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Usable as a library or script to generate automatic RST source files for
items referred to in autosummary:: directives.
Each generated RST file contains a single auto*:: directive which
extracts the docstring of the referred i... | sonntagsgesicht/regtest | .aux/venv/lib/python3.9/site-packages/sphinx/ext/autosummary/generate.py | Python | apache-2.0 | 24,783 | [
"VisIt"
] | 694c82bc3e344d0fc1ebd464078312e1b67ed2e8a34803012d715c905e88d90a |
# Copyright (C) 2021 Massachusetts Institute of Technology
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later vers... | hamogu/ARCUS | arcus/instrument/ccd.py | Python | gpl-3.0 | 3,271 | [
"Gaussian"
] | 4a8dec89968b4def671e21e300cf66c50f0b4aabf2908d9260e117eb9cdf22bc |
# Collection of nouns
# September 19 2014
# Christian Bauer
d = { }
drev = { }
num = 0
def ins(x):
global num,d,drev
d[num] = x
drev[x] = num
num = num + 1
ins('history')
ins('way')
ins('art')
ins('money')
ins('world')
ins('information')
ins('map')
ins('family')
ins('government')
ins('health')
ins('s... | cjbauer/brainphrase | nouns.py | Python | agpl-3.0 | 21,439 | [
"VisIt"
] | ff1f75e3f52bbaf6eef8f234eb4774a60d8064d16891afbbe0a1822f0658d4d3 |
# coding: utf-8
# In[1]:
import numpy as np
from scipy.fftpack import fft #, ifft
import scipy.optimize as opt
from sys import exit
# Wave functions definitions
# -------------------------------------------------------------------------------------
# In[2]:
def gaussian(x,n,x0,s0,w,v): # Gaussian wf in K3
... | brunojulia/ultracoldUB | brightsolitons/Alejandro/wave_functions.py | Python | gpl-3.0 | 3,214 | [
"Gaussian"
] | 3e917f678a8390a1a9d6de90a5b5df34c4f8d1d687984e08e32dfb8650954e0d |
"""
Test functions for models.GLM
"""
from __future__ import division
from statsmodels.compat import range
import os
import numpy as np
from numpy.testing import (assert_almost_equal, assert_equal, assert_raises,
assert_allclose, assert_, assert_array_less, dec)
from scipy import stats
impor... | yl565/statsmodels | statsmodels/genmod/tests/test_glm.py | Python | bsd-3-clause | 70,857 | [
"Gaussian"
] | d7aab52cb5b4e8a43d2dcb82137b11e8e0fbb5bdb266cd85ff37ecb080d2c3ed |
"""."""
import glob
import logging
import os
import shutil
import tarfile
from os.path import expanduser
from Pegasus.command import CompoundCommand, LoggingCommand
from Pegasus.db import connection
from Pegasus.db.schema import (
EnsembleWorkflow,
MasterWorkflow,
MasterWorkflowstate,
Workflow,
Wo... | pegasus-isi/pegasus | packages/pegasus-python/src/Pegasus/submitdir.py | Python | apache-2.0 | 21,734 | [
"VisIt"
] | dc2e5b9503418e42639b3ff8d6e42eeb9cea03db880f6551710734ede8054b98 |
"""
Check that pandas/core imports pandas.array as pd_array.
This makes it easier to grep for usage of pandas array.
This is meant to be run as a pre-commit hook - to run it manually, you can do:
pre-commit run use-pd_array-in-core --all-files
"""
from __future__ import annotations
import argparse
import ast
... | rs2/pandas | scripts/use_pd_array_in_core.py | Python | bsd-3-clause | 2,104 | [
"VisIt"
] | be50c1b7ea0628b68e570dcef84b3ecd455b7bf3e4f3d91a9d9ccad2a3a41093 |
# Copyright 2019 Open Source Robotics Foundation, Inc.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law... | ros2/launch | launch/test/launch/actions/test_set_and_unset_environment_variable.py | Python | apache-2.0 | 3,149 | [
"VisIt"
] | a8b9c755f0b64e39f637bd0deb648a511db060cf0728b028c71bde4ead4cb902 |
import pandas as pd
import numpy as np
import matplotlib.pyplot as plt
from matplotlib import cm
import matplotlib as mpl
from scipy import sparse
import itertools
def quasi_sharing(mdf, pwmat, index_col, groupby_cols, radius=0):
"""Count number of shared clones among all pairs of groups
defined by the unique ... | agartland/utils | tcr_sharing.py | Python | mit | 5,830 | [
"PWmat"
] | bbb6db42f5d38f30a3d2d7901c0e56df77b1275f83b40a0c5cf1d037a5e73080 |
#!/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/ajax/rebootdialog.py | Python | gpl-2.0 | 4,763 | [
"VisIt"
] | 26e0185f829a8cb9648831d4c032a1d29b513daabbbb6300a67dfdc7f39b22bc |
'''
Created on 2017. 5. 10
@author: Byoungho Kang
'''
import numpy as np
import tensorflow as tf
import matplotlib.pyplot as plt
'''
Training Set
np.random.normal(평균, 표준편차) : Draw random samples from a normal (Gaussian) distribution.
'''
xPoint = []
yPoint = []
for idx in range(200):
x = np.r... | medit74/DeepLearning | MyTensorflow/MyBasicModel/linearRegression.py | Python | apache-2.0 | 1,695 | [
"Gaussian"
] | 6a26c6e10773c22839c5fbefde679b38ce5e4e8d0dc04069219da97862a37796 |
########################################################################
# File : SSHComputingElement.py
# Author : Dumitru Laurentiu, A.T.
########################################################################
""" SSH (Virtual) Computing Element: For a given IP/host it will send jobs directly through ssh
"""
imp... | Andrew-McNab-UK/DIRAC | Resources/Computing/SSHComputingElement.py | Python | gpl-3.0 | 27,363 | [
"DIRAC"
] | 8d0288dcd0a286a839278dd92cc21c03eda02e0547cf48a3502ac7780cc32bd8 |
#!/usr/bin/python
import HTSeq
import sys
from Bio.Seq import Seq
from Bio.Alphabet import generic_dna
from Bio.Blast import NCBIXML
from Bio.Blast.Applications import NcbiblastnCommandline
from Bio.Blast.Applications import NcbiblastpCommandline
from Counter import Counter # --- Counter.py from python3 is needed to ... | mickaelsilva/pythonscripts | AlleleCalling/cluster_versions/callAlleles_protein.py | Python | gpl-2.0 | 18,246 | [
"BLAST",
"HTSeq"
] | 9754ed75e013cbf12b2c2044755c20491e8fe572ae44830e429f56d86c0a62ee |
# Copyright (c) 2012 - 2014, GPy authors (see AUTHORS.txt).
# Licensed under the BSD 3-clause license (see LICENSE.txt)
import numpy as np
from scipy.special import gammaln, digamma
from ...util.linalg import pdinv
from .domains import _REAL, _POSITIVE
import warnings
import weakref
class Prior(object):
domain ... | TianpeiLuke/GPy | GPy/core/parameterization/priors.py | Python | bsd-3-clause | 45,897 | [
"Gaussian"
] | 11c88158ce4352497816918d606606ca524a9472a0e8ef83395d89e4c4bbc580 |
import pytest
import re
import capybara
class TestHaveNoneOfSelectors:
@pytest.fixture(autouse=True)
def setup_session(self, session):
session.visit("/with_html")
def test_is_false_if_any_of_the_given_locators_are_on_the_page(self, session):
assert session.has_none_of_selectors("xpath", ... | elliterate/capybara.py | capybara/tests/session/test_has_none_of_selectors.py | Python | mit | 2,205 | [
"VisIt"
] | 2f5b65beefaf70180e7acd1219b2d6be01a4aef70339e2eb0d7cb65f5704c844 |
from setuptools import setup
setup(name='LAMMPS Documentation Utilities',
version='2.0.0',
description='Utilities to convert existing LAMMPS documentation text files into ReStructured Text',
url='https://github.com/rbberger/lammps-doc-utils',
author='Richard Berger',
author_email='richard... | pdebuyl/lammps | doc/utils/converters/setup.py | Python | gpl-2.0 | 712 | [
"LAMMPS"
] | df6af860f7ce56577058ff8c7f2143138fd4ae00bb74e362d89ef3bd4c8ecf88 |
# with reference to: https://www.amazon.com/Make-Your-Own-Neural-Network-ebook/dp/B01EER4Z4G
import numpy as np
from numpy import random as rand
import scipy.special
from time import sleep
def main():
print('\nTesting 3 bit binary encoding classification')
# (out: [onehot], in: [binary])
binary_encodi... | deo1/deo1 | NaiveNet/NaiveNet.py | Python | mit | 5,324 | [
"Gaussian"
] | 063f913f28986de966b0d8227c84a030727fc98971c15f1aca5fda2441b3c736 |
# -*- coding: utf-8 -*-
# Copyright (c) 2006-2016 LOGILAB S.A. (Paris, FRANCE) <contact@logilab.fr>
# Copyright (c) 2010 Daniel Harding <dharding@gmail.com>
# Copyright (c) 2012-2014 Google, Inc.
# Copyright (c) 2013-2018 Claudiu Popa <pcmanticore@gmail.com>
# Copyright (c) 2014 Brett Cannon <brett@python.org>
# Copyri... | ekwoodrich/python-dvrip | env/lib/python3.5/site-packages/pylint/checkers/base.py | Python | mit | 84,988 | [
"VisIt"
] | f1f82b5b3fb67198e46c291f72e473d70007afec0442c2de64e92a9e8b6a0c8f |
import unittest
import math
import torch
import pyprob
from pyprob import util, Model
from pyprob.distributions import Normal, Uniform
import pyprob.diagnostics
class DiagnosticsTestCase(unittest.TestCase):
def __init__(self, *args, **kwargs):
# http://www.robots.ox.ac.uk/~fwood/assets/pdf/Wood-AISTATS-2... | probprog/pyprob | tests/test_diagnostics.py | Python | bsd-2-clause | 3,920 | [
"Gaussian"
] | ebe4ad1d3ed632846ebbdf560afecdae98bf10ef54da56b7e3850cc3c2427523 |
#!/usr/bin/env python
import vtk
from vtk.test import Testing
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
# this script tests vtkImageReslice with different interpolation modes,
# with the wrap-pad feature turned on and with a rotation
# Image pipeline
reader = vtk.vtkImageReader()
reader... | HopeFOAM/HopeFOAM | ThirdParty-0.1/ParaView-5.0.1/VTK/Imaging/Core/Testing/Python/ResliceWrapOblique.py | Python | gpl-3.0 | 3,383 | [
"VTK"
] | e786a1cb15a3212fd237d86df1be95478b6eb82d208cff1e6a7a373682530ff0 |
import json
try:
from urllib.request import urlopen
except ImportError:
from urllib2 import urlopen
from mdtraj import version
if not version.release:
print("This is not a release.")
exit(0)
URL = 'http://www.mdtraj.org'
data = urlopen(URL + '/versions.json').read().decode()
versions = json.loads(dat... | mattwthompson/mdtraj | devtools/travis-ci/update_versions_json.py | Python | lgpl-2.1 | 889 | [
"MDTraj"
] | 09300b5cbc8d77977f337a6392bc00ca356a5b01bc40b73c1234f926705ac4c1 |
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