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 |
|---|---|---|---|---|---|---|---|
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
import json
import os
import unittest
from monty.json import MontyDecoder
from pymatgen.core.composition import Composition
from pymatgen.apps.battery.conversion_battery import (
ConversionElectrode,
... | gmatteo/pymatgen | pymatgen/apps/battery/tests/test_conversion_battery.py | Python | mit | 3,708 | [
"pymatgen"
] | 063d0ee8d3c4ae58aa05d641eb5de3a2fd77b73e2157562c899d09acd25c5eae |
#!/usr/bin/env python
from __future__ import print_function
import numpy as N
import libRun as LR
import os
def build_cmd(patches, config, filt, input, output):
cmd = "assembleCoadd.py %s --output %s " % (input, output) + \
patches + " @" + filt + ".list" + " --configfile " + config + \
" --c... | DarkEnergyScienceCollaboration/ReprocessingTaskForce | scripts/run_assembleCoadd.py | Python | gpl-2.0 | 2,566 | [
"VisIt"
] | 708f6abfc40416f3f59d07707b65fd1056a9563bc5b25605b38227a06f5bff03 |
#!/usr/bin/env python
# Copyright 2014-2018 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# U... | sunqm/pyscf | pyscf/gto/test/test_ft_ao.py | Python | apache-2.0 | 6,775 | [
"PySCF"
] | 52c5b4356dab4ed94891f7d6f4d1c4e1176eebd59fa8533f6058031f3aa3c973 |
# $Id$
#
# Copyright (C) 2001-2006 greg Landrum
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
""" code for dealing with resemblance (metric) ma... | adalke/rdkit | rdkit/ML/Cluster/Resemblance.py | Python | bsd-3-clause | 3,242 | [
"RDKit"
] | aa719a47ac65632739912ff8e00a0197f668dd3dca3570c3a2d0e9a2d31570da |
#!/usr/bin/env python
"""
Module created to run failed jobs locally on a CVMFS-configured machine.
It creates the necessary environment, downloads the necessary files, modifies the necessary
files and runs the job
"""
import os
import shutil
import ssl
from xml.etree import ElementTree as et
from urllib.request impor... | ic-hep/DIRAC | src/DIRAC/TransformationSystem/scripts/dirac_production_runjoblocal.py | Python | gpl-3.0 | 4,823 | [
"DIRAC"
] | 4f67a6fba444eb7740a985007c985d38ca0fb2700dcabae9e8a1a9710cf4f334 |
"""
Multivariate Conditional and Unconditional Kernel Density Estimation
with Mixed Data Types.
References
----------
[1] Racine, J., Li, Q. Nonparametric econometrics: theory and practice.
Princeton University Press. (2007)
[2] Racine, Jeff. "Nonparametric Econometrics: A Primer," Foundation
and Trends in Eco... | bashtage/statsmodels | statsmodels/nonparametric/kernel_density.py | Python | bsd-3-clause | 25,886 | [
"Gaussian"
] | fdef64b87e3bb0d108bbbc9618a0e446ca598adae6eeed0a6b041144c58594b9 |
from sfepy import data_dir
filename_mesh = data_dir + '/meshes/2d/special/circle_in_square.mesh'
dim = 2
field_1 = {
'name' : 'a_harmonic_field',
'dtype' : 'real',
'shape' : 'scalar',
'region' : 'Omega',
'approx_order' : 1,
}
variables = {
't': ('unknown field', 'a_harmonic_field', 0),
'... | RexFuzzle/sfepy | tests/test_msm_symbolic.py | Python | bsd-3-clause | 7,356 | [
"VTK"
] | b48d3ef26039d7323cc642dc354182aa819b7cc973627f1eace92aa69397ad46 |
"""test functions for LS-BSR tools"""
import unittest
from ls_bsr.util import *
import os
import tempfile
import shutil
curr_dir=os.getcwd()
class Test1(unittest.TestCase):
def test_get_seq_name_basic_function(self):
self.assertEqual(get_seq_name("/path/to/test.fasta"), "test.fasta")
"""tests the con... | jasonsahl/LS-BSR | tests/test_all_functions.py | Python | gpl-3.0 | 36,121 | [
"BLAST"
] | 20864f04aff4037796f31d90c1db931d8030cbb5486b7f494089b71f932b5611 |
#!/usr/bin/env python2
#
# Copyright 2001 - 2016 Ludek Smid [http://www.ospace.net/]
#
# This file is part of Outer Space.
#
# Outer Space 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... | ospaceteam/outerspace | tests/smoke_test.py | Python | gpl-2.0 | 5,987 | [
"Galaxy"
] | 07ed004d8f1e0bc703cde152ce9de21bc613d4f8236cad866d5e80880f7a1e8f |
"""
A collection of functions to find the weights and abscissas for
Gaussian Quadrature.
These calculations are done by finding the eigenvalues of a
tridiagonal matrix whose entries are dependent on the coefficients
in the recursion formula for the orthogonal polynomials with the
corresponding weighting function over ... | nonhermitian/scipy | scipy/special/orthogonal.py | Python | bsd-3-clause | 58,499 | [
"Gaussian"
] | 004e3721fdfb6fe14d748bb00298c82135169d8fe53f4f78c8ae2f865f981376 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
compliance_checker/cfutil.py
"""
import csv
import re
import warnings
from collections import defaultdict
from functools import lru_cache, partial
from cf_units import Unit
from pkg_resources import resource_filename
_UNITLESS_DB = None
_SEA_NAMES = None
VALID_LAT_... | ioos/compliance-checker | compliance_checker/cfutil.py | Python | apache-2.0 | 60,813 | [
"NetCDF"
] | 37e01c91bd115289e6274536fb3297e88e8114b0cddebb58d2db9731d944ea85 |
#!/usr/bin/env python
########################################################################
# File : dirac-admin-site-mask-logging
# Author : Stuart Paterson
########################################################################
"""
Retrieves site mask logging information.
Example:
$ dirac-admin-site-mask-l... | DIRACGrid/DIRAC | src/DIRAC/Interfaces/scripts/dirac_admin_site_mask_logging.py | Python | gpl-3.0 | 1,174 | [
"DIRAC"
] | 958f6dffffc409aa55d009d45fbbf9b65a0a90d73496655b8f73e0e227d3ef1d |
#!/usr/bin/env python
"""
This is a script for quick VTK-based visualizations of finite element
computations results.
Examples
--------
The examples assume that run_tests.py has been run successfully and the
resulting data files are present.
- view data in output-tests/test_navier_stokes.vtk
$ python resv... | BubuLK/sfepy | resview.py | Python | bsd-3-clause | 22,275 | [
"VTK"
] | b89cc3f5523dafc214aec249b3dc0cdf150c7de37ebc14b79c5614564dd3a884 |
"""Test LCAO density calculation and conversion to grid.
Test that the density generated by the following three procedures is the same:
* basis_functions.construct_density as used in a normal calculation
* axpy used on the psit_nG as constructed by lcao_to_grid
* axpy used on the Phit_MG[i] * Phit_MG[j] * rho[j, i... | qsnake/gpaw | gpaw/test/lcao_density.py | Python | gpl-3.0 | 1,695 | [
"ASE",
"GPAW"
] | 814b6a50fac9fd29a413939d4f3edb8fa1735b315d4edd6e990957734b52c3ee |
import unittest
from mock import Mock
from DIRAC.DataManagementSystem.Client.ConsistencyInspector import ConsistencyInspector
class UtilitiesTestCase( unittest.TestCase ):
def setUp( self ):
self.bkClientMock = Mock()
self.bkClientMock.getFileDescendants.return_value = {'OK': True,
... | vmendez/DIRAC | DataManagementSystem/Client/test/Test_Client.py | Python | gpl-3.0 | 7,762 | [
"DIRAC"
] | 440641b90bf3662ecfdcfc5d58bc23f4d79d19fe80d904e0fe416a4f34a03b32 |
#!/usr/bin/env python
# -*- coding: utf-8
# Core functions dealing with vertebral labeling
# TODO: remove i/o as much as possible
import os
import logging
import numpy as np
import scipy.ndimage.measurements
from scipy.ndimage.filters import gaussian_filter
from scipy.signal import gaussian
from spinalcordtoolbox.i... | neuropoly/spinalcordtoolbox | spinalcordtoolbox/vertebrae/core.py | Python | mit | 24,576 | [
"Gaussian"
] | bba97ec7a470f614fa646836c98e3147fc3c83bc924118626083e4b197c0c124 |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
#
# Copyright (C) 2020 Stoq Tecnologia <http://www.stoq.com.br>
# All rights reserved
#
# This program is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public License
# as published by the Free Software Foundation;... | stoq/stoq-server | stoqserver/sentry.py | Python | gpl-2.0 | 4,444 | [
"VisIt"
] | f9c54a96df810137a1bf447fabed36937d3bc0b7b2ed3891d74cfd6fb1b458e7 |
#!/usr/bin/env python
########################################################################
# $HeadURL$
# File : dirac-restart-component
# Author : Ricardo Graciani
########################################################################
"""
Restart DIRAC component using runsvctrl utility
"""
__RCSID__ = "$Id$"
... | Sbalbp/DIRAC | Core/scripts/dirac-restart-component.py | Python | gpl-3.0 | 1,390 | [
"DIRAC"
] | c8914fbf2e5582eeb4b5f7f0e8eb8ec9ad9811542d02d0d182bcbb1a41f54c2d |
# Code the classes and a test to run them
from sys import exit
from random import randint
def quit():
print ''
print bcolors.GREEN + 'See you later!' + bcolors.END
print ''
exit(1)
class bcolors:
BLUE = '\033[94m'
GREEN = '\033[92m'
YELLOW = '\033[93m'
RED = '\033[91m'
END = '\033[... | Evalle/GPP | main.py | Python | gpl-3.0 | 10,228 | [
"BLAST"
] | d86dedec0fc403a8fa8154f698ec44aaad160106f7bdf17ce67753db8c266947 |
'''
Created on 16/02/2010
@author: jose
'''
# Copyright 2009 Jose Blanca, Peio Ziarsolo, COMAV-Univ. Politecnica Valencia
# This file is part of franklin.
# franklin 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... | JoseBlanca/franklin | test/snv/snv_annotation_test.py | Python | agpl-3.0 | 54,305 | [
"pysam"
] | 6ba2c8fe5da556fefcfd2b822d7a113ebf1c4d9ce69b6114ad6ea4501cba9bfe |
import cv2
from Perceptron1 import predict
import numpy as np
import subsampling
import Blur
def generarImagenesVideo(video,tamx,tamy):
cap = cv2.VideoCapture(video)
i = 1
while True:
ret, frame = cap.read()
i += 1
#Probar cambiando el tiempo
if i%5 ==0:
gray... | DroneSimon/inteligencia_visual | generarImagenes.py | Python | mit | 2,005 | [
"NEURON"
] | 48d15aa9638029bc4667e6a129a2ccdad233817fa7a15c10d0066d6dfb516e77 |
# Description: General-purpose functions for personal use.
# Author: André Palóczy
# E-mail: paloczy@gmail.com
__all__ = ['seasonal_avg',
'seasonal_std',
'deseason',
'blkavg',
'blkavgdir',
'blkavgt',
'blkapply',
'stripmsk',
... | apaloczy/ap_tools | utils.py | Python | mit | 54,874 | [
"Gaussian",
"NetCDF"
] | f9ded9cebdd04b9e839ffbd9724c0df57a5b5bd9d1142d9487a45ba06faad672 |
"""================================
Optimizing cufflinks parameters
================================
:Author: Nick Ilott
:Release: $Id$
:Date: |today|
:Tags: Python
The cufflinks optimization pipeline attempts to assess the quality of
a variety of transcript assemblies using various sets of parameters.
Overview
====... | CGATOxford/CGATPipelines | obsolete/pipeline_cufflinks_optimization.py | Python | mit | 27,762 | [
"pysam"
] | d98540371bb2abbfda64e45c4e8fa369748485dfc09074879119eda36d7e92f2 |
import base64
import binascii
import hashlib
import json
import os
import random
import re
from future.moves.urllib.parse import parse_qsl, urlparse
import requests
from aussieaddonscommon import session as custom_session
from aussieaddonscommon import utils
from aussieaddonscommon.exceptions import AussieAddonsExce... | andybotting/xbmc-addon-afl-video | resources/lib/telstra_auth.py | Python | gpl-3.0 | 11,835 | [
"VisIt"
] | 5140336137337d07543041a13bdd7e3acb95133082e2bfa1c68297834ee56c57 |
#!/usr/bin/env python
import vtk
from vtk.test import Testing
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
# Derived from Cursor3D. This script increases the coverage of the
# vtkImageInplaceFilter super class.
# global values
CURSOR_X = 20
CURSOR_Y = 20
CURSOR_Z = 20
IMAGE_MAG_X = 2
IMAG... | HopeFOAM/HopeFOAM | ThirdParty-0.1/ParaView-5.0.1/VTK/Imaging/Core/Testing/Python/TestInPlaceFilter.py | Python | gpl-3.0 | 1,759 | [
"VTK"
] | 60be17892453cf30012a50e04bafa0ae7d283b0466c38a7036e42b85bccb7b87 |
from __future__ import print_function
from rdkit import RDConfig
RDConfig.usePgSQL = 0
import unittest
from rdkit.ML import InfoTheory
from rdkit import DataStructs
from rdkit.Dbase.DbConnection import DbConnect
import os
from rdkit.six.moves import cPickle as pickle
def feq(v1, v2, tol2=1e-4):
return abs(v1 - v2) ... | jandom/rdkit | rdkit/ML/InfoTheory/testBitRanker.py | Python | bsd-3-clause | 4,058 | [
"RDKit"
] | 9a09b5d40177c74ecafdf3bb8fd751b3b6d2cdd41a0ee221c518e8941ed1dece |
"""
# Notes:
- This simulation seeks to emulate the COBAHH benchmark simulations of (Brette
et al. 2007) using the Brian2 simulator for speed benchmark comparison to
DynaSim. However, this simulation includes CLOCK-DRIVEN synapses, for direct
comparison to DynaSim's clock-driven architecture. The synaptic connec... | asoplata/dynasim-benchmark-brette-2007 | Brian2/brian2_benchmark_COBAHH_clocksyn_hidens_compiled_0001.py | Python | gpl-3.0 | 3,932 | [
"Brian"
] | 62b70727cd88fd3405dc7d228476b916da06c0d7537b8755b34d9cc8ab3054d7 |
#!/usr/bin/env python
# b 1702 b 2430 b 2475
from collections import defaultdict, deque, namedtuple
import errno
import getopt
import heapq
import htmlunit
import itertools
import logging
import math
import os
import os.path
import output
import pdb
import pydot
import random
import re
import shutil
import signal
impor... | adamdoupe/enemy-of-the-state | crawler2.py | Python | gpl-2.0 | 94,934 | [
"VisIt"
] | 6c17024c312e0f34748d74706a4f3faa334679bf2005c4b12a09fdf1962d114e |
#------------------------------------------------------------------------------
# Copyright (C) 2009 Richard Lincoln
#
# 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; version 2 dated June... | rwl/openpowersystem | cdpsm/iec61968/asset_models/to_winding_spec.py | Python | agpl-3.0 | 3,092 | [
"exciting"
] | 3990c26d1d565b56a629905420dde9cca0dffe93247c5c19a395934ac176c4ad |
from ReportGenerator.Geom import Geom
from ReportGenerator.Top_ReportGenerator import Top_ReportGenerator
from ReportComponents.WebFile import WebFile
from ReportGenerator.Charges import Charges
import itertools
import logging
log = logging.getLogger(__name__)
class Freq(Top_ReportGenerator):
def __init__(self,we... | talipovm/terse | terse/ReportGenerator/Freq.py | Python | mit | 5,504 | [
"GAMESS"
] | bd5b4a22e4577899a6c2137e059e9537288625ae4d15b92438baf60f6f943bf1 |
'''
Test for IO in Rebo2, Rebo2Scr
'''
import unittest
import numpy as np
from ase import Atoms, io
from atomistica import Rebo2, Rebo2Scr
class IOTest(unittest.TestCase):
def test_energy(self):
vac = 8
dist_min = 1.2
atoms = Atoms('CC', positions=[[0, 0, 0], [dist_min, 0, 0]])
... | Atomistica/atomistica | tests/test_io.py | Python | gpl-2.0 | 1,041 | [
"ASE"
] | 263b5e0011446eae2d95f2cfba48e095cf61f3a9c579bfae8da1dd1d67a0694b |
# -*- coding: utf-8 -*-
# vi:si:et:sw=4:sts=4:ts=4
##
## Copyright (C) 2006-2007 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 Fou... | andrebellafronte/stoq | stoqlib/domain/test/test_costcenter.py | Python | gpl-2.0 | 5,555 | [
"VisIt"
] | d9ef0d6ff24ce8329e34ad5490047ff337236632852c6a940617189677dbd545 |
#!/usr/bin/env python
############################################################################
# Copyright (c) 2015 Saint Petersburg State University
# Copyright (c) 2011-2014 Saint Petersburg Academic University
# All Rights Reserved
# See file LICENSE for details.
################################################... | NGSchool2016/ngschool2016-materials | src/SPAdes-3.9.0-Linux/bin/spades.py | Python | gpl-3.0 | 50,884 | [
"BWA"
] | 4eddec128dd798a7b61f69e09140648c9454028de101e9bedeb52c9da72e557e |
#! /usr/bin/env python
########################################################################
# File : dirac-stager-monitor-file
# Author : Daniela Remenska
########################################################################
"""
Give monitoring information regarding a staging file uniquely identified with (L... | yujikato/DIRAC | src/DIRAC/StorageManagementSystem/scripts/dirac_stager_monitor_file.py | Python | gpl-3.0 | 4,335 | [
"DIRAC"
] | 64c3131345f2959a101cab2a303b4de499d3d7d8d4939c106e3f32aaa693c73d |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# Copyright 2014 Arttu Kasvio <arttu@ubuntu>
#
# This is free and unencumbered software released into the public domain.
# See LICENSE for more info and refer to <http://unlicense.org>
# Requirements: pycrypto, monkeysphere, gpg
import os
import drbg
import getpass
... | arttukasvio/deterministic | deterministicgpg.py | Python | unlicense | 3,457 | [
"VisIt"
] | 688c374410c25e348e5461400c26c499512cc8d367b648ac437d50874f210373 |
#
# The Python Imaging Library.
# $Id$
#
# Binary input/output support routines.
#
# Copyright (c) 1997-2003 by Secret Labs AB
# Copyright (c) 1995-2003 by Fredrik Lundh
# Copyright (c) 2012 by Brian Crowell
#
# See the README file for information on usage and redistribution.
#
from struct import unpack_from, pack
fro... | ryfeus/lambda-packs | pytorch/source/PIL/_binary.py | Python | mit | 1,822 | [
"Brian"
] | 5b2ff47496220336e483baca062d9ef68b3e52c3ea7203c531a1945b5c7bbcd1 |
"""
Statistical methods
=====================
- fit residuals
- Computing prediction and confidence bands
- Comparing goodness-of-fit of different models
- operations on statistical distributions
- custom statistical distributions
- p-values and significance
"""
import numpy,scipy
import scipy.stats
# Residuals o... | rsnemmen/nemmen | nmmn/stats.py | Python | mit | 38,544 | [
"Gaussian"
] | 39df429e4ca82a67db5be29635cc9de6db0a36686c4402c4bda812c2876cfbe4 |
from ase.calculators.emt import EMT
from ase import Atoms
from ase.structure import molecule
a1 = Atoms('Au', calculator=EMT())
e1 = a1.get_potential_energy()
a2 = molecule('C6H6', calculator=EMT())
e2 = a2.get_potential_energy()
a1.translate((0, 0, 50))
a3 = a1 + a2
a3.calc = EMT()
e3 = a3.get_potential_energy()
print... | suttond/MODOI | ase/test/emt2.py | Python | lgpl-3.0 | 380 | [
"ASE"
] | f74387eaf8623909b9baa0761840596ace8d6a47a81d9db75724566bb0536ab3 |
from Cython.Compiler import TypeSlots
from Cython.Compiler.ExprNodes import not_a_constant
import cython
cython.declare(UtilityCode=object, EncodedString=object, BytesLiteral=object,
Nodes=object, ExprNodes=object, PyrexTypes=object, Builtin=object,
UtilNodes=object, Naming=object)
import... | openilabs/falconlab | env/lib/python2.7/site-packages/Cython/Compiler/Optimize.py | Python | mit | 155,905 | [
"VisIt"
] | 5ba37ff90c4421e88c22888cb0ed9dde5446d719068b71b8c46dba875add1c59 |
#!/usr/bin/env python
#JSON {"lot": "RHF/3-21G",
#JSON "scf": "PlainSCFSolver",
#JSON "linalg": "DenseLinalgFactory",
#JSON "difficulty": 1,
#JSON "description": "Basic RHF example with dense matrices"}
from horton import *
# Hartree-Fock calculation
# ------------------------
# Load the coordinates from file.
... | crisely09/horton | data/examples/hf_dft/rhf_water_dense.py | Python | gpl-3.0 | 3,062 | [
"Gaussian"
] | 5d3fb37e48e842dd27bb10d63f8367923452d7d00acc4628b2ffe7938fedc020 |
#!/usr/bin/env python
#-*- coding:utf-8 -*-
import logging
import inspect
import miasm2.expression.expression as m2_expr
from miasm2.expression.simplifications import expr_simp
from miasm2.expression.modint import moduint, modint
from miasm2.core.utils import Disasm_Exception, pck
from miasm2.core.graph import DiGra... | amohanta/miasm | miasm2/core/asmbloc.py | Python | gpl-2.0 | 41,073 | [
"VisIt"
] | 9aa7517959ee755577aa79d6e4b578ec781d83efdbeccc3a6867d16d01fd45d9 |
import openvoronoi as ovd
import ovdvtk
import time
import vtk
import datetime
import math
import random
import os
import sys
import pickle
import gzip
def drawCircle(myscreen, c, r, circlecolor):
ca = ovdvtk.Circle(center=(c.x, c.y, 0), radius=r, color=circlecolor, resolution=50)
myscreen.addActor(ca)
if ... | aewallin/openvoronoi | python_examples/ma-pocket/ma_pocket_01.py | Python | lgpl-2.1 | 3,741 | [
"VTK"
] | d6931d5a8fa1d453086a3d55c55e634658203b77f1d4b00e18ac8cc7bd94348a |
#!/usr/bin/env python
"""
buildChains0.py
Author: Tony Papenfuss
Date: Wed Sep 20 17:17:35 EST 2006
"""
import os, sys, glob
import blast, chaining
filenames = glob.glob('blast/*.txt')
for filename in filenames:
hsps = blast.Blast(filename)
hsps.convertBlockToGenomeCoords()
chain = chaining.chainWithB... | PapenfussLab/Mungo | snippets/buildChains.py | Python | artistic-2.0 | 404 | [
"BLAST"
] | 059590c41066caabd273ec4f0b198368fde4d6dd03d357efb626c7a829f390b2 |
##
# Copyright 2009-2013 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 (htt... | geimer/easybuild-easyblocks | easybuild/easyblocks/b/bioconductor.py | Python | gpl-2.0 | 2,253 | [
"Bioconductor"
] | 21451805b5f41326e193e7e115088709e913bd53376c883d705eee04fa448de2 |
# Copyright 2006-2014 Tim Brown/TimeScience LLC
# Copyright 2013-2014 Kevin Murray/Bioinfinio
# Copyright 2014- The Australian National Univesity
# Copyright 2014- Joel Granados
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published b... | borevitzlab/timestreamlib | timestream/manipulate/plantSegmenter.py | Python | gpl-3.0 | 25,186 | [
"Gaussian"
] | 5272e499b49d45e8b24b42d93301f8077f4ba954ac1ea836db794a5ebdfd0a25 |
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
import config
from install_package import InstallPackage
import os
import shutil
import utils
dependencies = []
DRE_BASENAME = "dre"
HG_REPO = "https://code.google.com/p/devide.%s/" % (DRE_BASENAME,)
# this should be the sa... | nagyistoce/devide.johannes | install_packages/ip_setupenvironment.py | Python | bsd-3-clause | 6,081 | [
"VTK"
] | 95b83235699f99382f7af24ddb14c8abfac5dcc643effe985e231e39766f3f21 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
"""A canvas for drawing things on it"""
import platform
import sys
from gi.repository import Gtk
from gi.repository import Gdk
from gi.repository import GObject
if platform.system() != 'Windows':
pass #Gtk.threads_init()
import cairo
from objects.document import Docum... | jmouriz/sanaviron | sanaviron/ui/canvas.py | Python | apache-2.0 | 23,973 | [
"FLEUR"
] | f838c0cbda33ef3272e557763f5f8a6dc8abe4e57768d01db5d643ee72cf6eea |
#
# 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... | tgroh/incubator-beam | sdks/python/apache_beam/runners/direct/direct_runner.py | Python | apache-2.0 | 17,127 | [
"VisIt"
] | 4701d6e50b70a3272418a8d90027dc7962dd9f006b3af0d7047d406080f61694 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
# ---------------------------------------------------------------------
# Copyright (c) 2012 Michael Hull.
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions
# are m... | mikehulluk/morphforge | src/morphforgeexamples/exset2_singlecell_simulations/singlecell_simulation030.py | Python | bsd-2-clause | 4,379 | [
"NEURON"
] | 288c6e718ffea8de44975d1180019a2b19ee3689d7cad232f8a421be90b90986 |
##########################################################################
#
# Copyright (c) 2019, Image Engine Design Inc. All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are
# met:
#
# * Redistrib... | GafferHQ/gaffer | python/GafferUI/SpreadsheetUI/_SectionChooser.py | Python | bsd-3-clause | 14,241 | [
"VisIt"
] | bcf643a5f24ffd58b72767707775566994d991f15db1c1479519a773286746b6 |
#!/usr/bin/env python3
import os
import sys
import argparse
from itertools import groupby
import subprocess
def fasta_iter(fasta_name):
queries = {}
queries_len = {}
with open(fasta_name, 'r') as fasta_file:
faiter = (x[1] for x in groupby(fasta_file, lambda line: line[0] == ">"))
for header... | shahnidhi/outlier_in_BLAST_hits | src/make_edge_list.py | Python | mit | 3,554 | [
"BLAST"
] | 3c8262f3367dafd54ae1b68985b62774ba32bd51d6cef179b2e49664d046f6f3 |
""" DB is a base class for multiple DIRAC databases that are based on MySQL.
It uniforms the way the database objects are constructed
"""
from DIRAC import gLogger, gConfig
from DIRAC.Core.Utilities.MySQL import MySQL
from DIRAC.ConfigurationSystem.Client.Utilities import getDBParameters
from DIRAC.ConfigurationSy... | andresailer/DIRAC | Core/Base/DB.py | Python | gpl-3.0 | 2,111 | [
"DIRAC"
] | faa0eb68da3f5c5e27512e2785e669735f0ef98fbe503eff5780543969b63abc |
from fov import fov
import curses, random
DUNGEON = """
##### #########
#
# ###########
#
## ######### #
#
#
# ######## ######## #
# # ... | elemel/python-fov | src/fov_demo.py | Python | mit | 6,872 | [
"VisIt"
] | 1c137d2ab9e18bae57e290a0577138cfa6469bed7d4bfd8d40cb8e4e9bff3b73 |
# -*- coding: utf-8 -*-
# Copyright (C) 2003 CAMP
# Please see the accompanying LICENSE file for further information.
if __name__ == '__main__':
print """\
You are using the wrong setup.py script! This setup.py defines a
Setup class used to hold the atomic data needed for a specific atom.
For building the GPAW c... | qsnake/gpaw | gpaw/setup.py | Python | gpl-3.0 | 38,884 | [
"ASE",
"GPAW"
] | 2396a9a42ad1d6114d20a10d70bcb1699012e27bdb3d656ed1a2e244d2fcb75d |
# -*- coding: utf-8 -*-
from __future__ import unicode_literals
from django.conf import settings
from django.conf.urls import include, url
from django.conf.urls.static import static
from django.contrib import admin
from django.views.generic import TemplateView
from django.views import defaults as default_views
urlpat... | EliotBerriot/trax | config/urls.py | Python | mit | 1,662 | [
"VisIt"
] | 958497e74fa7a6fb9f659114de8748682bca95f9a3dffc21158afa507bbd3c7e |
names = ["Adam","Alex","Mariah","Martine","Columbus"]
for item in names:
print item
| oliverwreath/Wide-Range-of-Webs | Python/A_Supermarket_Day/1. dictionary.py | Python | agpl-3.0 | 88 | [
"COLUMBUS"
] | 86f68a0e0b828d1cfff397baf808177242c16f785d55a0101098bf254944a2de |
# (c) 2012-2014, Michael DeHaan <michael.dehaan@gmail.com>
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) an... | jotes/ansible | lib/ansible/utils/__init__.py | Python | gpl-3.0 | 58,346 | [
"Galaxy",
"VisIt"
] | ec8f5480f1c4d5fcbea40d97b90248f8c09403763f88f6808fd530034adcb234 |
# -*- coding: utf-8 -*-
# Copyright 2022 Google LLC
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or... | googleapis/python-compute | tests/unit/gapic/compute_v1/test_region_autoscalers.py | Python | apache-2.0 | 112,267 | [
"Octopus"
] | ea18625562d893b640243b9c23f84116dd6ada1ab4dbce8ac299e52e7f123964 |
"""
Extended docstrings for functions.py
"""
pi = r"""
`\pi`, roughly equal to 3.141592654, represents the area of the unit
circle, the half-period of trigonometric functions, and many other
things in mathematics.
Mpmath can evaluate `\pi` to arbitrary precision::
>>> from mpmath import *
>>> mp.dps = 50; m... | JensGrabner/mpmath | mpmath/function_docs.py | Python | bsd-3-clause | 280,518 | [
"Gaussian"
] | 26a15fd679380264dd6fe9817169fb78025987031efceecaaee5a2e3ff09bd61 |
""" DISET request handler base class for the ProductionDB.
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
__RCSID__ = "$Id$"
import six
from DIRAC import gLogger, S_OK, S_ERROR
from DIRAC.Core.DISET.RequestHandler import RequestHandler
from DIRAC.Core... | ic-hep/DIRAC | src/DIRAC/ProductionSystem/Service/ProductionManagerHandler.py | Python | gpl-3.0 | 5,730 | [
"DIRAC"
] | 7ff89702a25851bc6d3fecf5bc503f7447d38778603bf4245d6253da390e4dff |
#!/usr/bin/env python
# File: struc_to_latex.py
# Created on: Thu Aug 8 15:38:23 2013
# Last Change: Thu Aug 8 16:22:31 2013
# Purpose of script: <+INSERT+>
# Author: Steven Boada
import cPickle as pickle
galaxies = pickle.load(open('galaxies_fortable.pickle','rb'))
galaxies = filter(lambda galaxy: galaxy.ston_I >30... | boada/ICD | sandbox/legacy_plot_code/struc_to_latex.py | Python | mit | 1,004 | [
"Galaxy"
] | 5db5ae3b9c906797343bd1a9a1d9c56d06296bc1ba206fa13c46b584144d5f90 |
# Copyright Iris contributors
#
# This file is part of Iris and is released under the LGPL license.
# See COPYING and COPYING.LESSER in the root of the repository for full
# licensing details.
"""Integration tests for experimental regridding."""
# Import iris.tests first so that some things can be initialised before
#... | SciTools/iris | lib/iris/tests/integration/experimental/test_regrid_ProjectedUnstructured.py | Python | lgpl-3.0 | 5,073 | [
"NetCDF"
] | a02c848673fea47208ecf47796da5392fe28a7d80d643b539e6e9cfa9b7b8fc7 |
#!/usr/bin/env python
from gaussian_parsing import symbols
import argparse
parser = argparse.ArgumentParser(prog='create_Gaussian_scripts.py',
formatter_class=argparse.RawDescriptionHelpFormatter,
description='''
________________________________________... | jeiros/Scripts | create_Gaussian_scripts.py | Python | mit | 3,077 | [
"Gaussian"
] | 03f18ec0389251385500125de87564123e97630ab97a0b464cac7632838c26fc |
# Copyright (C) 2012,2013,2015,2016
# Max Planck Institute for Polymer Research
# Copyright (C) 2008,2009,2010,2011
# Max-Planck-Institute for Polymer Research & Fraunhofer SCAI
#
# This file is part of ESPResSo++.
#
# ESPResSo++ is free software: you can redistribute it and/or modify
# it under the ... | fedepad/espressopp | src/FixedPairList.py | Python | gpl-3.0 | 3,551 | [
"ESPResSo"
] | de814799809843b46944575072771717f43e522d6ec912db1b862a51410516f8 |
"""
Example to create a neural network with one hidden layer for solving the classical XOR problem.
Based on the lua code at
https://github.com/torch/nn/blob/master/doc/training.md
@author: Naimish Agarwal
@dependencies: python 2.7, torch 7
"""
import lutorpy as lua
# set runtime options
lua.LuaRuntime(unpack_r... | agarwalnaimish/deep-learning-exercises | torch/python/torch-nn-training.py | Python | mit | 3,256 | [
"NEURON"
] | d5ea3cebe5dac2fdc259eedb8d6deee8ab3cd8835e436fa206fd8ed6ebea5a25 |
#!/usr/bin/env python2
# -*- coding: utf-8 -*-
"""
Created on Thu Aug 22 10:33:00 2019
@author: raf
"""
# IMPORT STUFF
from pdb import set_trace as stop
import copy
import numpy as np
from collections import OrderedDict
import string as st
import os
import matplotlib.cm as cm
from vison.fpa import fpa as fpamod
fro... | ruymanengithub/vison | vison/metatests/nl.py | Python | gpl-3.0 | 29,774 | [
"DIRAC"
] | 376f05f040e965aadd4afae9c4e07d38ad9838d0b90831adf485872ba2530d4a |
import numpy as np
import numba as nb
import matplotlib.pyplot as plt
from mpl_toolkits.mplot3d import Axes3D
import matplotlib.animation as animation
class Particles:
def __init__(self, mean=[0,0,0], cov=[[1,0,0], [0,1,0], [0,0,0.1]], N=1000):
self.mean = mean
self.cov = cov
self.N = N
self.gen... | nkarast/Snippets | Python/gaussian_distro.py | Python | gpl-3.0 | 3,119 | [
"Gaussian"
] | 7e50e426e66763ae1b734f7bf9f9bbb3b19f932460561b69c39d84d52393d7e0 |
# coding=utf-8
# Copyright 2022 The Google Research Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicab... | google-research/google-research | gfsa/automaton_builder.py | Python | apache-2.0 | 52,189 | [
"VisIt"
] | 54ecc63ecf2070b02b8e8df5840ca21f6c360230bfcd3f323794f6f8fd9d5fb0 |
__author__ = "grburgess <J. Michael Burgess>"
from astromodels.functions.functions import DiracDelta, StepFunctionUpper
import numpy as np
def step_generator(intervals, parameter):
"""
Generates sum of step or dirac delta functions for the given intervals
and parameter. This can be used to link time-ind... | giacomov/3ML | threeML/utils/step_parameter_generator.py | Python | bsd-3-clause | 2,905 | [
"DIRAC"
] | 808b56a5ab70cd20a6346da4576558f5c6a8f7964407fdd08f999ed91a8d168b |
# 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 requi... | dmincu/IOC | new_php/closure-library/closure/bin/build/depstree.py | Python | mit | 6,564 | [
"VisIt"
] | c4c80cd799a4f66eddec77b326e4d518a7087a214336eb62eb6628924d88bb37 |
# -*- coding: utf-8 -*-
#
# Copyright (c) 2017, the cclib development team
#
# This file is part of cclib (http://cclib.github.io) and is distributed under
# the terms of the BSD 3-Clause License.
"""Charge Decomposition Analysis (CDA)"""
import random
import numpy
from cclib.method.fragments import FragmentAnalysi... | cclib/cclib | cclib/method/cda.py | Python | bsd-3-clause | 4,336 | [
"cclib"
] | 038046e6e6a11df1900bfffeac2e1ce63060adb2d0852f02d93373e23321ec7b |
# 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... | Laurawly/tvm-1 | tests/python/relay/test_pass_manager.py | Python | apache-2.0 | 20,408 | [
"VisIt"
] | 8476c5e5ded8ae48af7cdf34e4555537a16afbade42a846630a8b5e0176c3650 |
# Orca
#
# Copyright 2006-2009 Sun Microsystems Inc.
#
# This library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free Software Foundation; either
# version 2.1 of the License, or (at your option) any later version.
#
# This... | ruibarreira/linuxtrail | usr/lib/python3/dist-packages/orca/scripts/apps/gnome-window-properties/script.py | Python | gpl-3.0 | 1,805 | [
"ORCA"
] | a232e60d824870f817cf70b63cc40540be77b77077123aa8091a0921d1116203 |
# -*- Mode: python; coding: utf-8 -*-
from __future__ import division
#from __future__ import with_statement
LAYOUT_ALGORITHM = 'neato' # ['neato'|'dot'|'twopi'|'circo'|'fdp'|'nop']
REPRESENT_CHANNELS_AS_NODES = 1
DEFAULT_NODE_SIZE = 2.0 # default node size in meters
DEFAULT_TRANSMISSIONS_MEMORY = 5 # default number o... | deepakar/ns-3-dev-ndnSIM | src/visualizer/visualizer/core.py | Python | gpl-2.0 | 62,070 | [
"FLEUR"
] | a3213917f48b45fad86d0ec425f6cc0c30b2b1cc6fcfce3ec20cd964a29f4a0a |
#!/usr/bin/python
__author__ = "D.Qendri"
__copyright__ = "Copyright 2015 Sensorian"
__license__ = "GPL V3"
__version__ = "1.0"
import sys
import smbus
import time
bus = smbus.SMBus(1)
MCP79410address = 0x6f # SRAM board address
MCP79410EEPROMaddress = 0x57 # EEPROM address
EEPROM_WRITE = 0xae # DEV... | sensorian/sensorian-firmware | Drivers_Python/MCP79410/MCP79410RTCC.py | Python | lgpl-3.0 | 21,516 | [
"CRYSTAL"
] | f8249e0de65beebed7538190ec6f65d5ff98dbef5a4e495bb2d89bbafde97412 |
from typing import Text
def is_reserved_subdomain(subdomain):
# type: (Text) -> bool
if subdomain in ZULIP_RESERVED_SUBDOMAINS:
return True
if subdomain[-1] == 's' and subdomain[:-1] in ZULIP_RESERVED_SUBDOMAINS:
return True
if subdomain in GENERIC_RESERVED_SUBDOMAINS:
return Tr... | sonali0901/zulip | zerver/lib/name_restrictions.py | Python | apache-2.0 | 26,687 | [
"Octopus"
] | 5a2960f20630f15e223475abf06d358f9b241289932839e6c30d1ad083d213ef |
#
# This source file is part of appleseed.
# Visit http://appleseedhq.net/ for additional information and resources.
#
# This software is released under the MIT license.
#
# Copyright (c) 2014-2017 The appleseedhq Organization
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this s... | jasperges/blenderseed | ui/objects.py | Python | mit | 2,701 | [
"VisIt"
] | caca029d6772f0fbea622e1f47d7c0dda09db90be6f02e87287e4a213a304e6d |
import os, inspect
dir_external_paths = os.path.dirname(os.path.abspath(\
inspect.getfile(inspect.currentframe())))
def findPath(locations):
"""
Parses a list of locations, returning the first file that exists.
If none exist, then None is returned.
"""
import os.path
locations = [l for l in locations if ... | gkumar7/AlGDock | AlGDock/_external_paths.py | Python | mit | 4,257 | [
"Amber",
"NAMD",
"OpenMM",
"VMD"
] | 040e6dc60021cefa212fe19156d8429b2c4ca73756204b795334782198c2152d |
#!/usr/bin/env python3
# (C) 2016, Markus Wildi, wildi.markus@bluewin.ch
#
# 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, or (at your option)
# any later version.
#
# ... | zguangyu/rts2 | scripts/u_point/u_point.py | Python | gpl-2.0 | 38,232 | [
"Gaussian",
"VisIt"
] | b0538dd7177fca418a69d62a3cd932a77c3b17e076450b34570a944b7813d29c |
#!/usr/bin/python
#XOOPS Module SQL scanner, checks source for md5's
#Uncomment line 63 for verbose mode. If md5 found
#check manually.
#http://www.darkc0de.com
#d3hydr8[at]gmail[dot]com
import sys, urllib2, re, time
print "\n\t d3hydr8[at]gmail[dot]com XOOPScan v1.0"
print "\t------------------------------------... | knightmare2600/d4rkc0de | scanners/xoopscan.py | Python | gpl-2.0 | 7,582 | [
"VisIt"
] | 5bf3cf1749ab8c6848c743b993ac0b602a75cf3655ae9e813db4444d944e78ba |
# -*- coding: utf-8 -*-
#
# Copyright (C) 2011 Tiger Soldier
#
# This file is part of OSD Lyrics.
#
# OSD Lyrics 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 ... | lenoch/osdlyrics | python/dbusext/property.py | Python | gpl-3.0 | 8,051 | [
"VisIt"
] | 0ef167ee7de3562dfa487b602a8167fcad53cecbae511fdf99dc41a7998a8746 |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2002-2007 Donald N. Allingham
# Copyright (C) 2007-2008 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 ... | pmghalvorsen/gramps_branch | gramps/gen/filters/rules/source/_hasnote.py | Python | gpl-2.0 | 1,758 | [
"Brian"
] | fd77cbb1dede552bdfa6c849c654547d83dee003a88326e61ada10b92df3ae16 |
# -*- coding: utf-8 -*-
# Copyright 2007-2016 The HyperSpy developers
#
# This file is part of HyperSpy.
#
# HyperSpy 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... | to266/hyperspy | hyperspy/_signals/eels.py | Python | gpl-3.0 | 52,140 | [
"Gaussian"
] | b3fb0b3b482083c52f347bffe573eaefb822afb71debc3dc727c8367222b4f12 |
"""
UI-level acceptance tests for OpenAssessment.
"""
# pylint: disable=arguments-differ, dangerous-default-value
from functools import wraps
import os
import time
import unittest
from bok_choy.promise import BrokenPromise, EmptyPromise
from bok_choy.web_app_test import WebAppTest
import ddt
import pytest
from pyins... | edx/edx-ora2 | test/acceptance/tests.py | Python | agpl-3.0 | 53,589 | [
"VisIt"
] | a695c9425d7f6515d9a13ae0f984820c6be8d50b700c81d9a5281e62553c6167 |
""" This is the Data Integrity Client which allows the simple reporting of problematic file
and replicas to the IntegrityDB and their status correctly updated in the FileCatalog.
"""
__RCSID__ = "$Id$"
from DIRAC import S_OK, S_ERROR, gLogger, gConfig
from DIRAC.Dat... | avedaee/DIRAC | DataManagementSystem/Client/DataIntegrityClient.py | Python | gpl-3.0 | 41,699 | [
"DIRAC"
] | 37cb9009c3f0b6b6b8c5824efe42ee1fe56ca72fd9463e20f11db3decf98d441 |
""" Test functions for stats module
"""
from __future__ import division, print_function, absolute_import
import warnings
import re
import sys
from numpy.testing import (TestCase, run_module_suite, assert_equal,
assert_array_equal, assert_almost_equal, assert_array_almost_equal,
assert_allclose, assert_, asse... | jonycgn/scipy | scipy/stats/tests/test_distributions.py | Python | bsd-3-clause | 87,346 | [
"Gaussian"
] | d5b7583fa7c0722992c03f55680913ae53d9f13066e4216583e7b5c9876298e2 |
from QCkit.molecule import Molecule
from QCkit.atom import Atom
from QCkit.thermalDesorption import simulatedTDP
class TPDrestart:
def __init__(self,
pos_vel_file,
basis, # basis set to use
exchange, # exchange to use (such as B3LYP etc.)
high_... | EhudTsivion/QCkit | thermalDesorption/restartJob.py | Python | lgpl-3.0 | 3,338 | [
"Q-Chem"
] | b2d9f9dd8af27d4c4006afa573cb3bc49ab7e1dbac0cdf6894a1455b101cb088 |
#
# Copyright (C) 2013,2014,2015,2016 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)... | tbereau/espresso | samples/python/load_properties.py | Python | gpl-3.0 | 4,327 | [
"ESPResSo"
] | 1454fb8e24bc57fa496a639e35b893bd4da1f5819d33622f99bdfbcb25115cc7 |
# $HeadURL$
__RCSID__ = "$Id$"
import types
import os
import datetime
from DIRAC import S_OK, S_ERROR, rootPath, gConfig, gLogger, gMonitor
from DIRAC.AccountingSystem.DB.MultiAccountingDB import MultiAccountingDB
from DIRAC.AccountingSystem.private.Summaries import Summaries
from DIRAC.AccountingSystem.private.DataCa... | sposs/DIRAC | AccountingSystem/Service/ReportGeneratorHandler.py | Python | gpl-3.0 | 9,047 | [
"DIRAC"
] | 224003b0394eea4e0244dccf9feb2698b59656f5e363c0615cd78f4178ce5e7a |
# Copyright 2017 Google LLC 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 ag... | tseaver/google-cloud-python | firestore/tests/unit/v1beta1/test_transaction.py | Python | apache-2.0 | 38,004 | [
"Galaxy"
] | 3e29533a920460add6f68edb64514f3b84ae73fe8523f5f5834a65621f907565 |
# -*- encoding:utf-8 -*-
from __future__ import division, absolute_import, print_function
import sys, textwrap
from numpydoc.docscrape import NumpyDocString, FunctionDoc, ClassDoc
from numpydoc.docscrape_sphinx import SphinxDocString, SphinxClassDoc
from nose.tools import *
if sys.version_info[0] >= 3:
sixu = la... | mobiusklein/pyteomics.cythonize | docs/ext/numpydoc/tests/test_docscrape.py | Python | apache-2.0 | 21,449 | [
"Gaussian"
] | 10731617e82b0fe3ff123b2aae79497ee388c5e53e761c010752e928ed514382 |
#! /usr/bin/env python
"""Read data from a NetCDF file into a RasterModelGrid.
Read netcdf
+++++++++++
.. autosummary::
~landlab.io.netcdf.read.read_netcdf
"""
import numpy as np
import xarray as xr
from landlab.io import (
MismatchGridDataSizeError,
MismatchGridXYLowerLeft,
MismatchGridXYSpacing,
)... | landlab/landlab | landlab/io/netcdf/read.py | Python | mit | 11,843 | [
"NetCDF"
] | fae8b5b64ddf3ad89f8ffb207ce73474a90b561ca62b6a30cd775ead98818e2c |
#!/usr/bin/env python
"""
Read a maf file and write out a new maf with only blocks having all of
the passed in species, after dropping any other species and removing columns
containing only gaps. This will attempt to fuse together any blocks
which are adjacent after the unwanted species have been dropped.
usage: %p... | volpino/Yeps-EURAC | tools/maf/maf_thread_for_species.py | Python | mit | 1,732 | [
"Galaxy"
] | 24d08b91ae57aeae88c142c560ea28aeb1d9d910677d53e2c2b67405443e48d0 |
"""Things to do when the TurboGears server is started."""
__all__ = [
'call_on_startup',
'call_on_shutdown',
'reloader_thread',
'start_bonjour',
'stop_bonjour',
'start_server',
'startTurboGears',
'stopTurboGears',
]
import logging
import os
import sys
from os.path import abspath, exis... | dbrattli/python-gearshift | gearshift/startup.py | Python | mit | 4,548 | [
"VisIt"
] | 5de12522ec415cd9b3514369be99e7b2da029aa3153cd67fba56cfad005acae5 |
tests=[
("python","test_list.py",{'dir':'RDGeneral'}),
("python","test_list.py",{'dir':'Geometry'}),
("python","test_list.py",{'dir':'Geometry/Wrap'}),
("python","test_list.py",{'dir':'DataStructs'}),
("python","test_list.py",{'dir':'DataStructs/Wrap'}),
("python","test_list.py",{'dir':'Query'}),
("pytho... | adalke/rdkit | Code/test_list.py | Python | bsd-3-clause | 1,144 | [
"RDKit"
] | 7faf42a660144ce75f3b6bc9ead9fd34deb7066d5bd111fab355a7d7eac4cb55 |
"""
Demo sequencer web application framework
"""
import json
import os
import pkg_resources
import random
import socket
import string
import sys
import time
pkg_resources.require( "Cheetah" )
from Cheetah.Template import Template
from galaxy.web.framework import helpers
from galaxy import util
from galaxy.util.json... | mikel-egana-aranguren/SADI-Galaxy-Docker | galaxy-dist/lib/galaxy/webapps/demo_sequencer/framework/__init__.py | Python | gpl-3.0 | 10,154 | [
"Galaxy"
] | a2ed38ccd1e53722a60247b022c99a941744efd0350855f2935f5d8cce44a597 |
# ^_^ WEEK 05 FUN ^_^
# TAKE-HOME CHALLENGE
# Here is a big list of names to have fun with!!
# from: http://deron.meranda.us/data/census-derived-all-first.txt
names = [
"Rosanna", "Kristofer", "Yesenia", "Lovie", "Reita", "Merrilee", "Glenna", "Liz",
"Wen", "Danille", "Josefine", "Senaida", "Susan", "Re... | google/teknowledge | curriculum/05_lists_01_many_names_2_DAYS/05_lists_02_many_names_day_2/05_02_02_fun_guess_the_name_game.py | Python | apache-2.0 | 2,783 | [
"COLUMBUS",
"Desmond"
] | deff10b0217f0cec68292f84046281c3e35a28549cabbdd03f3d69b25f2e83e2 |
"""
==========================
FastICA on 2D point clouds
==========================
This example illustrates visually in the feature space a comparison by
results using two different component analysis techniques.
:ref:`ICA` vs :ref:`PCA`.
Representing ICA in the feature space gives the view of 'geometric ICA':
ICA... | depet/scikit-learn | examples/decomposition/plot_ica_vs_pca.py | Python | bsd-3-clause | 3,293 | [
"Gaussian"
] | 75f1a25d3bc96db262e55488f44d324b7b8ee5207e9de8c587fbdcafaa8e809c |
# Copyright (c) 2012, Cloudscaling
# 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... | BeyondTheClouds/nova | nova/hacking/checks.py | Python | apache-2.0 | 26,944 | [
"VisIt"
] | 11406246d9516ac76495c30fd55a5a49d4a2cac29c96d624dfa82b9c65af72f1 |
from _bisect import bisect_right
from bisect import bisect_left
import logging
from threading import Thread
import os
import time
import pyper
from pydap.client import open_url
from geopandas import GeoDataFrame, GeoSeries
from shapely.geometry import Point
__author__ = 'Phil Jenkins (Tessella)'
log = logging.getLogg... | NERC-CEH/ecomaps | ecomaps/analysis/code_root/ecomaps_analysis.py | Python | gpl-2.0 | 12,756 | [
"NetCDF"
] | 1c4bad153e8d67bf15010ca79580f9e1bac2d1fd162950beebacb13a891b22f3 |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.