repo_name string | path string | copies string | size string | content string | license string |
|---|---|---|---|---|---|
dssg/wikienergy | disaggregator/build/pandas/pandas/src/generate_code.py | 1 | 65551 | from __future__ import print_function
# we only need to be able to run this file on 2.7
# don't introduce a pandas/pandas.compat import
# or we get a bootstrapping problem
from StringIO import StringIO
header = """
cimport numpy as np
cimport cython
from libc.string cimport memmove
from numpy cimport *
from cpython... | mit |
gamaanderson/artview | artview/components/plot_grid.py | 1 | 48242 | """
plot_grid.py
Class instance used to make Display.
"""
# Load the needed packages
import numpy as np
import os
import pyart
from matplotlib.backends.qt_compat import is_pyqt5
if is_pyqt5():
from matplotlib.backends.backend_qt5agg import (
FigureCanvas, NavigationToolbar2QT as NavigationToolbar)
else:
... | bsd-3-clause |
yousrabk/mne-python | mne/cov.py | 2 | 71662 | # Authors: Alexandre Gramfort <alexandre.gramfort@telecom-paristech.fr>
# Matti Hamalainen <msh@nmr.mgh.harvard.edu>
# Denis A. Engemann <denis.engemann@gmail.com>
#
# License: BSD (3-clause)
import copy as cp
import os
from math import floor, ceil, log
import itertools as itt
import warnings
from co... | bsd-3-clause |
adrian-ionescu/apache-spark | python/pyspark/sql/types.py | 2 | 58423 | #
# 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... | apache-2.0 |
wdbm/abstraction | abstraction.py | 1 | 71601 | # -*- coding: utf-8 -*-
################################################################################
# #
# abstraction #
# ... | gpl-3.0 |
cbertinato/pandas | pandas/tests/indexing/test_coercion.py | 1 | 35743 | import itertools
import numpy as np
import pytest
import pandas.compat as compat
import pandas as pd
import pandas.util.testing as tm
###############################################################
# Index / Series common tests which may trigger dtype coercions
######################################################... | bsd-3-clause |
manahl/PyBloqs | pybloqs/block/table_formatters.py | 1 | 44425 | from collections import namedtuple
import datetime
import itertools
import numbers
from six import iteritems, string_types
import numpy as np
import pandas as pd
import pybloqs.block.colors as colors
OP_SUM = np.sum
OP_MEAN = np.mean
OP_NONE = None
HEADER_ROW_NAME = '__JINJA_HEADER__'
INDEX_COL_NAME = '__JINJA_INDE... | lgpl-2.1 |
uvchik/pvlib-python | pvlib/forecast.py | 1 | 35561 | '''
The 'forecast' module contains class definitions for
retreiving forecasted data from UNIDATA Thredd servers.
'''
import datetime
from netCDF4 import num2date
import numpy as np
import pandas as pd
from requests.exceptions import HTTPError
from xml.etree.ElementTree import ParseError
from pvlib.location import Loca... | bsd-3-clause |
EtienneCmb/ipywksp | wksp.py | 1 | 31996 | import ipywidgets.widgets as wdg
from IPython.core.magics.namespace import NamespaceMagics
from IPython.display import HTML, display, Javascript
from IPython import get_ipython
import numpy as np
from pandas import DataFrame
from types import ModuleType, FunctionType
import os
import pickle
from time import sleep
imp... | mit |
SanPen/GridCal | src/GridCal/Engine/IO/dgs_parser.py | 1 | 42848 | # -*- coding: utf-8 -*-
"""
# This file is part of GridCal.
#
# GridCal 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.
#
# GridCal is ... | gpl-3.0 |
fraricci/pymatgen | pymatgen/electronic_structure/boltztrap2.py | 3 | 31894 | """
BoltzTraT2 is a python software interpolating band structures and
computing materials properties from dft band structure using Boltzmann
semi-classical transport theory.
This module provides a pymatgen interface to BoltzTraT2.
Some of the code is written following the examples provided in BoltzTraP2
BoltzTraT2 has... | mit |
jeffery-do/Vizdoombot | doom/lib/python3.5/site-packages/dask/bag/core.py | 1 | 55868 | from __future__ import absolute_import, division, print_function
from collections import Iterable, Iterator, defaultdict
from functools import wraps, partial
import itertools
import math
import os
import types
import uuid
from random import Random
from warnings import warn
from distutils.version import LooseVersion
f... | mit |
clarkfitzg/xray | xray/core/variable.py | 1 | 34663 | from datetime import timedelta
import functools
import itertools
import numpy as np
import pandas as pd
from . import common
from . import indexing
from . import ops
from . import utils
from .pycompat import basestring, OrderedDict, zip, reduce, dask_array_type
from .indexing import (PandasIndexAdapter, LazilyIndexed... | apache-2.0 |
SigridK/corpkit | corpkit/editor.py | 1 | 45992 |
def editor(dataframe1,
operation = None,
dataframe2 = False,
sort_by = False,
keep_stats = False,
keep_top = False,
just_totals = False,
threshold = 'medium',
just_entries = False,
skip_entries = False,
... | mit |
vgteam/toil-vg | src/toil_vg/vg_calleval.py | 1 | 50190 | #!/usr/bin/env python2.7
"""
vg_calleval.py: Compare vcfs with vcfeval. Option to make freebayes calls to use as baseline. Can
run on vg_mapeval.py output.
"""
import argparse, sys, os, os.path, errno, random, subprocess, shutil, itertools, glob, tarfile
import doctest, re, json, collections, time, timeit
import lo... | apache-2.0 |
alexandrejaguar/publications | 2019/skeletracks/generate_figures.py | 1 | 31615 | """
Copyright (C) 2018 Alexandre Fioravante de Siqueira
This file is part of 'XXXXXX - Supplementary Material'.
'XXXXXX - Supplementary Material'
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 ... | gpl-3.0 |
Berreman4x4/Berreman4x4 | Berreman4x4.py | 1 | 68955 | # Encoding: utf-8
# Copyright (C) 2012-2016 Olivier Castany
# This program is free software (see LICENCE file)
"""Berreman4x4: module implementing Berreman's 4x4 matrix method.
See file "documentation.pdf"
"""
import numpy
import scipy.linalg, scipy.interpolate
from numpy import pi, newaxis
import matplotlib, matpl... | gpl-3.0 |
dougalsutherland/py-sdm | sdm/sdm.py | 1 | 77301 | #!/usr/bin/env python
'''
Code to do classification with divergence kernels in SVMs, as in
Dougal J. Sutherland, Liang Xiong, Barnabas Poczos, Jeff Schneider.
Kernels on Sample Sets via Nonparametric Divergence Estimates.
http://arxiv.org/abs/1202.0302
'''
from __future__ import division, print_function
f... | bsd-3-clause |
daviddesancho/MasterMSM | mastermsm/msm/msm.py | 1 | 42712 | """
This file is part of the MasterMSM package.
"""
import warnings
import math
from functools import reduce, cmp_to_key
import itertools
import numpy as np
import networkx as nx
import scipy.linalg as spla
import matplotlib.pyplot as plt
import multiprocessing as mp
from ..msm import msm_lib
class SuperMSM(object):
... | gpl-2.0 |
antgonza/qiita | qiita_db/processing_job.py | 1 | 94484 | # -----------------------------------------------------------------------------
# Copyright (c) 2014--, The Qiita Development Team.
#
# Distributed under the terms of the BSD 3-clause License.
#
# The full license is in the file LICENSE, distributed with this software.
# ------------------------------------------------... | bsd-3-clause |
cython-testbed/pandas | pandas/tests/frame/test_alter_axes.py | 1 | 49435 | # -*- coding: utf-8 -*-
from __future__ import print_function
import inspect
import pytest
from datetime import datetime, timedelta
import numpy as np
from pandas.compat import lrange, PY2
from pandas import (DataFrame, Series, Index, MultiIndex, RangeIndex,
IntervalIndex, DatetimeIndex, Catego... | bsd-3-clause |
thesgc/cbh_chembl_ws_extension | cbh_chembl_ws_extension/compounds.py | 1 | 86187 | from tastypie.resources import ALL
from tastypie.resources import ALL_WITH_RELATIONS
from tastypie.resources import ModelResource
from django.conf import settings
from django.conf.urls import *
from django.core.exceptions import ObjectDoesNotExist
from tastypie.authorization import Authorization
from tastypie import ht... | mit |
Erotemic/ibeis | ibeis/algo/graph/mixin_ibeis.py | 1 | 52619 | # -*- coding: utf-8 -*-
from __future__ import absolute_import, division, print_function, unicode_literals
import networkx as nx
import pandas as pd
import utool as ut
import numpy as np
import vtool_ibeis as vt # NOQA
import six
from ibeis.algo.graph import nx_utils as nxu
from ibeis.algo.graph.state import POSTV, NE... | apache-2.0 |
letsgoexploring/fredpy-package | build/lib/fredpy/__init__.py | 2 | 47252 | import requests
import dateutil
import datetime
import os
import matplotlib.pyplot as plt
import numpy as np
import pandas as pd
import warnings
import statsmodels.api as sm
import time
tsa = sm.tsa
# Read recession data data
cycle_data = pd.read_csv('https://raw.githubusercontent.com/letsgoexploring/fredpy-package/gh... | mit |
jskDr/jamespy | j3/jgrid.py | 1 | 36490 | """
grid search codes for machine learning
"""
from sklearn import cross_validation, cross_validation, grid_search, linear_model, svm, metrics
import numpy as np
import pandas as pd
from operator import itemgetter
import j3.jutil as jutil
import jx3.jpyx as jpyx
from j3.jsklearn import binary_model
def gs_Lasso( xM,... | mit |
ohspite/spectral | spectral/graphics/ndwindow.py | 1 | 43401 | #########################################################################
#
# ndwindow.py - This file is part of the Spectral Python (SPy)
# package.
#
# Copyright (C) 2001-2012 Thomas Boggs
#
# Spectral Python is free software; you can redistribute it and/
# or modify it under the terms of the GNU General Pu... | gpl-2.0 |
cmunk/protwis | tools/management/commands/build_structure_angles.py | 1 | 48707 | from django.core.management.base import BaseCommand
from django.db import connection
import contactnetwork.pdb as pdb
from structure.models import Structure, StructureVectors
from residue.models import Residue
from angles.models import ResidueAngle as Angle
import Bio.PDB
import copy
import freesasa
import io
import ... | apache-2.0 |
chrsrds/scikit-learn | sklearn/metrics/ranking.py | 1 | 39288 | """Metrics to assess performance on classification task given scores
Functions named as ``*_score`` return a scalar value to maximize: the higher
the better
Function named as ``*_error`` or ``*_loss`` return a scalar value to minimize:
the lower the better
"""
# Authors: Alexandre Gramfort <alexandre.gramfort@inria.... | bsd-3-clause |
basnijholt/holoviews | holoviews/plotting/bokeh/plot.py | 1 | 45117 | from __future__ import absolute_import, division, unicode_literals
import json
from itertools import groupby
from collections import defaultdict
import numpy as np
import param
from bokeh.layouts import gridplot
from bokeh.models import (ColumnDataSource, Column, Row, Div)
from bokeh.models.widgets import Panel, Tab... | bsd-3-clause |
katelynneese/dmdd | dmdd/dmdd.py | 1 | 65481 | from numba import jit
try:
import rate_NR
import rate_genNR
import rate_UV
import dmdd_efficiencies as eff
import dmdd_plot as dp
except ImportError:
pass
import os,os.path,shutil
import pickle
import logging
import time
on_rtd = False
try:
import numpy.random as random
import... | mit |
sauloal/cnidaria | scripts/venv/lib/python2.7/site-packages/pandas/tseries/tests/test_timeseries.py | 1 | 168104 | # pylint: disable-msg=E1101,W0612
import calendar
from datetime import datetime, time, timedelta
import sys
import operator
import nose
import numpy as np
randn = np.random.randn
from pandas import (Index, Series, TimeSeries, DataFrame,
isnull, date_range, Timestamp, Period, DatetimeIndex,
... | mit |
buguen/pylayers | pylayers/gis/selectl.py | 1 | 41721 | # -*- coding: utf-8 -*-
r"""
.. currentmodule:: pylayers.gis.selectL
"""
import os
import pdb
import Image
import numpy as np
from pylayers.util import geomutil as geu
from pylayers.util import pyutil as pyu
import pylayers.util.plotutil as plu
import matplotlib.pyplot as plt
from pylayers.util.easygui import *
from... | lgpl-3.0 |
harish2rb/pyGeoNet | pygeonet_v1.0/pygeonet_processing.py | 1 | 49204 | #! /usr/bin/env python
# pygeonet_processing.py
# Run this file after setting up folder structure
# in pygeonet_parameters.py
import sys
import os
from osgeo import gdal,osr,ogr
import statsmodels.api as sm
import numpy as np
from time import clock
import pygeonet_prepare as Parameters
import pygeonet_defaults as defa... | gpl-3.0 |
wmvanvliet/mne-python | mne/viz/evoked.py | 1 | 107767 | # -*- coding: utf-8 -*-
"""Functions to plot evoked M/EEG data (besides topographies)."""
# Authors: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Denis Engemann <denis.engemann@gmail.com>
# Martin Luessi <mluessi@nmr.mgh.harvard.edu>
# Eric Larson <larson.eric.d@gmail.com>
# C... | bsd-3-clause |
thilbern/scikit-learn | sklearn/tree/tree.py | 1 | 34935 | """
This module gathers tree-based methods, including decision, regression and
randomized trees. Single and multi-output problems are both handled.
"""
# Authors: Gilles Louppe <g.louppe@gmail.com>
# Peter Prettenhofer <peter.prettenhofer@gmail.com>
# Brian Holt <bdholt1@gmail.com>
# Noel Da... | bsd-3-clause |
dsm054/pandas | pandas/plotting/_converter.py | 2 | 38760 | import warnings
from datetime import datetime, timedelta
import datetime as pydt
import numpy as np
from dateutil.relativedelta import relativedelta
import matplotlib.units as units
import matplotlib.dates as dates
from matplotlib.ticker import Formatter, AutoLocator, Locator
from matplotlib.transforms import nonsin... | bsd-3-clause |
jinook0707/CATOS_alpha | 2016_paper/aa_dataviewer.py | 1 | 45429 | '''
aa_dataviewer
This is used for browsing video & audio data collected by CATOS_AA.
It also shows some graph of recent performance of the subject.
--------------------------------------------------------------------
Copyright (C) 2013 Jinook Oh (jinook.oh@univie.ac.at)
This program is free software: you can redistri... | gpl-3.0 |
kapteyn-astro/kapteyn | kapteyn/wcsgrat.py | 1 | 178433 | #!/usr/bin/env python
#----------------------------------------------------------------------
# FILE: wcsgrat.py
# PURPOSE: Provide classes and methods to produce graticule data
# for WCS labeling and plotting grid lines.
# AUTHOR: M.G.R. Vogelaar, University of Groningen, The Netherlands
# DATE: Augus... | bsd-3-clause |
Didou09/tofu | tofu/geom/_comp.py | 1 | 36936 | """
This module is the computational part of the geometrical module of ToFu
"""
# Built-in
import warnings
# Common
import numpy as np
import scipy.interpolate as scpinterp
import scipy.integrate as scpintg
from inspect import signature as insp
# ToFu-specific
try:
import tofu.geom._def as _def
import tofu.g... | mit |
CAMI-challenge/AMBER | src/binning_classes.py | 1 | 46063 | # Copyright 2021 Department of Computational Biology for Infection Research - Helmholtz Centre for Infection Research
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the Li... | apache-2.0 |
msincenselee/vnpy | vnpy/component/cta_renko_bar.py | 1 | 231658 | # encoding: UTF-8
import copy
import csv
import decimal
import math
import os
import sys
import traceback
import talib as ta
import numpy as np
import pandas as pd
import csv
from collections import OrderedDict
from datetime import datetime, timedelta
from pykalman import KalmanFilter
from vnpy.trader.object import ... | mit |
chrsrds/scikit-learn | sklearn/gaussian_process/kernels.py | 4 | 67426 | """Kernels for Gaussian process regression and classification.
The kernels in this module allow kernel-engineering, i.e., they can be
combined via the "+" and "*" operators or be exponentiated with a scalar
via "**". These sum and product expressions can also contain scalar values,
which are automatically converted to... | bsd-3-clause |
ycaihua/scikit-learn | sklearn/feature_extraction/text.py | 1 | 49514 | # -*- coding: utf-8 -*-
# Authors: Olivier Grisel <olivier.grisel@ensta.org>
# Mathieu Blondel <mathieu@mblondel.org>
# Lars Buitinck <L.J.Buitinck@uva.nl>
# Robert Layton <robertlayton@gmail.com>
# Jochen Wersdörfer <jochen@wersdoerfer.de>
# Roman Sinayev <roman.sinayev@gma... | bsd-3-clause |
Djabbz/scikit-learn | sklearn/metrics/tests/test_classification.py | 1 | 49779 | from __future__ import division, print_function
import numpy as np
from scipy import linalg
from functools import partial
from itertools import product
import warnings
from sklearn import datasets
from sklearn import svm
from sklearn.datasets import make_multilabel_classification
from sklearn.preprocessing import la... | bsd-3-clause |
dblalock/bolt | experiments/python/matmul_datasets.py | 1 | 30264 | #!/usr/bin/env python
# from future import absolute_import, division, print_function
import os
import numpy as np
# import pathlib as pl
from sklearn import linear_model
from scipy import signal
from python.datasets import caltech, sharee, incart, ucr
from python import misc_algorithms as algo
from python import win... | mpl-2.0 |
mtury/scapy | scapy/layers/inet.py | 1 | 69806 | # This file is part of Scapy
# See http://www.secdev.org/projects/scapy for more information
# Copyright (C) Philippe Biondi <phil@secdev.org>
# This program is published under a GPLv2 license
"""
IPv4 (Internet Protocol v4).
"""
from __future__ import absolute_import
from __future__ import print_function
import time... | gpl-2.0 |
kwecht/BABS-GUI | code/interactiveplot.py | 1 | 40428 | ########################################################################
#
# Kevin Wecht 4 November 2014
#
# Bay Area Bicycle Share (BABS) Open Data Challenge
#
########################################################################
#
# This file begins a Qt window to support interactive
# ... | mit |
Foorth/panda-bigmon-core | core/common/models.py | 1 | 169949 | # Create your models here.
# This is an auto-generated Django model module.
# You'll have to do the following manually to clean this up:
# * Rearrange models' order
# * Make sure each model has one field with primary_key=True
# Feel free to rename the models, but don't rename db_table values or field names.
#
#... | apache-2.0 |
MJuddBooth/pandas | pandas/core/sparse/frame.py | 1 | 37597 | """
Data structures for sparse float data. Life is made simpler by dealing only
with float64 data
"""
from __future__ import division
import warnings
import numpy as np
from pandas._libs.sparse import BlockIndex, get_blocks
import pandas.compat as compat
from pandas.compat import lmap
from pandas.compat.numpy import... | bsd-3-clause |
rsmailach/MultiServerSRPT | SRPTE_Multi_KnownDist.py | 1 | 45346 | #----------------------------------------------------------------------#
# SRPTE_Multi_KnownDist.py
#
# This application simulates multiple server with Poisson arrivals
# and processing times of a general distribution. There are errors in
# time estimates within a range. Arrivals are assigned to SRPT classes
# small, ... | mit |
willgrass/pandas | pandas/core/tests/test_datetools.py | 1 | 36031 | from datetime import datetime, timedelta
import unittest
from pandas.core.datetools import (
bday, BDay, BQuarterEnd, BMonthEnd, BYearEnd, MonthEnd,
DateOffset, Week, YearBegin, YearEnd, Hour, Minute, Second,
format, ole2datetime, to_datetime, normalize_date,
getOffset, getOffsetName, inferTimeR... | bsd-3-clause |
pratapvardhan/pandas | pandas/tests/indexing/test_coercion.py | 2 | 35112 | # -*- coding: utf-8 -*-
import itertools
import pytest
import numpy as np
import pandas as pd
import pandas.util.testing as tm
import pandas.compat as compat
###############################################################
# Index / Series common tests which may trigger dtype coercions
##############################... | bsd-3-clause |
nhejazi/scikit-learn | sklearn/ensemble/forest.py | 8 | 78893 | """Forest of trees-based ensemble methods
Those methods include random forests and extremely randomized trees.
The module structure is the following:
- The ``BaseForest`` base class implements a common ``fit`` method for all
the estimators in the module. The ``fit`` method of the base ``Forest``
class calls the ... | bsd-3-clause |
MapsPy/MapsPy | maps_calibration.py | 1 | 78562 | '''
Created on Apr 10, 2013
@author: Mirna Lerotic, 2nd Look Consulting
http://www.2ndlookconsulting.com/
Copyright (c) 2013, Stefan Vogt, Argonne National Laboratory
All rights reserved.
Redistribution and use in source and binary forms, with or without modification,
are permitted provided that the... | bsd-2-clause |
kgullikson88/General | Fitters.py | 1 | 88851 | """
A set of functions for various types of fitting.
"""
import logging
import os
import glob
import json
from george import kernels
import FittingUtilities
from astropy import units as u, constants
from scipy.optimize import fmin, brute, minimize
from scipy.interpolate import InterpolatedUnivariateSpline as spline
f... | gpl-3.0 |
trislett/TFCE_mediation | tfce_mediation/tm_func.py | 1 | 30977 | #!/usr/bin/env python
# Various functions for I/O functions for tm mmr
# Copyright (C) 2016 Tristram Lett
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of th... | gpl-3.0 |
huzq/scikit-learn | sklearn/linear_model/tests/test_logistic.py | 1 | 76163 | import os
import sys
import numpy as np
import scipy.sparse as sp
from scipy import linalg, optimize, sparse
import pytest
from sklearn.base import clone
from sklearn.datasets import load_iris, make_classification
from sklearn.metrics import log_loss
from sklearn.metrics import get_scorer
from sklearn.model_selection... | bsd-3-clause |
beiko-lab/gengis | bin/Lib/site-packages/matplotlib/backends/backend_pdf.py | 3 | 91687 | # -*- coding: iso-8859-1 -*-
"""
A PDF matplotlib backend
Author: Jouni K Seppänen <jks@iki.fi>
"""
from __future__ import division, print_function
import codecs
import os
import re
import sys
import time
import warnings
import zlib
import numpy as np
if sys.version_info[0] >= 3:
from io import BytesIO
else:
... | gpl-3.0 |
GbalsaC/bitnamiP | venv/lib/python2.7/site-packages/sklearn/metrics/metrics.py | 2 | 33408 | """Utilities to evaluate the predictive performance of models
Functions named as *_score return a scalar value to maximize: the higher the
better
Function named as *_loss return a scalar value to minimize: the lower the
better
"""
# Authors: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Mathieu Blondel... | agpl-3.0 |
DGrady/pandas | pandas/io/parsers.py | 1 | 119746 | """
Module contains tools for processing files into DataFrames or other objects
"""
from __future__ import print_function
from collections import defaultdict
import re
import csv
import sys
import warnings
import datetime
from textwrap import fill
import numpy as np
from pandas import compat
from pandas.compat import... | bsd-3-clause |
linebp/pandas | pandas/tests/io/test_pytables.py | 1 | 216490 | import pytest
import sys
import os
import tempfile
from contextlib import contextmanager
from warnings import catch_warnings
import datetime
from datetime import timedelta
import numpy as np
import pandas
import pandas as pd
from pandas import (Series, DataFrame, Panel, Panel4D, MultiIndex, Int64Index,
... | bsd-3-clause |
xhochy/arrow | python/pyarrow/tests/test_array.py | 1 | 85345 | # 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... | apache-2.0 |
0x0all/scikit-learn | sklearn/metrics/tests/test_common.py | 2 | 42461 | from __future__ import division, print_function
from functools import partial
from itertools import product
import numpy as np
import scipy.sparse as sp
from sklearn.datasets import make_multilabel_classification
from sklearn.preprocessing import LabelBinarizer, MultiLabelBinarizer
from sklearn.utils.multiclass impo... | bsd-3-clause |
merenlab/anvio | anvio/parsers/hmmer.py | 1 | 41181 | # -*- coding: utf-8
"""Parser for HMMER's various outputs"""
import anvio
import anvio.utils as utils
import anvio.terminal as terminal
from anvio.errors import ConfigError
from anvio.parsers.base import Parser
import os
import numpy as np
import pandas as pd
__author__ = "Developers of anvi'o (see AUTHORS.txt)"
_... | gpl-3.0 |
ncss-tech/geo-pit | SSURGO_Assessment_Tools/Validate_Mapunit_Slope_Range.py | 1 | 78474 | #-------------------------------------------------------------------------------
# Name: Validate Mapunit Slope Range
# Purpose:
#
# Author: Adolfo.Diaz
# e-mail: adolfo.diaz@wi.usda.gov
# phone: 608.662.4422 ext. 216
#
# This tool is intended to help validate a user-defined slope range that is assigned
... | gpl-2.0 |
chenkianwee/envuo | py4design/urbanformeval.py | 1 | 86231 | # ==================================================================================================
#
# Copyright (c) 2016, Chen Kian Wee (chenkianwee@gmail.com)
#
# This file is part of py4design
#
# py4design is free software: you can redistribute it and/or modify
# it under the terms of the GNU General ... | gpl-3.0 |
prheenan/Research | Personal/EventDetection/OtherMethods/Roduit2012_OpenFovea/openfovea_src/openfovea/fovea_toolbox/opengl.py | 1 | 32364 | #!/usr/bin/env python
# -*- coding: UTF-8 -*-
"""
This opengl code was higly inspired from the pyopengl documentation, and
particularly on the NeHe tutorials, thank's a lot to them !
"""
from copy import deepcopy
import numpy
from OpenGL.GL import *
from OpenGL.GLUT import *
from OpenGL.GLU import *
from gtk.... | gpl-3.0 |
rs2/pandas | pandas/tests/dtypes/test_dtypes.py | 1 | 34835 | import re
import numpy as np
import pytest
import pytz
from pandas.core.dtypes.base import registry
from pandas.core.dtypes.common import (
is_bool_dtype,
is_categorical,
is_categorical_dtype,
is_datetime64_any_dtype,
is_datetime64_dtype,
is_datetime64_ns_dtype,
is_datetime64tz_dtype,
... | bsd-3-clause |
jseabold/statsmodels | statsmodels/tsa/statespace/news.py | 4 | 49282 | # -*- coding: utf-8 -*-
"""
News for state space models
Author: Chad Fulton
License: BSD-3
"""
import numpy as np
import pandas as pd
from statsmodels.iolib.table import SimpleTable
from statsmodels.iolib.summary import Summary
from statsmodels.iolib.tableformatting import fmt_params
class NewsResults(object):
... | bsd-3-clause |
kubeflow/pipelines | samples/contrib/e2e-outlier-drift-explainer/seldon/seldon_e2e_cifar10.kale.nfs.py | 2 | 69331 | import kfp.dsl as dsl
import json
import kfp.components as comp
from collections import OrderedDict
from kubernetes import client as k8s_client
def setup(MINIO_ACCESS_KEY: str, MINIO_HOST: str, MINIO_MODEL_BUCKET: str, MINIO_SECRET_KEY: str):
pipeline_parameters_block = '''
MINIO_ACCESS_KEY = "{}"
MINIO_H... | apache-2.0 |
csb-toolbox/CSB | csb/bio/nmr/__init__.py | 1 | 38131 | """
NMR related objects.
"""
import os
import numpy.linalg
import xml.dom.minidom
import csb.io.tsv
import csb.core as pu
from csb.statistics.pdf import GeneralizedNormal
from csb.bio.sequence import ProteinAlphabet
from csb.bio.structure import ChemElements
class InvalidResidueError(ValueError):
pass
class E... | mit |
IBT-FMI/SAMRI | samri/pipelines/extra_functions.py | 1 | 36883 | # -*- coding: utf-8 -*-
import csv
import inspect
import os
import re
import json
import shutil
from copy import deepcopy
import pandas as pd
# PyBIDS 0.6.5 and 0.10.2 compatibility
try:
from bids.grabbids import BIDSLayout
except ModuleNotFoundError:
from bids.layout import BIDSLayout
BEST_GUESS_MODALITY_MATCH = ... | gpl-3.0 |
DittmarLab/HGTector | hgtector/analyze.py | 1 | 41061 | #!/usr/bin/env python3
# ----------------------------------------------------------------------------
# Copyright (c) 2013--, Qiyun Zhu and Katharina Dittmar.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file LICENSE, distributed with this software.
# --------------------... | bsd-3-clause |
squirrelo/qiita | qiita_db/test/test_util.py | 1 | 38206 | # -----------------------------------------------------------------------------
# Copyright (c) 2014--, The Qiita Development Team.
#
# Distributed under the terms of the BSD 3-clause License.
#
# The full license is in the file LICENSE, distributed with this software.
# ------------------------------------------------... | bsd-3-clause |
mbinkowski/opt-mmd | gan/model_mmd2.py | 1 | 60873 | from __future__ import division, print_function
from glob import glob
import os
import time
import numpy as np
import scipy.misc
import scipy
from six.moves import xrange
import tensorflow as tf
import matplotlib.pyplot as plt
from PIL import Image
import lmdb
import io
import sys
from IPython.display import display
... | bsd-3-clause |
phockett/ePSproc | epsproc/geomFunc/geomCalc.py | 1 | 48876 | """
ePSproc geometric terms/functions
Collection of codes for geometric functions and tensors.
26/02/20 v1 Initial implementation.
"""
# Imports
import numpy as np
import pandas as pd
import xarray as xr
# Fast calc functions
from epsproc.geomFunc.w3jVecMethods import w3jguVecCPU, w3jprange
# from epsproc.geom... | gpl-3.0 |
mikehankey/fireball_camera | analyze-stacks.py | 1 | 55222 | #!/usr/bin/python3
# next steps. save off a cache of the diffs,so we can save time on multiple re-runs.
# do a crop cnt confirm.
# script to make master stacks per night and hour from the 1 minute stacks
from matplotlib.backends.backend_agg import FigureCanvasAgg as FigureCanvas
from matplotlib.figure import Figur... | gpl-3.0 |
jgliss/pyplis | pyplis/processing.py | 1 | 48843 | # -*- coding: utf-8 -*-
#
# Pyplis is a Python library for the analysis of UV SO2 camera data
# Copyright (C) 2017 Jonas Gliss (jonasgliss@gmail.com)
#
# This program is free software: you can redistribute it and/or
# modify it under the terms of the GNU General Public License a
# published by the Free Software Foundat... | gpl-3.0 |
jackmorford/SPPlot | SPPlot.py | 1 | 67616 | #########################################
### ## ### ###### ### # ###
## ##### ## ## ##### ### #### ##### #####
### #### ### ##### ### #### ##### #####
#### ### ##### ##### ### #### ##### #####
# #### ##### ### ##### ##### #####
#########################################
#########################... | mit |
google/expt-analysis | python/sequential_data.py | 1 | 43661 | #
# Copyright 2019 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
#
# https://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing,... | apache-2.0 |
jmikko/fairnessML | experiments.py | 1 | 51113 | from load_data import load_experiments
from sklearn import svm
import numpy as np
from measures import equalized_odds_measure_TP, equalized_odds_measure_FP, equalized_odds_measure_from_pred_TP, equalized_odds_measure_TP_from_list_of_sensfeat
import matplotlib.pyplot as plt
from sklearn.model_selection import GridSearch... | gpl-3.0 |
bdh1011/wau | venv/lib/python2.7/site-packages/pandas/io/tests/test_parsers.py | 1 | 142560 | # -*- coding: utf-8 -*-
# pylint: disable=E1101
from datetime import datetime
import csv
import os
import sys
import re
import nose
import platform
from numpy import nan
import numpy as np
from pandas.io.common import DtypeWarning
from pandas import DataFrame, Series, Index, MultiIndex, DatetimeIndex
from pandas.com... | mit |
nmayorov/scipy | scipy/integrate/_quadrature.py | 3 | 32783 | import functools
import numpy as np
import math
import types
import warnings
# trapezoid is a public function for scipy.integrate,
# even though it's actually a NumPy function.
from numpy import trapz as trapezoid
from scipy.special import roots_legendre
from scipy.special import gammaln
__all__ = ['fixed_quad', 'qua... | bsd-3-clause |
PaulDeStefano/pythonsamples | newAnalyser.py | 1 | 50063 | #!/usr/bin/python2.7
""" newAnalyser.py
Analyse ToF TIC data.
Copyright (C) 2013 Paul R. DeStefano
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License... | gpl-3.0 |
colour-science/colour | colour/plotting/colorimetry.py | 1 | 32440 | # -*- coding: utf-8 -*-
"""
Colorimetry Plotting
====================
Defines the colorimetry plotting objects:
- :func:`colour.plotting.plot_single_sd`
- :func:`colour.plotting.plot_multi_sds`
- :func:`colour.plotting.plot_single_cmfs`
- :func:`colour.plotting.plot_multi_cmfs`
- :func:`colour.plotting.plot... | bsd-3-clause |
MDAnalysis/mdanalysis | testsuite/MDAnalysisTests/analysis/test_encore.py | 1 | 36155 | # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
# vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4 fileencoding=utf-8
#
# MDAnalysis --- https://www.mdanalysis.org
# Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
# (see the file AUTHORS for the full list of names)
#... | gpl-2.0 |
alephu5/Soundbyte | environment/lib/python3.3/site-packages/pandas/tests/test_multilevel.py | 1 | 67642 | # pylint: disable-msg=W0612,E1101,W0141
import nose
from numpy.random import randn
import numpy as np
from pandas.core.index import Index, MultiIndex
from pandas import Panel, DataFrame, Series, notnull, isnull
from pandas.util.testing import (assert_almost_equal,
assert_series_equal... | gpl-3.0 |
ODM2/ODMToolsPython | odmtools/gui/mnuRibbon.py | 1 | 32438 | from collections import OrderedDict
import datetime
import wx
import wx.lib.agw.ribbon as RB
from wx.lib.pubsub import pub as Publisher
from odmtools.common.exceptions import EmptySelection
from odmtools.controller.frmAddPoints import AddPoints
from odmtools.controller.frmDataFilters import frmDataFilter
from odmto... | bsd-3-clause |
Kate-Willett/HadISDH_Build | F13_GridHadISDHFLAT.py | 1 | 47626 | # PYTHON 3
#
# Author: Kate Willett
# Created: 1 February 2013 IDL, Converted to Python 3 12th Jan 2021
# Last update: 12 January 2021
# Location: /home/h04/hadkw/HadISDH_Code/HADISDH_BUILD/
# GitHub: https://github.com/Kate-Willett/HadISDH_Build
# -----------------------
# CODE PURPOSE AND OUTPUT
# -----------... | cc0-1.0 |
tkchafin/mrbait | mrbait/manage_bait_db.py | 1 | 50978 | #!/usr/bin/python
import sys
import sqlite3
from sqlite3 import OperationalError
import pandas as pd
from mrbait import misc_utils as utils
from mrbait import sequence_tools as s
#Function to create database connection
#Add code later to enable re-running from existing database
def create_connection(db):
conn = sqli... | gpl-3.0 |
maurov/xraysloth | sloth/io/specfile_reader.py | 1 | 32130 | #!/usr/bin/env python
# -*- coding: utf-8 -*-
"""SpecfileData object to read data in SPEC_ format
===================================================
.. _SPEC: http://www.certif.com/content/spec
Requirements
------------
- silx (http://www.silx.org/doc/silx/dev/modules/io/specfilewrapper.html)
TODO
----
- _pymca_av... | bsd-3-clause |
jbms/beancount-import | beancount_import/reconcile.py | 1 | 40649 | import collections
import datetime
import re
from typing import List, Optional, Union, Callable, Dict, Mapping, Tuple, Any, Iterable, Set, NamedTuple
import argparse
import os
import tempfile
import hashlib
import string
import random
import pickle
from beancount.core.data import Transaction, Posting, Balance, Open, C... | gpl-2.0 |
merenlab/anvio | anvio/variabilityops.py | 1 | 167423 | # -*- coding: utf-8
# pylint: disable=line-too-long
"""Classes to make sense of sequence variation"""
import os
import sys
import copy
import random
import inspect
import argparse
import numpy as np
import pandas as pd
import operator as op
from numba import jit
from scipy.stats import entropy
import anvio
import ... | gpl-3.0 |
Shirling-VT/davitpy_sam | davitpy/gme/sat/poes.py | 1 | 33273 | """
.. module:: poes
:synopsis: A module for reading, writing, and storing poes Data
.. moduleauthor:: AJ, 20130129
*********************
**Module**: gme.sat.poes
*********************
**Classes**:
* :class:`poesRec`
**Functions**:
* :func:`readPoes`
* :func:`readPoesFtp`
* :func:`mapPoesMongo`
* :func:`... | gpl-3.0 |
bartosh/zipline | tests/pipeline/test_blaze.py | 3 | 70826 | """
Tests for the blaze interface to the pipeline api.
"""
from __future__ import division
from collections import OrderedDict
from datetime import timedelta, time
from itertools import product, chain
import warnings
import blaze as bz
from datashape import dshape, var, Record
from nose_parameterized import parameter... | apache-2.0 |
ADicksonLab/wepy | src/wepy/analysis/contig_tree.py | 1 | 70401 | """Classes providing a contig and branching contigs abstractions over
the underlying WepyHDF5 simulation data store.
Routines
--------
ContigTree
Contig
"""
import itertools as it
from copy import copy
from operator import attrgetter
from collections import deque
import networkx as nx
import numpy as np
from matpl... | mit |
longjon/numpy | numpy/lib/function_base.py | 1 | 117972 | from __future__ import division, absolute_import, print_function
__docformat__ = "restructuredtext en"
__all__ = [
'select', 'piecewise', 'trim_zeros', 'copy', 'iterable', 'percentile',
'diff', 'gradient', 'angle', 'unwrap', 'sort_complex', 'disp',
'extract', 'place', 'vectorize', 'asarray_chkfinite', 'ave... | bsd-3-clause |
dcherian/tools | ROMS/pmacc/tools/post_tools/rompy/trunk/rompy/utils.py | 1 | 43829 | import os
import numpy as np
from matplotlib.mlab import griddata
import netCDF4 as nc
__version__ = '0.1.6'
def interp_2d_latlon(lat,lon,data,lati,loni):
return griddata(lat.reshape(lat.size),lon.reshape(lon.size),data.reshape(data.size),lati,loni)
def interp_2d_xy(x,y,data,xi,yi):
try:
di = griddata(x.reshape... | mit |
stefanv/brainx | brainx/util.py | 1 | 43491 | """Generic utilities that may be needed by the other modules.
"""
#-----------------------------------------------------------------------------
# Imports
#-----------------------------------------------------------------------------
import warnings
import numpy as np
import networkx as nx
#-------------------------... | bsd-3-clause |
aCOSMIC/aCOSMIC | cosmic/utils.py | 1 | 43425 | # -*- coding: utf-8 -*-
# Copyright (C) Scott Coughlin (2017 - 2019)
#
# This file is part of cosmic.
#
# cosmic 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 o... | gpl-3.0 |
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