text stringlengths 12 1.05M | repo_name stringlengths 5 86 | path stringlengths 4 191 | language stringclasses 1
value | license stringclasses 15
values | size int32 12 1.05M | keyword listlengths 1 23 | text_hash stringlengths 64 64 |
|---|---|---|---|---|---|---|---|
#
# gPrime - A web-based genealogy program
#
# Copyright (C) 2008 Brian G. Matherly
# Copyright (C) 2008 Jerome Rapinat
# Copyright (C) 2008 Benny Malengier
#
# 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 Softw... | sam-m888/gprime | gprime/filters/rules/person/_hasassociation.py | Python | gpl-2.0 | 2,568 | [
"Brian"
] | 90dee5414432ac266731c55c7c8141725833a9334c11b4b2601e1daad0f17237 |
# Copyright 2012 Google Inc. 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 applicable law or ... | supunkamburugamuva/course-builder | modules/dashboard/dashboard.py | Python | apache-2.0 | 24,513 | [
"VisIt"
] | 678422df3ff5093b23d0380003ffcabd5e75af4ef5ef264302a687e3bf547ef7 |
import numpy as np
from copy import deepcopy
from scipy.optimize import minimize
def gauss2d(x, y, p):
"""
Returns a 2-dimensional gaussian function, following the equation
(x-x0)**2 (y-y0)**2
g(x,y) = a * exp( - ( --------- + --------- ) ) + b
2*sx... | danielrd6/ifscube | imgtools.py | Python | gpl-3.0 | 2,515 | [
"Gaussian"
] | 48a2188506731fddeedf7664af732b94e082cf19e5c4bde7b6c7c3af297c4939 |
from __future__ import print_function
from __future__ import division
__author__ = """Alex "O." Holcombe""" ## double-quotes will be silently removed, single quotes will be left, eg, O'Connor
import numpy as np
import itertools #to calculate all subsets
from copy import deepcopy
from math import atan, pi, cos, sin, sqr... | alexholcombe/MOTcircular | experiment_specific/transient_attention/helpersAOHtargetFinalCueLocatn.py | Python | mit | 31,372 | [
"Gaussian"
] | 8c785bde3e1ff19756cf80808f45793d0600f5b3591b81dd8f5dfe5352eb30f4 |
# -*- coding: utf-8 -*-
# This file is part of Shuup.
#
# Copyright (c) 2012-2017, Shoop Commerce Ltd. All rights reserved.
#
# This source code is licensed under the OSL-3.0 license found in the
# LICENSE file in the root directory of this source tree.
import decimal
import os
import time
import pytest
from django.co... | suutari-ai/shoop | shuup_tests/browser/admin/test_refunds.py | Python | agpl-3.0 | 4,880 | [
"VisIt"
] | 17ee2d10deca0c63ae79e5853ae808cc6cb9a9dd5384de0b30cd2795fc92a948 |
# Lint as: python3
# Copyright 2021 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 ... | tensorflow/lingvo | lingvo/jax/layers/transformer_models.py | Python | apache-2.0 | 45,932 | [
"MOE"
] | 68997a95e3e64923f773e067fcaebed58c013b598d3b0288ca3ecb7ce45997fd |
"""QM/MM interface with QM=FHI-aims, MM=gromacs
QM could be something else, but you need to read in qm-atom charges
from the qm program (in method 'get_qm_charges')
One can have many QM regions, each with a different calculator.
There can be only one MM calculator, which is calculating the whole
system.
Non-bond... | askhl/ase | ase/calculators/ase_qmmm_manyqm.py | Python | gpl-2.0 | 61,697 | [
"ASE",
"FHI-aims",
"GROMOS",
"Gromacs"
] | 7030da5c0dd7eae64e45f6218c08d1c7d90c3ef6e0874df0df8a9461109372c2 |
# Disable flake8 reporting
# flake8: noqa
import pytest
from jose.backends import RSAKey
from jose.jws import verify
expected_payload = b"It\xe2\x80\x99s a dangerous business, Frodo, going out your door. You step onto the road, and if you don't keep your feet, there\xe2\x80\x99s no knowing where you might be swept o... | mpdavis/python-jose | tests/rfc/test_rfc7520.py | Python | mit | 208,424 | [
"Brian"
] | 0888591da3a9127ae25cff0c94a76bc3b164315aeb87d2094c6d00d511ab8def |
import numpy as np
import theano
import theano.tensor as T
# library with theano PDF functions
PI = np.pi
C = -0.5 * np.log(2*PI)
def normal(x, mean, sd):
return C - T.log(T.abs_(sd)) - ((x - mean)**2 / (2 * sd**2))
def normal2(x, mean, logvar):
return C - logvar/2 - (x - mean)**2 / (2 * T.exp(logvar))
def laplac... | Philip-Bachman/Sequential-Generation | LogPDFs.py | Python | mit | 8,091 | [
"Gaussian"
] | 7c49ef0576423cfa5c3ae6c35af0232d8b7061e52a7871539b311b8fe53bbac6 |
# Copyright 2014-2020 The ODL contributors
#
# This file is part of ODL.
#
# This Source Code Form is subject to the terms of the Mozilla Public License,
# v. 2.0. If a copy of the MPL was not distributed with this file, You can
# obtain one at https://mozilla.org/MPL/2.0/.
"""Tests for linearized deformation operator... | kohr-h/odl | odl/test/deform/linearized_deform_test.py | Python | mpl-2.0 | 10,293 | [
"Gaussian"
] | fe03d9e7d1e982b0b506d9c4517c8edd54dab9e213ca882173df8236d4ec9429 |
# -*- encoding: utf-8
from sqlalchemy import Column
from sqlalchemy import engine_from_config
from sqlalchemy import event
from sqlalchemy import exc
from sqlalchemy import Integer
from sqlalchemy import String
from sqlalchemy import Table
from sqlalchemy import testing
from sqlalchemy.dialects.mssql import adodbapi
fr... | wujuguang/sqlalchemy | test/dialect/mssql/test_engine.py | Python | mit | 16,586 | [
"ASE"
] | c9b799e4046a3627090931d00d7b0df5564f3a55975ba380d441c89fd8838c2b |
#! /usr/bin/env python
__RCSID__ = "$Id$"
from DIRAC.Core.Base.Script import parseCommandLine, getPositionalArgs
parseCommandLine()
from DIRAC.Resources.Storage.StorageFactory import StorageFactory
from DIRAC.Core.Utilities.File import getSize
from types ... | Sbalbp/DIRAC | Resources/Storage/test/TestStoragePlugIn.py | Python | gpl-3.0 | 34,356 | [
"DIRAC"
] | 267c3530cad6f62490aa4374459ac488db62e325c9dd6559c8a3f29201050e2e |
from __future__ import division, generators
import math, sys, warnings, datetime, new
import numpy as np
from numpy import ma
import matplotlib
rcParams = matplotlib.rcParams
import matplotlib.artist as martist
import matplotlib.axis as maxis
import matplotlib.cbook as cbook
import matplotlib.collections as mcoll
im... | tkaitchuck/nupic | external/linux64/lib/python2.6/site-packages/matplotlib/axes.py | Python | gpl-3.0 | 259,904 | [
"Gaussian"
] | f40657df84e29685f73a28172adc29193e684872a0ade46048b23217eb261e2b |
'''
Script to plot summary snowpit from data example of the standard snowpit format
Simon Filhol, December 2016
'''
from snowpyt import pit_class as pc
filename = '/home/tintino/github/snowpyt/snowpyt/data_example/20170209_Finse_snowpit_reverseY.xlsx' #[insert path to file]
pit1 = pc.Snowpit()
pit1.filename = fil... | ArcticSnow/snowpyt | build/lib.linux-x86_64-2.7/snowpyt/Example.py | Python | mit | 1,102 | [
"CRYSTAL"
] | dc43b1a87cab168f0fc57a7644babcdf1f4b40fc440522edcec3844c075f6b5c |
# -*- coding: utf-8 -*-
# Copyright (c) 2015-2020, Exa Analytics Development Team
# Distributed under the terms of the Apache License 2.0
"""Tests for computing orbitals, densities and orbital angular momenta."""
import numpy as np
from unittest import TestCase
from exatomic import Universe, nwchem, molcas
from exatomi... | exa-analytics/atomic | exatomic/algorithms/tests/test_orbital.py | Python | apache-2.0 | 2,362 | [
"ADF",
"MOLCAS",
"NWChem"
] | 1824b846cd32447d3f95b2f9f474b84776d371b0d596f19d593666673c4f35ec |
# This Source Code Form is subject to the terms of the Mozilla Public
# License, v. 2.0. If a copy of the MPL was not distributed with this file,
# You can obtain one at http://mozilla.org/MPL/2.0/.
class NodeVisitor(object):
def visit(self, node):
# This is ugly as hell, but we don't have multimethods and... | indykish/servo | tests/wpt/harness/wptrunner/wptmanifest/node.py | Python | mpl-2.0 | 4,149 | [
"VisIt"
] | 6375ff95a88755407db26a3f95740a36307fd89b5f8f3f2076bcb44b27834ec8 |
#!/usr/bin/python
# -*- coding: UTF-8 -*-
#Copyright (C) 2007 Adam Spencer - Free Veterinary Management Suite
#This program is free software; you can redistribute it and/or
#modify it under the terms of the GNU General Public License
#as published by the Free Software Foundation; either version 2
#of the License, or ... | cyncyncyn/evette | languagefiles/language_lithuanian_1.3.2.py | Python | gpl-2.0 | 67,755 | [
"VisIt"
] | 2b83713f64461a195e2544b7290118a8573961a39addeaea4b43b516ffbc43ad |
# -----------------------------------------------------------------------------
# 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.
# -------------------------------------------... | Jorge-C/bipy | skbio/parse/sequences/clustal.py | Python | bsd-3-clause | 5,425 | [
"scikit-bio"
] | 8d2d235274d0387011ae2bc98b2d3bb94de2ef096e5137db6402c1447e2e2b51 |
""" Synchronizer
Module that keeps the database synchronized with the CS
Module that updates the RSS database ( ResourceStatusDB ) with the information
in the Resources section. If there are additions in the CS, those are incorporated
to the DB. If there are deletions, entries in RSS tables for those elements ... | DIRACGrid/DIRAC | src/DIRAC/ResourceStatusSystem/Utilities/Synchronizer.py | Python | gpl-3.0 | 20,133 | [
"DIRAC"
] | 65d56261b34c4a74a84a42cda901ecc29872de3b0d99ab44e7815be017227bd6 |
#=========================================================================
# StrSearchOO_test.py
#=========================================================================
#
# Object-Oriented implementation of strsearch.
#
# This dataset is borrowed from the stringsearch implementation provided
# the MiBench embedded s... | Glyfina-Fernando/pymtl | accel/strsearch/StrSearchOO_test.py | Python | bsd-3-clause | 16,705 | [
"CRYSTAL"
] | e66d0fd4cd9f9e690ff42db927e40868345d016be7bb5370054ace3eb15692f2 |
from __future__ import print_function
from __future__ import division
from tractor import PixelizedPSF, HybridPixelizedPSF, PointSource, Tractor, ModelMask, Image, PixPos, Flux
from legacypipe.survey import RexGalaxy, LogRadius
import pylab as plt
import numpy as np
from astrometry.util.plotutils import dimshow, PlotSe... | legacysurvey/pipeline | py/test/rex.py | Python | gpl-2.0 | 3,920 | [
"Galaxy"
] | 2748ec411f99f1ee905410a44b115a2632d7abdf1a8efdbe1e4b319003680407 |
# -*- encoding:ascii -*-
from mako import runtime, filters, cache
UNDEFINED = runtime.UNDEFINED
__M_dict_builtin = dict
__M_locals_builtin = locals
_magic_number = 6
_modified_time = 1417082998.373734
_template_filename='templates/user/login.mako'
_template_uri='/user/login.mako'
_template_cache=cache.Cache(__name__, _... | mikel-egana-aranguren/SADI-Galaxy-Docker | galaxy-dist/database/compiled_templates/user/login.mako.py | Python | gpl-3.0 | 11,786 | [
"Galaxy"
] | 4790f76e9bb52f5f1995aab7043a814868fc5e5facf4ab7e2b9ec719f17d9598 |
"""
==============================
Probability Calibration curves
==============================
When performing classification one often wants to predict not only the class
label, but also the associated probability. This probability gives some
kind of confidence on the prediction. This example demonstrates how to
vi... | manhhomienbienthuy/scikit-learn | examples/calibration/plot_calibration_curve.py | Python | bsd-3-clause | 11,598 | [
"Gaussian"
] | 881761afe64b3ac774573753585dba0b69ba9da41e7437f009792bfb042e487b |
import unittest
import scipy
import pysal
import numpy as np
from pysal.spreg import error_sp_regimes as SP
from pysal.spreg.error_sp import GM_Error, GM_Endog_Error, GM_Combo
@unittest.skipIf(int(scipy.__version__.split(".")[1]) < 11,
"Maximum Likelihood requires SciPy version 11 or newer.")
class TestGM_Error_Regime... | chhao91/pysal | pysal/spreg/tests/test_error_sp_regimes.py | Python | bsd-3-clause | 14,925 | [
"COLUMBUS"
] | 65b164fb691e492a16343bf06d95d2e88bb5c479226bcfbedf7d8b5016980142 |
import argparse
import sys, traceback
import os
import json
sys.path.append(os.path.abspath(os.path.join(os.path.dirname(__file__), "..")))
from os import path
from lib.sitkaAPI import downloadUnzipTopo, APIGet
from lib.env import setEnvFromFile
from lib.loghelper import Logger
from lib.exception import DataException... | SouthForkResearch/CHaMP_Metrics | tools/substrate_raster.py | Python | gpl-3.0 | 19,283 | [
"VisIt"
] | c7d2b1925af9cb4adb1e8225d9290e1adfad9d546e156af540b2dcf8104b5bbb |
from __future__ import print_function, division, absolute_import
from contextlib import contextmanager
from collections import namedtuple, defaultdict
import sys
import copy
import warnings
import traceback
from .tracing import event
from numba import (bytecode, interpreter, funcdesc, postproc,
typ... | jriehl/numba | numba/compiler.py | Python | bsd-2-clause | 44,381 | [
"VisIt"
] | fd2fe42464060916f8db1f4520f6bbc53ddf7c08f5a7937e6e7612cdd790f449 |
# -*- coding: utf-8 -*-
#
# Moonstone is platform for processing of medical images (DICOM).
# Copyright (C) 2009-2011 by Neppo Tecnologia da Informação LTDA
# and Aevum Softwares LTDA
#
# This file is part of Moonstone.
#
# Moonstone is free software: you can redistribute it and/or modify
# it under the terms of the GN... | aevum/moonstone | src/moonstone/ilsa/plugin.py | Python | lgpl-3.0 | 5,947 | [
"VTK"
] | a81a486b4c10da8218300ef32ce845087c07fd64fa1b3b87e83b7ea6c8102329 |
from django.views.decorators.csrf import csrf_exempt
from django.http import JsonResponse
from django.conf import settings
import os
from caffe.proto import caffe_pb2
from google.protobuf import text_format
import tempfile
import subprocess
import urllib2
from urlparse import urlparse
# ******Data Layers******
def I... | Cloud-CV/IDE | caffe_app/views/import_prototxt.py | Python | gpl-3.0 | 24,378 | [
"NEURON"
] | 0017c0ce88567808a73e890f6e2bac15427422ece7c72901ad979ca8f01f719d |
from Extension import Extension
from moose_elements import *
class MooseExtension(Extension):
"""
Aggregates the MOOSE specific element objects into an extension for html to latex conversion.
"""
def extend(self, translator):
config = self.getConfigs()
translator.elements.add('moose_i... | backmari/moose | python/MooseDocs/html2latex/MooseExtension.py | Python | lgpl-2.1 | 1,500 | [
"MOOSE"
] | 2cd3a5f8eda5a14a982fd4cdeabf1fbdb62dbce9764e17557c0dd4d109bb6eac |
"""PES using approximate LrTDDFT scheme.
"""
import numpy as np
from ase.units import Hartree
from gpaw.pes import BasePES
from gpaw.pes.state import State
import gpaw.mpi as mpi
from gpaw.utilities import packed_index
from numpy import sqrt, pi
class TDDFTPES(BasePES):
def __init__(self, mother, excited_daugh... | qsnake/gpaw | gpaw/pes/tddft.py | Python | gpl-3.0 | 7,980 | [
"ASE",
"GPAW"
] | 411b04dc43a7b1499f5ce1ed1ee9e86545bc39a1304827af781ad5ec7c77af55 |
import unittest
from mayavi import mlab
from mayavi.core.api import NullEngine
from traits.testing.api import UnittestTools
from simphony_mayavi.tests.testing_utils import DummyEngine
from simphony_mayavi.plugins.api import EngineManagerStandaloneUI
from simphony_mayavi.plugins.add_source_panel import AddSourcePanel
... | simphony/simphony-mayavi | simphony_mayavi/plugins/tests/test_engine_manager_standalone_ui.py | Python | bsd-2-clause | 3,959 | [
"Mayavi"
] | 61753c17338a0d0ff6970603cecfea1c126a62c9a6584aaf28ff3d3529a75e05 |
# -*- coding: utf-8 -*-
"""This module is responsible for parsing the command line arguments."""
import argparse
import logging
import sys
log = logging.getLogger(__name__)
# DEFAULT COLUMN NAMES
model_list = ['PAmodel']
system_list = ['PAseasonal']
# DEFAULT THRESHOLD
default_threshold = 0.03
desc = ("Prototype fo... | vab9/mosyco | mosyco/parser.py | Python | mit | 3,761 | [
"VisIt"
] | a75b6071631701ba8dce4c1956c17c9f9b9c44b81bdd8b38760fa818485fea07 |
"""
ASCII art to image converter.
This is the main modlue that contains the parser.
See svg.py and aa.py for output modules, that can render the parsed structure.
(C) 2006 Chris Liechti <cliechti@gmx.net>
"""
NOMINAL_SIZE = 2
CLASS_LINE = 'line'
CLASS_STRING = 'str'
CLASS_RECTANGLE = 'rect'
CLASS_JOIN = 'join'
CLAS... | aroberge/docpicture | aafigure/aafigure.py | Python | bsd-3-clause | 37,732 | [
"VisIt"
] | 5e168d2693f1ce71e801cb057517ae2f5ce49e4f117ff42f3d4a4db0ef1b5777 |
import types
import os
import imp
from DIRAC.Core.Utilities import List
from DIRAC import gConfig, S_ERROR, S_OK, gLogger
from DIRAC.ConfigurationSystem.Client.Helpers import getInstalledExtensions
from DIRAC.ConfigurationSystem.Client import PathFinder
class ModuleLoader( object ):
def __init__( self, importLocat... | calancha/DIRAC | Core/Base/private/ModuleLoader.py | Python | gpl-3.0 | 9,290 | [
"DIRAC"
] | cc69c6fd7f4cfb58bc48b9b7f0fd4e963bf2142922c441eff5f7d19129c05cf7 |
#!/usr/bin/env python
import sys
import time
import binascii
import socket
import struct
import random
import math
G_maxV =32
G_noise=64
def AWGN_generator(NOISE_POWER=64):
# Generates additive white Gaussian Noise samples with zero mean and a standard deviation of 1.
p=1
while ... | claudebideau/illustrabot2oo | test/test_ue.py | Python | gpl-2.0 | 4,040 | [
"Gaussian"
] | e30709f85430d1ea815c199baa77d1b7023469e0830149911188ecb6b5afec69 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# Licensed to Cloudera, Inc. under one
# or more contributor license agreements. See the NOTICE file
# distributed with this work for additional information
# regarding copyright ownership. Cloudera, Inc. licenses this file
# to you under the Apache License, Version 2.0 (... | yoer/hue | apps/useradmin/src/useradmin/test_ldap_deprecated.py | Python | apache-2.0 | 33,875 | [
"MOE"
] | 671866b6470cbd48ba7799c69f1808093615d94cab07920225c8349139b14262 |
# $HeadURL: $
''' JobCommand
The JobCommand class is a command class to know about present jobs efficiency
'''
from datetime import datetime, timedelta
from DIRAC import S_OK, S_ERROR
from DIRAC.ResourceStatusSystem.Command.Command import Co... | avedaee/DIRAC | ResourceStatusSystem/Command/JobCommand.py | Python | gpl-3.0 | 13,472 | [
"DIRAC"
] | 4caafb8d3dbeec6d87d9ce94486edbe8e13fe11819b06e3f999cab737fe5b598 |
import os, glob, sys
# functionality like getSampleNames
include: "../common/misc/misc_snake.py"
# Check if the uses specified the proper input and output directories
if not 'FASTQDIR' in globals():
print('You have to specify the root directory of the fastq files!')
sys.exit(1)
if not 'OUTDIR' in globals():
... | cbg-ethz/NGS-pipe | snake/wgs/wgs_snake.py | Python | apache-2.0 | 4,634 | [
"BWA"
] | 9ac093aedf3c87a348aad2360f6c8014ce8c72c5a1d860a647634d6ded10387d |
NOUNS = [
'aardvark',
'albatross',
'alligator',
'alpaca',
'angelfish',
'anteater',
'antelope',
'armadillo',
'badger',
'barracuda',
'bat',
'beagle',
'bear',
'beaver',
'bird',
'brontosaurus',
'bulldog',
'bumblebee',
'butterfly',
'camel',
... | hinfaits/calendarz | calendarz/names/nouns.py | Python | apache-2.0 | 3,723 | [
"Elk",
"Firefly",
"Jaguar",
"MOOSE",
"ORCA",
"Octopus"
] | c4e43b9a85fb228aab08ba60e00e65b53aa2f9c31010ad02e62d311359b6ae6c |
#!/usr/bin/python
import numpy as np
from . import elements
import math
# constants:
bohrRadius2angstroem = 0.5291772109217 # find a good place for this
# additional procedures for CUBE files:
def loadNCUBE( fname ):
f = open(fname )
#First two lines of the header are comments
header1=f.readline()
... | ProkopHapala/ProbeParticleModel | pyProbeParticle/basUtils.py | Python | mit | 9,776 | [
"CRYSTAL",
"FHI-aims"
] | a0b3d78874224196397ae2c3114ca7f0f87d65c61dae6c9b160025b765990d20 |
# -*- Mode: Python; coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2007-2013 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 Fre... | andrebellafronte/stoq | stoqlib/lib/event.py | Python | gpl-2.0 | 6,236 | [
"VisIt"
] | 3e4095ab832c6945e04268669c1ef46ab9af5408862657382dfd503f59c521f2 |
"""Copy number detection using read counts, with cn.mops.
http://www.bioconductor.org/packages/release/bioc/html/cn.mops.html
"""
from contextlib import closing
import os
import re
import shutil
import subprocess
import pysam
import toolz as tz
from bcbio import bam, install, utils
from bcbio.distributed.multi impor... | SciLifeLab/bcbio-nextgen | bcbio/structural/cn_mops.py | Python | mit | 11,121 | [
"Bioconductor",
"pysam"
] | 8b105625dfb2f641a0113494640e1a15a17cded7b28145897177ffc267c06cd4 |
from ase import Atoms
from multiasecalc.lammps.reaxff import ReaxFF
from multiasecalc.utils import get_datafile
d = 0.74
#d = 3.0
a = 6.0
atoms_all = Atoms("H3",
positions = [(0, 0, 0),
(0, 0, d),
(0, 0, 2*d)],
cell = (100*a, 100*a, 100*a))
atoms_all.cen... | csmm/multiase | tests/mixer/h2_lammps.py | Python | gpl-2.0 | 565 | [
"ASE",
"LAMMPS"
] | e5f7b50f7af79f757fc65d1f87e5d415eed0f62a7840fbd8c8442461ab609d42 |
""" POOL XML Catalog Class
This class handles simple XML-based File Catalog following the
POOL project schema. It presents a DIRAC generic File Catalog interface
although not complete and with several extensions
"""
__RCSID__ = "$Id$"
import os, xml.dom.minidom, types
from DIRAC import S_OK, S_ERROR
class... | sposs/DIRAC | Resources/Catalog/PoolXMLCatalog.py | Python | gpl-3.0 | 10,878 | [
"DIRAC"
] | 9057e37eb68c847886fc8bc765cb54c977c6142d2a490e71ef8e2eeafd6c335b |
# ----------------------------------------------------------------------------
# Copyright (c) 2016-2021, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file LICENSE, distributed with this software.
# ------------------------------------------------... | qiime2/q2-types | q2_types/feature_data/_format.py | Python | bsd-3-clause | 14,938 | [
"BLAST"
] | 58e308bdab5c5fc77e44ba3a3afe6def7d6139e2bb92ecfa2b386dd5efe5b0d4 |
#pylint: disable=missing-docstring
#################################################################
# DO NOT MODIFY THIS HEADER #
# MOOSE - Multiphysics Object Oriented Simulation Environment #
# #
# (c) 2010... | Chuban/moose | python/chigger/filters/ContourFilter.py | Python | lgpl-2.1 | 2,812 | [
"MOOSE",
"VTK"
] | a722f0a8f9afe18baa56c7a20a9125d5505cd57f44a86feacfc19b79263df881 |
# -*- encoding: utf-8 -*-
#
# Copyright © 2013 SoftLayer Technologies, an IBM company
#
# Author: Brian Cline <bcline@softlayer.com>
#
# 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
#
# h... | briancline/mercuro | mercuro/mercuro.py | Python | apache-2.0 | 2,173 | [
"Brian"
] | 2bba196dfe1f4f0595cd1d1214f95a24cf101adea030a1be3fedf961a687c8ad |
# -*- coding: utf-8 -*-
#
# mc_neuron.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the License, or
#... | terhorstd/nest-simulator | pynest/examples/mc_neuron.py | Python | gpl-2.0 | 7,794 | [
"NEURON"
] | f173b1151a5292b20a60edea1310eb8a7d6db6fc9fcef930bfb792f72e584990 |
# Copyright 2014, 2016, Tresys Technology, LLC
# Copyright 2016, 2017, Chris PeBenito <pebenito@ieee.org>
#
# This file is part of SETools.
#
# SETools is free software: you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License as
# published by the Free Software Foundation, ei... | TresysTechnology/setools | setools/policyrep/netcontext.py | Python | lgpl-2.1 | 6,871 | [
"Brian"
] | 3936ec76e24cc4032d567971c2797d34c9b145aff72ead9342440be031f0dbbd |
###############################################################################
##
## Copyright (C) 2006-2011, University of Utah.
## All rights reserved.
## Contact: contact@vistrails.org
##
## This file is part of VisTrails.
##
## "Redistribution and use in source and binary forms, with or without
## modification, ... | CMUSV-VisTrails/WorkflowRecommendation | vistrails/core/packagemanager.py | Python | bsd-3-clause | 31,321 | [
"VisIt"
] | d95151fec0c088849f984e97898c2ee85b0b6d555b7c8005a95922c73126c95d |
from plotly.basedatatypes import BaseTraceHierarchyType as _BaseTraceHierarchyType
import copy as _copy
class Marker(_BaseTraceHierarchyType):
# class properties
# --------------------
_parent_path_str = "scattercarpet"
_path_str = "scattercarpet.marker"
_valid_props = {
"autocolorscale",... | plotly/plotly.py | packages/python/plotly/plotly/graph_objs/scattercarpet/_marker.py | Python | mit | 61,867 | [
"Bowtie"
] | e4f2727d70a9f148122f0d4215c823689cff3cff637cff78003ba6302c30503a |
# Copyright 2021 The TensorFlow Probability Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law o... | tensorflow/probability | tensorflow_probability/python/experimental/mcmc/snaper_hmc.py | Python | apache-2.0 | 52,362 | [
"Gaussian"
] | 307a0db2d21348b8721852ecdc132ce60036cdaea6fc6d77aada2d33db4c9b60 |
#
# QAPI introspection generator
#
# Copyright (C) 2015-2016 Red Hat, Inc.
#
# Authors:
# Markus Armbruster <armbru@redhat.com>
#
# This work is licensed under the terms of the GNU GPL, version 2.
# See the COPYING file in the top-level directory.
from qapi import *
# Caveman's json.dumps() replacement (we're stuck... | gongleiarei/qemu | scripts/qapi-introspect.py | Python | gpl-2.0 | 7,230 | [
"VisIt"
] | b02ac81fbf94d62fb7bbe8cec54d06ea8eb4b3b9568889849af4612e9c01cd47 |
from __future__ import print_function, absolute_import, division
from future.builtins import *
from future import standard_library
standard_library.install_aliases()
# Copyright 2017 Autodesk Inc.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with ... | Autodesk/molecular-design-toolkit | moldesign/integrators/openmm.py | Python | apache-2.0 | 4,202 | [
"OpenMM"
] | 0e4e718fde0feef2a3396bd443e27d290d99f0185ecaf5799781916ae4dd9575 |
#!/usr/bin/env python
'''unit testing code for pysam.
Execute in the :file:`tests` directory as it requires the Makefile
and data files located there.
'''
import pysam
import unittest
import os
import shutil
import sys
import collections
import subprocess
import logging
import array
from TestUtils import checkBinaryE... | brendanofallon/pysam | tests/SamFile_test.py | Python | mit | 70,883 | [
"BWA",
"pysam"
] | 8f1b25a5aa28d59ea968c4f4abbaf51dbc2cec6c7dff76d6d335f5e3d3be6dfa |
#!/usr/bin/env python
# Copyright 2015 The Kubernetes 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
#
# Unle... | r2d4/minikube | hack/boilerplate/boilerplate.py | Python | apache-2.0 | 5,271 | [
"VisIt"
] | 66e7aeaf7029fc2b594b1b3f23dce6c2e1613e3155e0632dc641b1215826078d |
import bottle
import json
import pprint
import rauth.service
ListenPort = "2379"
CONSUMER_KEY = "SET HERE YOUR CLIENT/CONSUMER KEY"
#This is the URL of the REST Server
RESTURL = "https://localhost:9910"
oaSrv = rauth.service.OAuth2Service( name = "DIRAC", consumer_key = CONSUMER_KEY, consumer_secret = "",
... | DIRACGrid/RESTDIRAC | RESTSystem/Test/OauthPortalExample.py | Python | gpl-3.0 | 5,196 | [
"DIRAC"
] | 95299168dededa1250947bb731c9c6a1212919364458bab32f2734ad2e8b72bd |
import genson
def test_multi_gen_kwargs():
gson = \
"""
{
"multi_gen_kwargs_bug" : { "nested": gaussian(0, 1, draws=1, random_seed=42) }
}
"""
genson.loads(gson)
def test_gen_kwargs_with_underscore():
gson = \
"""
{
"gen_kwarg_with_underscore" : { "nested": gaussi... | davidcox/genson | test/test_gen_kwargs.py | Python | mit | 393 | [
"Gaussian"
] | 8e7cb8d5e53ca9a151999325fb0ff1861280726bdb85adbedca6229f0214cf6c |
#!/usr/bin/env python
########################################################################
# File : dirac-admin-get-pilot-info
# Author : Ricardo Graciani
########################################################################
"""
Retrieve available info about the given pilot
Usage:
dirac-admin-get-pilot-in... | yujikato/DIRAC | src/DIRAC/Interfaces/scripts/dirac_admin_get_pilot_info.py | Python | gpl-3.0 | 4,330 | [
"DIRAC"
] | 59bfbac02f92488aee9eb32bf899d63433cc22969adf74c437a5206a338097b3 |
#coding:utf8
'''
Created on 2013-8-7
@author: lan (www.9miao.com)
'''
from firefly.server.globalobject import GlobalObject
from twisted.python import log
def _doChildConnect(name,transport):
"""当server节点连接到master的处理
"""
server_config = GlobalObject().json_config.get('servers',{}).get(name,{})
remotep... | yangdw/PyRepo | src/annotation/Firefly/firefly/master/rootapp.py | Python | mit | 1,553 | [
"Firefly"
] | dd2a6d4ae41e22f8bbe796fddf4750d36a1928221759e41827b89ed5d51cec38 |
"""
Acceptance tests for Studio related to the split_test module.
"""
import json
import os
import math
from unittest import skip, skipUnless
from nose.plugins.attrib import attr
from xmodule.partitions.partitions import Group, UserPartition
from bok_choy.promise import Promise, EmptyPromise
from ..fixtures.course i... | kuiwei/kuiwei | common/test/acceptance/tests/test_studio_split_test.py | Python | agpl-3.0 | 41,460 | [
"VisIt"
] | ffe1f4e67be5352ea007a761a1cd42a04ab07892b6cd589f4289491b7f40272b |
#!/usr/bin/python
# -*- coding: utf-8 -*-
# freeseer - vga/presentation capture software
#
# Copyright (C) 2011, 2013 Free and Open Source Software Learning Centre
# http://fosslc.org
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as... | Freeseer/freeseer | src/freeseer/framework/multimedia.py | Python | gpl-3.0 | 16,480 | [
"VisIt"
] | 2c0dcc6939a0cd0c04ccb46fd0b493549929587b8cba37faf068853d6d552284 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
import os
import shutil
import subprocess
import matplotlib.pyplot as plt
import xml.etree.ElementTree as ET
import z2pack
# Edit the paths to your Quantum Espresso and Wannier90 here
qedir = '/home/greschd/software/qe-6.0/bin/'
wandir = '/home/greschd/software/wannier9... | Z2PackDev/Z2Pack | examples/fp/espresso/6/Bi/run.py | Python | gpl-3.0 | 2,759 | [
"Quantum ESPRESSO",
"Wannier90"
] | 1daf7fa594492343302ebb5af9924f86decdf6326650f0a61eb7c0871550c2fd |
import MDAnalysis as mda
import numpy as np
from six.moves import zip
from numpy.testing import (assert_equal, assert_raises, assert_allclose)
from MDAnalysisTests.datafiles import (DLP_CONFIG, DLP_CONFIG_minimal,
DLP_CONFIG_order, DLP_HISTORY,
... | alejob/mdanalysis | testsuite/MDAnalysisTests/coordinates/test_dlpoly.py | Python | gpl-2.0 | 6,172 | [
"DL_POLY",
"MDAnalysis"
] | 430fd51b7596071c9b5cbb2fddc30fb7b4515491aa06055cdcf9092f7f456fca |
from __future__ import print_function
import IMP.test
import IMP
import IMP.statistics
import IMP.algebra
import random
import sys
import os
class MockAxes(object):
def __init__(self, events):
self.events = events
def bar(self, left, height, width=0.8, bottom=None, **kwargs):
self.events.app... | shanot/imp | modules/statistics/test/test_show_histogram.py | Python | gpl-3.0 | 4,310 | [
"Gaussian"
] | 4bc72058d78b59165a3e5d541d985471aef9421732b76b3e48e2aec814ca045e |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# XCode Project Creator
#
import os, sys, re, shutil, codecs
from shutil import copyfile
from os.path import join, splitext, split, exists
from datetime import date
from tools import *
fileTargets = ['.c','.cpp','.h','.m','.mm','.pbxproj']
ignoreFiles = ['.gitignore', ... | appcelerator/titanium_mobile_tooling | scripts/iphone/projector.py | Python | apache-2.0 | 8,249 | [
"VisIt"
] | bd7eba2cd07ae357ba7d64d698fe2c85fefc12145e3d31cc72bfb143a21a5ce3 |
"""Fits real periodogram data, assuming that the powers
follow a chi2 distributioni around a model (power-law plus
constant, typically). This is a real statistical analysis,
since least-squares fitting assumes gaussian statistics. The
chi2(2) distribution is strictly valid only for Fourier
periodograms."""
import scip... | martindurant/astrobits | fitperiodogram.py | Python | mit | 1,228 | [
"Gaussian"
] | f7847946eb89cd43a44575a705560e24785f224d8e87e61890a71e7174e5b030 |
"""Provide the Reddit class."""
import configparser
import os
from itertools import islice
try:
from update_checker import update_check
UPDATE_CHECKER_MISSING = False
except ImportError: # pragma: no cover
UPDATE_CHECKER_MISSING = True
from prawcore import (
Authorizer,
DeviceIDAuthorizer,
... | leviroth/praw | praw/reddit.py | Python | bsd-2-clause | 20,843 | [
"VisIt"
] | a50b0c756adad3811f92959a18094581c6ec503cb3845c6a59f01b95f65d9fc1 |
# (C) Copyright 2005 Nuxeo SAS <http://nuxeo.com>
# Author: bdelbosc@nuxeo.com
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License version 2 as published
# by the Free Software Foundation.
#
# This program is distributed in the hope that it wil... | ksmaheshkumar/FunkLoad | src/funkload/Recorder.py | Python | gpl-2.0 | 16,292 | [
"VisIt"
] | 8b661c22e3e7e6c4bb3b7c37399982ec308459e3f22677e52a545c68a3e4e1fd |
##
# Copyright 2013 Ghent University
#
# This file is part of EasyBuild,
# originally created by the HPC team of Ghent University (http://ugent.be/hpc/en),
# with support of Ghent University (http://ugent.be/hpc),
# the Flemish Supercomputer Centre (VSC) (https://vscentrum.be/nl/en),
# the Hercules foundation (http://w... | ULHPC/modules | easybuild/easybuild-easyblocks/easybuild/easyblocks/f/foldx.py | Python | mit | 2,976 | [
"FoldX"
] | 7c2e1d1b4836bda2538d1c49c45b7a6800cf3563d310b18fa56ea265f5d5eb4a |
# Copyright 2009 The Closure Library 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 a... | BOKteam/common | closure/google-closure-builder_win_cn/builder/depstree.py | Python | mit | 7,611 | [
"VisIt"
] | 6c1e5b54162a3c6c42e0abcbd43032e6fd98c7a81596ffad9e2644f2bed1ac7d |
#
# Copyright 2016 The BigDL Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in ... | intel-analytics/BigDL | python/chronos/test/bigdl/chronos/model/test_prophet.py | Python | apache-2.0 | 4,363 | [
"ORCA"
] | 9b017c64dee8f42878b24dafff409d3973e76b51b512f25d1f31f3267c72c0f5 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# Copyright (C) Brian Moe (2013-2014), Duncan Macleod (2014-)
#
# This file is part of LIGO CIS Core.
#
# LIGO CIS Core 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 Foundat... | lscsoft/cis.server | cisserver/api/__init__.py | Python | gpl-3.0 | 1,005 | [
"Brian",
"MOE"
] | 721ed3d68add002b04aed90322a27f4831b7a250f98a4334e8f3e653dd74d1dc |
#!/bin/env python
'''
Differential expression analysis for single or paired-end RNA-Seq data using
the Tuxedo protocol (Tophat, Cufflinks) and EdgeR/Voom with counts from
HTSeq-count.
Authors: Jessica Chung, Bernie Pope, Clare Sloggett, Gayle Philip, Marek Cmero.
Description: This program implements a workflow pip... | jessicachung/rna_seq_pipeline | RNA-seq_pipeline.py | Python | mit | 36,838 | [
"HTSeq"
] | 35681b9877fcbb5f17ce7862170fd4106b6eebc7c3422398eb1d02496e2e44b8 |
"""
PHYLIP multiple sequence alignment format (:mod:`skbio.io.phylip`)
==================================================================
.. currentmodule:: skbio.io.phylip
The PHYLIP file format stores a multiple sequence alignment. The format was
originally defined and used in Joe Felsenstein's PHYLIP package [1]_,... | Kleptobismol/scikit-bio | skbio/io/phylip.py | Python | bsd-3-clause | 10,452 | [
"BioPerl",
"scikit-bio"
] | 6c332c6de368e638d4b23804ddb74085a0848944728e3bdc926a47ac9d820c73 |
import argparse
import sys, traceback
import os
from os import path
import xml.etree.ElementTree as ET
import geopandas, rasterio
from shapely.geometry import Point
import numpy as np
sys.path.append(path.abspath(path.join(path.dirname(__file__), "..")))
from lib import env
from lib.sitkaAPI import downloadUnzipTopo
... | SouthForkResearch/CHaMP_Metrics | tools/topometrics/methods/bankfull.py | Python | gpl-3.0 | 10,279 | [
"VisIt"
] | afd67c70063df7f0a1bea99954b9da5fa402893582c29fba746b8b05c56f6e82 |
# 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 u... | CodingCat/mxnet | python/mxnet/ndarray/random.py | Python | apache-2.0 | 17,552 | [
"Gaussian"
] | bce05bd3aa2be5cae40adad9513885b0aebff42bfe5a59243f023a41c716b5db |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
wordlist_chooser.py
-------------------
This is a program that chooses pseudo-random words
from the amazing mnemonic wordlist that can be found here:
http://web.archive.org/web/20090918202746/http://tothink.com/mnemonic/wordlist.html
The wordlist follows these rules:... | anschwa/wordlist | wordlist_chooser.py | Python | mit | 1,266 | [
"VisIt"
] | cb2980cad0f1b78ad4bea79e1ceecba510f999a63493b276b50c5dda7f311f07 |
""" This is the RFIO StorageClass
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
__RCSID__ = "$Id$"
import re
import os
import time
import six
from DIRAC import gLogger, S_OK, S_ERROR
from DIRAC.Resources.Storage.Utilities import checkArgumentFormat
... | yujikato/DIRAC | src/DIRAC/Resources/Storage/RFIOStorage.py | Python | gpl-3.0 | 37,876 | [
"DIRAC"
] | 302afb311ba8d6c4e87c544b04d9d2b37f2869f94586217e11b708f0a1250a18 |
import json
from argparse import ArgumentParser, ArgumentDefaultsHelpFormatter, FileType
from pathlib import Path
from subprocess import run
DEFAULT_DATABASE = str(Path(__file__).parent / 'refs.fasta')
DEFAULT_PROJECTS = str(Path(__file__).parent.parent / 'projects.json')
def parse_args():
parser = ArgumentParse... | cfe-lab/MiCall | micall/blast_db/make_blast_db.py | Python | agpl-3.0 | 1,878 | [
"BLAST"
] | f96ad2490f3d13de75423e74773336b680b11a68b1c755107ba7eb8c183ecb3f |
#!/usr/bin/env python
import logging
import pysam
import json
import argparse, sys, os.path
import math, time
from argparse import RawTextHelpFormatter
import svtyper.version
from svtyper.parsers import Vcf, Variant, Sample, confidence_interval
from svtyper.utils import *
from svtyper.statistics import bayes_gt
# -... | hall-lab/svtyper | svtyper/classic.py | Python | mit | 25,877 | [
"pysam"
] | c89fc8b759da364891d6ec0badb20810482605be10f7a6e7ce0e1b1d6e9d242d |
"""
Module containing functions interacting with the CS and useful for the RSS
modules.
"""
from __future__ import absolute_import
__RCSID__ = '$Id$'
from DIRAC import gConfig, gLogger, S_OK
from DIRAC.Core.Utilities.SiteSEMapping import getSEParameters
from DIRAC.ConfigurationSystem.Client.Helpers.Resources import... | fstagni/DIRAC | ResourceStatusSystem/Utilities/CSHelpers.py | Python | gpl-3.0 | 5,490 | [
"DIRAC"
] | d3b297b208860ac4fb2870036ceff973fddcc3ee394027cb40da26d712556c3a |
#!/usr/bin/env python
import sys
import numpy as np
import argparse
import matplotlib.pyplot as plt
from plotTools import addContourf
from analysisTools import sensibleIds, groundOffset, discreteWaveletAnalysis
from netcdfTools import read3dDataFromNetCDF, netcdfOutputDataset, \
createNetcdfVariable, netcdfWriteAndCl... | saskartt/P4UL | pyNetCDF/waveletAnalysisNetCdf.py | Python | mit | 6,038 | [
"NetCDF"
] | 203e77443459ad7a33547071524de472e58a384e71616912b3a6255f623fb3ac |
colors = {
"1C Enterprise": {
"color": "#814CCC",
"url": "https://github.com/trending?l=1C Enterprise"
},
"ABAP": {
"color": "#E8274B",
"url": "https://github.com/trending?l=ABAP"
},
"ActionScript": {
"color": "#882B0F",
"url": "https://github.com/tren... | Mo-Talha/Nomad | server/colors.py | Python | mit | 35,633 | [
"CRYSTAL"
] | b52e492a663daa5a3fe0a44086196705d87612b3fb9e323a35a6eaf8acfc42dc |
import matplotlib.pyplot as plt
import numpy as np
import sys
assert len(sys.argv) >= 2
def load_spikes(filename):
return np.loadtxt(filename, dtype={"names": ("time", "neuron_id"),
"formats": (np.float, np.int)})
def load_voltages(filename):
return np.loadtxt(filename,... | genn-team/genn | userproject/SynDelay_project/plot.py | Python | gpl-2.0 | 1,581 | [
"NEURON"
] | 85a6a601a910fff4814911d8041c7d697af7275c2ae514de78ac4b247a7ba3a0 |
../../../../share/pyshared/orca/speechdispatcherfactory.py | Alberto-Beralix/Beralix | i386-squashfs-root/usr/lib/python2.7/dist-packages/orca/speechdispatcherfactory.py | Python | gpl-3.0 | 58 | [
"ORCA"
] | 3f87d4e416540243575a9d6ebcc97e709a472e40709bb5d8cf486469d586516b |
# rosetta radii for sphere representation in PyMOL
# values taken from etable.cc
from pymol import cmd
def useRosettaRadii():
cmd.alter("element C", "vdw=2.00")
cmd.alter("element N", "vdw=1.75")
cmd.alter("element O", "vdw=1.55")
# cmd.alter("element H", "vdw=1.00") # rosetta polar H
cmd.alter("element H", "vdw=... | weitzner/Dotfiles | pymol_scripts/rosetta_vdw.py | Python | mit | 726 | [
"PyMOL"
] | f4013b84027946119da7f37acc691ddcb9af02ec552e9a808d5d6dce67091657 |
"""Setup script for Bokeh."""
#-----------------------------------------------------------------------------
# Copyright (c) 2012 - 2014, Continuum Analytics, Inc. All rights reserved.
#
# Powered by the Bokeh Development Team.
#
# The full license is in the file LICENCE.txt, distributed with this software.
#---------... | khkaminska/bokeh | setup.py | Python | bsd-3-clause | 19,797 | [
"GULP"
] | efcb009315033d521e700783806343584ed6ce20e74b333af84cf0df779c5d76 |
"""Builds the network.
Summary of available functions:
# Compute input images and labels for training. If you would like to run
# evaluations, use inputs() instead.
inputs, labels = distorted_inputs()
# Compute inference on the model inputs to make a prediction.
predictions = inference(inputs)
# Compute the t... | pailnguyen/jackal | jkl/jkl.py | Python | agpl-3.0 | 12,282 | [
"Gaussian"
] | f75af87ba6855fff1c18591aa1bffd3f070a18c1885e4e4b9d17a4f5cf09c733 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# PCR-GLOBWB (PCRaster Global Water Balance) Global Hydrological Model
#
# Copyright (C) 2016, Ludovicus P. H. (Rens) van Beek, Edwin H. Sutanudjaja, Yoshihide Wada,
# Joyce H. C. Bosmans, Niels Drost, Inge E. M. de Graaf, Kor de Jong, Patricia Lopez Lopez,
# Stefanie Pes... | UU-Hydro/PCR-GLOBWB_model | modflow/scripts/landSurface.py | Python | gpl-3.0 | 92,973 | [
"NetCDF"
] | e7f9ccd836fd20e76f530628a40941b64dfb16a1ec92d9a68f3af6f8994adcb7 |
import threading
import os
import sys
import time
from math import floor
class MPG123(threading.Thread):
"""
Class that interfaces to the MPG123 MP3 player application
Author: Brian Dale
Date: May 10, 2007
"""
STATE_STOPPED = 0x00
STATE_PLAYING = 0x01
STATE_PAUSED = 0x02
state =... | tbdale/crystalfontz-lcd-ui | python/MPG123.py | Python | mit | 2,873 | [
"Brian"
] | 44957c1d83b7bd358ba21f4a5ab26caea09eabce964059c9c142c2a215c909b5 |
########################################################################
# $HeadURL$
# File : PilotDirector.py
# Author : Ricardo Graciani
########################################################################
"""
Base PilotDirector class to be inherited by DIRAC and Grid specific PilotDirectors, inherited by MW
... | Andrew-McNab-UK/DIRAC | WorkloadManagementSystem/private/PilotDirector.py | Python | gpl-3.0 | 20,015 | [
"DIRAC"
] | c3ce24e116ba025b2f83934220c360e9213a46464da33a5f4be95e7361272db4 |
# This file is part of rhizi, a collaborative knowledge graph editor.
# Copyright (C) 2014-2015 Rhizi
#
# This program 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... | Rhizi/rhizi | rhizi/neo4j_cypher_parser.py | Python | agpl-3.0 | 29,034 | [
"VisIt"
] | 8491f038c7c4534509dce31e7eb793522d1182d95b186688832bb3a5a88df4ba |
#!/usr/bin/env python
import sys
import os
import gzip
import argparse
from Bio.Blast.Applications import NcbiblastnCommandline
from Bio.Blast import NCBIXML
from operator import itemgetter, attrgetter
parser = argparse.ArgumentParser(description="Check if there are any significant contributions from unexpected orga... | senthil10/scilifelab | scripts/sanity_check.py | Python | mit | 3,625 | [
"BLAST"
] | 76ea6285e9beab2bc0bfef4767e56e8167d73913a4f8034906df8bfeff6b582c |
def test_abinit_parser():
"""
Test (pychemia.code.abinit) [parser] :
"""
from pychemia.code.abinit import parser
from numpy import array, all, ones
from math import sqrt
import tempfile
wf = tempfile.NamedTemporaryFile(mode='w')
wf.write(' # Comentario\n')... | MaterialsDiscovery/PyChemia | tests/test_code_abinit.py | Python | mit | 3,589 | [
"ABINIT",
"NetCDF"
] | 1d48dc01d3fe88472c7537ee4df239b05250ac2df5447bcda26e5f6877a2eed4 |
""" This is the StorageElement class.
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
# # custom duty
import six
import copy
import datetime
import errno
import os
import re
import sys
import threading
import time
from functools import reduce
# # fro... | ic-hep/DIRAC | src/DIRAC/Resources/Storage/StorageElement.py | Python | gpl-3.0 | 59,179 | [
"DIRAC"
] | a9aa72adab810e6fea11304c2f2dca8c59ce4053b08447ee7cd09301bd17b7d8 |
from collections import defaultdict, deque
class Path:
def __init__(self):
self._locations_visited = defaultdict(lambda: 0)
def mark_visit_to(self, x, y):
self._locations_visited[(x, y)] += 1
def houses_visited(self):
return len(self._locations_visited)
class Traveler:
def __... | elizabrock/adventofcode | day3.py | Python | mit | 1,688 | [
"VisIt"
] | 8a0ccc330313fc22c8fcbb76d52702f19a8ef90e8dc0dc0ac62d9c09d80092c7 |
"""BLAST sequence from an assembly."""
import os
import sys
import json
import tempfile
from seqlab.assembly import *
from seqlab.sequence_report import blast_seq
def build_parser(parser):
parser.add_argument('assembly',
help='Assembly containing sequence to BLAST')
parser.add_argument('-l','--label', ... | madhadron/seqlabd | seqlab/subcommands/blast.py | Python | gpl-3.0 | 1,308 | [
"BLAST"
] | 77728bf8462a5c556d981579e10d32bf68cc149dfd5557330f15b5dcec84bb1b |
########################################################################
# $HeadURL$
# File : SSHComputingElement.py
# Author : Dumitru Laurentiu
########################################################################
""" SSH (Virtual) Computing Element: For a given list of ip/cores pair it will send jobs
direc... | Sbalbp/DIRAC | Resources/Computing/SSHBatchComputingElement.py | Python | gpl-3.0 | 7,405 | [
"DIRAC"
] | 830a09c8f7743f9025f5b1288fd6f5748274975ad7163baa356dc00de3b35885 |
"""
FileCatalogHandler is a simple Replica and Metadata Catalog service
in the DIRAC framework
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
__RCSID__ = "$Id$"
import six
from six import StringIO
import csv
import os
from DIRAC.Core.DISET.RequestHan... | yujikato/DIRAC | src/DIRAC/DataManagementSystem/Service/FileCatalogHandler.py | Python | gpl-3.0 | 28,703 | [
"DIRAC"
] | 49df6a4410c8d192f62a560c26b66158364f4a71a8cd46d1c27ac63f07650d10 |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.