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#!/usr/bin/python
# Copyright 2010 Google Inc.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agree... | mababio/liquid-galaxy | gnu_linux/home/lg/bin/screensaver.py | Python | apache-2.0 | 2,113 | [
"Galaxy"
] | 4a4fbf6e080a18ad16c5fd24a9e38e7b30e5dc45a42e7c7a152db8baa3a51d00 |
import numpy
from mayavi.mlab import *
# Produce some nice data.
n_mer, n_long = 6, 11
pi = numpy.pi
dphi = pi/1000.0
phi = numpy.arange(0.0, 2*pi + 0.5*dphi, dphi, 'd')
mu = phi*n_mer
x = numpy.cos(mu)*(1+numpy.cos(n_long*mu/n_mer)*0.5)
y = numpy.sin(mu)*(1+numpy.cos(n_long*mu/n_mer)*0.5)
z = numpy.sin(n_long*mu/n_me... | pletisan/python-data-viz-cookbook | 3367OS_Code/3367OS_05_Code/ch05/ch05_rec04_mayavi-animate.py | Python | mit | 674 | [
"Mayavi"
] | 3bb31f112aacd467f964b70215466ed72083a7b3d760784914bf7e74e5439691 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""Electromagnetics for Vertical Magnetic Dipole (VMD) functions and class."""
from math import sqrt, pi
import numpy as np
import pygimli as pg
from pygimli.frameworks import Block1DModelling
class VMDModelling(Block1DModelling):
r"""Modelling operator for a Vert... | gimli-org/gimli | pygimli/physics/em/vmd.py | Python | apache-2.0 | 9,187 | [
"VMD"
] | 14d4146871163b821726ed635c1b0f408079156df89a4634aa76d19fabc1b7d6 |
# This file is part of cclib (http://cclib.github.io), a library for parsing
# and interpreting the results of computational chemistry packages.
#
# Copyright (C) 2007,2012,2014,2015, the cclib development team
#
# The library is free software, distributed under the terms of
# the GNU Lesser General Public version 2.1 ... | ghutchis/cclib | test/data/testCC.py | Python | lgpl-2.1 | 1,103 | [
"cclib"
] | 561d71fd5d99970d56ff8df80145eaf4b0380900fb3731007f8c9b12ad37e85c |
# sql/compiler.py
# Copyright (C) 2005-2015 the SQLAlchemy authors and contributors
# <see AUTHORS file>
#
# This module is part of SQLAlchemy and is released under
# the MIT License: http://www.opensource.org/licenses/mit-license.php
"""Base SQL and DDL compiler implementations.
Classes provided include:
:class:`.c... | beblount/Steer-Clear-Backend-Web | env/Lib/site-packages/sqlalchemy/sql/compiler.py | Python | mit | 99,642 | [
"VisIt"
] | c4a75017b0523c5f8b1026f204d8326864ce964ebb093fc52f0183f28a9f340b |
# -*- coding: utf-8 -*-
{
"'Sounds-like' name search allowing search even the spelling of the name is not known exactly": "'Sounds-like'名稱搜尋或搜尋,即使名稱的拼字不完全",
"A location that specifies the geographic area for this region. This can be a location from the location hierarchy, or a 'group location', or a location that ha... | gallifrey17/eden | languages/zh-tw.py | Python | mit | 338,463 | [
"VisIt"
] | 2864d37babb2cff780baada3a1299fec1e0a2cda1034e6654b81bd3cb8d02daf |
"""Module with utility functions for blastplus app. """
import os
import tempfile
from Bio.Application import ApplicationError
from blastplus.features.record import Alignment, BlastRecord, Hsp
def get_sample_data(sample_file):
"""Read and returns sample data to fill form with default sample sequence. """
... | michal-stuglik/django-blastplus | blastplus/utils.py | Python | mit | 3,450 | [
"BLAST",
"Biopython"
] | 896632c72a144160557288421b105b85e9e8e9787e707e57219bb1a01951c6b1 |
## \file
## \ingroup tutorial_roofit
## \notebook
## Multidimensional models: making 2/3 dimensional plots of pdfs and datasets
##
## \macro_code
##
## \date February 2018
## \authors Clemens Lange, Wouter Verkerke (C++ version)
import ROOT
# Create 2D model and dataset
# ---------------------------------------------... | root-mirror/root | tutorials/roofit/rf309_ndimplot.py | Python | lgpl-2.1 | 3,801 | [
"Gaussian"
] | 67b47af872c09d90aa95203237dfb199a41d538171fb204605b44844300c32d1 |
#
# Copyright (c) 2015 nexB Inc. and others. All rights reserved.
# http://nexb.com and https://github.com/nexB/scancode-toolkit/
# The ScanCode software is licensed under the Apache License version 2.0.
# Data generated with ScanCode require an acknowledgment.
# ScanCode is a trademark of nexB Inc.
#
# You may not use... | ened/scancode-toolkit | tests/textcode/test_pdf.py | Python | apache-2.0 | 3,422 | [
"VisIt"
] | 42a7ec32630db1e6e60f378496b8abe0c4ce86d9b9cf976d73b2ce6c255270cd |
__all__ = ["denoise_image"]
from .. import utils
from . import process_args as pargs
from .get_mask import get_mask
def denoise_image(
image, mask=None, shrink_factor=1, p=1, r=3, noise_model="Rician", v=0
):
"""
Denoise an image using a spatially adaptive filter originally described in
J. V. Manjon,... | ANTsX/ANTsPy | ants/utils/denoise_image.py | Python | apache-2.0 | 2,321 | [
"Gaussian"
] | a4521fe8ebd775a9fd8a518ed281f66f3c987b4774a58cb4445fdd95d1e4c65e |
#!/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... | gkc1000/pyscf | pyscf/tools/chkfile_util.py | Python | apache-2.0 | 2,391 | [
"PySCF"
] | 6d47a3164d74b274d77f355484d7c0fd92724a3de8bbd8857375faa0123fbefc |
#!/usr/bin/env python
# install.py tool to download, compile, and setup the kim-api library
# used to automate the steps described in the README file in this dir
from __future__ import print_function
import sys,os,re,subprocess
# help message
help = """
Syntax from src dir: make lib-kim args="-b -v version -a kim-... | ovilab/atomify-lammps | libs/lammps/lib/kim/Install.py | Python | gpl-3.0 | 8,533 | [
"LAMMPS",
"OpenKIM"
] | 70b5ddc33ab7a115cfaa1abf4a556512e2b2c27e37c3d8028ce5952d7e14bb45 |
#!/usr/bin/env python
########################################################################
# $HeadURL$
# File : dirac-configuration-cli
# Author : Adria Casajus
########################################################################
"""
Dump DIRAC Configuration data
"""
from __future__ import print_function
__... | petricm/DIRAC | ConfigurationSystem/scripts/dirac-configuration-dump-local-cache.py | Python | gpl-3.0 | 1,265 | [
"DIRAC"
] | d5554507bb11bdb2a09d872ffac7d4ad4d44c7bd2d5cee6148d59507c2ea8b39 |
'''
Spectral Extraction from a 2D image.
Uses superextract written by Ian Crossfield and modified by JTF.
superextract is based on optimal spectral extraction as detailed by Marsh (1989) and Horne (1986)
Crossfield's version can be found at www.lpl.arizona.edu/!ianc/python/index.html
Dependencies: superextract.py and s... | joshfuchs/ZZCeti_pipeline | spectral_extraction.py | Python | mit | 19,950 | [
"Gaussian"
] | 62700ca9d48618b724403eedd78d2d588677e9e4d87f47a6df28291f9f23f4d1 |
#!/usr/bin/env python
# Jonas Schnelli, 2013
# make sure the Bitcoin-Qt.app contains the right plist (including the right version)
# fix made because of serval bugs in Qt mac deployment (https://bugreports.qt-project.org/browse/QTBUG-21267)
from string import Template
from datetime import date
bitcoinDir = "./";
inF... | bryceweiner/Dirac | share/qt/clean_mac_info_plist.py | Python | mit | 891 | [
"DIRAC"
] | 13a85077c824aa2b7c71592376e0f6604f3b82e52032c3b710beb3674ab8156f |
# Copyright 2008-2013 by Peter Cock. All rights reserved.
#
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
"""Bio.AlignIO support for "emboss" alignment output from EMBOSS tools.
You are expected t... | zjuchenyuan/BioWeb | Lib/Bio/AlignIO/EmbossIO.py | Python | mit | 9,037 | [
"Biopython"
] | 51c0fa7bead5b4250deb6b4b7f1a12617d96fc718b74156669f34480b4df5005 |
from django import forms
from django.utils import timezone
import json
import re
from datetime import timedelta
import logging
from . import models
from myvoice.survey import utils as survey_utils
logger = logging.getLogger(__name__)
VISIT_EXPR = '''
^ # Start
\s* ... | myvoice-nigeria/myvoice | myvoice/clinics/forms.py | Python | bsd-2-clause | 6,902 | [
"VisIt"
] | 3581635d0aac042d4c29f654a7670c34eeec4a2dfe37ea611fdef9b280b11eef |
#!/usr/bin/env python
import math
from astropy.time import Time
import numpy as np
def gauss_function(x, a, x0, sigma):
return a*np.exp(-(x-x0)**2/(2*sigma**2))
def find_mag_weight(lim_mag, current_r):
weight = np.minimum(np.maximum(1 - (lim_mag - current_r) * 0.3, 1e-3), 1)
if (current_r > li... | astrofoley/des_spec_select | raisin_priority.py | Python | bsd-2-clause | 12,658 | [
"Galaxy"
] | 865a8becc67b16031ac8d9a2effc2f838d4e8737cc28f88806420848c0542957 |
#!/usr/bin/env python
import os, sys, re
import pysam
import threading
usage = "\n\n\tusage: " + sys.argv[0] + " Chimeric.out.junction left.fq right.fq\n\n"
if len(sys.argv) < 4:
print >>sys.stderr, usage
sys.exit(1)
chimeric_junction_file = sys.argv[1]
left_fq_filename = sys.argv[2]
right_fq_filename = sy... | DISCAFUSE/DISCAFUSE | util/retrieve_SF_chimeric_reads.py | Python | bsd-3-clause | 2,499 | [
"pysam"
] | 3eeef4acea88032927362ec717887e96c51d410e997b5b5aa0c77e26d7db5571 |
# Principal Component Analysis Code :
from numpy import mean,cov,double,cumsum,dot,linalg,array,rank,size,flipud
from pylab import *
import numpy as np
import matplotlib.pyplot as pp
#from enthought.mayavi import mlab
import scipy.ndimage as ni
import roslib; roslib.load_manifest('sandbox_tapo_darpa_m3')
import ro... | tapomayukh/projects_in_python | classification/Classification_with_kNN/Single_Contact_Classification/Scaled_Features/best_kNN_PCA/4_categories/test11_cross_validate_categories_1200ms_scaled_method_v.py | Python | mit | 5,041 | [
"Mayavi"
] | b1ef8b1bec2390f5b4a5061a2c7dffc234adf0bad94ac6c52e580f19a7dac02f |
"""Module used for counting number of functions
to get an estimate og how big the CFG should be"""
import ast
from pyt.cfg import generate_ast, get_call_names_as_string
from pyt.project_handler import get_modules
function_calls = list()
functions = dict()
classes = dict()
class Counter(ast.NodeVisitor):
def v... | KevinHock/rtdpyt | func_counter.py | Python | gpl-2.0 | 1,389 | [
"VisIt"
] | a24d9eec7ee68537a772a78c1d4cef950643f008f1159d718dbdda4b66c094de |
#!/usr/bin/env python
#===============================================================================
# Copyright (c) 2014 Geoscience Australia
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions ar... | GeoscienceAustralia/agdc | deprecated/scene_kml_generator.py | Python | bsd-3-clause | 20,073 | [
"NetCDF"
] | 05c8123199e815a25052acb94c4665bb852ba7795b09dbfa0caf31ec05864983 |
#!/usr/bin/env python2
# Copyright 2011, 2012 Alexandre Gravier (al.gravier@gmail)
# This file is part of PyCogMo.
# PyCogMo 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, o... | agravier/pycogmo | ui/graphical/pynn_to_visu.py | Python | gpl-3.0 | 6,685 | [
"Brian",
"NEURON"
] | 1f52a49fc58daf1175de441b9f67482d4aae3ab3e28813a3758351843ed7d744 |
import numpy
from shadow4.sources.source_geometrical.source_geometrical import SourceGeometrical
if __name__ == "__main__":
from srxraylib.plot.gol import plot,plot_scatter, set_qt
set_qt()
do_plot=True
# rectangle
gs = SourceGeometrical()
gs.set_spatial_type_rectangle(4,2)
rays = gs.cal... | srio/minishadow | examples/sources/examples_source_geometrical.py | Python | mit | 2,908 | [
"Gaussian"
] | 98e102cdd77c5758dd85483758c0e6edd9d3dca5b8b412dd82dd63d6e59ff8a5 |
# -*- coding: utf-8 -*-
# vim: autoindent shiftwidth=4 expandtab textwidth=120 tabstop=4 softtabstop=4
###############################################################################
# OpenLP - Open Source Lyrics Projection #
# ------------------------------------------------------... | marmyshev/item_title | openlp/plugins/songs/lib/mediaitem.py | Python | gpl-2.0 | 26,687 | [
"Brian"
] | 84f9469d1417d00b5645844388fa428b1167abf03b555b719b306de8fdd295d8 |
# courtesy of http://code.activestate.com/recipes/577781-pluralize-word-convert-singular-word-to-its-plural/
ABERRANT_PLURAL_MAP = {
'appendix': 'appendices',
'barracks': 'barracks',
'cactus': 'cacti',
'child': 'children',
'criterion': 'criteria',
'deer': 'deer',
'echo': 'echoes',
'elf':... | braddockcg/internet-in-a-box | scripts/pluralize.py | Python | bsd-2-clause | 2,407 | [
"CASINO"
] | 513daa100f42e42d8bc2fc2c646e7a51fb9ea0c9c3a7c7283620c4f73f9fddd0 |
# -*- mode: python -*-
# -*- coding: iso8859-15 -*-
"""Modification decision de jury
"""
from common import *
# -> ici on est sur la page d'accueil du departement !
DeptURL = browser.url
# Cherche un formsemestre_id:
links = browser.find_link_by_partial_text('DUT')
u = links[0]['href']
formsemestre_id = re.search( r'... | denys-duchier/Scolar | tests/test-jury.py | Python | gpl-2.0 | 1,776 | [
"VisIt"
] | 19f9bd0b65215e78baa947d8d28360baacda04e24abfff10c2fafd2adc8bf64d |
# -*- coding: utf-8 -*-
"""
This file contains methods for lorentzian-like fitting, these methods
are imported by class FitLogic.
Qudi 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 Licen... | tobiasgehring/qudi | logic/fitmethods/lorentzianlikemethods.py | Python | gpl-3.0 | 45,608 | [
"Gaussian"
] | 2acb4b4ae5c48956426960413bf077de516389176efc93f73cc813c464d89ec6 |
import numpy
from chainer.functions.noise import simplified_dropconnect
from chainer import initializers
from chainer import link
from chainer import variable
class SimplifiedDropconnect(link.Link):
"""Fully-connected layer with simplified dropconnect regularization.
Notice:
This implementation cannot ... | okuta/chainer | chainer/links/activation/simplified_dropconnect.py | Python | mit | 4,271 | [
"Gaussian"
] | ea85c82e5fb404a87d0a1cd97c0d74651bb4148cd23b28374f4e22dc10a1c958 |
"""
PySCeS - Python Simulator for Cellular Systems (http://pysces.sourceforge.net)
Copyright (C) 2004-2015 B.G. Olivier, J.M. Rohwer, J.-H.S Hofmeyr all rights reserved,
Brett G. Olivier (bgoli@users.sourceforge.net)
Triple-J Group for Molecular Cell Physiology
Stellenbosch University, South Africa.
Permission to us... | asttra/pysces | pysces/metatool/__init__.py | Python | bsd-3-clause | 882 | [
"PySCeS"
] | 54d75c3ff99c5e01aa35bb735d61f9e77ac67ed5b54500eb14aa81a013c272c6 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# Authors and copyright:
# © 2012-2013, John Lehmann (first last at geemail dotcom or @jplehmann)
# © 2012-2015, Rogério Brito (r lastname at ime usp br)
# © 2013, Jonas De Taeye (first dt at fastmail fm)
#
# Contributions are welcome, but please add new unit t... | rajendranraja/coursera | coursera/coursera_dl.py | Python | lgpl-3.0 | 42,257 | [
"VisIt"
] | d23c4160b6e13348a91533716b402237f2d3c4329a01ff82f0da466cecad85f7 |
#!/usr/bin/env py.test
# -*- coding: utf-8 -*-
"""
This file contains snippets from the FEniCS book,
and allows us to test that these can still run
with future versions of UFL. Please don't change
these and please do keep UFL compatible with these
snippets as long as possible.
"""
import pytest
from ufl import *
from... | FEniCS/ufl | test/test_book_snippets.py | Python | lgpl-3.0 | 13,578 | [
"ADF",
"VisIt"
] | f61321a31e91feb164be2fb70a667524aa210df371a70263f48354b4562ac272 |
# -*- coding: utf-8 -*-
# Copyright 2012 splinter authors. All rights reserved.
# Use of this source code is governed by a BSD-style
# license that can be found in the LICENSE file.
from __future__ import with_statement
import os.path
import re
import sys
import six
from six.moves.urllib import parse
import lxml.htm... | gjvis/splinter | splinter/driver/djangoclient.py | Python | bsd-3-clause | 14,583 | [
"VisIt"
] | 89cf2d093fee95b7a98a7766c9a236a6ba4bd88d32f388553acfb20b4aaf5fa7 |
#!/usr/bin/python
# (c) 2017, Ansible Project
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
# most of it copied from AWX's scan_packages module
from __future__ import absolute_import, division, print_function
__metaclass__ = type
DOCUMENTATION = '''
module: package_fac... | atosorigin/ansible | lib/ansible/modules/package_facts.py | Python | gpl-3.0 | 15,180 | [
"Brian"
] | d18771ed56c63179417d519447aa6a6f019f954ae858f1f1435dc4b6ba498a68 |
#!/usr/bin/env python
__author__ = 'Duane Edgington'
__copyright__ = '2013'
__license__ = 'GPL v3'
__contact__ = 'duane at mbari.org'
__doc__ = '''
Master loader for all CANON activities in September 2011 and beyound
Mike McCann and Duane Edgington and Reiko
MBARI 15 August 2013
@var __date__: Date of last s... | josephmfaulkner/stoqs | stoqs/loaders/CANON/loadsep11.py | Python | gpl-3.0 | 16,582 | [
"NetCDF"
] | 51cc74f2676e7e964c45bf31b52a33b55ab3c488ffd346b30b7124b78d99f908 |
# -*- 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 *
doc_txt = '''\
numpy.multivariate_normal... | gamaanderson/artview | docs/sphinxext/numpydoc/tests/test_docscrape.py | Python | bsd-3-clause | 17,864 | [
"Gaussian"
] | 2de273eca95c2085fbf617f7b6cce86de27c51c4e45c80375d45caf324297ae0 |
#!/usr/bin/env python
# -*- coding: utf8 -*-
# *****************************************************************
# ** PTS -- Python Toolkit for working with SKIRT **
# ** © Astronomical Observatory, Ghent University **
# *****************************************************************
##... | SKIRT/PTS | do/modeling/list_data.py | Python | agpl-3.0 | 1,249 | [
"Galaxy"
] | 87f1bd7086e56262bb0ceb706808506a7a6df69be1329591c483c79a472dfb0f |
#!/usr/bin/env python
# -*- coding: utf8 -*-
# *****************************************************************
# ** PTS -- Python Toolkit for working with SKIRT **
# ** © Astronomical Observatory, Ghent University **
# *****************************************************************
##... | SKIRT/PTS | modeling/misc/examination.py | Python | agpl-3.0 | 52,178 | [
"Galaxy"
] | 12279a8c6b520286aed9bb49ca4fcb638de6cf5cb12ea789e4f215b0d239f4f7 |
# simple test of vmd tool
# requires files/dump.peptide.only and files/dump.bond
# uses gl and vcr tools to visualize peptide molecule with bonds
v = vmd()
v('menu main off')
v.rep('VDW')
v.new('files/peptide.pdb','pdb')
v.flush()
print "all done ... type CTRL-D to exit Pizza.py"
| sn-amber/mylpp | examples/test_vmd.py | Python | gpl-2.0 | 283 | [
"VMD"
] | 284f7c79e406c9009aaa357edd7a14401769af23b4bc1ae6a0a19fef4f8e235c |
# -*- coding: utf-8 -*-
from __future__ import unicode_literals
from django.db import models, migrations
class Migration(migrations.Migration):
dependencies = [
('visit', '0008_visit_is_completed'),
]
operations = [
migrations.AlterField(
model_name='visit',
name... | koebbe/homeworks | visit/migrations/0009_auto_20150429_0450.py | Python | mit | 433 | [
"VisIt"
] | 712198a56abc3afd24f5469133bb82eeb067fba1ff7de204f06745e98d264e2e |
__author__ = 'baranbartu'
import logging
import plotly.tools as tls
import plotly.plotly as py
import plotly.graph_objs as go
logger = logging.getLogger(__name__)
def make_plot(logs, file_name):
tls.set_credentials_file(username='memgraph',
api_key='wb1kstdv2f')
x = [li... | baranbartu/memgraph | memgraph/plot.py | Python | bsd-2-clause | 638 | [
"VisIt"
] | 5b22ff76f39b9eecab04cdb73ba493e8cc3d9d02124344b9fb310131ba1e5e86 |
# -*- coding: utf-8 -*-
#
# pymatgen documentation build configuration file, created by
# sphinx-quickstart on Tue Nov 15 00:13:52 2011.
#
# This file is execfile()d with the current directory set to its containing dir.
#
# Note that not all possible configuration values are present in this
# autogenerated file.
#
# Al... | fraricci/pymatgen | docs_rst/conf.py | Python | mit | 11,235 | [
"pymatgen"
] | 0093a22bde8a05cfc837c21c34197036f9ae7d06ac899fdcc7564070834a1de0 |
#
# Copyright 2001 - 2006 Ludek Smid [http://www.ospace.net/]
#
# This file is part of IGE - Outer Space.
#
# IGE - 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 of the Lice... | OuterDeepSpace/OuterDeepSpace | libs/client/osci/client.py | Python | gpl-2.0 | 12,452 | [
"Galaxy"
] | ade28db895912638ef25acc582968621100baabbd196a7904f2cebbf607c2af5 |
import bottle
import beaker.middleware
from bottle import route, redirect, post, run, request, hook
from instagram import client, subscriptions
from instagram.client import InstagramAPI
CONFIG = {
'client_id': '923490f7659a44fb8a83db1a4134992f',
'client_secret': '58999a8bbb0c42e78213585de310cafe',
'redirec... | panda0881/pycharmtesting | Instagram_testing.py | Python | apache-2.0 | 2,065 | [
"VisIt"
] | d87fe8085d25a26e6323eeef3aec71daddecaac20a697df0f2920395af89a1d0 |
# sourceclientgui.py: new for version 0.7 this provides the graphical
# user interface for the new improved streaming module
# Copyright (C) 2007-2012 Stephen Fairchild (s-fairchild@users.sourceforge.net)
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU ... | leofiore/idjc | python/sourceclientgui.py | Python | gpl-2.0 | 120,039 | [
"Amber"
] | d3bd1177bb183a6c51a40e6329a45f6d50a001aa6ef45db72e3bb50eb71d575e |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# This module is also sponsored by E.T.A.I. (www.etai.fr)
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
from __future__ import absolute_import, division, print_function
__metaclass__ = type
ANSIBLE_METADATA = {'metadata_version... | tedder/ansible | lib/ansible/modules/cloud/vmware/vmware_guest.py | Python | gpl-3.0 | 133,958 | [
"VisIt"
] | cc298d2f4260b55dae97864e48c820893bc649c09896aa7547bb7ba0df7e8e08 |
#!/usr/bin/python
########################################################################
# 28 July 2014
# Patrick Lombard, Centre for Stem Research
# Core Bioinformatics Group
# University of Cambridge
# All right reserved.
########################################################################
import os, re, sys
... | pdl30/pyngsplot | pyngsplot/tools/peak_profiles.py | Python | mit | 4,563 | [
"HTSeq",
"pysam"
] | a7f22b2efcebed8dc1acb974c9e230d4ebf0eebed3889b0ae2d02deebb7991ff |
#=========================================================================
# ast_visitor.py
#=========================================================================
# Collection of python ast visitors.
import ast, _ast
import inspect
from pymtl import PyMTLError
from pymtl.model.signals import Signal
... | cornell-brg/pymtl | pymtl/tools/simulation/ast_visitor.py | Python | bsd-3-clause | 10,587 | [
"VisIt"
] | dd26d95a6563e360584833479e006c112445c600d58e96a4255e66f19d04e022 |
# -*- coding: utf-8 -*-
#
# Copyright (c) 2018, 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.
"""Test Born-Oppenheimer molecular dynamics (BOMD) logfiles in cclib."""
import os
import unittest
__filedir__ = os.pat... | cclib/cclib | test/data/testBOMD.py | Python | bsd-3-clause | 1,723 | [
"cclib"
] | c37c55c38e0b4562bb2a069aa714258ac48ade44cc73994a2f8bd89fc003e015 |
"""
This script can be used to derive statistics of background pixels.
"""
import matplotlib
matplotlib.rc('text', usetex=True)
matplotlib.rcParams['font.size'] = 17
matplotlib.rc('xtick', labelsize=14)
matplotlib.rc('axes', linewidth=1.1)
matplotlib.rcParams['legend.fontsize'] = 11
matplotlib.rcParams['legend.handlele... | sniemi/EuclidVisibleInstrument | analysis/analyseBackground.py | Python | bsd-2-clause | 9,374 | [
"Gaussian"
] | 59f08aa9ba4572122996d7a366ace3daec5eb091a548a99434b809efd3e972dd |
# -*- coding: utf-8 -*-
#
# Copyright 2008 - 2014 Brian R. D'Urso
#
# This file is part of Python Instrument Control System, also known as Pythics.
#
# Pythics 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, e... | LunarLanding/Pythics | pythics/libproxy.py | Python | gpl-3.0 | 9,878 | [
"Brian"
] | fafd2a5e3deeade2635d5c87bee97f3d2ce86cf72f52ca053068c3d741d27c5f |
# ==============================================================================
# plot rms maps
# ==============================================================================
import os
import matplotlib.colorbar as mcb
import matplotlib.colors as colors
import matplotlib.pyplot as plt
import numpy as np
from matpl... | MTgeophysics/mtpy | legacy/plot_rms_map.py | Python | gpl-3.0 | 15,615 | [
"VTK"
] | 6dd8d5955d11c83986b7a4220984162b2df53065541407fec600f6ce51cc5d8c |
from avatar2.targets import Target, TargetStates
from avatar2.protocols.inception import InceptionProtocol, IPCortexM3
from avatar2.watchmen import watch
class InceptionTarget(Target):
'''
Inception is a framework to perform security testing of real world
firmware programs. The inception target and protoc... | avatartwo/avatar2 | avatar2/targets/inception_target.py | Python | apache-2.0 | 2,407 | [
"VisIt"
] | 92c49bb9450e2e4a0cdedbae2fa1917fc7aadd66c9983e6f8a241a378e36dd36 |
# -*- coding: utf-8 -*-
"""
This file is part of pyCMBS.
(c) 2012- Alexander Loew
For COPYING and LICENSE details, please refer to the LICENSE file
"""
"""
This example shows how to mask a region which is specified from a shapefile
"""
from pycmbs.region import RegionShape
from pycmbs.examples import download
from py... | pygeo/pycmbs | demo/examples/mask_region_from_shapefile.py | Python | mit | 2,032 | [
"NetCDF"
] | 01c60f6b75adf8c4c94ee92d6dbe2ed2c45c52023ab7e1a8de1492103c0c177a |
# -*- coding: utf-8 -*-
##
## This file is part of Invenio.
## Copyright (C) 2010, 2011, 2012, 2013, 2014 CERN.
##
## Invenio 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
## Licens... | lnielsen/invenio | invenio/legacy/batchuploader/engine.py | Python | gpl-2.0 | 29,464 | [
"VisIt"
] | beb61c0463ffa9242341b530e9c31a06be8d3f2014f004ca693be65f419ce343 |
"""Perform realignment of BAM files around indels using the GATK toolkit.
"""
import os
import shutil
from contextlib import closing
import pysam
from bcbio import bam, broad
from bcbio.bam import ref
from bcbio.log import logger
from bcbio.utils import file_exists
from bcbio.distributed.transaction import file_trans... | SciLifeLab/bcbio-nextgen | bcbio/variation/realign.py | Python | mit | 6,122 | [
"pysam"
] | fee9972fbd3c8c47d5fb9b1b6b5ae76367a91825fa4d3b412975c3c3976fc982 |
"""
.. module: FSRStools.fitting
:platform: Windows
.. moduleauthor:: Daniel Dietze <daniel.dietze@berkeley.edu>
A comprehensive bundle of mathematical functions and routines for fitting experimental data.
Provides methods for
- polynomials, Lorentzians, Gaussians, Voigts, exponentials, etc.
-... | ddietze/FSRStools | fitting/__init__.py | Python | gpl-3.0 | 68,660 | [
"Gaussian"
] | 2ab8cc1726e2006c150515ba4bcf751e3b62efa99b2898dc35a4c3f4ae37a583 |
#!/usr/bin/env python
# Copyright 2017 Informatics Matters Ltd.
#
# 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... | InformaticsMatters/pipelines | src/python/pipelines/rdkit/poised_filter.py | Python | apache-2.0 | 12,972 | [
"RDKit"
] | dd79d2f2255534dc4ab0a035c84dd070f241a7857b2c4ec02b97f293e3f34c07 |
import os
import importlib
import inspect
import ast
import re
import glob2
import six
import sklearn
import pandas as pd
from sklearn import base
_identifier_re = re.compile(r'[^\d\W][\w\d_]*_$')
if False:
print(_identifier_re.match('foo'))
print(_identifier_re.match('_foo'))
print(_identifier_re.match(... | atavory/ibex | scripts/analyze_system_sklearn.py | Python | bsd-3-clause | 3,456 | [
"VisIt"
] | ac21226e2d49c8116b241fed36fcdba5620101faee32f43bedcceba17258938b |
"""
==================================
Advanced interactive visualization
==================================
In dipy_ we created a thin interface to access many of the capabilities
available in the Visualization Toolkit framework (VTK) but tailored to the
needs of structural and diffusion imaging. Initially the 3D vis... | nilgoyyou/dipy | doc/examples/viz_advanced.py | Python | bsd-3-clause | 10,243 | [
"VTK"
] | 12c93573ccc22af993eaef725e0f041a5e7e89efd8540c12e5153943807ba845 |
# -*- coding: utf-8 -*-
from Products.CMFPlone.utils import safe_encode
from zope.interface import implementer
from zope.schema.interfaces import IVocabularyFactory
from zope.schema.vocabulary import SimpleTerm
from zope.schema.vocabulary import SimpleVocabulary
@implementer(IVocabularyFactory)
class SampleType(objec... | OpenBfS/dokpool-plone | Plone/src/docpool.doksys/src/docpool/doksys/vocabularies/sample_type.py | Python | gpl-3.0 | 15,423 | [
"MOOSE"
] | df2634694c2f0a29b26e6766ed72a5657238f589da6017db5fcb56a26b8600f6 |
# coding: utf-8
"""
Module to parse BED12 objects. Much more basic than what PyBedtools could offer,
but at the same time more pythonic.
"""
from time import sleep
import os
from Bio import Seq
import Bio.SeqRecord
from .parser import Parser
from sys import intern
import copy
from ..exceptions import InvalidParsingFo... | lucventurini/mikado | Mikado/parsers/bed12.py | Python | lgpl-3.0 | 71,528 | [
"Biopython",
"pysam"
] | 305176caa3d25e6dd98f587821c48d3aa00e2b637518696ccef06eaefc06a8ac |
"""
Acceptance tests for the teams feature.
"""
import json
import random
import time
from uuid import uuid4
import ddt
from dateutil.parser import parse
from selenium.common.exceptions import TimeoutException
from six.moves import map, range
from common.test.acceptance.fixtures import LMS_BASE_URL
from common.test... | cpennington/edx-platform | common/test/acceptance/tests/lms/test_teams.py | Python | agpl-3.0 | 84,427 | [
"VisIt"
] | c8937304371691ab2306ce5a6a16fab67c3fc9e92ce96f329b6f9321739df805 |
# -*- Mode: Python -*-
# GDBus - GLib D-Bus Library
#
# Copyright (C) 2008-2011 Red Hat, 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 of the License, or (at ... | michalliu/OpenWrt-Firefly-Libraries | staging_dir/host/share/glib-2.0/codegen/config.py | Python | gpl-2.0 | 992 | [
"Firefly"
] | 33140198ef8138fed90a015a45f52b2509ecaa5e8c0117a974436491245402ac |
"""
The :mod:`Diagnostic` module provides several commonly useful
algorithms that operate on abstract syntax trees.
"""
from __future__ import absolute_import, division, print_function, unicode_literals
from . import ast
class Visitor:
"""
A node visitor base class that does a traversal
of the abstract sy... | google/grumpy | third_party/pythonparser/algorithm.py | Python | apache-2.0 | 4,164 | [
"VisIt"
] | a7620e92d0e1a131a724a00aa717f7d4a8b9dab0e1623d16b8d4ad5c647f255d |
#!/usr/bin/env python2.7
#(c) 2015-2016 by Authors
#This file is a part of Nano-Align program.
#Released under the BSD license (see LICENSE file)
"""
This module estimates fluctuation frequency of blockades,
which is associated with a protein length and other features
"""
from __future__ import print_function
import... | fenderglass/Nano-Align | plotting/frequency-features.py | Python | bsd-2-clause | 5,278 | [
"Gaussian"
] | f030cdb88a46cfee924d174ad31c4ea26d32acb454a3576fc0eb2db08f718530 |
# Copyright (c) 2008,2015,2016,2017,2018 MetPy Developers.
# Distributed under the terms of the BSD 3-Clause License.
# SPDX-License-Identifier: BSD-3-Clause
"""Contains a collection of basic calculations.
These include:
* wind components
* heat index
* windchill
"""
from __future__ import division
import warnings
... | jrleeman/MetPy | metpy/calc/basic.py | Python | bsd-3-clause | 25,194 | [
"Gaussian"
] | 7538ea2a75a2d787369d3d1cd8fc80c794b7dafa8b116b856d0f9b5f7d805ecd |
#!/usr/bin/env python
import os
import sys
import store
def populate_users():
# Admin
os.system("python manage.py syncdb --noinput")
os.system("python manage.py createsuperuser --username=admin --email=admin@example.com")
for u in store.users:
# Normal users
u['USERNAME'] = add_user(u['U... | enisozgen/haqiba | populate_haqiba.py | Python | gpl-3.0 | 25,916 | [
"VisIt"
] | 7ba2f2173fdc45704f47eccf1203c3e9273906b75e9eb1818694b649d18b6ce3 |
"""
client1.py
Copyright 2016 Brian Romanchuk
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 writ... | brianr747/Simple4Xpygame | client_observer.py | Python | apache-2.0 | 8,117 | [
"Brian"
] | bfb35ab39d268705cab5a35b025c39163b0dc7abd6223f084898f75342e75006 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
try:
from urllib.parse import urlsplit, urlparse, parse_qs, urljoin, quote_plus
except:
from urlparse import urlsplit, urlparse, parse_qs, urljoin
from urllib import quote_plus
import json
import os
import re
import time
import urllib
import traceback
from bas... | alfa-addon/addon | plugin.video.alfa/lib/unshortenit.py | Python | gpl-3.0 | 22,834 | [
"ADF"
] | fb8adc10248a7bbdefd251dfed69fb5fa283498080dbb6763e43564c21c8d1ad |
#!/usr/bin/env python
'''
Using the CCSD method as the active space solver to compute an approximate
CASCI energy.
See also 42-oo_ccd.py
A wrapper is required to adapt the CCSD solver to CASCI fcisolver interface.
Inside the wrapper function, the CCSD code is the same as the example
40-ccsd_with_given_hamiltonian.py... | gkc1000/pyscf | examples/cc/42-as_casci_fcisolver.py | Python | apache-2.0 | 1,920 | [
"PySCF"
] | e8af8fbe7896aee40d754dea46fb49270a384ba1e3ef53e64a38daaa98a9d522 |
# Copyright (c) 2014-2017, NVIDIA CORPORATION. All rights reserved.
from __future__ import absolute_import
from wtforms import validators
from ..forms import ModelForm
from origae import utils
class ImageModelForm(ModelForm):
"""
Defines the form used to create a new ImageModelJob
"""
crop_size = ... | winnerineast/Origae-6 | origae/model/images/forms.py | Python | gpl-3.0 | 4,627 | [
"Gaussian"
] | 22ee72f626003088e90e6e34622ad136629b1aa25ac767fb387b29e70517b9a7 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import division, unicode_literals, print_function
import warnings
from pymatgen.util.testing import PymatgenTest
from pymatgen.core.periodic_table import Element, Specie
from pymatgen.core.comp... | czhengsci/pymatgen | pymatgen/core/tests/test_structure.py | Python | mit | 55,023 | [
"pymatgen"
] | 6b53daa6fdab259b999ac2de63d34ac980e942bf53d8248544f48d5d2f07f57c |
# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
class Elmerfem(CMakePackage):
"""Elmer is an open source multiphysical simulation software. It
includes physical ... | LLNL/spack | var/spack/repos/builtin/packages/elmerfem/package.py | Python | lgpl-2.1 | 5,075 | [
"NetCDF",
"ParaView"
] | e2288d4f3bf865d502242cf26c5fc7106010159683214369ed9b6977a6a38f5a |
#!/usr/bin/env python
"""
Copyright 2016 Brian Quach
Licensed under MIT (https://github.com/brianquach/udacity-nano-fullstack-conference/blob/master/LICENSE) # noqa
"""
from protorpc import messages
class HandState(messages.Enum):
"""Represents which game state the hand is in.
Attributes:
STARTING: ... | brianquach/udacity-nano-fullstack-game | enum.py | Python | mit | 479 | [
"Brian"
] | 86b39765a4c8483854f53c1e5e1d6755a82fdaf6299a8b77108b7597866ba724 |
"""
Everything you need to solve inverse problems!
This package provides the basic building blocks to implement inverse problem
solvers. The main class for this is :class:`~fatiando.inversion.base.Misfit`.
It represents a data-misfit function and contains various tools to fit a
model to some data. All you have to do i... | seancug/python-example | fatiando-0.2/fatiando/inversion/__init__.py | Python | gpl-2.0 | 6,540 | [
"Gaussian"
] | 348496665de3c2545c37deb96a1ca1ef0f2c0d1d7da06b40906f3ee28184ec06 |
import load_data
import pysex
import numpy as np
import multiprocessing as mp
import cPickle as pickle
"""
Extract a bunch of extra info to get a better idea of the size of objects
"""
SUBSETS = ['train', 'test']
TARGET_PATTERN = "data/pysex_params_gen2_%s.npy.gz"
SIGMA2 = 5000 # 5000 # std of the centrality weig... | OwaJawa/kaggle-galaxies | extract_pysex_params_gen2.py | Python | bsd-3-clause | 3,889 | [
"Galaxy",
"Gaussian"
] | 7fc540fbf4970e9b32a065f5fa7ec2fde7cbae09c36609f7cd62d1d25ab70374 |
# -*- coding: utf-8 -*-
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2000-2006 Donald N. Allingham
# Copyright (C) 2009 Brian G. Matherly
#
# 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 Fr... | beernarrd/gramps | gramps/gen/utils/grampslocale.py | Python | gpl-2.0 | 46,043 | [
"Brian"
] | 5717d30390b3a2388657f2a6a86991fb73c4ac84f86e063d4d34d1a0ed9b2b69 |
##############################################################################
# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-64... | krafczyk/spack | var/spack/repos/builtin/packages/r-yarn/package.py | Python | lgpl-2.1 | 2,526 | [
"Bioconductor"
] | 1c770297191574bdb000ed12b7f9167f62e519e9fafab3e12b0ac387f5320895 |
# -*- 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-monitoring | tests/unit/gapic/monitoring_v3/test_alert_policy_service.py | Python | apache-2.0 | 100,729 | [
"Octopus"
] | 0a7b91486dbe294f7761d81ec7d5421d4b5fff7f0cb69b51095254fa3d6a0cab |
# This example illustrates molecular transport of an oscillatory reaction
# system, along a closed-end cylinder. The concentrations along the entire
# length of the cylinder start out uniform. It shows an interesting
# combination of propagating oscillations and buildup of reagents.
# Author: Upinder Bhalla
# Conver... | BhallaLab/moose-core | tests/rdesigneur/test_74_travelling_osc.py | Python | gpl-3.0 | 3,280 | [
"MOOSE"
] | de01359358395bc21a31dacbc13885c639efc01eded966bb4ae21a76d012a1c3 |
# -*- coding: utf-8 -*-
import os
# import numpy as np
# from numpy.linalg import eigh, solve
from ase.optimize.optimize import Optimizer
# from ase.data import atomic_numbers
from ase.gxfile import gxread, gxwrite, is_dummy
# conversion factors to Anstrom and eV
from ase.units import Bohr, Hartree
# for usage in the ... | alexei-matveev/ase-local | ase/optimize/gxoptimizer.py | Python | gpl-2.0 | 4,961 | [
"ASE"
] | ccffa23fa41d12f03ec4ebf48f0bfffd96d741a7f61a3f908005dae7d64b1e4f |
"""Module to test creation of bucket list and bucket list items."""
import unittest
import json
from app import create_app, db
class BucketlistTestCase(unittest.TestCase):
"""Class containing bucket list test cases"""
def setUp(self):
self.app = create_app(config_name='testing')
self.client = ... | freshprincekla/Bucketlist-api | tests/test_bucketlist.py | Python | gpl-3.0 | 15,629 | [
"Brian"
] | d79d92f20353df358f83dc5615cab764800cda5ba0bfa19f2d6f4c4f336dd3de |
#
__author__ = 'Kael Zhang <i@kael.me>'
import json
import hashlib
from .walker import Walker
from . import tools
from . import module
class Neuron(object):
'''
'''
def __init__(self,
dependency_tree = {},
resolve = None,
debug = Fa... | neuron-js/pyneuron | neuronjs/main.py | Python | mit | 8,724 | [
"NEURON"
] | 485ed1e968f6f951dfdc3023013a78647362c5d4e58813302afbf1111816813d |
#!/usr/bin/env python3
#* This file is part of the MOOSE framework
#* https://www.mooseframework.org
#*
#* All rights reserved, see COPYRIGHT for full restrictions
#* https://github.com/idaholab/moose/blob/master/COPYRIGHT
#*
#* Licensed under LGPL 2.1, please see LICENSE for details
#* https://www.gnu.org/licenses/lgp... | nuclear-wizard/moose | modules/porous_flow/doc/content/modules/porous_flow/tests/dirackernels/dirackernels.py | Python | lgpl-2.1 | 3,843 | [
"MOOSE"
] | d28a9034e1e5aabbe34bf95a813a744cda79b4a4c078d95eeb44445b14dbba02 |
"""The config flow tests for the forked_daapd media player platform."""
from unittest.mock import AsyncMock, patch
import pytest
from homeassistant import data_entry_flow
from homeassistant.components import zeroconf
from homeassistant.components.forked_daapd.const import (
CONF_LIBRESPOT_JAVA_PORT,
CONF_MAX_... | mezz64/home-assistant | tests/components/forked_daapd/test_config_flow.py | Python | apache-2.0 | 8,652 | [
"Firefly"
] | 136a72adff78357019770c1519e3cee8dd7dda2b74f1a2caab6eaea32e8f2d80 |
import numpy as np
np.random.seed(0)
import ipdb
import matplotlib.pylab as pl
import cPickle as pickle
nfit_default = 10000
def main():
download_data()
embed_and_save()
make_big_image()
def make_big_image(nfit=nfit_default, force_grid=False, density=1.0,
npix_horizontal=6000, npix_v... | rkeisler/tsne_galzoo | tsne_galzoo.py | Python | mit | 6,230 | [
"Gaussian"
] | 4d68aacd9639824c3fcce1bacf2f8d6944ce47e49563f8abc569f2c43b1fe658 |
"""
This sample demonstrates a simple skill built with the Amazon Alexa Skills Kit.
The Intent Schema, Custom Slots, and Sample Utterances for this skill, as well
as testing instructions are located at http://amzn.to/1LzFrj6
For additional samples, visit the Alexa Skills Kit Getting Started guide at
http://amzn.to/1LG... | ItsNotABugItsAFeature/transcribe | alexa/talkAbout.py | Python | mit | 9,251 | [
"VisIt"
] | 4c41ef9be31993edbc693671c3e5218eb5283a8dac6aa110cf1f7e480bfbf066 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# Copyright (C) 2013,2014 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... | sehrhardt/espresso | samples/python/not-working/thermostat_test.py | Python | gpl-3.0 | 1,207 | [
"ESPResSo"
] | d0eceb84fb4a4b65d31150e260c7aab6f4e4be9827feab6b38cee6a8960ac24e |
import sqlite3,os
def insert_row(cur,table,row):
'''
cur can be connection or cursor
insert row into table
guess data types from row elements
use None for NULL value
'''
cmd = "insert into %s values ("%table
for x in row:
if x == None:
cmd += 'NULL,'
... | robertvi/rjv | sql.py | Python | gpl-2.0 | 7,426 | [
"BLAST"
] | 1982b0c8e604e46ebfd19e5ae677e2fc9be7086d1d6191b84743fb98a548d443 |
#! /usr/bin/env python
# ======================================================================
# matscipy - Python materials science tools
# https://github.com/libAtoms/matscipy
#
# Copyright (2014) James Kermode, King's College London
# Lars Pastewka, Karlsruhe Institute of Technology
#
# This progr... | marcocaccin/crack2Dglass | run_crack_thin_strip.py | Python | gpl-2.0 | 5,303 | [
"ASE",
"Matscipy"
] | e0b4da4b6aac552cd4781ac670b1bda81f6e3bd5a5f0938dfe4284f7fd3ae127 |
#!/usr/bin/env python
"""
.. See the NOTICE file distributed with this work for additional information
regarding copyright ownership.
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
... | Multiscale-Genomics/mg-process-fastq | process_hic.py | Python | apache-2.0 | 10,515 | [
"BWA"
] | a0bce0b704ce5514af99343d3de9879cf34728b34e19bb4cc7f0a28b2876b774 |
# Copyright 2012-2014 Brian May
#
# This file is part of python-tldap.
#
# python-tldap is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.... | brianmay/python-tldap-debian | tldap/query_utils.py | Python | gpl-3.0 | 1,712 | [
"Brian"
] | 92c48cbda0714ac6c4b858f4afb75147592c455408f21fcc70fb6c2b18844e68 |
../../../../share/pyshared/orca/orca_gui_main.py | Alberto-Beralix/Beralix | i386-squashfs-root/usr/lib/python2.7/dist-packages/orca/orca_gui_main.py | Python | gpl-3.0 | 48 | [
"ORCA"
] | 1c033bb2ba2a7b2b344f03fa525da9ed40ce2033f99a2777c79b0589cf166acf |
# -*- Mode: Python; coding: utf-8; indent-tabs-mode: nil; tab-width: 4 -*-
### BEGIN LICENSE
# Copyright (C) 2014 Brian Douglass bhdouglass@gmail.com
# This program is free software: you can redistribute it and/or modify it
# under the terms of the GNU General Public License version 3, as published
# by the Free Softwa... | bhdouglass/agui | agui/backends/gtk/widgets/file_chooser.py | Python | gpl-3.0 | 1,898 | [
"Brian"
] | e45026f733a074ed7f15da0da09671700571a07d11e382be3a8909122836f16d |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# HORTON: Helpful Open-source Research TOol for N-fermion systems.
# Copyright (C) 2011-2017 The HORTON Development Team
#
# This file is part of HORTON.
#
# HORTON is free software; you can redistribute it and/or
# modify it under the terms of the GNU General Public Licens... | QuantumElephant/horton | tools/harmonics.py | Python | gpl-3.0 | 8,758 | [
"Gaussian"
] | 84b56d4cfd9563828615ad0643e6cc2bc6ec2869d1d3481a0a1a7990fc12ad89 |
#!/bin/env python
import sys, os
# Set sys.path
cwd = os.getcwd ()
sys.path.append ( cwd )
# Now import module
import torquefilter
from torquefilter import error
current_job = torquefilter.torqueFilter ()
current_job.illComm ( ['qsub', 'msub', 'ssh', 'scp'] )
current_job.checkQueue ( ['comm_mmem_week', 'comm_mmem_... | carlise/libtorque | testsuite/function/scripts/filter.py | Python | gpl-3.0 | 2,569 | [
"VisIt"
] | ca70533ead21cb49388730fc888331f888dda08ff17b3d9ecd29f81d7843f04f |
# $HeadURL$
__RCSID__ = "$Id$"
import threading
import thread
import time
import random
from DIRAC.ConfigurationSystem.Client.ConfigurationData import gConfigurationData
from DIRAC.ConfigurationSystem.Client.PathFinder import getGatewayURLs
from DIRAC.FrameworkSystem.Client.Logger import gLogger
from DIRAC.Core.Utilit... | coberger/DIRAC | ConfigurationSystem/private/Refresher.py | Python | gpl-3.0 | 6,545 | [
"DIRAC"
] | 8fb4e840fe72a27b6cdc7a893da8c8e03e555721ad928944d64c563bc7843bae |
'''
@created_at 2014-06-09
@author Exequiel Fuentes <efulet@gmail.com>
@author Brian Keith <briankeithn@gmail.com>
'''
# Se recomienda seguir los siguientes estandares:
# 1. Para codificacion: PEP 8 - Style Guide for Python Code (http://legacy.python.org/dev/peps/pep-0008/)
# 2. Para documentacion: PEP 257 - Docst... | efulet/laberinto | laberinto/test/__init__.py | Python | mit | 383 | [
"Brian"
] | 6209a1f3446b62c630ecef580e5466495f101f36b2df133a2d80ba74e114caa9 |
import os
from django.db import models
from django.utils.encoding import smart_unicode
from spirit.models import User
from behaviouralExperimentDefinition.models import behaviourExperimentType_model
from datetime import datetime
import uuid
#from django.contrib.auth import get_user_model
#
#
#User = get_user_model()
fr... | Si-elegans/Web-based_GUI_Tools | booking/models.py | Python | apache-2.0 | 9,157 | [
"NEURON"
] | 5f836d9a21d5799065ba1e8dd60d8463107e5ea278aacd0726180f7273ac39b9 |
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