Sun, 22 Jun 2014

New package TaoTeProgramming with initial version 1.0
Package: TaoTeProgramming
Type: Package
Title: Illustrations from Tao Te Programming
Version: 1.0
Date: 2014-06-22
Author: Pat Burns
Maintainer: Pat Burns
Description: Art-like behavior based on randomness
License: Unlimited
Packaged: 2014-06-22 16:24:56 UTC; pat
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-06-22 23:15:59

More information about TaoTeProgramming at CRAN
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Package mirt updated to version 1.4 with previous version 1.3 dated 2014-04-23

Title: Multidimensional Item Response Theory
Description: Analysis of dichotomous and polytomous response data using unidimensional and multidimensional latent trait models under the Item Response Theory paradigm. Exploratory and confirmatory models can be estimated with quadrature (EM) or stochastic (MHRM) methods. Confirmatory bi-factor and two-tier analyses are available for modeling item testlets. Multiple group analysis and mixed effects designs also are available for detecting differential item functioning and modelling item and person covariates.
Author: Phil Chalmers [aut, cre, cph], Joshua Pritikin [ctb], Mateusz Zoltak [ctb]
Maintainer: Phil Chalmers

Diff between mirt versions 1.3 dated 2014-04-23 and 1.4 dated 2014-06-22

 mirt-1.3/mirt/man/calcLogLik-method.Rd            |only
 mirt-1.4/mirt/DESCRIPTION                         |    9 
 mirt-1.4/mirt/MD5                                 |  225 ++--
 mirt-1.4/mirt/NAMESPACE                           |    4 
 mirt-1.4/mirt/NEWS                                |   74 +
 mirt-1.4/mirt/R/00-classes.R                      |   29 
 mirt-1.4/mirt/R/01-itemtypes.R                    |    4 
 mirt-1.4/mirt/R/02-item_methods.R                 |   69 +
 mirt-1.4/mirt/R/03-estimation.R                   |  236 ++--
 mirt-1.4/mirt/R/04-derivatives.R                  |  131 ++
 mirt-1.4/mirt/R/Confirmatory-methods.R            |    2 
 mirt-1.4/mirt/R/DIF.R                             |   86 -
 mirt-1.4/mirt/R/DTF.R                             |  182 ++-
 mirt-1.4/mirt/R/EMstep.group.R                    |  357 ++++---
 mirt-1.4/mirt/R/Exploratory-methods.R             |   57 -
 mirt-1.4/mirt/R/LoadPars.R                        |   82 -
 mirt-1.4/mirt/R/M2.R                              |  315 +++---
 mirt-1.4/mirt/R/MHRM.group.R                      |   67 -
 mirt-1.4/mirt/R/Mixed-methods.R                   |    2 
 mirt-1.4/mirt/R/MultipleGroup-methods.R           |   66 -
 mirt-1.4/mirt/R/PLCI.mirt.R                       |   48 
 mirt-1.4/mirt/R/PrepData.R                        |    2 
 mirt-1.4/mirt/R/SE.methods.R                      |  117 --
 mirt-1.4/mirt/R/bfactor.R                         |   31 
 mirt-1.4/mirt/R/boot.mirt.R                       |   11 
 mirt-1.4/mirt/R/calcLogLik.R                      |  116 +-
 mirt-1.4/mirt/R/createItem.R                      |   71 -
 mirt-1.4/mirt/R/expected.test.R                   |   22 
 mirt-1.4/mirt/R/extract.item.R                    |   10 
 mirt-1.4/mirt/R/fscores.R                         |   56 -
 mirt-1.4/mirt/R/fscores.internal.R                |  107 +-
 mirt-1.4/mirt/R/imputeMissing.R                   |   19 
 mirt-1.4/mirt/R/itemfit.R                         |  141 ++
 mirt-1.4/mirt/R/itemplot.R                        |   27 
 mirt-1.4/mirt/R/itemplot.internal.R               |   20 
 mirt-1.4/mirt/R/mirt-package.R                    |    6 
 mirt-1.4/mirt/R/mirt.R                            |  591 ++++++-----
 mirt-1.4/mirt/R/mirt.model.R                      |   34 
 mirt-1.4/mirt/R/mirtCluster.R                     |    6 
 mirt-1.4/mirt/R/mixedmirt.R                       |   77 -
 mirt-1.4/mirt/R/mod2values.R                      |   10 
 mirt-1.4/mirt/R/model.elements.R                  |    3 
 mirt-1.4/mirt/R/multipleGroup.R                   |  122 --
 mirt-1.4/mirt/R/personfit.R                       |   51 -
 mirt-1.4/mirt/R/probtrace.R                       |    3 
 mirt-1.4/mirt/R/randef.R                          |   14 
 mirt-1.4/mirt/R/read.mirt.R                       |    6 
 mirt-1.4/mirt/R/shinyItemplot.R                   |   10 
 mirt-1.4/mirt/R/simdata.R                         |   57 -
 mirt-1.4/mirt/R/testinfo.R                        |    2 
 mirt-1.4/mirt/R/utils.R                           |  143 ++
 mirt-1.4/mirt/R/wald.R                            |   31 
 mirt-1.4/mirt/README.md                           |    6 
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 mirt-1.4/mirt/man/ConfirmatoryClass-class.Rd      |  141 +-
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 mirt-1.4/mirt/man/LSAT7.Rd                        |   11 
 mirt-1.4/mirt/man/M2.Rd                           |   54 -
 mirt-1.4/mirt/man/MixedClass-class.Rd             |  127 +-
 mirt-1.4/mirt/man/MultipleGroupClass-class.Rd     |  138 +-
 mirt-1.4/mirt/man/PLCI.mirt.Rd                    |   25 
 mirt-1.4/mirt/man/SAT12.Rd                        |   24 
 mirt-1.4/mirt/man/Science.Rd                      |   12 
 mirt-1.4/mirt/man/anova-method.Rd                 |   15 
 mirt-1.4/mirt/man/bfactor.Rd                      |  153 +--
 mirt-1.4/mirt/man/boot.mirt.Rd                    |   17 
 mirt-1.4/mirt/man/coef-method.Rd                  |   43 
 mirt-1.4/mirt/man/createItem.Rd                   |   99 --
 mirt-1.4/mirt/man/deAyala.Rd                      |    7 
 mirt-1.4/mirt/man/expand.table.Rd                 |   15 
 mirt-1.4/mirt/man/expected.item.Rd                |   16 
 mirt-1.4/mirt/man/expected.test.Rd                |   22 
 mirt-1.4/mirt/man/extract.item.Rd                 |   20 
 mirt-1.4/mirt/man/fscores.Rd                      |  153 +--
 mirt-1.4/mirt/man/imputeMissing.Rd                |   14 
 mirt-1.4/mirt/man/itemfit.Rd                      |  133 +-
 mirt-1.4/mirt/man/iteminfo.Rd                     |   21 
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 mirt-1.4/mirt/man/key2binary.Rd                   |   17 
 mirt-1.4/mirt/man/mirt-package.Rd                 |   29 
 mirt-1.4/mirt/man/mirt.Rd                         | 1084 ++++++++++------------
 mirt-1.4/mirt/man/mirt.model.Rd                   |  129 +-
 mirt-1.4/mirt/man/mirtCluster.Rd                  |   25 
 mirt-1.4/mirt/man/mixedmirt.Rd                    |  197 +--
 mirt-1.4/mirt/man/mod2values.Rd                   |   11 
 mirt-1.4/mirt/man/multipleGroup.Rd                |  190 +--
 mirt-1.4/mirt/man/personfit.Rd                    |   56 -
 mirt-1.4/mirt/man/plot-method.Rd                  |  117 --
 mirt-1.4/mirt/man/print-method.Rd                 |    6 
 mirt-1.4/mirt/man/probtrace.Rd                    |   13 
 mirt-1.4/mirt/man/randef.Rd                       |   15 
 mirt-1.4/mirt/man/read.mirt.Rd                    |   14 
 mirt-1.4/mirt/man/residuals-method.Rd             |   86 -
 mirt-1.4/mirt/man/show-method.Rd                  |    6 
 mirt-1.4/mirt/man/simdata.Rd                      |  125 +-
 mirt-1.4/mirt/man/summary-method.Rd               |   43 
 mirt-1.4/mirt/man/testinfo.Rd                     |   15 
 mirt-1.4/mirt/man/wald.Rd                         |   39 
 mirt-1.4/mirt/src/Estep.cpp                       |   18 
 mirt-1.4/mirt/src/Estep.h                         |    4 
 mirt-1.4/mirt/src/Misc.cpp                        |  112 ++
 mirt-1.4/mirt/src/dpars.cpp                       |    3 
 mirt-1.4/mirt/tests/tests/test-01-mirtOne.R       |   26 
 mirt-1.4/mirt/tests/tests/test-02-mirtTwo.R       |   52 -
 mirt-1.4/mirt/tests/tests/test-03-bfactor.R       |    8 
 mirt-1.4/mirt/tests/tests/test-04-multipleGroup.R |   24 
 mirt-1.4/mirt/tests/tests/test-05-confmirtOne.R   |   12 
 mirt-1.4/mirt/tests/tests/test-06-confmirtTwo.R   |   10 
 mirt-1.4/mirt/tests/tests/test-07-mixedmirt.R     |   36 
 mirt-1.4/mirt/tests/tests/test-10-extras.R        |   26 
 mirt-1.4/mirt/vignettes                           |only
 115 files changed, 4231 insertions(+), 3944 deletions(-)

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Package GPvam updated to version 3.0-2 with previous version 3.0-1 dated 2014-01-31

Title: Maximum Likelihood Estimation of Multiple Membership Mixed Models Used in Value-Added Modeling
Description: Maximum likelihood estimators are obtained via an EM algorithm
Author: Andrew Karl, Yan Yang, and Sharon Lohr
Maintainer: Andrew Karl

Diff between GPvam versions 3.0-1 dated 2014-01-31 and 3.0-2 dated 2014-06-22

 DESCRIPTION              |    8 ++++----
 MD5                      |   22 ++++++++++++----------
 NEWS                     |   17 +++++++++++++++--
 R/GP.csh.R               |    4 ++--
 R/GP.un.R                |    5 ++---
 R/GPvam.R                |    2 +-
 R/VP.CP.ZP.un.r          |    4 ++--
 R/plot.GPvam.R           |    8 ++++----
 R/rGP.un.R               |    6 +++---
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 13 files changed, 56 insertions(+), 36 deletions(-)

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Package TAHMMAnnot (with last version 2.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2013-01-08 2.0
2011-06-15 1.0

Permanent link
Package HMMmix (with last version 1.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2013-01-08 1.0

Permanent link
Package wethepeople (with last version 0.6.1) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2013-06-24 0.6.1
2013-06-04 0.5
2013-05-01 0.4
2013-03-03 0.2

Permanent link
Package MultiChIPmixHMM (with last version 5.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2013-07-19 5.0
2013-06-14 4.0
2013-02-04 3.0
2013-01-08 2.0
2012-06-27 1.0

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Package PracTools updated to version 0.0-2 with previous version 0.0-1 dated 2013-02-04

Title: Tools for Designing and Weighting Survey Samples
Description: PracTools contains functions for sample size calculation for survey samples using stratified or clustered one-, two-, and three-stage sample designs. Other functions compute variance components for multistage designs and sample sizes in two-phase designs. A number of example datasets are included.
Author: Richard Valliant, Jill A. Dever, Frauke Kreuter
Maintainer: Richard Valliant

Diff between PracTools versions 0.0-1 dated 2013-02-04 and 0.0-2 dated 2014-06-22

 DESCRIPTION           |   17 +++++++----------
 MD5                   |   30 ++++++++++++++++++------------
 NAMESPACE             |    3 ++-
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 R/CVcalc3.R           |only
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 R/strAlloc.R          |   42 ++++++++++++++++++++++++++++++------------
 data/Domainy1y2.RData |binary
 data/MDarea.pop.RData |binary
 data/hospital.RData   |binary
 data/labor.RData      |binary
 data/nhis.RData       |binary
 data/nhis.large.RData |binary
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 data/smho98.RData     |binary
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 19 files changed, 66 insertions(+), 47 deletions(-)

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Package pbdNCDF4 updated to version 0.1-4 with previous version 0.1-3 dated 2014-06-15

Title: Programming with Big Data -- Interface to Parallel Unidata NetCDF4 Format Data Files
Description: This package adds collective parallel read and write capability to the R package ncdf4 version 1.8. Typical use is as a parallel NetCDF4 file reader in SPMD style programming. Each R process reads and writes its own data in a synchronized collective mode, resulting in faster parallel performance. Performance improvement is conditional on a parallel file system.
Author: Pragneshkumar Patel [aut, cre], George Ostrouchov [aut], Wei-Chen Chen [aut], Drew Schmidt [aut], David Pierce [aut]
Maintainer: Pragneshkumar Patel

Diff between pbdNCDF4 versions 0.1-3 dated 2014-06-15 and 0.1-4 dated 2014-06-22

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 pbdNCDF4-0.1-4/pbdNCDF4/MD5                                   |   28 ++++------
 pbdNCDF4-0.1-4/pbdNCDF4/README                                |    4 -
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 pbdNCDF4-0.1-4/pbdNCDF4/configure                             |    1 
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 17 files changed, 43 insertions(+), 28 deletions(-)

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New package eegAnalysis with initial version 0.0
Package: eegAnalysis
Version: 0.0
Date: 2014-04-01
Title: Tools for analysis and classification of electroencephalography (EEG) data.
Author: Murilo Coutinho Silva (University of Brasilia, Brazil), George Freitas von Borries (University of Brasilia, Brazil)
Maintainer: Murilo Coutinho Silva
Depends: R (>= 3.0.0), e1071 (>= 1.6), wmtsa (>= 2.0-0) , fields (>= 6.9.1), splus2R (>= 1.2-0)
Description: Package with tools for classification of electroencephalography (EEG) data. Feature extraction techniques such as Fourier Transform and Continuous Wavelet Transform (CWT) are available. Support Vector Machines (SVM) can be used to classify the extracted features. An algorithm using Analysis of Variance (ANOVA), False Discovery Rate (FDR), and SVM is available to feature selection. Additionally, the package contains functions to plot data and features.
License: GPL (>= 2)
Packaged: 2014-06-22 10:37:51 UTC; murilocoutinho
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-06-22 15:48:01

More information about eegAnalysis at CRAN
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Package bayescount updated to version 0.9.9-2 with previous version 0.9.9-1 dated 2009-11-24

Title: Power calculations and Bayesian analysis of count distributions and FECRT data using MCMC
Description: A set of functions to allow analysis of count data (such as faecal egg count data) using Bayesian MCMC methods. Returns information on the possible values for mean count, coefficient of variation and zero inflation (true prevalence) present in the data. A complete faecal egg count reduction test (FECRT) model is implemented, which returns inference on the true efficacy of the drug from the pre and post treatment data provided, using non-parametric bootstrapping as well as using Bayesian MCMC. Functions to perform power analyses for faecal egg counts (including FECRT) are also provided. Requires Just Another Gibbs Sampler (JAGS) for most functions (except power analysis calculations), see: http://www-fis.iarc.fr/~martyn/software/jags/.
Author: Matthew Denwood
Maintainer: Matthew Denwood

Diff between bayescount versions 0.9.9-1 dated 2009-11-24 and 0.9.9-2 dated 2014-06-22

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 NAMESPACE                  |    6 ++++++
 R/bayescount.R             |   13 +------------
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 19 files changed, 60 insertions(+), 82 deletions(-)

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Package RsimMosaic updated to version 1.0.1 with previous version 1.0 dated 2014-06-21

Title: R Simple IMage Mosaic creation library
Description: RsimMosaic is a package for transforming an image into a mosaic. The mosaic composed from a set of smaller images (called tiles). The packaged additionally contains a very simple function for creating the tiles from a folder of images directly through R, without the need of any external code. At this moment only the JPEG format is supported by the package, either as input (image and tiles) or output (mosaic transformed image).
Author: Alberto Krone-Martins
Maintainer: Alberto Krone-Martins

Diff between RsimMosaic versions 1.0 dated 2014-06-21 and 1.0.1 dated 2014-06-22

 DESCRIPTION                          |    6 +++---
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 5 files changed, 10 insertions(+), 10 deletions(-)

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Package phenology updated to version 3.69 with previous version 3.63 dated 2014-04-07

Title: Tools to manage a parametric function that describes phenology
Description: Functions to fit and test the phenology of species based on counts.
Author: Marc Girondot
Maintainer: Marc Girondot

Diff between phenology versions 3.63 dated 2014-04-07 and 3.69 dated 2014-06-22

 DESCRIPTION                  |   12 +--
 MD5                          |  134 +++++++++++++++++++++++--------------------
 NAMESPACE                    |    8 ++
 NEWS                         |   18 +++++
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 man/result_Gratiot2.Rd       |   18 ++---
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 man/result_Gratiot_mcmc.Rd   |   15 ++--
 man/shift_sinusoid.Rd        |   12 +--
 man/summary.mcmcComposite.Rd |   11 +--
 man/summary.phenology.Rd     |    8 +-
 man/summary.phenologymap.Rd  |    8 +-
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 man/toggle_Min_PMin.Rd       |   12 +--
 73 files changed, 598 insertions(+), 656 deletions(-)

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Package hypergea updated to version 0.99.5 with previous version 0.99.4 dated 2014-06-20

Title: Hypergeometric tests
Description: Package to perform (exact) hypergeometric tests on IxJ and 2x2x2 contingency tables using parallelised C code
Author: Markus Boenn
Maintainer: Markus Boenn

Diff between hypergea versions 0.99.4 dated 2014-06-20 and 0.99.5 dated 2014-06-22

 DESCRIPTION             |    6 +++---
 MD5                     |    8 ++++----
 src/hypergeom_2x2x2.cpp |   22 +---------------------
 src/hypergeom_IxJ.cpp   |   33 +--------------------------------
 src/lfactorial.c        |    4 ++--
 5 files changed, 11 insertions(+), 62 deletions(-)

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Package support.CEs updated to version 0.3-2 with previous version 0.3-1 dated 2014-03-13

Title: Basic functions for supporting an implementation of choice experiments
Description: The support.CEs package provides seven basic functions that support an implementation of choice experiments.
Author: Hideo Aizaki
Maintainer: Hideo Aizaki

Diff between support.CEs versions 0.3-1 dated 2014-03-13 and 0.3-2 dated 2014-06-22

 DESCRIPTION                |   10 +++++-----
 MD5                        |    6 +++---
 NEWS                       |    3 +++
 man/support.CEs-package.Rd |    2 +-
 4 files changed, 12 insertions(+), 9 deletions(-)

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Package support.BWS updated to version 0.1-2 with previous version 0.1-1 dated 2014-03-13

Title: Basic functions for supporting an implementation of best-worst scaling
Description: This package provides three basic functions that support an implementation of object case (Case 1) best-worst scaling: one for converting a two-level orthogonal main-effect design/balanced incomplete block design into questions; one for creating a data set suitable for analysis; and one for calculating count-based scores.
Author: Hideo Aizaki
Maintainer: Hideo Aizaki

Diff between support.BWS versions 0.1-1 dated 2014-03-13 and 0.1-2 dated 2014-06-22

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Package mded updated to version 0.1-1 with previous version 0.1-0 dated 2012-06-27

Title: Measuring the difference between two empirical distributions
Description: The package provides a function for measuring the difference between two independent or non-independent empirical distributions and returning a significance level of the difference.
Author: Hideo Aizaki
Maintainer: Hideo Aizaki

Diff between mded versions 0.1-0 dated 2012-06-27 and 0.1-1 dated 2014-06-22

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Package transport updated to version 0.6-2 with previous version 0.6-1 dated 2014-05-30

Title: Optimal transport in various forms
Description: Solve optimal transport problems in statistics. Compute Wasserstein metrics (a.k.a. Kantorovitch, Fortet--Mourier, Mallows, Earth Mover's, or minimal L_p metrics), return the corresponding transference plans, and display them graphically. Objects that can be compared include grey-scale images, point patterns, and mass vectors.
Author: Dominic Schuhmacher with substantial contributions of code by Bjoern Baehre and Carsten Gottschlich
Maintainer: Dominic Schuhmacher

Diff between transport versions 0.6-1 dated 2014-05-30 and 0.6-2 dated 2014-06-22

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Package MultiLCIRT updated to version 2.7 with previous version 2.6 dated 2014-01-21

Title: Multidimensional latent class Item Response Theory models
Description: This package provides a flexible framework for the Item Response Theory analysis of dichotomous and ordinal polytomous outcomes under the assumption of multidimensionality and discreteness of the latent traits. The fitting algorithms allow for missing responses and for different item parameterizations and are based on the Expectation-Maximization paradigm. Individual covariates affecting the class weights may be included in the new version (since 2.1).
Author: Francesco Bartolucci, Silvia Bacci, Michela Gnaldi - University of Perugia (IT)
Maintainer: Francesco Bartolucci

Diff between MultiLCIRT versions 2.6 dated 2014-01-21 and 2.7 dated 2014-06-22

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 MultiLCIRT-2.7/MultiLCIRT/NAMESPACE                           |    1 
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 31 files changed, 465 insertions(+), 295 deletions(-)

More information about MultiLCIRT at CRAN
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