Sun, 21 Dec 2014

Package sysfonts updated to version 0.3 with previous version 0.2 dated 2014-02-23

Title: Loading System Fonts into R
Description: This package uses FreeType to load system fonts and Google Fonts (https://www.google.com/fonts) into R. It is supposed to support other packages like R2SWF and showtext.
Author: Yixuan Qiu and authors/contributors of the included fonts. See file AUTHORS for details.
Maintainer: Yixuan Qiu

Diff between sysfonts versions 0.2 dated 2014-02-23 and 0.3 dated 2014-12-21

 DESCRIPTION                 |   16 +++----
 MD5                         |   20 ++++-----
 NEWS                        |   15 +++++-
 R/font.R                    |   11 ++---
 R/google.R                  |   29 ++++++++-----
 man/font.add.Rd             |   96 +++++++++++++++++++++-----------------------
 man/font.add.google.Rd      |   36 +++++++---------
 man/font.families.Rd        |   21 +++++----
 man/font.families.google.Rd |   14 +++---
 man/font.files.Rd           |    9 ++--
 man/font.paths.Rd           |   31 +++++++-------
 11 files changed, 158 insertions(+), 140 deletions(-)

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Package graphicsQC updated to version 1.0-6 with previous version 1.0-5 dated 2014-02-24

Title: Quality Control for Graphics in R
Description: The package provides functions to generate graphics files, compare them with ``model'' files, and report the results.
Author: Stephen Gardiner and Paul Murrell
Maintainer: Paul Murrell

Diff between graphicsQC versions 1.0-5 dated 2014-02-24 and 1.0-6 dated 2014-12-21

 ChangeLog               |   73 +++++++++++++++++++++++++-----------------------
 DESCRIPTION             |    7 ++--
 MD5                     |    6 +--
 inst/doc/graphicsqc.pdf |binary
 4 files changed, 46 insertions(+), 40 deletions(-)

More information about graphicsQC at CRAN
Permanent link

Package depmix updated to version 0.9.13 with previous version 0.9.12 dated 2014-04-02

Title: Dependent Mixture Models
Description: Fit (multigroup) mixtures of latent Markov models on mixed categorical and continuous (timeseries) data. The Rdonlp2 package can optionally be used for optimization of the log-likelihood and is available from R-forge: https://r-forge.r-project.org/R/?group_id=156
Author: Ingmar Visser
Maintainer: Ingmar Visser

Diff between depmix versions 0.9.12 dated 2014-04-02 and 0.9.13 dated 2014-12-21

 DESCRIPTION               |   11 ++++++-----
 MD5                       |   10 +++++-----
 R/depmix.R                |    3 ++-
 data/discrimination.rda   |binary
 data/speed.rda            |binary
 inst/doc/depmix-intro.pdf |binary
 6 files changed, 13 insertions(+), 11 deletions(-)

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Package adabag updated to version 4.0 with previous version 3.2 dated 2013-08-16

Title: Applies Multiclass AdaBoost.M1, SAMME and Bagging
Description: It implements Freund and Schapire's Adaboost.M1 algorithm and Breiman's Bagging algorithm using classification trees as individual classifiers. Once these classifiers have been trained, they can be used to predict on new data. Also, cross validation estimation of the error can be done. Since version 2.0 the function "margins" is available to calculate the margins for these classifiers. Also a higher flexibility is achieved giving access to the "rpart.control" argument of "rpart". Four important new features were introduced on version 3.0, AdaBoost-SAMME (Zhu et al., 2009) is implemented and a new function "errorevol" shows the error of the ensembles as a function of the number of iterations. In addition, the ensembles can be pruned using the option "newmfinal" in the predict.bagging and predict.boosting functions and the posterior probability of each class for observations can be obtained. Version 3.1 modifies the relative importance measure to take into account the gain of the Gini index given by a variable in each tree and the weights of these trees. Version 4.0 includes the margin-based ordered aggregation for Bagging pruning (Guo and Boukir, 2013) and a function to auto prune the rpart tree. Moreover, three new plots are also available importanceplot, plot.errorevol and plot.margins.
Author: Alfaro, Esteban; Gamez, Matias and Garcia, Noelia; with contributions from Li Guo
Maintainer: Esteban Alfaro

Diff between adabag versions 3.2 dated 2013-08-16 and 4.0 dated 2014-12-21

 DESCRIPTION                           |   37 ++++++++------
 MD5                                   |   53 ++++++++++++++-------
 NAMESPACE                             |    6 +-
 R/Margin.vote.R                       |only
 R/MarginOrderedPruning.Bagging.R      |only
 R/OOBIndex.R                          |only
 R/adaboost.M1.R                       |   67 +++++++++++++++++---------
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 R/bagging.cv.R                        |    6 --
 R/boosting.cv.R                       |   10 +++-
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 R/errorevol.R                         |   20 ++++----
 R/importanceplot.R                    |only
 R/plot.errorevol.R                    |only
 R/plot.margins.R                      |only
 R/predict.bagging.R                   |   33 ++++++-------
 R/predict.boosting.R                  |   29 ++++++-----
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 R/select.R                            |only
 R/vote.bagging.R                      |only
 man/MarginOrderedPruning.Bagging.rd   |only
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 man/autoprune.rd                      |only
 man/bagging.Rd                        |   31 ++++--------
 man/bagging.cv.Rd                     |   17 +++---
 man/boosting.Rd                       |   32 ++----------
 man/boosting.cv.Rd                    |   20 +++-----
 man/errorevol.rd                      |   35 ++++++--------
 man/importanceplot.rd                 |only
 man/margins.Rd                        |   57 ++++------------------
 man/plot.errorevol.rd                 |only
 man/plot.margins.rd                   |only
 man/predict.bagging.Rd                |   14 -----
 man/predict.boosting.Rd               |   37 +++-----------
 36 files changed, 315 insertions(+), 344 deletions(-)

More information about adabag at CRAN
Permanent link

Package BH updated to version 1.55.0-1 with previous version 1.54.0-5 dated 2014-11-10

Title: Boost C++ Header Files
Description: Boost provides free peer-reviewed portable C++ source libraries. A large part of Boost is provided as C++ template code which is resolved entirely at compile-time without linking. This package aims to provide the most useful subset of Boost libraries for template use among CRAN package. By placing these libraries in this package, we offer a more efficient distribution system for CRAN as replication of this code in the sources of other packages is avoided.
Author: Dirk Eddelbuettel, John W. Emerson and Michael J. Kane
Maintainer: Dirk Eddelbuettel

Diff between BH versions 1.54.0-5 dated 2014-11-10 and 1.55.0-1 dated 2014-12-21

 BH-1.55.0-1/BH/ChangeLog                                                                                   |   15 
 BH-1.55.0-1/BH/DESCRIPTION                                                                                 |   24 
 BH-1.55.0-1/BH/MD5                                                                                         | 1788 ++++--
 BH-1.55.0-1/BH/inst/include/boost/accumulators/numeric/functional.hpp                                      |   24 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/numeric/functional/valarray.hpp                             |    4 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/numeric/functional/vector.hpp                               |    2 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/numeric/functional_fwd.hpp                                  |    8 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/covariance.hpp                                   |    8 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/density.hpp                                      |   14 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/error_of_mean.hpp                                |    4 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/extended_p_square.hpp                            |    2 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/extended_p_square_quantile.hpp                   |   14 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/kurtosis.hpp                                     |    4 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/mean.hpp                                         |   10 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/median.hpp                                       |   12 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/moment.hpp                                       |    4 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/p_square_cumul_dist.hpp                          |    6 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/p_square_quantile.hpp                            |    4 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/peaks_over_threshold.hpp                         |   26 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/pot_quantile.hpp                                 |    2 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/pot_tail_mean.hpp                                |    2 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/skewness.hpp                                     |    4 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/tail_mean.hpp                                    |   10 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/tail_variate_means.hpp                           |    2 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/variance.hpp                                     |   10 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_covariance.hpp                          |    8 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_density.hpp                             |   14 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_extended_p_square.hpp                   |    2 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_kurtosis.hpp                            |    4 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_mean.hpp                                |   10 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_median.hpp                              |   12 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_moment.hpp                              |    4 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_p_square_cumul_dist.hpp                 |    6 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_p_square_quantile.hpp                   |    2 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_peaks_over_threshold.hpp                |   28 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_skewness.hpp                            |    4 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_tail_mean.hpp                           |    6 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_tail_quantile.hpp                       |    2 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_tail_variate_means.hpp                  |    4 
 BH-1.55.0-1/BH/inst/include/boost/accumulators/statistics/weighted_variance.hpp                            |   10 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/cxx14/equal.hpp                                                |   82 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/cxx14/mismatch.hpp                                             |   19 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/concept.hpp                                             |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/detail/find_format.hpp                                  |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/detail/find_format_all.hpp                              |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/detail/find_format_store.hpp                            |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/detail/find_iterator.hpp                                |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/detail/finder.hpp                                       |    7 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/detail/finder_regex.hpp                                 |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/detail/formatter.hpp                                    |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/detail/util.hpp                                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/erase.hpp                                               |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/find.hpp                                                |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/find_format.hpp                                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/find_iterator.hpp                                       |    9 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/finder.hpp                                              |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/formatter.hpp                                           |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/iter_find.hpp                                           |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/predicate.hpp                                           |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/regex.hpp                                               |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/replace.hpp                                             |    2 
 BH-1.55.0-1/BH/inst/include/boost/algorithm/string/trim.hpp                                                |    2 
 BH-1.55.0-1/BH/inst/include/boost/any.hpp                                                                  |   65 
 BH-1.55.0-1/BH/inst/include/boost/assert.hpp                                                               |   31 
 BH-1.55.0-1/BH/inst/include/boost/atomic.hpp                                                               |    2 
 BH-1.55.0-1/BH/inst/include/boost/atomic/atomic.hpp                                                        |   53 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/base.hpp                                                   |   70 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/cas128strong.hpp                                           |only
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/cas32strong.hpp                                            |  114 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/cas32weak.hpp                                              |  162 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/cas64strong.hpp                                            |  223 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/config.hpp                                                 |   40 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/gcc-alpha.hpp                                              |    2 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/gcc-armv6plus.hpp                                          |   83 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/gcc-atomic.hpp                                             |only
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/gcc-cas.hpp                                                |   67 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/gcc-ppc.hpp                                                |  280 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/gcc-sparcv9.hpp                                            |  246 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/gcc-x86.hpp                                                |  573 +-
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/interlocked.hpp                                            |    9 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/link.hpp                                                   |only
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/linux-arm.hpp                                              |    3 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/lockpool.hpp                                               |   34 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/platform.hpp                                               |   15 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/type-classification.hpp                                    |    4 
 BH-1.55.0-1/BH/inst/include/boost/atomic/detail/windows.hpp                                                |  585 +-
 BH-1.55.0-1/BH/inst/include/boost/chrono.hpp                                                               |only
 BH-1.55.0-1/BH/inst/include/boost/chrono/chrono_io.hpp                                                     |only
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 BH-1.55.0-1/BH/inst/include/boost/chrono/detail/inlined/thread_clock.hpp                                   |only
 BH-1.55.0-1/BH/inst/include/boost/chrono/detail/inlined/win/chrono.hpp                                     |   53 
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 BH-1.55.0-1/BH/inst/include/boost/chrono/detail/scan_keyword.hpp                                           |only
 BH-1.55.0-1/BH/inst/include/boost/chrono/floor.hpp                                                         |only
 BH-1.55.0-1/BH/inst/include/boost/chrono/include.hpp                                                       |only
 BH-1.55.0-1/BH/inst/include/boost/chrono/io                                                                |only
 BH-1.55.0-1/BH/inst/include/boost/chrono/io_v1                                                             |only
 BH-1.55.0-1/BH/inst/include/boost/chrono/process_cpu_clocks.hpp                                            |only
 BH-1.55.0-1/BH/inst/include/boost/chrono/round.hpp                                                         |only
 BH-1.55.0-1/BH/inst/include/boost/chrono/thread_clock.hpp                                                  |only
 BH-1.55.0-1/BH/inst/include/boost/circular_buffer/base.hpp                                                 |  724 +-
 BH-1.55.0-1/BH/inst/include/boost/circular_buffer/details.hpp                                              |   98 
 BH-1.55.0-1/BH/inst/include/boost/circular_buffer/space_optimized.hpp                                      |  481 +
 BH-1.55.0-1/BH/inst/include/boost/config.hpp                                                               |   17 
 BH-1.55.0-1/BH/inst/include/boost/config/auto_link.hpp                                                     |    8 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/borland.hpp                                              |   11 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/clang.hpp                                                |   44 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/codegear.hpp                                             |   11 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/common_edg.hpp                                           |   26 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/cray.hpp                                                 |    5 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/digitalmars.hpp                                          |   25 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/gcc.hpp                                                  |  107 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/gcc_xml.hpp                                              |   13 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/hp_acc.hpp                                               |   21 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/intel.hpp                                                |   81 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/metrowerks.hpp                                           |   23 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/mpw.hpp                                                  |   11 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/nvcc.hpp                                                 |   12 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/pathscale.hpp                                            |    8 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/pgi.hpp                                                  |    6 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/sunpro_cc.hpp                                            |   23 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/vacpp.hpp                                                |   28 
 BH-1.55.0-1/BH/inst/include/boost/config/compiler/visualc.hpp                                              |  136 
 BH-1.55.0-1/BH/inst/include/boost/config/select_compiler_config.hpp                                        |   10 
 BH-1.55.0-1/BH/inst/include/boost/config/stdlib/dinkumware.hpp                                             |    8 
 BH-1.55.0-1/BH/inst/include/boost/config/suffix.hpp                                                        |  166 
 BH-1.55.0-1/BH/inst/include/boost/container/allocator_traits.hpp                                           |    7 
 BH-1.55.0-1/BH/inst/include/boost/container/container_fwd.hpp                                              |   19 
 BH-1.55.0-1/BH/inst/include/boost/container/deque.hpp                                                      |  576 --
 BH-1.55.0-1/BH/inst/include/boost/container/detail/adaptive_node_pool_impl.hpp                             |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/advanced_insert_int.hpp                                 |   32 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/algorithms.hpp                                          |   14 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/allocation_type.hpp                                     |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/allocator_version_traits.hpp                            |   10 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/config_begin.hpp                                        |    1 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/destroyers.hpp                                          |   13 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/flat_tree.hpp                                           |  263 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/iterators.hpp                                           |  257 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/memory_util.hpp                                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/mpl.hpp                                                 |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/multiallocation_chain.hpp                               |    6 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/node_alloc_holder.hpp                                   |   55 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/node_pool_impl.hpp                                      |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/pair.hpp                                                |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/pool_common.hpp                                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/preprocessor.hpp                                        |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/transform_iterator.hpp                                  |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/tree.hpp                                                |  353 -
 BH-1.55.0-1/BH/inst/include/boost/container/detail/type_traits.hpp                                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/utilities.hpp                                           |   43 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/value_init.hpp                                          |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/variadic_templates_tools.hpp                            |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/detail/workaround.hpp                                          |    6 
 BH-1.55.0-1/BH/inst/include/boost/container/flat_map.hpp                                                   |   41 
 BH-1.55.0-1/BH/inst/include/boost/container/flat_set.hpp                                                   |   46 
 BH-1.55.0-1/BH/inst/include/boost/container/list.hpp                                                       |  125 
 BH-1.55.0-1/BH/inst/include/boost/container/map.hpp                                                        |   32 
 BH-1.55.0-1/BH/inst/include/boost/container/scoped_allocator.hpp                                           |  107 
 BH-1.55.0-1/BH/inst/include/boost/container/scoped_allocator_fwd.hpp                                       |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/set.hpp                                                        |   26 
 BH-1.55.0-1/BH/inst/include/boost/container/slist.hpp                                                      |  113 
 BH-1.55.0-1/BH/inst/include/boost/container/stable_vector.hpp                                              |  228 
 BH-1.55.0-1/BH/inst/include/boost/container/static_vector.hpp                                              |   48 
 BH-1.55.0-1/BH/inst/include/boost/container/string.hpp                                                     |   24 
 BH-1.55.0-1/BH/inst/include/boost/container/throw_exception.hpp                                            |    2 
 BH-1.55.0-1/BH/inst/include/boost/container/vector.hpp                                                     |  255 
 BH-1.55.0-1/BH/inst/include/boost/cstdint.hpp                                                              |  219 
 BH-1.55.0-1/BH/inst/include/boost/date_time/format_date_parser.hpp                                         |   14 
 BH-1.55.0-1/BH/inst/include/boost/date_time/local_time/custom_time_zone.hpp                                |    4 
 BH-1.55.0-1/BH/inst/include/boost/date_time/strings_from_facet.hpp                                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/date_time/time_facet.hpp                                                 |    6 
 BH-1.55.0-1/BH/inst/include/boost/date_time/tz_db_base.hpp                                                 |    2 
 BH-1.55.0-1/BH/inst/include/boost/detail/endian.hpp                                                        |  121 
 BH-1.55.0-1/BH/inst/include/boost/detail/interlocked.hpp                                                   |   72 
 BH-1.55.0-1/BH/inst/include/boost/detail/winapi                                                            |only
 BH-1.55.0-1/BH/inst/include/boost/exception/detail/clone_current_exception.hpp                             |   11 
 BH-1.55.0-1/BH/inst/include/boost/exception/detail/exception_ptr.hpp                                       |    7 
 BH-1.55.0-1/BH/inst/include/boost/exception/detail/type_info.hpp                                           |   10 
 BH-1.55.0-1/BH/inst/include/boost/exception/diagnostic_information.hpp                                     |    8 
 BH-1.55.0-1/BH/inst/include/boost/function_types/function_arity.hpp                                        |only
 BH-1.55.0-1/BH/inst/include/boost/functional/hash/detail/hash_float.hpp                                    |   42 
 BH-1.55.0-1/BH/inst/include/boost/functional/hash/hash.hpp                                                 |   11 
 BH-1.55.0-1/BH/inst/include/boost/fusion/adapted/struct/detail/define_struct_inline.hpp                    |  133 
 BH-1.55.0-1/BH/inst/include/boost/fusion/algorithm/auxiliary/copy.hpp                                      |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/deque.hpp                                               |    1 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/deque/back_extended_deque.hpp                           |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/deque/convert.hpp                                       |   38 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/deque/deque.hpp                                         |   23 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/deque/deque_fwd.hpp                                     |    8 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/deque/detail/build_deque.hpp                            |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/deque/detail/convert_impl.hpp                           |   17 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/deque/detail/cpp03                                      |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/deque/detail/deque_keyed_values.hpp                     |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/deque/detail/keyed_element.hpp                          |   10 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/deque/front_extended_deque.hpp                          |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/generation/cons_tie.hpp                                 |    4 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/generation/deque_tie.hpp                                |  100 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/generation/detail/pp_deque_tie.hpp                      |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/generation/detail/pp_make_deque.hpp                     |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/generation/detail/pp_make_map.hpp                       |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/generation/detail/pp_map_tie.hpp                        |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/generation/make_cons.hpp                                |    4 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/generation/make_deque.hpp                               |  113 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/generation/make_map.hpp                                 |  142 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/generation/map_tie.hpp                                  |  136 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/cons.hpp                                           |    8 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/cons_fwd.hpp                                       |    7 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/cons_iterator.hpp                                  |   22 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/begin_impl.hpp                              |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/build_cons.hpp                              |    6 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/empty_impl.hpp                              |    4 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/end_impl.hpp                                |    4 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/list_to_cons.hpp                            |    4 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/preprocessed/list10.hpp                     |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/preprocessed/list20.hpp                     |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/preprocessed/list30.hpp                     |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/preprocessed/list40.hpp                     |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/preprocessed/list50.hpp                     |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/preprocessed/list_to_cons10.hpp             |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/preprocessed/list_to_cons20.hpp             |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/preprocessed/list_to_cons30.hpp             |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/preprocessed/list_to_cons40.hpp             |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/preprocessed/list_to_cons50.hpp             |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/detail/reverse_cons.hpp                            |    6 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/list/list.hpp                                           |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map.hpp                                                 |    1 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/convert.hpp                                         |   64 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/detail/at_impl.hpp                                  |   40 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/detail/at_key_impl.hpp                              |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/detail/begin_impl.hpp                               |   51 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/detail/build_map.hpp                                |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/detail/cpp03                                        |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/detail/end_impl.hpp                                 |   51 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/detail/map_impl.hpp                                 |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/detail/value_at_impl.hpp                            |   19 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/detail/value_at_key_impl.hpp                        |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/map.hpp                                             |  143 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/map_fwd.hpp                                         |   50 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/map/map_iterator.hpp                                    |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/vector/detail/vector_forward_ctor.hpp                   |   11 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/vector/detail/vector_n.hpp                              |   87 
 BH-1.55.0-1/BH/inst/include/boost/fusion/container/vector/vector.hpp                                       |   11 
 BH-1.55.0-1/BH/inst/include/boost/fusion/include/adapt_struct_named.hpp                                    |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/include/tag_of.hpp                                                |only
 BH-1.55.0-1/BH/inst/include/boost/fusion/iterator/detail/segmented_equal_to.hpp                            |    4 
 BH-1.55.0-1/BH/inst/include/boost/fusion/iterator/detail/segmented_iterator.hpp                            |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/iterator/detail/segmented_next_impl.hpp                           |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/sequence/intrinsic/detail/segmented_begin.hpp                     |    8 
 BH-1.55.0-1/BH/inst/include/boost/fusion/sequence/intrinsic/detail/segmented_end.hpp                       |    6 
 BH-1.55.0-1/BH/inst/include/boost/fusion/support/deduce_sequence.hpp                                       |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/support/pair.hpp                                                  |   40 
 BH-1.55.0-1/BH/inst/include/boost/fusion/support/segmented_fold_until.hpp                                  |    8 
 BH-1.55.0-1/BH/inst/include/boost/fusion/view/detail/strictest_traversal.hpp                               |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/view/iterator_range/detail/segmented_iterator_range.hpp           |    8 
 BH-1.55.0-1/BH/inst/include/boost/fusion/view/nview/nview.hpp                                              |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/view/zip_view/detail/value_at_impl.hpp                            |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/view/zip_view/detail/value_of_impl.hpp                            |    2 
 BH-1.55.0-1/BH/inst/include/boost/fusion/view/zip_view/zip_view.hpp                                        |    4 
 BH-1.55.0-1/BH/inst/include/boost/geometry                                                                 |only
 BH-1.55.0-1/BH/inst/include/boost/geometry.hpp                                                             |only
 BH-1.55.0-1/BH/inst/include/boost/graph/accounting.hpp                                                     |only
 BH-1.55.0-1/BH/inst/include/boost/graph/breadth_first_search.hpp                                           |   19 
 BH-1.55.0-1/BH/inst/include/boost/graph/detail/adjacency_list.hpp                                          |    1 
 BH-1.55.0-1/BH/inst/include/boost/graph/dijkstra_shortest_paths.hpp                                        |only
 BH-1.55.0-1/BH/inst/include/boost/graph/distributed/breadth_first_search.hpp                               |    3 
 BH-1.55.0-1/BH/inst/include/boost/graph/distributed/concepts.hpp                                           |    4 
 BH-1.55.0-1/BH/inst/include/boost/graph/distributed/crauser_et_al_shortest_paths.hpp                       |only
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 BH-1.55.0-1/BH/inst/include/boost/graph/distributed/dijkstra_shortest_paths.hpp                            |only
 BH-1.55.0-1/BH/inst/include/boost/graph/distributed/eager_dijkstra_shortest_paths.hpp                      |only
 BH-1.55.0-1/BH/inst/include/boost/graph/exception.hpp                                                      |only
 BH-1.55.0-1/BH/inst/include/boost/graph/graph_traits.hpp                                                   |    8 
 BH-1.55.0-1/BH/inst/include/boost/graph/named_function_params.hpp                                          |    1 
 BH-1.55.0-1/BH/inst/include/boost/graph/relax.hpp                                                          |only
 BH-1.55.0-1/BH/inst/include/boost/graph/visitors.hpp                                                       |    3 
 BH-1.55.0-1/BH/inst/include/boost/heap/d_ary_heap.hpp                                                      |    2 
 BH-1.55.0-1/BH/inst/include/boost/heap/detail/heap_node.hpp                                                |    1 
 BH-1.55.0-1/BH/inst/include/boost/heap/detail/mutable_heap.hpp                                             |   14 
 BH-1.55.0-1/BH/inst/include/boost/integer_traits.hpp                                                       |    2 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/detail/atomic.hpp                                           |    2 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/detail/intermodule_singleton_common.hpp                     |    9 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/detail/managed_open_or_create_impl.hpp                      |   10 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/detail/os_thread_functions.hpp                              |  377 +
 BH-1.55.0-1/BH/inst/include/boost/interprocess/detail/robust_emulation.hpp                                 |   16 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/detail/tmp_dir_helpers.hpp                                  |    2 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/detail/win32_api.hpp                                        |  119 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/detail/windows_intermodule_singleton.hpp                    |    5 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/detail/workaround.hpp                                       |   21 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/errors.hpp                                                  |    2 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/segment_manager.hpp                                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/smart_ptr/detail/sp_counted_impl.hpp                        |    9 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/streams/bufferstream.hpp                                    |  137 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/streams/vectorstream.hpp                                    |  113 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/sync/file_lock.hpp                                          |    8 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/sync/named_mutex.hpp                                        |   10 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/sync/posix/mutex.hpp                                        |    4 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/sync/posix/recursive_mutex.hpp                              |    5 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/sync/posix/semaphore_wrapper.hpp                            |    4 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/sync/spin/condition.hpp                                     |   13 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/sync/spin/mutex.hpp                                         |    7 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/sync/spin/semaphore.hpp                                     |    9 
 BH-1.55.0-1/BH/inst/include/boost/interprocess/sync/spin/wait.hpp                                          |only
 BH-1.55.0-1/BH/inst/include/boost/intrusive/any_hook.hpp                                                   |   27 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/avl_set.hpp                                                    | 2682 +--------
 BH-1.55.0-1/BH/inst/include/boost/intrusive/avl_set_hook.hpp                                               |   14 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/avltree.hpp                                                    | 1860 +-----
 BH-1.55.0-1/BH/inst/include/boost/intrusive/avltree_algorithms.hpp                                         |  665 --
 BH-1.55.0-1/BH/inst/include/boost/intrusive/bs_set.hpp                                                     |only
 BH-1.55.0-1/BH/inst/include/boost/intrusive/bs_set_hook.hpp                                                |   24 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/bstree.hpp                                                     |only
 BH-1.55.0-1/BH/inst/include/boost/intrusive/bstree_algorithms.hpp                                          |only
 BH-1.55.0-1/BH/inst/include/boost/intrusive/circular_list_algorithms.hpp                                   |   13 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/circular_slist_algorithms.hpp                                  |   13 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/derivation_value_traits.hpp                                    |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/any_node_and_algorithms.hpp                             |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/assert.hpp                                              |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/avltree_node.hpp                                        |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/clear_on_destructor_base.hpp                            |    8 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/common_slist_algorithms.hpp                             |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/config_begin.hpp                                        |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/config_end.hpp                                          |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/ebo_functor_holder.hpp                                  |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/function_detector.hpp                                   |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/generic_hook.hpp                                        |  167 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/has_member_function_callable_with.hpp                   |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/hashtable_node.hpp                                      |  160 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/is_stateful_value_traits.hpp                            |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/list_node.hpp                                           |   92 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/memory_util.hpp                                         |    6 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/mpl.hpp                                                 |   21 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/parent_from_member.hpp                                  |   28 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/preprocessor.hpp                                        |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/rbtree_node.hpp                                         |    4 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/slist_node.hpp                                          |   88 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/transform_iterator.hpp                                  |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/tree_node.hpp                                           |   83 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/utilities.hpp                                           |  696 +-
 BH-1.55.0-1/BH/inst/include/boost/intrusive/detail/workaround.hpp                                          |    6 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/hashtable.hpp                                                  | 1839 +++---
 BH-1.55.0-1/BH/inst/include/boost/intrusive/intrusive_fwd.hpp                                              |  360 -
 BH-1.55.0-1/BH/inst/include/boost/intrusive/linear_slist_algorithms.hpp                                    |   13 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/link_mode.hpp                                                  |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/list.hpp                                                       |  134 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/list_hook.hpp                                                  |   14 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/member_value_traits.hpp                                        |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/options.hpp                                                    |  144 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/parent_from_member.hpp                                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/pointer_plus_bits.hpp                                          |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/pointer_traits.hpp                                             |    6 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/priority_compare.hpp                                           |   17 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/rbtree.hpp                                                     | 1825 +-----
 BH-1.55.0-1/BH/inst/include/boost/intrusive/rbtree_algorithms.hpp                                          |  721 --
 BH-1.55.0-1/BH/inst/include/boost/intrusive/set.hpp                                                        | 2621 +--------
 BH-1.55.0-1/BH/inst/include/boost/intrusive/set_hook.hpp                                                   |   14 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/sg_set.hpp                                                     | 2735 +--------
 BH-1.55.0-1/BH/inst/include/boost/intrusive/sgtree.hpp                                                     | 1783 +-----
 BH-1.55.0-1/BH/inst/include/boost/intrusive/sgtree_algorithms.hpp                                          |  735 --
 BH-1.55.0-1/BH/inst/include/boost/intrusive/slist.hpp                                                      |  188 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/slist_hook.hpp                                                 |   14 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/splay_set.hpp                                                  | 2861 ++--------
 BH-1.55.0-1/BH/inst/include/boost/intrusive/splay_set_hook.hpp                                             |   68 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/splaytree.hpp                                                  | 1867 +-----
 BH-1.55.0-1/BH/inst/include/boost/intrusive/splaytree_algorithms.hpp                                       |  849 --
 BH-1.55.0-1/BH/inst/include/boost/intrusive/treap.hpp                                                      | 1335 +---
 BH-1.55.0-1/BH/inst/include/boost/intrusive/treap_algorithms.hpp                                           |  479 -
 BH-1.55.0-1/BH/inst/include/boost/intrusive/treap_set.hpp                                                  | 2626 +--------
 BH-1.55.0-1/BH/inst/include/boost/intrusive/trivial_value_traits.hpp                                       |    2 
 BH-1.55.0-1/BH/inst/include/boost/intrusive/unordered_set.hpp                                              |  383 -
 BH-1.55.0-1/BH/inst/include/boost/intrusive/unordered_set_hook.hpp                                         |   20 
 BH-1.55.0-1/BH/inst/include/boost/lexical_cast.hpp                                                         |   49 
 BH-1.55.0-1/BH/inst/include/boost/math/bindings/mpfr.hpp                                                   |   24 
 BH-1.55.0-1/BH/inst/include/boost/math/constants/constants.hpp                                             |   16 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/beta.hpp                                              |    2 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/binomial.hpp                                          |   10 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/cauchy.hpp                                            |    8 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/detail/common_error_handling.hpp                      |    7 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/detail/inv_discrete_quantile.hpp                      |  158 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/exponential.hpp                                       |    6 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/gamma.hpp                                             |    6 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/hypergeometric.hpp                                    |    6 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/inverse_chi_squared.hpp                               |    2 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/inverse_gamma.hpp                                     |    6 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/inverse_gaussian.hpp                                  |   10 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/laplace.hpp                                           |    4 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/logistic.hpp                                          |   42 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/lognormal.hpp                                         |    8 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/negative_binomial.hpp                                 |    4 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/non_central_chi_squared.hpp                           |   45 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/non_central_t.hpp                                     |   22 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/normal.hpp                                            |   34 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/pareto.hpp                                            |    6 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/poisson.hpp                                           |   68 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/rayleigh.hpp                                          |    6 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/skew_normal.hpp                                       |   10 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/students_t.hpp                                        |   12 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/triangular.hpp                                        |    6 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/uniform.hpp                                           |    6 
 BH-1.55.0-1/BH/inst/include/boost/math/distributions/weibull.hpp                                           |    6 
 BH-1.55.0-1/BH/inst/include/boost/math/policies/error_handling.hpp                                         |   31 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/airy.hpp                                          |    8 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/bessel.hpp                                        |   14 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/beta.hpp                                          |   45 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/detail/bessel_ik.hpp                              |   17 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/detail/bessel_jy_series.hpp                       |    6 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/detail/ibeta_inverse.hpp                          |   73 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/detail/t_distribution_inv.hpp                     |   19 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/ellint_1.hpp                                      |    7 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/ellint_2.hpp                                      |    7 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/ellint_3.hpp                                      |    7 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/ellint_rj.hpp                                     |    2 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/fpclassify.hpp                                    |    8 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/gamma.hpp                                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/math_fwd.hpp                                      |    4 
 BH-1.55.0-1/BH/inst/include/boost/math/special_functions/sign.hpp                                          |   10 
 BH-1.55.0-1/BH/inst/include/boost/math/tools/big_constant.hpp                                              |    4 
 BH-1.55.0-1/BH/inst/include/boost/math/tools/fraction.hpp                                                  |    2 
 BH-1.55.0-1/BH/inst/include/boost/math/tools/promotion.hpp                                                 |   27 
 BH-1.55.0-1/BH/inst/include/boost/math/tools/tuple.hpp                                                     |    2 
 BH-1.55.0-1/BH/inst/include/boost/move/algorithm.hpp                                                       |    1 
 BH-1.55.0-1/BH/inst/include/boost/move/core.hpp                                                            |    7 
 BH-1.55.0-1/BH/inst/include/boost/move/detail/move_helpers.hpp                                             |   26 
 BH-1.55.0-1/BH/inst/include/boost/move/traits.hpp                                                          |   12 
 BH-1.55.0-1/BH/inst/include/boost/move/utility.hpp                                                         |   22 
 BH-1.55.0-1/BH/inst/include/boost/mpi/collectives.hpp                                                      |   30 
 BH-1.55.0-1/BH/inst/include/boost/mpi/collectives/all_reduce.hpp                                           |   31 
 BH-1.55.0-1/BH/inst/include/boost/mpi/collectives/gather.hpp                                               |    7 
 BH-1.55.0-1/BH/inst/include/boost/mpi/collectives/reduce.hpp                                               |   19 
 BH-1.55.0-1/BH/inst/include/boost/mpi/communicator.hpp                                                     |    3 
 BH-1.55.0-1/BH/inst/include/boost/mpi/config.hpp                                                           |    7 
 BH-1.55.0-1/BH/inst/include/boost/mpi/detail/binary_buffer_iprimitive.hpp                                  |    4 
 BH-1.55.0-1/BH/inst/include/boost/mpi/detail/forward_skeleton_iarchive.hpp                                 |    1 
 BH-1.55.0-1/BH/inst/include/boost/mpi/detail/ignore_iprimitive.hpp                                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/mpi/detail/ignore_oprimitive.hpp                                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/mpi/detail/mpi_datatype_primitive.hpp                                    |   27 
 BH-1.55.0-1/BH/inst/include/boost/mpi/detail/packed_iprimitive.hpp                                         |    4 
 BH-1.55.0-1/BH/inst/include/boost/mpi/detail/packed_oprimitive.hpp                                         |    3 
 BH-1.55.0-1/BH/inst/include/boost/mpi/environment.hpp                                                      |   84 
 BH-1.55.0-1/BH/inst/include/boost/mpi/inplace.hpp                                                          |only
 BH-1.55.0-1/BH/inst/include/boost/mpi/packed_iarchive.hpp                                                  |   44 
 BH-1.55.0-1/BH/inst/include/boost/mpi/packed_oarchive.hpp                                                  |   39 
 BH-1.55.0-1/BH/inst/include/boost/mpl/assert.hpp                                                           |    8 
 BH-1.55.0-1/BH/inst/include/boost/multi_index/detail/do_not_copy_elements_tag.hpp                          |only
 BH-1.55.0-1/BH/inst/include/boost/multi_index/detail/index_base.hpp                                        |  100 
 BH-1.55.0-1/BH/inst/include/boost/multi_index/detail/scope_guard.hpp                                       |    3 
 BH-1.55.0-1/BH/inst/include/boost/multi_index/detail/vartempl_support.hpp                                  |only
 BH-1.55.0-1/BH/inst/include/boost/multi_index/hashed_index.hpp                                             |  158 
 BH-1.55.0-1/BH/inst/include/boost/multi_index/ordered_index.hpp                                            |  153 
 BH-1.55.0-1/BH/inst/include/boost/multi_index/sequenced_index.hpp                                          |  199 
 BH-1.55.0-1/BH/inst/include/boost/multi_index_container.hpp                                                |  330 +
 BH-1.55.0-1/BH/inst/include/boost/multiprecision/cpp_dec_float.hpp                                         |   90 
 BH-1.55.0-1/BH/inst/include/boost/multiprecision/detail/default_ops.hpp                                    |  172 
 BH-1.55.0-1/BH/inst/include/boost/multiprecision/detail/digits.hpp                                         |only
 BH-1.55.0-1/BH/inst/include/boost/multiprecision/detail/et_ops.hpp                                         |   13 
 BH-1.55.0-1/BH/inst/include/boost/multiprecision/detail/functions/constants.hpp                            |    1 
 BH-1.55.0-1/BH/inst/include/boost/multiprecision/detail/functions/pow.hpp                                  |   61 
 BH-1.55.0-1/BH/inst/include/boost/multiprecision/detail/functions/trig.hpp                                 |  101 
 BH-1.55.0-1/BH/inst/include/boost/multiprecision/detail/generic_interconvert.hpp                           |    1 
 BH-1.55.0-1/BH/inst/include/boost/multiprecision/detail/integer_ops.hpp                                    |only
 BH-1.55.0-1/BH/inst/include/boost/multiprecision/gmp.hpp                                                   |only
 BH-1.55.0-1/BH/inst/include/boost/multiprecision/mpfr.hpp                                                  |only
 BH-1.55.0-1/BH/inst/include/boost/multiprecision/number.hpp                                                |   89 
 BH-1.55.0-1/BH/inst/include/boost/phoenix/function/function.hpp                                            |    7 
 BH-1.55.0-1/BH/inst/include/boost/polygon                                                                  |only
 BH-1.55.0-1/BH/inst/include/boost/predef                                                                   |only
 BH-1.55.0-1/BH/inst/include/boost/preprocessor/tuple/rem.hpp                                               |    1 
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 BH-1.55.0-1/BH/inst/include/boost/program_options.hpp                                                      |only
 BH-1.55.0-1/BH/inst/include/boost/progress.hpp                                                             |    4 
 BH-1.55.0-1/BH/inst/include/boost/property_map/parallel/caching_property_map.hpp                           |only
 BH-1.55.0-1/BH/inst/include/boost/property_map/property_map.hpp                                            |    3 
 BH-1.55.0-1/BH/inst/include/boost/property_map/property_map_iterator.hpp                                   |only
 BH-1.55.0-1/BH/inst/include/boost/random/detail/integer_log2.hpp                                           |    2 
 BH-1.55.0-1/BH/inst/include/boost/random/discrete_distribution.hpp                                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/random/piecewise_constant_distribution.hpp                               |    2 
 BH-1.55.0-1/BH/inst/include/boost/random/piecewise_linear_distribution.hpp                                 |    2 
 BH-1.55.0-1/BH/inst/include/boost/random/seed_seq.hpp                                                      |    2 
 BH-1.55.0-1/BH/inst/include/boost/random/subtract_with_carry.hpp                                           |    2 
 BH-1.55.0-1/BH/inst/include/boost/ratio/detail/ratio_io.hpp                                                |only
 BH-1.55.0-1/BH/inst/include/boost/ratio/ratio_io.hpp                                                       |only
 BH-1.55.0-1/BH/inst/include/boost/ratio/ratio_static_string.hpp                                            |only
 BH-1.55.0-1/BH/inst/include/boost/rational.hpp                                                             |   12 
 BH-1.55.0-1/BH/inst/include/boost/regex/v4/perl_matcher_non_recursive.hpp                                  |   24 
 BH-1.55.0-1/BH/inst/include/boost/regex/v4/perl_matcher_recursive.hpp                                      |   16 
 BH-1.55.0-1/BH/inst/include/boost/smart_ptr/detail/yield_k.hpp                                             |    1 
 BH-1.55.0-1/BH/inst/include/boost/smart_ptr/intrusive_ref_counter.hpp                                      |only
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/karma/directive/omit.hpp                                     |    2 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/karma/nonterminal/rule.hpp                                   |    2 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/karma/numeric/detail/numeric_utils.hpp                       |   16 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/karma/numeric/detail/real_utils.hpp                          |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/karma/numeric/real_policies.hpp                              |   13 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/karma/operator/alternative.hpp                               |    2 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/karma/operator/sequence.hpp                                  |    2 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/karma/string/symbols.hpp                                     |    2 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/lex/lexer/lexer.hpp                                          |    2 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/phoenix/core/value.hpp                                       |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/phoenix/function/function.hpp                                |    2 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/phoenix/object/construct.hpp                                 |    2 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/action/action.hpp                                         |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/auxiliary/attr.hpp                                        |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/auxiliary/attr_cast.hpp                                   |   12 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/auxiliary/eps.hpp                                         |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/auxiliary/lazy.hpp                                        |   14 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/binary/binary.hpp                                         |   12 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/char/char.hpp                                             |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/char/char_parser.hpp                                      |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/detail/alternative_function.hpp                           |   14 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/detail/expect_function.hpp                                |   12 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/detail/fail_function.hpp                                  |   12 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/detail/pass_container.hpp                                 |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/detail/pass_function.hpp                                  |   12 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/detail/permute_function.hpp                               |   12 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/detail/unused_skipper.hpp                                 |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/directive/as.hpp                                          |   12 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/directive/hold.hpp                                        |   10 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/directive/lexeme.hpp                                      |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/directive/matches.hpp                                     |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/directive/no_skip.hpp                                     |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/directive/omit.hpp                                        |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/directive/raw.hpp                                         |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/directive/repeat.hpp                                      |   28 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/directive/skip.hpp                                        |   16 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/nonterminal/debug_handler.hpp                             |   12 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/nonterminal/detail/parameterized.hpp                      |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/nonterminal/detail/parser_binder.hpp                      |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/nonterminal/error_handler.hpp                             |    6 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/nonterminal/grammar.hpp                                   |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/nonterminal/rule.hpp                                      |   28 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/nonterminal/success_handler.hpp                           |    6 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/numeric/bool.hpp                                          |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/numeric/bool_policies.hpp                                 |   16 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/numeric/int.hpp                                           |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/numeric/numeric_utils.hpp                                 |   22 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/numeric/real.hpp                                          |   12 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/numeric/real_policies.hpp                                 |   20 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/numeric/uint.hpp                                          |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/operator/alternative.hpp                                  |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/operator/and_predicate.hpp                                |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/operator/difference.hpp                                   |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/operator/expect.hpp                                       |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/operator/kleene.hpp                                       |   10 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/operator/list.hpp                                         |   10 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/operator/not_predicate.hpp                                |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/operator/optional.hpp                                     |   16 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/operator/permutation.hpp                                  |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/operator/plus.hpp                                         |   10 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/operator/sequence_base.hpp                                |   12 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/operator/sequential_or.hpp                                |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/parse_attr.hpp                                            |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/reference.hpp                                             |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/stream/detail/iterator_source.hpp                         |    2 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/string/detail/tst.hpp                                     |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/string/lit.hpp                                            |   12 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/qi/string/symbols.hpp                                        |   14 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/action_dispatch.hpp                                  |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/attributes.hpp                                       |    8 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/char_encoding/unicode/query.hpp                      |    2 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/char_set/range.hpp                                   |    2 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/context.hpp                                          |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/detail/scoped_enum_emulation.hpp                     |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/detail/what_function.hpp                             |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/extended_variant.hpp                                 |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/info.hpp                                             |   36 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/iterators/detail/buffering_input_iterator_policy.hpp |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/nonterminal/expand_arg.hpp                           |    4 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/numeric_traits.hpp                                   |   13 
 BH-1.55.0-1/BH/inst/include/boost/spirit/home/support/terminal.hpp                                         |   58 
 BH-1.55.0-1/BH/inst/include/boost/spirit/repository/home/qi/operator/detail/keywords.hpp                   |   11 
 BH-1.55.0-1/BH/inst/include/boost/thread/barrier.hpp                                                       |  216 
 BH-1.55.0-1/BH/inst/include/boost/thread/detail/config.hpp                                                 |    5 
 BH-1.55.0-1/BH/inst/include/boost/thread/detail/is_convertible.hpp                                         |    7 
 BH-1.55.0-1/BH/inst/include/boost/thread/detail/memory.hpp                                                 |    7 
 BH-1.55.0-1/BH/inst/include/boost/thread/detail/thread.hpp                                                 |   13 
 BH-1.55.0-1/BH/inst/include/boost/thread/future.hpp                                                        | 1727 +++---
 BH-1.55.0-1/BH/inst/include/boost/thread/lock_types.hpp                                                    |    6 
 BH-1.55.0-1/BH/inst/include/boost/thread/pthread/condition_variable.hpp                                    |   16 
 BH-1.55.0-1/BH/inst/include/boost/thread/pthread/condition_variable_fwd.hpp                                |   18 
 BH-1.55.0-1/BH/inst/include/boost/thread/pthread/thread_data.hpp                                           |    6 
 BH-1.55.0-1/BH/inst/include/boost/thread/win32/condition_variable.hpp                                      |   30 
 BH-1.55.0-1/BH/inst/include/boost/thread/win32/once.hpp                                                    |    2 
 BH-1.55.0-1/BH/inst/include/boost/thread/win32/thread_data.hpp                                             |    8 
 BH-1.55.0-1/BH/inst/include/boost/thread/win32/thread_primitives.hpp                                       |    3 
 BH-1.55.0-1/BH/inst/include/boost/throw_exception.hpp                                                      |    7 
 BH-1.55.0-1/BH/inst/include/boost/type_erasure                                                             |only
 BH-1.55.0-1/BH/inst/include/boost/type_traits.hpp                                                          |    1 
 BH-1.55.0-1/BH/inst/include/boost/type_traits/is_copy_constructible.hpp                                    |only
 BH-1.55.0-1/BH/inst/include/boost/type_traits/is_integral.hpp                                              |    6 
 BH-1.55.0-1/BH/inst/include/boost/unordered/detail/allocate.hpp                                            |   54 
 BH-1.55.0-1/BH/inst/include/boost/unordered/detail/buckets.hpp                                             |   80 
 BH-1.55.0-1/BH/inst/include/boost/unordered/detail/extract_key.hpp                                         |   32 
 BH-1.55.0-1/BH/inst/include/boost/unordered/detail/table.hpp                                               |    4 
 BH-1.55.0-1/BH/inst/include/boost/unordered/detail/unique.hpp                                              |    2 
 BH-1.55.0-1/BH/inst/include/boost/unordered/detail/util.hpp                                                |    5 
 BH-1.55.0-1/BH/inst/include/boost/unordered/unordered_map.hpp                                              |   12 
 BH-1.55.0-1/BH/inst/include/boost/unordered/unordered_set.hpp                                              |   12 
 BH-1.55.0-1/BH/inst/include/boost/utility/base_from_member.hpp                                             |   73 
 BH-1.55.0-1/BH/inst/include/boost/utility/declval.hpp                                                      |   41 
 BH-1.55.0-1/BH/inst/include/boost/utility/detail/result_of_iterate.hpp                                     |   23 
 BH-1.55.0-1/BH/inst/include/boost/utility/empty_deleter.hpp                                                |only
 BH-1.55.0-1/BH/inst/include/boost/utility/explicit_operator_bool.hpp                                       |only
 BH-1.55.0-1/BH/inst/include/boost/utility/result_of.hpp                                                    |   29 
 BH-1.55.0-1/BH/inst/include/boost/variant/detail/move.hpp                                                  |   92 
 BH-1.55.0-1/BH/inst/include/boost/variant/get.hpp                                                          |    7 
 BH-1.55.0-1/BH/inst/include/boost/variant/variant.hpp                                                      |   81 
 BH-1.55.0-1/BH/inst/include/boost/variant/visitor_ptr.hpp                                                  |    3 
 BH-1.55.0-1/BH/inst/include/boost/version.hpp                                                              |    4 
 BH-1.55.0-1/BH/man/BH-package.Rd                                                                           |    4 
 614 files changed, 19549 insertions(+), 29752 deletions(-)

More information about BH at CRAN
Permanent link

Package TBEST (with last version 3.0) was removed from CRAN

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

2014-05-30 3.0
2014-02-24 1.4
2014-01-17 1.2
2013-11-17 1.0

Permanent link
Package CORE (with last version 2.0) was removed from CRAN

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

2014-06-02 2.0
2013-07-25 1.2
2013-06-23 1.1
2013-06-21 1.0

Permanent link
Package spfrontier updated to version 0.1.12 with previous version 0.1.10 dated 2014-07-03

Title: Spatial Stochastic Frontier models estimation
Description: A set of tools for estimation of various spatial specifications of stochastic frontier models
Author: Dmitry Pavlyuk
Maintainer: Dmitry Pavlyuk

Diff between spfrontier versions 0.1.10 dated 2014-07-03 and 0.1.12 dated 2014-12-21

 DESCRIPTION                 |   16 ++---
 MD5                         |   40 ++++++------
 NAMESPACE                   |    5 -
 NEWS                        |    6 +
 R/spfrontier.R              |  136 +++++++++++++++++++++++++++++++++-----------
 R/spfrontier_mle.R          |   80 ++++++++++++-------------
 R/test_ezsim.R              |   21 ++++--
 R/util_mle.R                |   47 +++++++++++----
 data/airports.greece.rda    |binary
 data/airports.rda           |binary
 demo/airports.R             |   95 ++++++------------------------
 demo/frontier_comparison.R  |   10 ++-
 demo/simulation.R           |   68 +++++++++++++---------
 man/ModelEstimates-class.Rd |   20 ++----
 man/data-airports-greece.Rd |   15 ++--
 man/data-airports.Rd        |   25 +++-----
 man/logLikelihood.Rd        |   46 ++++++--------
 man/simulation.Rd           |   63 +++++++-------------
 man/spfrontier-package.Rd   |    5 -
 man/spfrontier.Rd           |   88 +++++++++++-----------------
 man/util-misc.Rd            |   57 ++++++------------
 21 files changed, 428 insertions(+), 415 deletions(-)

More information about spfrontier at CRAN
Permanent link

Package rgl updated to version 0.95.1201 with previous version 0.95.1158 dated 2014-11-12

Title: 3D visualization device system (OpenGL)
Description: Provides medium to high level functions for 3D interactive graphics, including functions modelled on base graphics (plot3d(), etc.) as well as functions for constructing representations of geometric objects (cube3d(), etc.). Output may be on screen using OpenGL, or to various standard 3D file formats including WebGL, PLY, OBJ, STL as well as 2D image formats, including PNG, Postscript, SVG, PGF.
Author: Daniel Adler , Duncan Murdoch , and others (see README)
Maintainer: Duncan Murdoch

Diff between rgl versions 0.95.1158 dated 2014-11-12 and 0.95.1201 dated 2014-12-21

 rgl-0.95.1158/rgl/inst/WebGL/CanvasMatrix.js |only
 rgl-0.95.1201/rgl/DESCRIPTION                |   14 --
 rgl-0.95.1201/rgl/MD5                        |  171 ++++++++++++------------
 rgl-0.95.1201/rgl/NAMESPACE                  |    4 
 rgl-0.95.1201/rgl/R/bgplot3d.R               |   17 +-
 rgl-0.95.1201/rgl/R/getscene.R               |   27 +++
 rgl-0.95.1201/rgl/R/obj.R                    |   52 +++++++
 rgl-0.95.1201/rgl/R/par3d.R                  |    2 
 rgl-0.95.1201/rgl/R/persp3d.R                |  185 ++++++++++++++++-----------
 rgl-0.95.1201/rgl/R/plot3d.R                 |   70 +++++-----
 rgl-0.95.1201/rgl/R/subscenes.R              |   10 +
 rgl-0.95.1201/rgl/R/triangulate.R            |   19 ++
 rgl-0.95.1201/rgl/R/webGL.R                  |  154 +++++++++++++++-------
 rgl-0.95.1201/rgl/build                      |only
 rgl-0.95.1201/rgl/configure.win              |   17 +-
 rgl-0.95.1201/rgl/inst/NEWS                  |   25 +++
 rgl-0.95.1201/rgl/inst/doc                   |only
 rgl-0.95.1201/rgl/man/3dobjects.Rd           |   28 ++--
 rgl-0.95.1201/rgl/man/GramSchmidt.Rd         |only
 rgl-0.95.1201/rgl/man/abclines.Rd            |   10 -
 rgl-0.95.1201/rgl/man/addNormals.Rd          |    4 
 rgl-0.95.1201/rgl/man/aspect3d.Rd            |    3 
 rgl-0.95.1201/rgl/man/attributes.Rd          |    6 
 rgl-0.95.1201/rgl/man/axes3d.Rd              |   22 +--
 rgl-0.95.1201/rgl/man/bbox.Rd                |   34 ++--
 rgl-0.95.1201/rgl/man/bg.Rd                  |   12 -
 rgl-0.95.1201/rgl/man/bgplot3d.Rd            |   14 --
 rgl-0.95.1201/rgl/man/callbacks.Rd           |    8 -
 rgl-0.95.1201/rgl/man/cylinder3d.Rd          |   16 +-
 rgl-0.95.1201/rgl/man/ellipse3d.Rd           |   10 -
 rgl-0.95.1201/rgl/man/extrude3d.Rd           |    4 
 rgl-0.95.1201/rgl/man/grid3d.Rd              |    4 
 rgl-0.95.1201/rgl/man/identify3d.Rd          |    4 
 rgl-0.95.1201/rgl/man/light.Rd               |   23 +--
 rgl-0.95.1201/rgl/man/material.Rd            |   12 -
 rgl-0.95.1201/rgl/man/matrices.Rd            |   10 -
 rgl-0.95.1201/rgl/man/mesh3d.Rd              |   18 +-
 rgl-0.95.1201/rgl/man/mfrow3d.Rd             |   27 ++-
 rgl-0.95.1201/rgl/man/observer3d.Rd          |    4 
 rgl-0.95.1201/rgl/man/par3d.Rd               |   37 +++--
 rgl-0.95.1201/rgl/man/par3dinterp.Rd         |    2 
 rgl-0.95.1201/rgl/man/persp3d.Rd             |   70 +++++-----
 rgl-0.95.1201/rgl/man/persp3d.function.Rd    |   45 +++---
 rgl-0.95.1201/rgl/man/planes.Rd              |   13 +
 rgl-0.95.1201/rgl/man/play3d.Rd              |   15 +-
 rgl-0.95.1201/rgl/man/plot3d.Rd              |   44 ++++--
 rgl-0.95.1201/rgl/man/polygon3d.Rd           |    9 -
 rgl-0.95.1201/rgl/man/postscript.Rd          |   36 ++---
 rgl-0.95.1201/rgl/man/primitive.Rd           |   14 +-
 rgl-0.95.1201/rgl/man/r3d.Rd                 |   20 +-
 rgl-0.95.1201/rgl/man/readSTL.Rd             |   10 -
 rgl-0.95.1201/rgl/man/rgl-internal.Rd        |    2 
 rgl-0.95.1201/rgl/man/rgl-package.Rd         |    2 
 rgl-0.95.1201/rgl/man/rgl.Sweave.Rd          |    6 
 rgl-0.95.1201/rgl/man/rgl.bringtotop.Rd      |    2 
 rgl-0.95.1201/rgl/man/rgl.open.Rd            |    4 
 rgl-0.95.1201/rgl/man/rgl.pixels.Rd          |    5 
 rgl-0.95.1201/rgl/man/rgl.user2window.Rd     |    3 
 rgl-0.95.1201/rgl/man/scene.Rd               |    6 
 rgl-0.95.1201/rgl/man/scene3d.Rd             |    4 
 rgl-0.95.1201/rgl/man/select3d.Rd            |   12 -
 rgl-0.95.1201/rgl/man/selectpoints3d.Rd      |   32 ++--
 rgl-0.95.1201/rgl/man/shapelist3d.Rd         |    2 
 rgl-0.95.1201/rgl/man/snapshot.Rd            |   12 -
 rgl-0.95.1201/rgl/man/spheres.Rd             |    2 
 rgl-0.95.1201/rgl/man/spin3d.Rd              |   24 +--
 rgl-0.95.1201/rgl/man/sprites.Rd             |   18 +-
 rgl-0.95.1201/rgl/man/subdivision3d.Rd       |   10 -
 rgl-0.95.1201/rgl/man/subscene3d.Rd          |   32 ++--
 rgl-0.95.1201/rgl/man/surface.Rd             |   14 +-
 rgl-0.95.1201/rgl/man/surface3d.Rd           |    8 -
 rgl-0.95.1201/rgl/man/texts.Rd               |   24 +--
 rgl-0.95.1201/rgl/man/triangulate.Rd         |   19 +-
 rgl-0.95.1201/rgl/man/viewpoint.Rd           |   13 +
 rgl-0.95.1201/rgl/man/writeOBJ.Rd            |   38 ++++-
 rgl-0.95.1201/rgl/man/writePLY.Rd            |    4 
 rgl-0.95.1201/rgl/man/writeWebGL.Rd          |   33 +++-
 rgl-0.95.1201/rgl/src/ClipPlane.cpp          |   46 ++++++
 rgl-0.95.1201/rgl/src/ClipPlane.h            |    2 
 rgl-0.95.1201/rgl/src/par3d.cpp              |    8 +
 rgl-0.95.1201/rgl/src/pngpixmap.h            |    5 
 rgl-0.95.1201/rgl/src/rglview.cpp            |  103 +++++++++------
 rgl-0.95.1201/rgl/src/subscene.cpp           |   66 ++++++---
 rgl-0.95.1201/rgl/src/subscene.h             |   17 ++
 rgl-0.95.1201/rgl/src/x11gui.cpp             |    8 -
 rgl-0.95.1201/rgl/tests/demos.R              |    3 
 rgl-0.95.1201/rgl/vignettes                  |only
 87 files changed, 1203 insertions(+), 741 deletions(-)

More information about rgl at CRAN
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Package PredictABEL updated to version 1.2-2 with previous version 1.2-1 dated 2012-07-27

Title: Assessment of Risk Prediction Models
Description: PredictABEL includes functions to assess the performance of risk models. The package contains functions for the various measures that are used in empirical studies, including univariate and multivariate odds ratios (OR) of the predictors, the c-statistic (or area under the receiver operating characteristic (ROC) curve (AUC)), Hosmer-Lemeshow goodness of fit test, reclassification table, net reclassification improvement (NRI) and integrated discrimination improvement (IDI). Also included are functions to create plots, such as risk distributions, ROC curves, calibration plot, discrimination box plot and predictiveness curves. In addition to functions to assess the performance of risk models, the package includes functions to obtain weighted and unweighted risk scores as well as predicted risks using logistic regression analysis. These logistic regression functions are specifically written for models that include genetic variables, but they can also be applied to models that are based on non-genetic risk factors only. Finally, the package includes function to construct a simulated dataset with genotypes, genetic risks, and disease status for a hypothetical population, which is used for the evaluation of genetic risk models.
Author: Suman Kundu, Yurii S. Aulchenko, A. Cecile J.W. Janssens
Maintainer: Suman Kundu

Diff between PredictABEL versions 1.2-1 dated 2012-07-27 and 1.2-2 dated 2014-12-21

 DESCRIPTION     |   52 ++++++++++++++++++++++++----------------------------
 MD5             |    4 ++--
 R/PredictABEL.R |    2 +-
 3 files changed, 27 insertions(+), 31 deletions(-)

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Package OPI updated to version 2.1 with previous version 1.6 dated 2013-11-15

Title: Open Perimetry Interface
Description: Implementation of the Open Perimetry Interface (OPI) for simulating and controlling visual field machines using R. The OPI is a standard for interfacing with visual field testing machines (perimeters). It specifies basic functions that allow many visual field tests to be constructed. As of December 2014 it is fully implemented on the Octopus 600 and Octopus 900 and partially on the Heidelberg Edge Perimeter and the Kowa AP 7000. It also has a cousin: the R package visualFields, which has tools for analysing and manipulating visual field data.
Author: Andrew Turpin, David Lawson
Maintainer: Andrew Turpin

Diff between OPI versions 1.6 dated 2013-11-15 and 2.1 dated 2014-12-21

 OPI-1.6/OPI/R/octopus900.r            |only
 OPI-2.1/OPI/ChangeLog                 |   16 +++++
 OPI-2.1/OPI/DESCRIPTION               |   15 ++---
 OPI-2.1/OPI/MD5                       |   46 +++++++++--------
 OPI-2.1/OPI/NAMESPACE                 |   92 +++++++++++++++++++---------------
 OPI-2.1/OPI/R/dbTocd.r                |   20 +++----
 OPI-2.1/OPI/R/fourTwo.r               |only
 OPI-2.1/OPI/R/kowaAP7000Client.r      |only
 OPI-2.1/OPI/R/octopus600.r            |only
 OPI-2.1/OPI/R/octopus900Client.r      |only
 OPI-2.1/OPI/R/opi.r                   |   32 +++++++++--
 OPI-2.1/OPI/R/simG.r                  |   10 ++-
 OPI-2.1/OPI/R/simH.r                  |   26 +++++++--
 OPI-2.1/OPI/R/simH_RT.r               |   29 ++++++++--
 OPI-2.1/OPI/R/zest.r                  |    7 +-
 OPI-2.1/OPI/man/FT.Rd                 |    3 -
 OPI-2.1/OPI/man/OPI-package.Rd        |    2 
 OPI-2.1/OPI/man/cdTodb.Rd             |   10 ++-
 OPI-2.1/OPI/man/chooseOpi.Rd          |    1 
 OPI-2.1/OPI/man/dbTocd.Rd             |   14 +++--
 OPI-2.1/OPI/man/fourTwo.Rd            |only
 OPI-2.1/OPI/man/opiInitialize.Rd      |   85 +++++++++++++++++++++++++------
 OPI-2.1/OPI/man/opiKineticStimulus.Rd |   13 ++++
 OPI-2.1/OPI/man/opiPresent.Rd         |   42 ++++++++++++++-
 OPI-2.1/OPI/man/opiQueryDevice.Rd     |   24 +++++++-
 OPI-2.1/OPI/man/opiSetBackground.Rd   |   17 ++++++
 OPI-2.1/OPI/man/opiStaticStimulus.Rd  |   11 ++++
 27 files changed, 380 insertions(+), 135 deletions(-)

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New package FeatureHashing with initial version 0.7
Package: FeatureHashing
Type: Package
Title: Implement Feature Hashing on Model Matrix
Version: 0.7
Date: 2014-08-01
Authors@R: as.person(c( "Wush Wu [aut, cre]", "Austin Appleby (for the included Murmurhash3 sources) [ctb]"))
Author: Wush Wu [aut, cre], Austin Appleby [ctb] (for the included Murmurhash3 sources)
Maintainer: Wush Wu
Description: Feature hashing, also called as the hashing trick, is a method to transform features to vector. Without looking the indices up in an associative array, it applies a hash function to the features and uses their hash values as indices directly. This package implements the method of feature hashing proposed in Weinberger et. al. (2009) with Murmurhash3 and provides a formula interface in R. See the README.md for more information.
License: GPL (>= 3)
Depends: methods
Imports: Rcpp (>= 0.11), Matrix
LinkingTo: Rcpp
Suggests: pack
SystemRequirements: C++11
BugReports: https://github.com/wush978/FeatureHashing/issues
URL: https://github.com/rstats-db/RSQLite
Packaged: 2014-12-21 16:37:48 UTC; wush
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-12-21 18:00:50

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Package reports updated to version 0.1.4 with previous version 0.1.2 dated 2013-03-12

Title: Assist the Workflow of Writing Academic Articles and Other Reports
Description: Assists in writing reports and presentations by providing a frame work that brings together existing R, LaTeX/.docx and Pandoc tools. The package is designed to be used with RStudio, MiKTex/Tex Live/LibreOffice, knitr, knitcitations, Pandoc and pander. The user will want to download these free programs/packages to maximize the effectiveness of the reports package. Functions with two letter names are general text formatting functions for copying text from articles for inclusion as a citation.
Author: Tyler Rinker
Maintainer: Tyler Rinker

Diff between reports versions 0.1.2 dated 2013-03-12 and 0.1.4 dated 2014-12-21

 DESCRIPTION      |   15 +++++++--------
 MD5              |   10 +++++-----
 R/presentation.R |    7 +++++++
 README.md        |    6 +++---
 data/themes.rda  |binary
 inst/CITATION    |    4 ++--
 6 files changed, 24 insertions(+), 18 deletions(-)

More information about reports at CRAN
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New package Rdsdp with initial version 1.0.0
Package: Rdsdp
Version: 1.0.0
Title: R Interface to DSDP Semidefinite Programming Library
Author: Zhisu Zhu, Yinyu Ye (DSDP by Steve Benson, Yinyu Ye and Xiong Zhang)
Maintainer: Zhisu Zhu
Description: R interface to DSDP semidefinite programming library. Installs version 5.8 of DSDP from DSDP website. An existing installation of DSDP may be used by passing the proper configure arguments to the installation command.
LazyLoad: yes
License: GPL-3
URL: www.mcs.anl.gov/hs/software/DSDP
NeedsCompilation: yes
Packaged: 2014-12-18 20:52:32 UTC; zhisu
Repository: CRAN
Date/Publication: 2014-12-21 07:02:03

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New package rDEA with initial version 1.0-2
Package: rDEA
Version: 1.0-2
Title: Robust Data Envelopment Analysis (DEA) for R
Description: Data Envelopment Analysis for R, estimating robust DEA scores without and with environmental variables and doing returns-to-scale tests.
Authors@R: c(person("Jaak", "Simm", role = c("aut", "cre"), email = "jaak.simm@gmail.com"), person("Galina", "Besstremyannaya", role = c("aut") ))
Imports: slam (>= 0.1-9), truncreg(>= 0.2-1), truncnorm(>= 1.0-7), maxLik
Suggests: testthat
SystemRequirements: GLPK (>= 4.52)
License: GPL-2 | GPL-3
URL: https://github.com/jaak-s/rDEA
Packaged: 2014-12-20 23:31:26 UTC; jaak
Author: Jaak Simm [aut, cre], Galina Besstremyannaya [aut]
Maintainer: Jaak Simm
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-12-21 07:06:51

More information about rDEA at CRAN
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Package RcppMLPACK updated to version 1.0.10 with previous version 1.0.9-3 dated 2014-08-20

Title: Rcpp Integration for MLPACK Library
Description: MLPACK is an intuitive, fast, scalable C++ machine learning library, meant to be a machine learning analog to LAPACK. It aims to implement a wide array of machine learning methods and function as a Swiss army knife for machine learning researchers: MLPACK is from http://www.mlpack.org/: sources are included in the package.
Author: Qiang Kou, Ryan Curtin
Maintainer: Qiang Kou

Diff between RcppMLPACK versions 1.0.9-3 dated 2014-08-20 and 1.0.10 dated 2014-12-21

 RcppMLPACK-1.0.10/RcppMLPACK/DESCRIPTION                                                                               |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/MD5                                                                                       |  959 ++---
 RcppMLPACK-1.0.10/RcppMLPACK/R/RcppMLPACK.package.skeleton.R                                                           |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/build/vignette.rds                                                                        |binary
 RcppMLPACK-1.0.10/RcppMLPACK/inst/doc/RcppMLPACK-intro.pdf                                                             |binary
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core.hpp                                                              |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/arma_extend/arma_extend.hpp                                      |    1 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/arma_extend/typedef.hpp                                          |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/data/load.hpp                                                    |    9 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/data/load_impl.hpp                                               |  347 +-
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/data/normalize_labels.hpp                                        |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/data/normalize_labels_impl.hpp                                   |   76 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/data/save.hpp                                                    |    9 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/data/save_impl.hpp                                               |  242 -
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/dists/discrete_distribution.hpp                                  |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/dists/gaussian_distribution.hpp                                  |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/dists/laplace_distribution.hpp                                   |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/cosine_distance.hpp                                      |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/cosine_distance_impl.hpp                                 |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/epanechnikov_kernel.hpp                                  |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/epanechnikov_kernel_impl.hpp                             |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/example_kernel.hpp                                       |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/gaussian_kernel.hpp                                      |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/hyperbolic_tangent_kernel.hpp                            |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/kernel_traits.hpp                                        |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/laplacian_kernel.hpp                                     |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/linear_kernel.hpp                                        |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/polynomial_kernel.hpp                                    |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/pspectrum_string_kernel.hpp                              |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/pspectrum_string_kernel_impl.hpp                         |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/spherical_kernel.hpp                                     |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/kernels/triangular_kernel.hpp                                    |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/math/clamp.hpp                                                   |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/math/lin_alg.hpp                                                 |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/math/random.hpp                                                  |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/math/range.hpp                                                   |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/math/range_impl.hpp                                              |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/math/round.hpp                                                   |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/metrics/ip_metric.hpp                                            |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/metrics/ip_metric_impl.hpp                                       |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/metrics/lmetric.hpp                                              |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/metrics/lmetric_impl.hpp                                         |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/metrics/mahalanobis_distance.hpp                                 |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/metrics/mahalanobis_distance_impl.hpp                            |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian.hpp                     |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_function.hpp            |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_function_impl.hpp       |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_impl.hpp                |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_test_functions.hpp      |   22 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/lbfgs/lbfgs.hpp                                       |   34 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/lbfgs/lbfgs_impl.hpp                                  |   36 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/lbfgs/test_functions.hpp                              |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/lrsdp/lrsdp.hpp                                       |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/lrsdp/lrsdp_function.hpp                              |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/sa/exponential_schedule.hpp                           |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/sa/sa.hpp                                             |   40 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/sa/sa_impl.hpp                                        |   36 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/sgd/sgd.hpp                                           |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/sgd/sgd_impl.hpp                                      |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/optimizers/sgd/test_function.hpp                                 |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/ballbound.hpp                                               |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/ballbound_impl.hpp                                          |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/binary_space_tree.hpp                                       |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/binary_space_tree/binary_space_tree.hpp                     |   96 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/binary_space_tree/binary_space_tree_impl.hpp                |   99 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/binary_space_tree/dual_tree_traverser.hpp                   |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/binary_space_tree/dual_tree_traverser_impl.hpp              |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/binary_space_tree/mean_split.hpp                            |   38 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/binary_space_tree/mean_split_impl.hpp                       |   53 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/binary_space_tree/single_tree_traverser.hpp                 |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/binary_space_tree/single_tree_traverser_impl.hpp            |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/binary_space_tree/traits.hpp                                |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/bounds.hpp                                                  |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/cosine_tree/cosine_tree.hpp                                 |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/cover_tree.hpp                                              |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/cover_tree/cover_tree.hpp                                   |   88 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/cover_tree/cover_tree_impl.hpp                              |  175 -
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/cover_tree/dual_tree_traverser.hpp                          |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/cover_tree/dual_tree_traverser_impl.hpp                     |   17 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/cover_tree/first_point_is_root.hpp                          |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/cover_tree/single_tree_traverser.hpp                        |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/cover_tree/single_tree_traverser_impl.hpp                   |   20 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/cover_tree/traits.hpp                                       |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/example_tree.hpp                                            |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/hrectbound.hpp                                              |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/hrectbound_impl.hpp                                         |   50 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/mrkd_statistic.hpp                                          |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/mrkd_statistic_impl.hpp                                     |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/rectangle_tree.hpp                                          |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/statistic.hpp                                               |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/traversal_info.hpp                                          |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/tree/tree_traits.hpp                                             |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/util/arma_traits.hpp                                             |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/util/nulloutstream.hpp                                           |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/util/option.hpp                                                  |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/util/option_impl.hpp                                             |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/util/prefixedoutstream.hpp                                       |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/util/prefixedoutstream_impl.hpp                                  |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/util/sfinae_utility.hpp                                          |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/util/string_util.hpp                                             |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/util/timers.hpp                                                  |only
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/core/util/version.hpp                                                 |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/amf.hpp                                                   |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/amf_impl.hpp                                              |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/init_rules/random_acol_init.hpp                           |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/init_rules/random_init.hpp                                |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/termination_policies/complete_incremental.hpp             |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/termination_policies/complete_incremental_termination.hpp |only
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/termination_policies/incomplete_incremental.hpp           |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/termination_policies/simple_residue_termination.hpp       |   18 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/termination_policies/simple_tolerance_termination.hpp     |   28 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/termination_policies/validation_RMSE_termination.hpp      |   38 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/update_rules/nmf_als.hpp                                  |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/update_rules/nmf_mult_dist.hpp                            |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/update_rules/nmf_mult_div.hpp                             |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/update_rules/svd_batch_learning.hpp                       |   48 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/update_rules/svd_complete_incremental_learning.hpp        |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/amf/update_rules/svd_incomplete_incremental_learning.hpp      |   18 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/cf/cf.hpp                                                     |   44 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/cf/cf_impl.hpp                                                |   50 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/decision_stump/decision_stump.hpp                             |   24 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/decision_stump/decision_stump_impl.hpp                        |   63 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/det/dt_utils.hpp                                              |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/det/dtree.hpp                                                 |   52 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/emst/dtb.hpp                                                  |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/emst/dtb_impl.hpp                                             |   53 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/emst/dtb_rules.hpp                                            |   30 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/emst/dtb_rules_impl.hpp                                       |   36 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/emst/dtb_stat.hpp                                             |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/emst/edge_pair.hpp                                            |   19 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/emst/union_find.hpp                                           |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/fastmks/fastmks.hpp                                           |  344 +-
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/fastmks/fastmks_impl.hpp                                      |  306 -
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/fastmks/fastmks_rules.hpp                                     |  256 -
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/fastmks/fastmks_rules_impl.hpp                                |  804 ++--
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/fastmks/fastmks_stat.hpp                                      |  206 -
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/gmm/diagonal_constraint.hpp                                   |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/gmm/eigenvalue_ratio_constraint.hpp                           |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/gmm/em_fit.hpp                                                |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/gmm/em_fit_impl.hpp                                           |   40 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/gmm/gmm.hpp                                                   |   32 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/gmm/gmm_impl.hpp                                              |   52 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/gmm/no_constraint.hpp                                         |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/gmm/phi.hpp                                                   |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/gmm/positive_definite_constraint.hpp                          |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/hmm/hmm.hpp                                                   |   22 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/hmm/hmm_impl.hpp                                              |   72 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/hmm/hmm_util.hpp                                              |only
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/hmm/hmm_util_impl.hpp                                         |only
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/kernel_pca/kernel_pca.hpp                                     |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/kernel_pca/kernel_pca_impl.hpp                                |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/kernel_pca/kernel_rules/naive_method.hpp                      |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/kernel_pca/kernel_rules/nystroem_method.hpp                   |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/kmeans/allow_empty_clusters.hpp                               |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/kmeans/kmeans.hpp                                             |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/kmeans/kmeans_impl.hpp                                        |   94 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/kmeans/max_variance_new_cluster.hpp                           |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/kmeans/max_variance_new_cluster_impl.hpp                      |   18 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/kmeans/random_partition.hpp                                   |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/kmeans/refined_start.hpp                                      |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/kmeans/refined_start_impl.hpp                                 |   22 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/lars/lars.hpp                                                 |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/linear_regression/linear_regression.hpp                       |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/local_coordinate_coding/lcc.hpp                               |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/local_coordinate_coding/lcc_impl.hpp                          |   58 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/logistic_regression/logistic_regression.hpp                   |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/logistic_regression/logistic_regression_function.hpp          |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/logistic_regression/logistic_regression_impl.hpp              |   18 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/lsh/lsh_search.hpp                                            |   50 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/lsh/lsh_search_impl.hpp                                       |  107 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/mvu/mvu.hpp                                                   |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/naive_bayes/naive_bayes_classifier.hpp                        |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/naive_bayes/naive_bayes_classifier_impl.hpp                   |   41 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/nca/nca.hpp                                                   |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/nca/nca_impl.hpp                                              |    7 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/nca/nca_softmax_error_function.hpp                            |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/nca/nca_softmax_error_function_impl.hpp                       |   22 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/neighbor_search/neighbor_search.hpp                           |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/neighbor_search/neighbor_search_impl.hpp                      |   59 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/neighbor_search/neighbor_search_rules.hpp                     |   34 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/neighbor_search/neighbor_search_rules_impl.hpp                |  239 -
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/neighbor_search/neighbor_search_stat.hpp                      |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/neighbor_search/ns_traversal_info.hpp                         |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/neighbor_search/sort_policies/furthest_neighbor_sort.hpp      |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/neighbor_search/sort_policies/furthest_neighbor_sort_impl.hpp |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/neighbor_search/sort_policies/nearest_neighbor_sort.hpp       |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/neighbor_search/sort_policies/nearest_neighbor_sort_impl.hpp  |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/neighbor_search/typedef.hpp                                   |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/neighbor_search/unmap.hpp                                     |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/nystroem_method/kmeans_selection.hpp                          |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/nystroem_method/nystroem_method.hpp                           |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/nystroem_method/nystroem_method_impl.hpp                      |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/nystroem_method/ordered_selection.hpp                         |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/nystroem_method/random_selection.hpp                          |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/pca/pca.hpp                                                   |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/perceptron/initialization_methods/random_init.hpp             |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/perceptron/initialization_methods/zero_init.hpp               |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/perceptron/learning_policies/simple_weight_update.hpp         |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/perceptron/perceptron.hpp                                     |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/perceptron/perceptron_impl.hpp                                |   18 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/quic_svd/quic_svd.hpp                                         |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/quic_svd/quic_svd_impl.hpp                                    |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/radical/radical.hpp                                           |   34 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/range_search/range_search.hpp                                 |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/range_search/range_search_impl.hpp                            |   45 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/range_search/range_search_rules.hpp                           |   22 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/range_search/range_search_rules_impl.hpp                      |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/range_search/range_search_stat.hpp                            |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/rann/ra_query_stat.hpp                                        |   82 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/rann/ra_search.hpp                                            |  466 +-
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/rann/ra_search_impl.hpp                                       |  521 +--
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/rann/ra_search_rules.hpp                                      |  587 +--
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/rann/ra_search_rules_impl.hpp                                 | 1622 ++++------
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/rann/ra_typedef.hpp                                           |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/regularized_svd/regularized_svd.hpp                           |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/regularized_svd/regularized_svd_function.hpp                  |   20 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/regularized_svd/regularized_svd_impl.hpp                      |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/sparse_autoencoder/sparse_autoencoder.hpp                     |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/sparse_autoencoder/sparse_autoencoder_function.hpp            |   18 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/sparse_autoencoder/sparse_autoencoder_impl.hpp                |   22 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/sparse_coding/data_dependent_random_initializer.hpp           |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/sparse_coding/nothing_initializer.hpp                         |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/sparse_coding/random_initializer.hpp                          |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/sparse_coding/sparse_coding.hpp                               |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/methods/sparse_coding/sparse_coding_impl.hpp                          |   44 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/include/mlpack/prereqs.hpp                                                           |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/inst/skeleton/kmeans.cpp                                                                  |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/man/RcppMLPACK-package.Rd                                                                 |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/Makevars                                                                              |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/Makevars.win                                                                          |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/RcppMLPACK.h                                                                          |    1 
 RcppMLPACK-1.0.10/RcppMLPACK/src/kmeans.cpp                                                                            |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core.hpp                                                                       |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/arma_extend/arma_extend.hpp                                               |    1 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/arma_extend/typedef.hpp                                                   |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/data/load.hpp                                                             |    9 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/data/load_impl.hpp                                                        |  347 +-
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/data/normalize_labels.hpp                                                 |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/data/normalize_labels_impl.hpp                                            |   76 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/data/save.hpp                                                             |    9 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/data/save_impl.hpp                                                        |  242 -
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/dists/discrete_distribution.cpp                                           |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/dists/discrete_distribution.hpp                                           |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/dists/gaussian_distribution.cpp                                           |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/dists/gaussian_distribution.hpp                                           |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/dists/laplace_distribution.cpp                                            |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/dists/laplace_distribution.hpp                                            |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/cosine_distance.hpp                                               |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/cosine_distance_impl.hpp                                          |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/epanechnikov_kernel.cpp                                           |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/epanechnikov_kernel.hpp                                           |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/epanechnikov_kernel_impl.hpp                                      |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/example_kernel.hpp                                                |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/gaussian_kernel.hpp                                               |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/hyperbolic_tangent_kernel.hpp                                     |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/kernel_traits.hpp                                                 |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/laplacian_kernel.hpp                                              |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/linear_kernel.hpp                                                 |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/polynomial_kernel.hpp                                             |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/pspectrum_string_kernel.cpp                                       |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/pspectrum_string_kernel.hpp                                       |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/pspectrum_string_kernel_impl.hpp                                  |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/spherical_kernel.hpp                                              |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/kernels/triangular_kernel.hpp                                             |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/math/clamp.hpp                                                            |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/math/lin_alg.cpp                                                          |   20 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/math/lin_alg.hpp                                                          |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/math/random.cpp                                                           |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/math/random.hpp                                                           |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/math/range.hpp                                                            |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/math/range_impl.hpp                                                       |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/math/round.hpp                                                            |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/metrics/ip_metric.hpp                                                     |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/metrics/ip_metric_impl.hpp                                                |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/metrics/lmetric.hpp                                                       |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/metrics/lmetric_impl.hpp                                                  |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/metrics/mahalanobis_distance.hpp                                          |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/metrics/mahalanobis_distance_impl.hpp                                     |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian.hpp                              |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_function.hpp                     |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_function_impl.hpp                |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_impl.hpp                         |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_test_functions.cpp               |   42 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_test_functions.hpp               |   22 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/lbfgs/lbfgs.hpp                                                |   34 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/lbfgs/lbfgs_impl.hpp                                           |   36 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/lbfgs/test_functions.cpp                                       |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/lbfgs/test_functions.hpp                                       |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/lrsdp/lrsdp.cpp                                                |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/lrsdp/lrsdp.hpp                                                |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/lrsdp/lrsdp_function.cpp                                       |   20 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/lrsdp/lrsdp_function.hpp                                       |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/sa/exponential_schedule.hpp                                    |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/sa/sa.hpp                                                      |   40 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/sa/sa_impl.hpp                                                 |   36 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/sgd/sgd.hpp                                                    |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/sgd/sgd_impl.hpp                                               |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/sgd/test_function.cpp                                          |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/optimizers/sgd/test_function.hpp                                          |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/ballbound.hpp                                                        |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/ballbound_impl.hpp                                                   |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/binary_space_tree.hpp                                                |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/binary_space_tree/binary_space_tree.hpp                              |   96 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/binary_space_tree/binary_space_tree_impl.hpp                         |   99 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/binary_space_tree/dual_tree_traverser.hpp                            |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/binary_space_tree/dual_tree_traverser_impl.hpp                       |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/binary_space_tree/mean_split.hpp                                     |   38 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/binary_space_tree/mean_split_impl.hpp                                |   53 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/binary_space_tree/single_tree_traverser.hpp                          |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/binary_space_tree/single_tree_traverser_impl.hpp                     |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/binary_space_tree/traits.hpp                                         |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/bounds.hpp                                                           |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/cosine_tree/cosine_tree.cpp                                          |   52 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/cosine_tree/cosine_tree.hpp                                          |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/cover_tree.hpp                                                       |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/cover_tree/cover_tree.hpp                                            |   88 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/cover_tree/cover_tree_impl.hpp                                       |  175 -
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/cover_tree/dual_tree_traverser.hpp                                   |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/cover_tree/dual_tree_traverser_impl.hpp                              |   17 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/cover_tree/first_point_is_root.hpp                                   |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/cover_tree/single_tree_traverser.hpp                                 |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/cover_tree/single_tree_traverser_impl.hpp                            |   20 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/cover_tree/traits.hpp                                                |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/example_tree.hpp                                                     |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/hrectbound.hpp                                                       |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/hrectbound_impl.hpp                                                  |   50 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/mrkd_statistic.cpp                                                   |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/mrkd_statistic.hpp                                                   |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/mrkd_statistic_impl.hpp                                              |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/rectangle_tree.hpp                                                   |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/statistic.hpp                                                        |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/traversal_info.hpp                                                   |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/tree/tree_traits.hpp                                                      |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/arma_traits.hpp                                                      |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/nulloutstream.hpp                                                    |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/option.cpp                                                           |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/option.hpp                                                           |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/option_impl.hpp                                                      |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/prefixedoutstream.cpp                                                |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/prefixedoutstream.hpp                                                |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/prefixedoutstream_impl.hpp                                           |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/sfinae_utility.hpp                                                   |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/string_util.cpp                                                      |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/string_util.hpp                                                      |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/timers.cpp                                                           |only
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/timers.hpp                                                           |only
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/version.cpp                                                          |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/core/util/version.hpp                                                          |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/amf.hpp                                                            |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/amf_impl.hpp                                                       |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/init_rules/random_acol_init.hpp                                    |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/init_rules/random_init.hpp                                         |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/termination_policies/complete_incremental_termination.hpp          |only
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/termination_policies/incomplete_incremental_termination.hpp        |only
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/termination_policies/simple_residue_termination.hpp                |   18 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/termination_policies/simple_tolerance_termination.hpp              |   28 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/termination_policies/validation_RMSE_termination.hpp               |   38 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/update_rules/nmf_als.hpp                                           |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/update_rules/nmf_mult_dist.hpp                                     |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/update_rules/nmf_mult_div.hpp                                      |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/update_rules/svd_batch_learning.hpp                                |   48 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/update_rules/svd_complete_incremental_learning.hpp                 |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/amf/update_rules/svd_incomplete_incremental_learning.hpp               |   18 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/cf/cf.hpp                                                              |   44 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/cf/cf_impl.hpp                                                         |   50 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/decision_stump/decision_stump.hpp                                      |   24 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/decision_stump/decision_stump_impl.hpp                                 |   63 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/det/dt_utils.cpp                                                       |   57 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/det/dt_utils.hpp                                                       |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/det/dtree.cpp                                                          |   99 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/det/dtree.hpp                                                          |   52 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/emst/dtb.hpp                                                           |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/emst/dtb_impl.hpp                                                      |   53 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/emst/dtb_rules.hpp                                                     |   30 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/emst/dtb_rules_impl.hpp                                                |   36 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/emst/dtb_stat.hpp                                                      |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/emst/edge_pair.hpp                                                     |   19 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/emst/union_find.hpp                                                    |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/fastmks/fastmks.hpp                                                    |  344 +-
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/fastmks/fastmks_impl.hpp                                               |  306 -
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/fastmks/fastmks_rules.hpp                                              |  256 -
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/fastmks/fastmks_rules_impl.hpp                                         |  804 ++--
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/fastmks/fastmks_stat.hpp                                               |  206 -
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/gmm/diagonal_constraint.hpp                                            |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/gmm/eigenvalue_ratio_constraint.hpp                                    |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/gmm/em_fit.hpp                                                         |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/gmm/em_fit_impl.hpp                                                    |   40 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/gmm/gmm.hpp                                                            |   32 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/gmm/gmm_impl.hpp                                                       |   52 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/gmm/no_constraint.hpp                                                  |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/gmm/phi.hpp                                                            |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/gmm/positive_definite_constraint.hpp                                   |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/hmm/hmm.hpp                                                            |   22 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/hmm/hmm_impl.hpp                                                       |   72 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/hmm/hmm_util.hpp                                                       |only
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/hmm/hmm_util_impl.hpp                                                  |only
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/kernel_pca/kernel_pca.hpp                                              |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/kernel_pca/kernel_pca_impl.hpp                                         |    6 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/kernel_pca/kernel_rules/naive_method.hpp                               |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/kernel_pca/kernel_rules/nystroem_method.hpp                            |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/kmeans/allow_empty_clusters.hpp                                        |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/kmeans/kmeans.hpp                                                      |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/kmeans/kmeans_impl.hpp                                                 |   94 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/kmeans/max_variance_new_cluster.hpp                                    |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/kmeans/max_variance_new_cluster_impl.hpp                               |   18 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/kmeans/random_partition.hpp                                            |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/kmeans/refined_start.hpp                                               |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/kmeans/refined_start_impl.hpp                                          |   22 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/lars/lars.cpp                                                          |   46 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/lars/lars.hpp                                                          |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/linear_regression/linear_regression.cpp                                |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/linear_regression/linear_regression.hpp                                |    4 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/local_coordinate_coding/lcc.hpp                                        |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/local_coordinate_coding/lcc_impl.hpp                                   |   58 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/logistic_regression/logistic_regression.hpp                            |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/logistic_regression/logistic_regression_function.cpp                   |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/logistic_regression/logistic_regression_function.hpp                   |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/logistic_regression/logistic_regression_impl.hpp                       |   18 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/lsh/lsh_search.hpp                                                     |   50 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/lsh/lsh_search_impl.hpp                                                |  107 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/mvu/mvu.cpp                                                            |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/mvu/mvu.hpp                                                            |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/naive_bayes/naive_bayes_classifier.hpp                                 |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/naive_bayes/naive_bayes_classifier_impl.hpp                            |   41 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/nca/nca.hpp                                                            |    8 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/nca/nca_impl.hpp                                                       |    7 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/nca/nca_softmax_error_function.hpp                                     |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/nca/nca_softmax_error_function_impl.hpp                                |   22 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/neighbor_search.hpp                                    |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/neighbor_search_impl.hpp                               |   59 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/neighbor_search_rules.hpp                              |   34 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/neighbor_search_rules_impl.hpp                         |  239 -
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/neighbor_search_stat.hpp                               |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/ns_traversal_info.hpp                                  |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/sort_policies/furthest_neighbor_sort.cpp               |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/sort_policies/furthest_neighbor_sort.hpp               |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/sort_policies/furthest_neighbor_sort_impl.hpp          |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/sort_policies/nearest_neighbor_sort.cpp                |   14 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/sort_policies/nearest_neighbor_sort.hpp                |   10 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/sort_policies/nearest_neighbor_sort_impl.hpp           |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/typedef.hpp                                            |    2 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/unmap.cpp                                              |   22 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/neighbor_search/unmap.hpp                                              |   16 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/nystroem_method/kmeans_selection.hpp                                   |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/nystroem_method/nystroem_method.hpp                                    |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/nystroem_method/nystroem_method_impl.hpp                               |   26 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/nystroem_method/ordered_selection.hpp                                  |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/nystroem_method/random_selection.hpp                                   |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/pca/pca.cpp                                                            |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/pca/pca.hpp                                                            |   12 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/perceptron/initialization_methods/random_init.hpp                      |   10 
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 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/radical/radical.hpp                                                    |   34 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/range_search/range_search.hpp                                          |   14 
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 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/rann/ra_query_stat.hpp                                                 |   82 
 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/rann/ra_search.hpp                                                     |  466 +-
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 RcppMLPACK-1.0.10/RcppMLPACK/src/mlpack/methods/rann/ra_typedef.hpp                                                    |   12 
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Package qmrparser updated to version 0.1.5 with previous version 0.1.4 dated 2013-12-12

Title: Parser combinator in R
Description: Basic functions for building parsers, with an application to PC-AXIS format files.
Author: Juan Gea Rosat, Ramon Martínez Coscollà .
Maintainer: Juan Gea

Diff between qmrparser versions 0.1.4 dated 2013-12-12 and 0.1.5 dated 2014-12-21

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Package powerGWASinteraction updated to version 1.1.1 with previous version 1.1.0 dated 2014-09-05

Title: Power Calculations for GxE and GxG Interactions for GWAS
Description: Analytical power calculations for GxE and GxG interactions for case-control studies of candidate genes and genome-wide association studies (GWAS). This includes power calculation for four two-step screening and testing procedures. It can also calculate power for GxE and GxG without any screening.
Author: Charles Kooperberg and Li Hsu
Maintainer: Charles Kooperberg

Diff between powerGWASinteraction versions 1.1.0 dated 2014-09-05 and 1.1.1 dated 2014-12-21

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Package hypred updated to version 0.5 with previous version 0.4 dated 2013-11-20

Title: Simulation of Genomic Data in Applied Genetics
Description: The package is intended for simulating high density genomic data. The meiosis is simulated under a count-location model, the genetic structure can include additive and dominance effects. The low level nature of the package provides great flexibility in creating all kinds of populations.
Author: Frank Technow
Maintainer: Frank Technow

Diff between hypred versions 0.4 dated 2013-11-20 and 0.5 dated 2014-12-21

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New package htmlTable with initial version 1.0
Package: htmlTable
Version: 1.0
Date: 2014-12-19
Title: Advanced Tables for Markdown/HTML
Author: Max Gordon
Maintainer: Max Gordon
Description: A package for creating tables with state of the art layout containing row spanners, column spanners, table spanners, zebra striping, and more. While allowing advanced layout the underlying CSS structure is simple in order to maximize compatibility with MS Word/LibreOffice. The package also contains a few text formatting functions that help outputting text compatible with HTML/LaTeX.
License: GPL (>= 3)
URL: http://gforge.se/packages/
BugReports: https://github.com/gforge/htmlTable/issues
Biarch: yes
Imports: stringr, magrittr, Hmisc, methods
Suggests: testthat, XML, knitr, xtable, reshape
Encoding: UTF-8
NeedsCompilation: no
VignetteBuilder: knitr
Packaged: 2014-12-20 16:22:58 UTC; Max
Repository: CRAN
Date/Publication: 2014-12-21 07:02:08

More information about htmlTable at CRAN
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Package breakpoint updated to version 1.1 with previous version 1.0 dated 2014-01-17

Title: Multiple Break-Point Detection via the Cross-Entropy Method
Description: Implements the cross-entropy (CE) method, which is a model based stochastic optimization technique to estimate both the number and their corresponding locations of break-points in biological sequences of continuous and discrete measurements as described in Priyadarshana and Sofronov (2014, 2012a, 2012b).
Author: Priyadarshana W.J.R.M. and Georgy Sofronov
Maintainer: Priyadarshana W.J.R.M.

Diff between breakpoint versions 1.0 dated 2014-01-17 and 1.1 dated 2014-12-21

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More information about breakpoint at CRAN
Permanent link

Package berryFunctions updated to version 1.7.1 with previous version 1.6 dated 2014-10-14

Title: Function Collection related to Plotting and Hydrology
Description: miscellaneous functions to: draw horizontal histograms, color scatterpoints by 3rd dimension, enhance log-axis plots, zoom in X11 graphics, use the unit hydrograph in a linear storage cascade, convert lists to data.frames, fit multiple functions by regression (power, reciprocal, exponential, logarithmic, polynomial, rational). Development version: https://github.com/BerryBoessenkool
Author: Berry Boessenkool
Maintainer: Berry Boessenkool

Diff between berryFunctions versions 1.6 dated 2014-10-14 and 1.7.1 dated 2014-12-21

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New package aplore3 with initial version 0.7
Package: aplore3
Title: Datasets from Hosmer, Lemeshow and Sturdivant, "Applied Logistic Regression" (3rd ed.)
Version: 0.7
Authors@R: "Luca Braglia [aut, cre]"
Description: This package is a unofficial companion to the textbook "Applied Logistic Regression" by D.W. Hosmer, S. Lemeshow and R.X. Sturdivant (3rd ed.). See ?aplore3 for more info.
URL: https://github.com/lbraglia/aplore3
BugReports: https://github.com/lbraglia/aplore3/issues
Depends: R (>= 3.1.1)
License: GPL-3
LazyData: true
VignetteBuilder: knitr
Suggests: knitr, MASS, vcdExtra, nnet, survival, pROC
Packaged: 2014-12-20 22:27:04 UTC; l
Author: "Luca Braglia" [aut, cre]
Maintainer: "Luca Braglia"
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-12-21 07:02:05

More information about aplore3 at CRAN
Permanent link

Sat, 20 Dec 2014

New package SCEPtERbinary with initial version 0.1-1
Package: SCEPtERbinary
Title: Stellar CharactEristics Pisa Estimation gRid for Binary Systems
Version: 0.1-1
Date: 2014-04-12
Authors@R: c(person("Matteo", "Dell'Omodarme", role = c("aut", "cre"), email = "mattdell@fastmail.fm"), person("Giada", "Valle", role = "aut"))
Description: SCEPtER pipeline for estimating the stellar age for double-lined detached binary systems. The observational constraints adopted in the recovery are the effective temperature, the metallicity [Fe/H], the mass, and the radius of the two stars. The results are obtained adopting a maximum likelihood technique over a grid of pre-computed stellar models.
Suggests: lattice
Depends: R (>= 2.10), MASS, parallel, SCEPtER
LazyData: no
License: GPL (>= 2)
Maintainer: Matteo Dell'Omodarme
Packaged: 2014-12-20 14:36:03 UTC; matt
Author: Matteo Dell'Omodarme [aut, cre], Giada Valle [aut]
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-12-20 17:38:25

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Package SCEPtERextras (with last version 0.1-0) was removed from CRAN

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

2013-06-04 0.1-0

Permanent link
Package PKmodelFinder (with last version 1.1) was removed from CRAN

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

2010-04-28 1.1

Permanent link
Package RPublica updated to version 0.1.2 with previous version 0.1.1 dated 2014-05-09

Title: ProPublica API Client
Description: Client for accessing ProPublica's data journalism APIs
Author: Thomas J. Leeper [aut, cre], Jeroen Ooms [ctb]
Maintainer: Thomas J. Leeper

Diff between RPublica versions 0.1.1 dated 2014-05-09 and 0.1.2 dated 2014-12-20

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Package rnoaa updated to version 0.3.3 with previous version 0.2.0 dated 2014-07-21

Title: NOAA Climate Data from R
Description: An R client for many NOAA data sources including the NCDC climate API at http://www.ncdc.noaa.gov/cdo-web/webservices/v2, with functions for each of the API endpoints: data, data categories, data sets, data types, locations, location categories, and stations. In addition, we have an interface for NOAA sea ice data, the NOAA severe weather inventory, ERDDAP data, NOAA Historical Observing Metadata Repository (HOMR) data, NOAA storm data via IBTrACS, and tornado data via the NOAA storm prediction center. NOAA buoy data is only on the buoy branch in the Github repository for this package (see url below).
Author: Hart Edmund [aut], Scott Chamberlain [aut, cre], Karthik Ram [aut]
Maintainer: Scott Chamberlain

Diff between rnoaa versions 0.2.0 dated 2014-07-21 and 0.3.3 dated 2014-12-20

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Package RcmdrPlugin.ROC updated to version 1.0-17 with previous version 1.0-16 dated 2014-07-08

Title: Rcmdr Receiver Operator Characteristic Plug-In package
Description: Rcmdr GUI extension plug-in for Receiver Operator Characteristic tools from pROC and ROCR packages. Also it ads a Rcmdr GUI extension for Hosmer and Lemeshow GOF test from the package ResourceSelection.
Author: Daniel-Corneliu Leucuta [aut, cre], Mihaela Hedesiu [ctb], Andrei Achimas [ctb], Oana Almasan [ctb]
Maintainer: Daniel-Corneliu Leucuta

Diff between RcmdrPlugin.ROC versions 1.0-16 dated 2014-07-08 and 1.0-17 dated 2014-12-20

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Package pse updated to version 0.4.0 with previous version 0.3.4 dated 2014-06-17

Title: Parameter space exploration with Latin Hypercubes
Description: Functions for creating Latin Hypercubes with prescribed correlations and performing parameter space exploration. Also implements the PLUE method. Based on the package sensitivity, by Gilles Pujol, Bertrand Iooss & Alexandre Janon.
Author: Andre Chalom, Paulo Inacio Knegt Lopez de Prado
Maintainer: Andre Chalom

Diff between pse versions 0.3.4 dated 2014-06-17 and 0.4.0 dated 2014-12-20

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New package NORTARA with initial version 1.0.0
Package: NORTARA
Title: Generation of Multivariate Data with Arbitrary Marginals
Version: 1.0.0
Authors@R: person("Po", "Su", email = "desolator@sjtu.edu.cn", role = c("aut", "cre"))
Description: An implementation of a specific method for generating n-dimensional random vectors with given marginal distributions and correlation matrix. The method uses the NORTA (NORmal To Anything) approach which generates a standard normal random vector and then transforms it into a random vector with specified marginal distributions and the RA (Retrospective Approximation) algorithm which is a generic stochastic root-finding algorithm. The marginals can be continuous or discrete. See the vignette of package for more details.
URL: https://github.com/superdesolator/NORTARA
BugReports: https://github.com/superdesolator/NORTARA/issues
Depends: R (>= 3.1.2)
License: MIT + file LICENSE
LazyData: true
Imports: corpcor(>= 1.6.7), Matrix(>= 1.1-4)
Suggests: knitr
VignetteBuilder: knitr
Packaged: 2014-12-20 14:29:55 UTC; Administrator
Author: Po Su [aut, cre]
Maintainer: Po Su
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-12-20 15:46:33

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Package digest updated to version 0.6.7 with previous version 0.6.6 dated 2014-12-10

Title: Create Cryptographic Hash Digests of R Objects
Description: Implementation of a function 'digest()' for the creation of hash digests of arbitrary R objects (using the md5, sha-1, sha-256, crc32, xxhash and murmurhash algorithms) permitting easy comparison of R language objects, as well as a function 'hmac()' to create hash-based message authentication code. The md5 algorithm by Ron Rivest is specified in RFC 1321, the sha-1 and sha-256 algorithms are specified in FIPS-180-1 and FIPS-180-2, and the crc32 algorithm is described in ftp://ftp.rocksoft.com/cliens/rocksoft/papers/crc_v3.txt. For md5, sha-1, sha-256 and aes, this package uses a small standalone implementations that were provided by Christophe Devine. For crc32, code from the zlib library is used. For sha-512, an implementation by Aaron D. Gifford is used. For xxHash, the implementation by Yann Collet is used. For murmurhash, an implementation by Shane Day is used. Please note that this package is not meant to be deployed for cryptographic purposes for which more comprehensive (and widely tested) libraries such as OpenSSL should be used.
Author: Dirk Eddelbuettel with contributions by Antoine Lucas, Jarek Tuszynski, Henrik Bengtsson, Simon Urbanek, Mario Frasca, Bryan Lewis, Murray Stokely, Hannes Muehleisen, Duncan Murdoch and Jim Hester.
Maintainer: Dirk Eddelbuettel

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Package colourlovers updated to version 0.1.4 with previous version 0.1.3 dated 2014-08-06

Title: R client for the COLOURlovers API
Description: Provides access to the COLOURlovers API, which provides color inspiration and color palettes.
Author: Thomas J. Leeper
Maintainer: Thomas J. Leeper

Diff between colourlovers versions 0.1.3 dated 2014-08-06 and 0.1.4 dated 2014-12-20

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Package surveillance updated to version 1.8-2 with previous version 1.8-1 dated 2014-10-30

Title: Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic Phenomena
Description: A package implementing statistical methods for the modeling and change-point detection in time series of counts, proportions and categorical data, as well as for the modeling of continuous-time epidemic phenomena, e.g. discrete-space setups such as the spatially enriched Susceptible-Exposed-Infectious-Recovered (SEIR) models for surveillance data, or continuous-space point process data such as the occurrence of disease or earthquakes. Main focus is on outbreak detection in count data time series originating from public health surveillance of infectious diseases, but applications could just as well originate from environmetrics, reliability engineering, econometrics or social sciences. Currently the package contains implementations of typical outbreak detection procedures such as Farrington et al (1996), Noufaily et al (2012) or the negative binomial LR-CUSUM method described in Hoehle and Paul (2008). Furthermore, inference methods for the retrospective infectious disease model in Held et al (2005), Held et al (2006), Paul et al (2008) and Paul and Held (2011) are provided. A novel CUSUM approach combining logistic and multinomial logistic modelling is also included. Continuous self-exciting spatio-temporal point processes are modeled through additive-multiplicative conditional intensities as described in Hhle (2009) ("twinSIR", discrete space) and Meyer et al (2012) ("twinstim", continuous space). The package contains several real-world data sets, the ability to simulate outbreak data, visualize the results of the monitoring in temporal, spatial or spatio-temporal fashion. Note: The suggested package INLA is unfortunately not available from any mainstream repository - in case one wants to use the 'boda' algorithm one needs to manually install the INLA package as specified at http://www.r-inla.org/download.
Author: Michael Hhle [aut, cre, ths], Sebastian Meyer [aut], Michaela Paul [aut], Leonhard Held [ctb, ths], Thais Correa [ctb], Mathias Hofmann [ctb], Christian Lang [ctb], Juliane Manitz [ctb], Andrea Riebler [ctb], Daniel Sabans Bov [ctb], Malle Salmon [ctb], Dirk Schumacher [ctb], Stefan Steiner [ctb], Mikko Virtanen [ctb], Valentin Wimmer [ctb], R Core Team [ctb] (A few code segments are modified versions of code from base R)
Maintainer: Michael Hhle

Diff between surveillance versions 1.8-1 dated 2014-10-30 and 1.8-2 dated 2014-12-20

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More information about surveillance at CRAN
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Package splm updated to version 1.3-7 with previous version 1.1-0 dated 2013-07-02

Title: Econometric Models for Spatial Panel Data
Description: ML and GM estimation and diagnostic testing of econometric models for spatial panel data.
Author: Giovanni Millo [aut, cre], Gianfranco Piras [aut]
Maintainer: Giovanni Millo

Diff between splm versions 1.1-0 dated 2013-07-02 and 1.3-7 dated 2014-12-20

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Package npcp updated to version 0.1-1 with previous version 0.1-0 dated 2014-07-08

Title: Some nonparametric tests for change-point detection in (multivariate) observations
Description: Provides nonparametric tests for assessing whether possibly serially dependent (multivariate) observations have the same c.d.f. or not. In addition to tests focusing directly on the (multivariate) c.d.f., the package contains tests designed to be particularly sensitive to changes in the underlying copula, Spearman's rho or certain quantities that can be estimated using one-sample U-statistics of order two such as the variance, Gini's mean difference or Kendall's tau.
Author: Ivan Kojadinovic
Maintainer: Ivan Kojadinovic

Diff between npcp versions 0.1-0 dated 2014-07-08 and 0.1-1 dated 2014-12-20

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Package googleVis updated to version 0.5.7 with previous version 0.5.6 dated 2014-10-12

Title: R Interface to Google Charts
Description: R interface to Google Charts API, allowing users to create interactive charts based on data frames. Charts are displayed locally via the R HTTP help server. A modern browser with Internet connection is required and for some charts Flash. The data remains local and is not uploaded to Google.
Author: Markus Gesmann [aut, cre], Diego de Castillo [aut], Joe Cheng [ctb]
Maintainer: Markus Gesmann

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More information about googleVis at CRAN
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Package ChainLadder updated to version 0.1.9 with previous version 0.1.8 dated 2014-08-23

Title: Statistical Methods and Models for Claims Reserving in General Insurance
Description: Various statistical methods and models which are typically used for the estimation of outstanding claims reserves in general insurance. The package has implementations of the Mack, Munich, Bootstrap, multivariate, and chain-ladder factor models (CLFM), as well as the loss development factor curve fitting methods of Dave Clark and generalised linear model based reserving models.
Author: Markus Gesmann [aut, cre], Daniel Murphy [aut], Wayne Zhang [aut]
Maintainer: Markus Gesmann

Diff between ChainLadder versions 0.1.8 dated 2014-08-23 and 0.1.9 dated 2014-12-20

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More information about ChainLadder at CRAN
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Package RMAWGEN updated to version 1.3.0 with previous version 1.2.6.1 dated 2014-04-29

Title: Multi-site Auto-regressive Weather GENerator
Description: S3 and S4 functions are implemented for spatial multi-site stochastic generation of daily time series of temperature and precipitation. These tools make use of Vector AutoRegressive models (VARs). The weather generator model is then saved as an object and is calibrated by daily instrumental "Gaussianized" time series through the 'vars' package tools. Once obtained this model, it can it can be used for weather generations and be adapted to work with several climatic monthly time series.
Author: Emanuele Cordano, Emanuele Eccel
Maintainer: Emanuele Cordano

Diff between RMAWGEN versions 1.2.6.1 dated 2014-04-29 and 1.3.0 dated 2014-12-20

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More information about RMAWGEN at CRAN
Permanent link

Package pubmed.mineR updated to version 1.0.2.1 with previous version 1.0.2 dated 2014-08-26

Title: Text mining of PubMed Abstracts
Description: Text mining of PubMed Abstracts (http://www.ncbi.nlm.nih.gov/pubmed). The algorithms are designed for two formats (text and XML) from PubMed
Author: Jyoti Sharma, S.Ramachandran, Ab Rauf Shah
Maintainer: S. Ramachandran

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Package tcltk2 updated to version 1.2-11 with previous version 1.2-10 dated 2014-03-02

Title: Tcl/Tk Additions
Description: A series of additional Tcl commands and Tk widgets with style and various functions (under Windows: DDE exchange, access to the registry and icon manipulation) to supplement the tcltk package
Author: Philippe Grosjean [aut, cre]
Maintainer: Philippe Grosjean

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Package svDialogs updated to version 0.9-57 with previous version 0.9-55 dated 2014-03-02

Title: SciViews GUI API - Dialog boxes
Description: Rapidly construct dialog boxes for your GUI, including an automatic function assistant
Author: Philippe Grosjean [aut, cre]
Maintainer: Philippe Grosjean

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Package ddalpha updated to version 1.1.0 with previous version 1.0.6 dated 2014-03-28

Title: Depth-based Classification and Calculation of Data Depth
Description: Contains procedures for depth-based supervised learning, which are entirely nonparametric, in particular the DDalpha-procedure. The training data sample is transformed by a statistical depth function to a compact low-dimensional space, where the final classification is done. It also offers an extension to functional data and routines for calculating certain notions of statistical depth functions. 50 multivariate and 5 functional classification problems are included.
Author: Oleksii Pokotylo [aut, cre], Pavlo Mozharovskyi [aut]
Maintainer: Oleksii Pokotylo

Diff between ddalpha versions 1.0.6 dated 2014-03-28 and 1.1.0 dated 2014-12-20

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Package HIBAG (with last version 1.2.4) was removed from CRAN

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

2014-10-03 1.2.4
2014-03-06 1.2.3
2013-12-21 1.2.2
2013-10-30 1.2.1
2013-08-12 1.2.0.1
2013-07-29 1.2.0
2013-06-04 1.1.0
2013-03-26 1.0.0
2012-12-22 0.9.4
2012-10-20 0.9.3
2012-08-05 0.9.2
2012-06-21 0.9.1

Permanent link
Package gdsfmt (with last version 1.1.0.1) was removed from CRAN

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

2014-09-19 1.1.0.1
2014-09-11 1.1.0

Permanent link
Package testit updated to version 0.4 with previous version 0.3 dated 2013-10-26

Title: A Simple Package for Testing R Packages
Description: Provides two convenience functions assert() and test_pkg() to facilitate testing R packages.
Author: Yihui Xie
Maintainer: Yihui Xie

Diff between testit versions 0.3 dated 2013-10-26 and 0.4 dated 2014-12-20

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New package orgR with initial version 0.9.0
Package: orgR
Type: Package
Title: Analyse Text Files Created by Emacs' Org mode
Version: 0.9.0
Date: 2014-12-15
Author: Yi Tang
Maintainer: Yi Tang
Description: Provides functionality to process text files created by Emacs' Org mode, and decompose the content to the smallest components (headlines, body, tag, clock entries etc). Emacs is an extensible, customizable text editor and Org mode is for keeping notes, maintaining TODO lists, planning projects. Allows users to analyze org files as data frames in R, e.g., to convieniently group tasks by tag into project and calculate total working hours. Also provides some help functions like search.parent, gg.pie (visualise working hours in ggplot2) and tree.headlines (visualise headline stricture in tree format) to help user managing their complex org files.
License: GPL (>= 2)
Depends: ggthemes (>= 1.7.0), ggplot2 (>= 1.0.0), lubridate(>= 1.3.3), data.table (>= 1.9.4), stringr (>= 0.6.2)
Packaged: 2014-12-19 15:02:11.908 UTC; yitang
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-12-20 07:48:40

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Package knockoff updated to version 0.1.1 with previous version 0.1 dated 2014-12-06

Title: Knockoff Filter
Description: The knockoff filter for controlling the false discovery rate
Author: Rina Foygel Barber, Emmanuel Candes, Evan Patterson
Maintainer: Evan Patterson

Diff between knockoff versions 0.1 dated 2014-12-06 and 0.1.1 dated 2014-12-20

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Package doMPI updated to version 0.2.1 with previous version 0.2 dated 2013-06-14

Title: Foreach parallel adaptor for the Rmpi package
Description: Provides a parallel backend for the %dopar% function using the Rmpi package.
Author: Steve Weston
Maintainer: Steve Weston

Diff between doMPI versions 0.2 dated 2013-06-14 and 0.2.1 dated 2014-12-20

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Fri, 19 Dec 2014

Package GPLTR updated to version 1.1 with previous version 0.95 dated 2014-05-27

Title: Generalized Partially Linear Tree-based Regression Model
Description: Combining a generalized linear model with an additional tree part on the same scale. A four-step procedure is proposed to fit the model and test the joint effect of the selected tree part while adjusting on confounding factors. We also proposed an ensemble procedure based on the bagging to improve prediction accuracy and computed several scores of importance for variable selection.
Author: Cyprien Mbogning and Wilson Toussile
Maintainer: Cyprien Mbogning

Diff between GPLTR versions 0.95 dated 2014-05-27 and 1.1 dated 2014-12-19

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Package sBF updated to version 1.1.1 with previous version 1.1 dated 2012-08-01

Title: Smooth Backfitting
Description: Smooth Backfitting for additive models using Nadaraya-Watson estimator
Author: A. Arcagni, L. Bagnato
Maintainer: Alberto Arcagni

Diff between sBF versions 1.1 dated 2012-08-01 and 1.1.1 dated 2014-12-19

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Package RGA updated to version 0.1.4 with previous version 0.1.3 dated 2014-10-27

Title: A Google Analytics API client for R
Description: Provides functions for accessing and retrieving data from the Google Analytics APIs (https://developers.google.com/analytics/). Supports OAuth 2.0 authorization. Package provides access to the Management, Core Reporting, Multi-Channel Funnels Reporting, Real Time Reporting and Metadata APIs. Access to all the Google Analytics accounts which the user has access to. Auto-pagination to return more than 10,000 rows of the results by combining multiple data requests. Also the RGA package provides shiny app to explore the core reporting API dimensions and metrics.
Author: Artem Klevtsov [aut, cre], Philipp Upravitelev [ctb], Olga Shramko [ctb]
Maintainer: Artem Klevtsov

Diff between RGA versions 0.1.3 dated 2014-10-27 and 0.1.4 dated 2014-12-19

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Package penalized updated to version 0.9-45 with previous version 0.9-42 dated 2012-11-06

Title: L1 (lasso and fused lasso) and L2 (ridge) penalized estimation in GLMs and in the Cox model
Description: A package for fitting possibly high dimensional penalized regression models. The penalty structure can be any combination of an L1 penalty (lasso and fused lasso), an L2 penalty (ridge) and a positivity constraint on the regression coefficients. The supported regression models are linear, logistic and Poisson regression and the Cox Proportional Hazards model. Cross-validation routines allow optimization of the tuning parameters.
Author: Jelle Goeman, Rosa Meijer, Nimisha Chaturvedi
Maintainer: Jelle Goeman

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Package geonames updated to version 0.998 with previous version 0.997 dated 2014-10-19

Title: Interface to www.geonames.org web service
Description: Code for querying the web service at www.geonames.org
Author: Barry Rowlingson
Maintainer: Barry Rowlingson

Diff between geonames versions 0.997 dated 2014-10-19 and 0.998 dated 2014-12-19

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Package vardpoor updated to version 0.2.1 with previous version 0.2.0.14 dated 2014-11-04

Title: Variance Estimation for Sample Surveys by the Ultimate Cluster Method
Description: Generation of domain variables, linearisation of several nonlinear population statistics (the ratio of two totals, weighted income percentile, at-risk-of-poverty rate, at-risk-of-poverty threshold, Gini coefficient, gender pay gap, median income below at-risk-of-poverty gap, income quintile share ratio, relative median at-risk-of-poverty gap), computation of regression residuals in case of weight calibration, variance estimation of sample surveys by the ultimate cluster method (Hansen, Hurwitz and Madow, 1953), variance estimation for longitudinal, crossectional measures and measures of change for single and multistage stage cluster sampling designs (Berger, Y.G.). Several other precision measures are derived - standard error, the coefficient of variation, the margin of error, confidence interval, design effect.
Author: Juris Breidaks [aut, cre], Martins Liberts [aut], Santa Ivanova [aut]
Maintainer: Juris Breidaks

Diff between vardpoor versions 0.2.0.14 dated 2014-11-04 and 0.2.1 dated 2014-12-19

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Package cgdsr updated to version 1.1.32 with previous version 1.1.31 dated 2014-12-12

Title: R-Based API for accessing the MSKCC Cancer Genomics Data Server (CGDS).
Description: The package provides a basic set of R functions for querying the Cancer Genomics Data Server (CGDS), hosted by the Computational Biology Center at Memorial-Sloan-Kettering Cancer Center (MSKCC).
Author: Anders Jacobsen Skanderup
Maintainer: Anders Jacobsen Skanderup

Diff between cgdsr versions 1.1.31 dated 2014-12-12 and 1.1.32 dated 2014-12-19

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New package biogram with initial version 1.0
Package: biogram
Type: Package
Title: N-Gram Analysis of Biological Sequences
Version: 1.0
LazyData: true
Date: 2014-12-19
Authors@R: c( person("Michal", "Burdukiewicz", email = "michalburdukiewicz@gmail.com", role = c("cre", "aut")), person("Piotr", "Sobczyk", role = "aut"), person("Chris", "Lauber", role = "aut"))
Description: Tools for extraction and analysis of various n-grams (sequences of n items) derived from biological sequences (proteins or nucleic acids). To deal with the dimensionality of the n-gram data, biogram uses QuiPT (quick permutation test) for fast feature-filtering.
License: GPL-3
URL: https://github.com/michbur/biogram
Depends: R (>= 3.0.0), slam
Imports: bit
Suggests: testthat
NeedsCompilation: no
Repository: CRAN
Packaged: 2014-12-19 11:17:38 UTC; michal
Author: Michal Burdukiewicz [cre, aut], Piotr Sobczyk [aut], Chris Lauber [aut]
Maintainer: Michal Burdukiewicz
Date/Publication: 2014-12-19 15:58:01

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Package bgmm updated to version 1.7 with previous version 1.6 dated 2013-11-19

Title: Gaussian Mixture Modeling Algorithms And The Belief-based Mixture Modeling
Description: Two partially supervised mixture modeling methods: soft-label and belief-based modeling are implemented. For completeness, we equipped the package also with the functionality of unsupervised, semi- and fully supervised mixture modeling. The package can be applied also to selection of the best-fitting from a set of models with different component numbers or constraints on their structures. For detailed introduction see: Przemyslaw Biecek, Ewa Szczurek, Martin Vingron, Jerzy Tiuryn (2012), The R Package bgmm: Mixture Modeling with Uncertain Knowledge, Journal of Statistical Software.
Author: Przemyslaw Biecek \& Ewa Szczurek
Maintainer: Przemyslaw Biecek

Diff between bgmm versions 1.6 dated 2013-11-19 and 1.7 dated 2014-12-19

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Package rcicr updated to version 0.2.6 with previous version 0.2.5 dated 2014-11-17

Title: Reverse correlation image classification toolbox
Description: Functions to generate stimuli and analyze data of reverse correlation image classification experiments.
Author: Ron Dotsch
Maintainer: Ron Dotsch

Diff between rcicr versions 0.2.5 dated 2014-11-17 and 0.2.6 dated 2014-12-19

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New package nlsem with initial version 0.1
Package: nlsem
Version: 0.1
Date: 2014-12-19
Title: Fitting Structural Equation Mixture Models
Authors@R: c(person("Nora", "Umbach", role = c("aut", "cre"), email = "nora.umbach@web.de"), person("Katharina", "Naumann", role = "aut"), person("David", "Hoppe", role = "aut"), person("Holger", "Brandt", role = "aut"), person("Augustin", "Kelava", role="ctb"), person("Bernhard", "Schmitz", role="ctb"))
Depends: R (>= 3.1.0), gaussquad, mvtnorm, nlme
Description: Estimation of structural equation models with nonlinear effects and underlying nonnormal distributions.
License: GPL (>= 2)
Packaged: 2014-12-19 09:42:10 UTC; noraumbach
Author: Nora Umbach [aut, cre], Katharina Naumann [aut], David Hoppe [aut], Holger Brandt [aut], Augustin Kelava [ctb], Bernhard Schmitz [ctb]
Maintainer: Nora Umbach
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-12-19 12:07:02

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Package aoos updated to version 0.1.0 with previous version 0.0.3 dated 2014-11-14

Title: Another Object Orientation System
Description: Another implementation of object-orientation in R. Has reference semantics and is build around S4.
Author: Sebastian Warnholz
Maintainer: Sebastian Warnholz

Diff between aoos versions 0.0.3 dated 2014-11-14 and 0.1.0 dated 2014-12-19

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Package PowerTOST updated to version 1.2-04 with previous version 1.2-03 dated 2014-11-13

Title: Power and Sample Size Based on Two One-sided t-Tests (TOST) for (Bio)Equivalence Studies
Description: Contains functions to calculate power and sample size for various study designs used for bioequivalence studies. See function known.designs() for study designs covered. Moreover the package contains functions for power and sample size based on 'expected' power in case of uncertain (estimated) variability. ----- Added are functions for the power and sample size for the ratio of two means with normally distributed data on the original scale (based on Fieller's confidence ('fiducial') interval). ----- Contains further functions for power and sample size calculations based on non-inferiority t-test. This is not a TOST procedure but eventually useful if the question of 'non-superiority' must be evaluated. The power and sample size calculations based on non-inferiority test may also performed via 'expected' power in case of uncertain (estimated) variability. ----- Contains functions power.scABEL() and sampleN.scABEL() to calculate power and sample size for the BE decision via scaled (widened) BE acceptance limits based on simulations. Contains further functions power.RSABE() and sampleN.RSABE() to calculate power and sample size for the BE decision via reference scaled ABE criterion according to the FDA procedure based on simulations. Contains further functions power.NTIDFDA() and sampleN.NTIDFDA() to calculate power and sample size for the BE decision via the FDA procedure for NTID's based on simulations. ----- Contains functions for power analysis of a sample size plan for ABE (pa.ABE()), scaled ABE (pa.scABE()) and scaled ABE for NTID's (pa.NTIDFDA()) analysing power if deviating from assumptions of the plan. ----- Contains further functions for power calculations / samplesize estimation for dose proportionality studies using the Power model.
Author: Detlew Labes [aut, cre], Helmut Schuetz [aut]
Maintainer: Detlew Labes

Diff between PowerTOST versions 1.2-03 dated 2014-11-13 and 1.2-04 dated 2014-12-19

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Package helsinki updated to version 0.9.22 with previous version 0.9.20 dated 2014-06-09

Title: Helsinki open data R tools
Description: Tools for accessing various open data sources in the Helsinki region in Finland. Current data sources include the Real Estate Department (district maps), the Environmental Services Authority, Service Map API, Linked Events API and Helsinki Region Infoshare statistics API.
Author: Juuso Parkkinen, Leo Lahti, Joona Lehtomaki
Maintainer: Juuso Parkkinen

Diff between helsinki versions 0.9.20 dated 2014-06-09 and 0.9.22 dated 2014-12-19

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Package ztable updated to version 0.1.1 with previous version 0.1.0 dated 2014-12-15

Title: Zebra-Striped Tables in LaTeX and HTML Formats
Description: Makes zebra-striped tables (tables with alternating row colors) in LaTeX and HTML formats easily from a data.frame, matrix, lm, aov, anova, glm or coxph objects.
Author: "Keon-Woong Moon" [aut, cre]
Maintainer: "Keon-Woong Moon"

Diff between ztable versions 0.1.0 dated 2014-12-15 and 0.1.1 dated 2014-12-19

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More information about ztable at CRAN
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Package taxize updated to version 0.5.2 with previous version 0.4.0 dated 2014-09-09

Title: Taxonomic Information from Around the Web
Description: Taxonomic information from around the web. This package interacts with a suite of web APIs for taxonomic tasks, such as verifying species names, getting taxonomic hierarchies, and verifying name spelling.
Author: Scott Chamberlain [aut, cre], Eduard Szoecs [aut], Zachary Foster [aut], Carl Boettiger [aut], Karthik Ram [aut], Ignasi Bartomeus [aut], John Baumgartner [aut]
Maintainer: Scott Chamberlain

Diff between taxize versions 0.4.0 dated 2014-09-09 and 0.5.2 dated 2014-12-19

 taxize-0.4.0/taxize/R/deprecated.R                                                 |only
 taxize-0.4.0/taxize/R/eol_ping.R                                                   |only
 taxize-0.4.0/taxize/R/itis_ping.R                                                  |only
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 taxize-0.4.0/taxize/R/startup.R                                                    |only
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 taxize-0.4.0/taxize/tests/testthat/test-ubio_synonyms.R                            |only
 taxize-0.5.2/taxize/DESCRIPTION                                                    |   16 
 taxize-0.5.2/taxize/MD5                                                            |  600 ++--
 taxize-0.5.2/taxize/NAMESPACE                                                      |  111 
 taxize-0.5.2/taxize/NEWS                                                           |   50 
 taxize-0.5.2/taxize/R/apg_lookup.R                                                 |   11 
 taxize-0.5.2/taxize/R/bold_search.R                                                |   25 
 taxize-0.5.2/taxize/R/children.R                                                   |   77 
 taxize-0.5.2/taxize/R/class2tree.R                                                 |   46 
 taxize-0.5.2/taxize/R/classification.R                                             |  430 +-
 taxize-0.5.2/taxize/R/col_children.R                                               |   58 
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 taxize-0.5.2/taxize/R/col_downstream.R                                             |  110 
 taxize-0.5.2/taxize/R/col_search.R                                                 |   38 
 taxize-0.5.2/taxize/R/comm2sci.R                                                   |   24 
 taxize-0.5.2/taxize/R/downstream.R                                                 |  126 
 taxize-0.5.2/taxize/R/eol_dataobjects.R                                            |   14 
 taxize-0.5.2/taxize/R/eol_hierarchy.R                                              |only
 taxize-0.5.2/taxize/R/eol_invasive.R                                               |   55 
 taxize-0.5.2/taxize/R/eol_pages.R                                                  |   42 
 taxize-0.5.2/taxize/R/eol_search.R                                                 |   28 
 taxize-0.5.2/taxize/R/gbif_parse.R                                                 |   14 
 taxize-0.5.2/taxize/R/genbank2uid.R                                                |only
 taxize-0.5.2/taxize/R/get_boldid.R                                                 |  152 -
 taxize-0.5.2/taxize/R/get_colid.R                                                  |  182 -
 taxize-0.5.2/taxize/R/get_eolid.R                                                  |  210 +
 taxize-0.5.2/taxize/R/get_gbifid.R                                                 |  133 
 taxize-0.5.2/taxize/R/get_ids.R                                                    |   58 
 taxize-0.5.2/taxize/R/get_nbnid.R                                                  |only
 taxize-0.5.2/taxize/R/get_tpsid.R                                                  |  166 -
 taxize-0.5.2/taxize/R/get_tsn.R                                                    |  176 -
 taxize-0.5.2/taxize/R/get_ubioid.R                                                 |  126 
 taxize-0.5.2/taxize/R/get_uid.R                                                    |  186 -
 taxize-0.5.2/taxize/R/gisd_isinvasive.R                                            |   63 
 taxize-0.5.2/taxize/R/gni_details.R                                                |   18 
 taxize-0.5.2/taxize/R/gni_parse.R                                                  |   16 
 taxize-0.5.2/taxize/R/gni_search.R                                                 |   35 
 taxize-0.5.2/taxize/R/gnr_datasources.R                                            |   24 
 taxize-0.5.2/taxize/R/gnr_resolve.R                                                |   28 
 taxize-0.5.2/taxize/R/iplant_resolve.R                                             |   10 
 taxize-0.5.2/taxize/R/ipni_search.R                                                |   39 
 taxize-0.5.2/taxize/R/itis-api.R                                                   |only
 taxize-0.5.2/taxize/R/itis.R                                                       | 1477 +++-------
 taxize-0.5.2/taxize/R/itis_acceptname.R                                            |    6 
 taxize-0.5.2/taxize/R/itis_downstream.R                                            |   80 
 taxize-0.5.2/taxize/R/itis_getrecord.R                                             |   18 
 taxize-0.5.2/taxize/R/itis_hierarchy.R                                             |   23 
 taxize-0.5.2/taxize/R/itis_kingdomnames.R                                          |   10 
 taxize-0.5.2/taxize/R/itis_lsid.R                                                  |   19 
 taxize-0.5.2/taxize/R/itis_name.R                                                  |    2 
 taxize-0.5.2/taxize/R/itis_native.R                                                |   16 
 taxize-0.5.2/taxize/R/itis_refs.R                                                  |    8 
 taxize-0.5.2/taxize/R/itis_taxrank.R                                               |   14 
 taxize-0.5.2/taxize/R/itis_terms.R                                                 |   18 
 taxize-0.5.2/taxize/R/iucn_getname.R                                               |    6 
 taxize-0.5.2/taxize/R/iucn_summary.R                                               |   54 
 taxize-0.5.2/taxize/R/names_list.r                                                 |   14 
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 taxize-0.5.2/taxize/R/ncbi_getbyid.R                                               |   11 
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 taxize-0.5.2/taxize/R/phylomatic_format.R                                          |   16 
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 taxize-0.5.2/taxize/R/plantminer.R                                                 |   22 
 taxize-0.5.2/taxize/R/rankagg.R                                                    |   14 
 taxize-0.5.2/taxize/R/resolve.R                                                    |   30 
 taxize-0.5.2/taxize/R/sci2comm.R                                                   |  116 
 taxize-0.5.2/taxize/R/scrapenames.r                                                |   56 
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 taxize-0.5.2/taxize/R/synonyms.R                                                   |  109 
 taxize-0.5.2/taxize/R/tax_agg.R                                                    |   70 
 taxize-0.5.2/taxize/R/tax_name.R                                                   |  161 -
 taxize-0.5.2/taxize/R/tax_rank.R                                                   |   44 
 taxize-0.5.2/taxize/R/taxize-package.R                                             |   65 
 taxize-0.5.2/taxize/R/tnrs.R                                                       |    2 
 taxize-0.5.2/taxize/R/tnrs_sources.r                                               |    8 
 taxize-0.5.2/taxize/R/tp_accnames.R                                                |    2 
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 taxize-0.5.2/taxize/R/tp_dist.R                                                    |    6 
 taxize-0.5.2/taxize/R/tp_refs.R                                                    |    4 
 taxize-0.5.2/taxize/R/tp_search.R                                                  |   10 
 taxize-0.5.2/taxize/R/tp_summary.R                                                 |   16 
 taxize-0.5.2/taxize/R/tp_synonyms.R                                                |    4 
 taxize-0.5.2/taxize/R/tpl_families.r                                               |   16 
 taxize-0.5.2/taxize/R/tpl_get.r                                                    |   34 
 taxize-0.5.2/taxize/R/tpl_search.r                                                 |    8 
 taxize-0.5.2/taxize/R/ubio_classification.R                                        |   32 
 taxize-0.5.2/taxize/R/ubio_classification_search.R                                 |   22 
 taxize-0.5.2/taxize/R/ubio_id.R                                                    |   36 
 taxize-0.5.2/taxize/R/ubio_search.R                                                |   18 
 taxize-0.5.2/taxize/R/ubio_synonyms.R                                              |   12 
 taxize-0.5.2/taxize/R/upstream.R                                                   |only
 taxize-0.5.2/taxize/R/vascan_search.r                                              |   20 
 taxize-0.5.2/taxize/R/zzz.R                                                        |   86 
 taxize-0.5.2/taxize/README.md                                                      |  519 ++-
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 taxize-0.5.2/taxize/man/apg_families.Rd                                            |    3 
 taxize-0.5.2/taxize/man/apg_genera.Rd                                              |    3 
 taxize-0.5.2/taxize/man/apg_lookup.Rd                                              |    5 
 taxize-0.5.2/taxize/man/apg_orders.Rd                                              |    3 
 taxize-0.5.2/taxize/man/bold_search.Rd                                             |   25 
 taxize-0.5.2/taxize/man/children.Rd                                                |   22 
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 taxize-0.5.2/taxize/man/get_seqs-deprecated.Rd                                     |    3 
 taxize-0.5.2/taxize/man/get_tpsid.Rd                                               |   74 
 taxize-0.5.2/taxize/man/get_tsn.Rd                                                 |   76 
 taxize-0.5.2/taxize/man/get_ubioid.Rd                                              |   74 
 taxize-0.5.2/taxize/man/get_uid.Rd                                                 |   82 
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 taxize-0.5.2/taxize/man/getanymatchcount.Rd                                        |   19 
 taxize-0.5.2/taxize/man/getcommentdetailfromtsn.Rd                                 |   15 
 taxize-0.5.2/taxize/man/getcommonnamesfromtsn.Rd                                   |   14 
 taxize-0.5.2/taxize/man/getcoremetadatafromtsn.Rd                                  |   17 
 taxize-0.5.2/taxize/man/getcoveragefromtsn.Rd                                      |   16 
 taxize-0.5.2/taxize/man/getcredibilityratingfromtsn.Rd                             |   15 
 taxize-0.5.2/taxize/man/getcredibilityratings.Rd                                   |   12 
 taxize-0.5.2/taxize/man/getcurrencyfromtsn.Rd                                      |   16 
 taxize-0.5.2/taxize/man/getdatedatafromtsn.Rd                                      |   14 
 taxize-0.5.2/taxize/man/getdescription.Rd                                          |   12 
 taxize-0.5.2/taxize/man/getexpertsfromtsn.Rd                                       |   14 
 taxize-0.5.2/taxize/man/getfullhierarchyfromtsn.Rd                                 |   19 
 taxize-0.5.2/taxize/man/getfullrecordfromlsid.Rd                                   |   19 
 taxize-0.5.2/taxize/man/getfullrecordfromtsn.Rd                                    |   22 
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 taxize-0.5.2/taxize/man/gethierarchyupfromtsn.Rd                                   |   17 
 taxize-0.5.2/taxize/man/getitisterms.Rd                                            |   17 
 taxize-0.5.2/taxize/man/getitistermsfromcommonname.Rd                              |   18 
 taxize-0.5.2/taxize/man/getitistermsfromscientificname.Rd                          |   19 
 taxize-0.5.2/taxize/man/getjurisdictionaloriginfromtsn.Rd                          |   17 
 taxize-0.5.2/taxize/man/getjurisdictionoriginvalues.Rd                             |   12 
 taxize-0.5.2/taxize/man/getjurisdictionvalues.Rd                                   |   12 
 taxize-0.5.2/taxize/man/getkey.Rd                                                  |    5 
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 taxize-0.5.2/taxize/man/getkingdomnames.Rd                                         |   12 
 taxize-0.5.2/taxize/man/getlastchangedate.Rd                                       |   12 
 taxize-0.5.2/taxize/man/getlsidfromtsn.Rd                                          |   14 
 taxize-0.5.2/taxize/man/getothersourcesfromtsn.Rd                                  |   15 
 taxize-0.5.2/taxize/man/getparenttsnfromtsn.Rd                                     |   14 
 taxize-0.5.2/taxize/man/getpublicationsfromtsn.Rd                                  |   17 
 taxize-0.5.2/taxize/man/getranknames.Rd                                            |   12 
 taxize-0.5.2/taxize/man/getrecordfromlsid.Rd                                       |   18 
 taxize-0.5.2/taxize/man/getreviewyearfromtsn.Rd                                    |   14 
 taxize-0.5.2/taxize/man/getscientificnamefromtsn.Rd                                |   15 
 taxize-0.5.2/taxize/man/getsynonymnamesfromtsn.Rd                                  |   19 
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 taxize-0.5.2/taxize/man/gettaxonomicranknamefromtsn.Rd                             |   17 
 taxize-0.5.2/taxize/man/gettaxonomicusagefromtsn.Rd                                |   17 
 taxize-0.5.2/taxize/man/gettsnbyvernacularlanguage.Rd                              |   19 
 taxize-0.5.2/taxize/man/gettsnfromlsid.Rd                                          |   21 
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 taxize-0.5.2/taxize/man/gni_details.Rd                                             |    5 
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 taxize-0.5.2/taxize/man/itis_lsid.Rd                                               |    8 
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 taxize-0.5.2/taxize/man/itis_terms.Rd                                              |    5 
 taxize-0.5.2/taxize/man/iucn_getname.Rd                                            |    5 
 taxize-0.5.2/taxize/man/iucn_status.Rd                                             |    5 
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 taxize-0.5.2/taxize/tests/testthat/test-eol_search.R                               |    6 
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 taxize-0.5.2/taxize/tests/testthat/test-tax_name.R                                 |   40 
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Package streamMOA updated to version 1.0-0 with previous version 0.1-1 dated 2014-06-17

Title: stream - Interface to MOA Algorithms
Description: This package provides an interface to algorithms implemented in the MOA (Massive Online Analysis) framework for data stream mining.
Author: Michael Hahsler [aut, cre, cph], Matthew Bolanos [aut, cph], John Forrest [aut, cph]
Maintainer: Michael Hahsler

Diff between streamMOA versions 0.1-1 dated 2014-06-17 and 1.0-0 dated 2014-12-19

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 19 files changed, 301 insertions(+), 571 deletions(-)

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Package spBayesSurv updated to version 1.0.2 with previous version 1.0.1 dated 2014-10-25

Title: Bayesian Modeling and Analysis of Spatially Correlated Survival Data
Description: This package provides several Bayesian survival models for spatial/non-spatial survival data: marginal Bayesian Nonparametric models, marginal Bayesian proportional hazards models, and generalized accelerated failure time frailty models.
Author: Haiming Zhou and Tim Hanson
Maintainer: Haiming Zhou

Diff between spBayesSurv versions 1.0.1 dated 2014-10-25 and 1.0.2 dated 2014-12-19

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Package RJDBC updated to version 0.2-5 with previous version 0.2-4 dated 2014-06-26

Title: Provides access to databases through the JDBC interface
Description: RJDBC is an implementation of R's DBI interface using JDBC as a back-end. This allows R to connect to any DBMS that has a JDBC driver.
Author: Simon Urbanek
Maintainer: Simon Urbanek

Diff between RJDBC versions 0.2-4 dated 2014-06-26 and 0.2-5 dated 2014-12-19

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Package R2SWF updated to version 0.8-2 with previous version 0.8-1 dated 2014-12-10

Title: Convert R Graphics to Flash Animations
Description: This package uses the Ming library (http://www.libming.org/) to create Flash animations. Users can either use the SWF device swf() to generate SWF file directly through plotting functions like plot() and lines(), or convert images of other formats (SVG, PNG, JPEG) into SWF.
Author: Yixuan Qiu, Yihui Xie, Cameron Bracken and authors of included software. See file AUTHORS for details.
Maintainer: Yixuan Qiu

Diff between R2SWF versions 0.8-1 dated 2014-12-10 and 0.8-2 dated 2014-12-19

 DESCRIPTION              |    8 ++++----
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Package lpme updated to version 1.0.1 with previous version 1.0.0 dated 2014-11-05

Title: Local Polynomial Estimator in Measurement Error Models
Description: Two local polynomial estimators for solving the errors-in-variables problem: one is in Delaigle, Fan, and Carroll (2009), and one is in Huang and Zhou (2014+). The SIMEX bandwidth selection method is also provided for both estimators.
Author: Haiming Zhou and Xianzheng Huang
Maintainer: Haiming Zhou

Diff between lpme versions 1.0.0 dated 2014-11-05 and 1.0.1 dated 2014-12-19

 DESCRIPTION         |    6 +++---
 MD5                 |    4 ++--
 src/lpme_common.cpp |    4 ++--
 3 files changed, 7 insertions(+), 7 deletions(-)

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Package interpretR updated to version 0.2.0 with previous version 0.1.0 dated 2014-11-21

Title: Binary Classifier Interpretation Functions
Description: Compute permutation- based performance measures and create partial dependence plots for binary (cross-validated) classification models. Currently only binary classification models estimated with the packages randomForest and ada are supported.
Author: Michel Ballings and Dirk Van den Poel
Maintainer: Michel Ballings

Diff between interpretR versions 0.1.0 dated 2014-11-21 and 0.2.0 dated 2014-12-19

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Package io updated to version 0.2.1 with previous version 0.2 dated 2014-12-11

Title: A Unified Framework for Input-Output Operations in R
Description: One function to read files. One function to write files. One function to direct plots to screen or file. Automatic file format inference and directory structure creation.
Author: David J. H. Shih
Maintainer: David J. H. Shih

Diff between io versions 0.2 dated 2014-12-11 and 0.2.1 dated 2014-12-19

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 tests/testthat/helper.R |   11 ++++++++++-
 8 files changed, 41 insertions(+), 20 deletions(-)

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Package hypervolume updated to version 1.1.1 with previous version 1.1 dated 2014-12-04

Title: High-dimensional Kernel Density Estimation and Geometry Operations
Description: Estimates the shape and volume of high-dimensional datasets and performs set operations: intersection / overlap, union, unique components, inclusion test, and negative feature detection. Uses stochastic geometry approach to high-dimensional kernel density estimation. Builds n-dimensional convex hulls (polytopes). Can measure the n-dimensional ecological hypervolume and perform species distribution modeling.
Author: Benjamin Blonder
Maintainer: Benjamin Blonder

Diff between hypervolume versions 1.1 dated 2014-12-04 and 1.1.1 dated 2014-12-19

 DESCRIPTION    |   14 +++++++-------
 MD5            |    6 +++---
 demo/finch.R   |    4 ++--
 demo/quercus.R |   15 ++++++---------
 4 files changed, 18 insertions(+), 21 deletions(-)

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Package BDgraph updated to version 2.14 with previous version 2.13 dated 2014-11-17

Title: Graph Estimation Based on Birth-Death MCMC Approach
Description: This package provides a Bayesian methodology for structure learning in undirected graphical models. Our Bayesian methodology is based on birth-death Markov chain Monte Carlo (BDMCMC) algorithm which is the main function with the name 'bdgraph'. The main target of this package is high-dimensional data analysis wherein usually p >> n. The computation is memory-optimized using the sparse matrix output.
Author: Abdolreza Mohammadi and Ernst Wit
Maintainer: Abdolreza Mohammadi

Diff between BDgraph versions 2.13 dated 2014-11-17 and 2.14 dated 2014-12-19

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 BDgraph-2.14/BDgraph/man/plot.simulate.Rd   |   10 +-
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Package WhopGenome (with last version 0.9.0) was removed from CRAN

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

2014-09-12 0.9.0
2014-08-27 0.8.9
2013-12-03 0.8.2
2013-11-19 0.8.1

Permanent link
Package hddtools (with last version 0.2.2) was removed from CRAN

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

2014-09-24 0.2.2
2014-08-13 0.1.1

Permanent link
Package OneArmPhaseTwoStudy (with last version 0.1) was removed from CRAN

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

2014-12-10 0.1

Permanent link

Thu, 18 Dec 2014

Package stream updated to version 1.1-0 with previous version 1.0-3 dated 2014-07-14

Title: Infrastructure for Data Stream Mining
Description: A framework for data stream modeling and associated data mining tasks such as clustering and classification. The development of this package was supported in part by NSF IIS-0948893 and NIH R21HG005912.
Author: Michael Hahsler [aut, cre, cph], Matthew Bolanos [aut, cph], John Forrest [aut, cph]
Maintainer: Michael Hahsler

Diff between stream versions 1.0-3 dated 2014-07-14 and 1.1-0 dated 2014-12-18

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Permanent link

New package srd with initial version 1.0
Package: srd
Type: Package
Title: Draws Scaled Rectangle Diagrams
Version: 1.0
Date: 2014-07-15
Author: Roger Marshall
Maintainer: Roger Marshall
Description: Draws scaled rectangle diagrams to represent a 2^k contingency table, for k<=6
License: GPL-2
Imports: plyr,animation,colorspace,stringr,survival
Packaged: 2014-12-18 22:35:36 UTC; rmar073
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-12-19 01:58:45

More information about srd at CRAN
Permanent link

New package spanr with initial version 1.0
Package: spanr
Type: Package
Title: Search Partition Analysis
Version: 1.0
Date: 2014-07-15
Author: Roger Marshall
Maintainer: Roger Marshall
Description: Carries out a search for an optimal partition in terms of a regular Boolean expression
License: GPL-2
Imports: plyr, stringr, survival
Packaged: 2014-12-18 22:25:39 UTC; rmar073
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-12-19 01:49:50

More information about spanr at CRAN
Permanent link

Package SemiParBIVProbit updated to version 3.2-13 with previous version 3.2-12.1 dated 2014-11-12

Title: Semiparametric Bivariate Probit Modelling
Description: Routine for fitting bivariate models for binary responses with semiparametric predictors (including linear and nonlinear effects) in the presence of correlated error equations, endogeneity, non-random sample selection or partial observability.
Author: Giampiero Marra and Rosalba Radice
Maintainer: Giampiero Marra

Diff between SemiParBIVProbit versions 3.2-12.1 dated 2014-11-12 and 3.2-13 dated 2014-12-18

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More information about SemiParBIVProbit at CRAN
Permanent link

Package hermite updated to version 1.0.1 with previous version 1.0 dated 2014-10-31

Title: Generalized Hermite Distribution
Description: Probability functions and utilities for the generalized Hermite distribution
Author: David Moriña (Centre for Research in Environmental Epidemiology, CREAL), Manuel Higueras (Universitat Autònoma de Barcelona and Public Health England) and Pedro Puig (Universitat Autònoma de Barcelona)
Maintainer: David Moriña Soler

Diff between hermite versions 1.0 dated 2014-10-31 and 1.0.1 dated 2014-12-18

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Permanent link

Package Luminescence updated to version 0.4.0 with previous version 0.3.4 dated 2014-06-08

Title: Package for Luminescence Dating data analysis
Description: Package provides a collection of various R functions for Luminescence Dating data analysis.
Author: Sebastian Kreutzer [aut, trl, cre], Michael Dietze [aut], Christoph Burow [aut], Margret C. Fuchs [aut], Christoph Schmidt [aut], Manfred Fischer [aut, trl], Markus Fuchs [ths]
Maintainer: Sebastian Kreutzer

Diff between Luminescence versions 0.3.4 dated 2014-06-08 and 0.4.0 dated 2014-12-18

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More information about Luminescence at CRAN
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New package GPC with initial version 0.1
Package: GPC
Type: Package
Title: Generalized Polynomial Chaos
Version: 0.1
Depends: R (>= 2.7.0), randtoolbox, orthopolynom, ks, lars
Date: 2013-02-01
Author: Miguel Munoz Zuniga and Jordan Ko
Maintainer: Miguel Munoz Zuniga
Description: A generalized polynomial chaos expansion of a model taking as input independent random variables is achieved. A statistical and a global sensitivity analysis of the model are also carried out.
License: GPL-3
Packaged: 2014-12-18 17:17:50 UTC; munozzum
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-12-18 21:08:58

More information about GPC at CRAN
Permanent link

New package selfingTree with initial version 0.2
Package: selfingTree
Type: Package
Title: Genotype Probabilities in Intermediate Generations of Inbreeding Through Selfing
Version: 0.2
License: BSD_3_clause + file LICENSE
Copyright: (c) 2014, Pioneer Hi-Bred International, Inc.
Date: 2014-12-18
Authors@R: person(given = "Frank",family = "Technow", email = "Frank.Technow@pioneer.com", comment = "Pioneer Hi-Bred International, Inc., Johnston, Iowa", role = c("aut","cre"))
Author: Frank Technow [aut, cre] (Pioneer Hi-Bred International, Inc., Johnston, Iowa)
LazyData: TRUE
Maintainer: Frank Technow
Depends: R (>= 2.15.1),foreach
Description: A probability tree allows to compute probabilities of complex events, such as genotype probabilities in intermediate generations of inbreeding through recurrent self-fertilization (selfing). This package implements functionality to compute probability trees for two- and three-marker genotypes in the F2 to F7 selfing generations. The conditional probabilities are derived automatically and in symbolic form. The package also provides functionality to extract and evaluate the relevant probabilities.
Packaged: 2014-12-18 15:43:52 UTC; frank
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-12-18 17:31:18

More information about selfingTree at CRAN
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Package crs updated to version 0.15-24 with previous version 0.15-23 dated 2014-08-11

Title: Categorical Regression Splines
Description: Regression splines that handle a mix of continuous and categorical (discrete) data often encountered in applied settings. I would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC:www.nserc.ca), the Social Sciences and Humanities Research Council of Canada (SSHRC:www.sshrc.ca), and the Shared Hierarchical Academic Research Computing Network (SHARCNET:www.sharcnet.ca).
Author: Jeffrey S. Racine [aut, cre], Zhenghua Nie [aut], Brian D. Ripley [ctb] (stepCV.R)
Maintainer: Jeffrey S. Racine

Diff between crs versions 0.15-23 dated 2014-08-11 and 0.15-24 dated 2014-12-18

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Package sprinter updated to version 1.1.0 with previous version 1.0.0 dated 2014-11-20

Title: Framework for Screening Prognostic Interactions
Description: The main function of this package builds prognostic models that consider interactions by combining available statistical components. Furthermore, it provides a function for evaluating the relevance of the selected interactions by resampling techniques.
Author: Isabell Hoffmann
Maintainer: Isabell Hoffmann

Diff between sprinter versions 1.0.0 dated 2014-11-20 and 1.1.0 dated 2014-12-18

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Package RnavGraph updated to version 0.1.8 with previous version 0.1.7 dated 2014-10-21

Title: Using Graphs as a Navigational Infrastructure
Description: GUI to explore high dimensional data (including image data) using graphs as navigational infrastructure.
Author: Adrian R. Waddell and R. Wayne Oldford
Maintainer: Adrian Waddell

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Package party updated to version 1.0-19 with previous version 1.0-18 dated 2014-11-10

Title: A Laboratory for Recursive Partytioning
Description: A computational toolbox for recursive partitioning. The core of the package is ctree(), an implementation of conditional inference trees which embed tree-structured regression models into a well defined theory of conditional inference procedures. This non-parametric class of regression trees is applicable to all kinds of regression problems, including nominal, ordinal, numeric, censored as well as multivariate response variables and arbitrary measurement scales of the covariates. Based on conditional inference trees, cforest() provides an implementation of Breiman's random forests. The function mob() implements an algorithm for recursive partitioning based on parametric models (e.g. linear models, GLMs or survival regression) employing parameter instability tests for split selection. Extensible functionality for visualizing tree-structured regression models is available.
Author: Torsten Hothorn [aut, cre], Kurt Hornik [aut], Carolin Strobl [aut], Achim Zeileis [aut]
Maintainer: Torsten Hothorn

Diff between party versions 1.0-18 dated 2014-11-10 and 1.0-19 dated 2014-12-18

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Package mvtnorm updated to version 1.0-2 with previous version 1.0-1 dated 2014-11-13

Title: Multivariate Normal and t Distributions
Description: Computes multivariate normal and t probabilities, quantiles, random deviates and densities.
Author: Alan Genz [aut], Frank Bretz [aut], Tetsuhisa Miwa [aut], Xuefei Mi [aut], Friedrich Leisch [ctb], Fabian Scheipl [ctb], Bjoern Bornkamp [ctb], Martin Maechler [ctb], Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn

Diff between mvtnorm versions 1.0-1 dated 2014-11-13 and 1.0-2 dated 2014-12-18

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Package IsoGene updated to version 1.0-23 with previous version 1.0-22 dated 2013-11-05

Title: Order-Restricted Inference for Microarray Experiments
Description: The package offers framework for testing for monotonic relationship between gene expression and doses in a microarray experiment. Several testing procedures including the global likelihood-ratio test (Bartholomew, 1961), Williams (1971, 1972), Marcus (1976), M (Hu et al. 2005) and the modified M (Lin et al. 2007) are used to test for the monotonic trend in gene expression with respect to doses. BH (Benjamini and Hochberg 1995) and BY (Benjamini and Yekutieli 2004) FDR controlling procedures are applied to adjust the raw p-values obtained from the permutations.
Author: Dan Lin, Setia Pramana, Tobias Verbeke and Ziv Shkedy
Maintainer: Martin Otava

Diff between IsoGene versions 1.0-22 dated 2013-11-05 and 1.0-23 dated 2014-12-18

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Package REDCapR updated to version 0.7-1 with previous version 0.4-28 dated 2014-09-20

Title: Interaction between R and REDCap
Description: Encapsulates functions to streamline calls from R to the REDCap API. REDCap (Research Electronic Data CAPture) is a web application for building and managing online surveys and databases developed at Vanderbilt University. The Application Programming Interface (API) offers an avenue to access and modify data programmatically, improving the capacity for literate and reproducible programming.
Author: Will Beasley [aut, cre], David Bard [ctb], Thomas Wilson [ctb], John J Aponte [ctb], Rollie Parrish [ctb], Benjamin Nutter [ctb], Andrew Peters [ctb]
Maintainer: Will Beasley

Diff between REDCapR versions 0.4-28 dated 2014-09-20 and 0.7-1 dated 2014-12-18

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New package RoughSetKnowledgeReduction with initial version 0.1
Package: RoughSetKnowledgeReduction
Type: Package
Title: Simplification of Decision Tables using Rough Sets
Version: 0.1
Date: 2012-03-13
Author: Alber Sanchez
Maintainer: Alber Sanchez
Description: Rough Sets were introduced by Zdzislaw Pawlak on his book "Rough Sets: Theoretical Aspects of Reasoning About Data". Rough Sets provide a formal method to approximate crisp sets when the set-element belonging relationship is either known or undetermined. This enables the use of Rough Sets for reasoning about incomplete or contradictory knowledge. A decision table is a prescription of the decisions to make given some conditions. Such decision tables can be reduced without losing prescription ability. This package provides the classes and methods for knowledge reduction from decision tables as presented in the chapter 7 of the aforementioned book. This package provides functions for calculating the both the discernibility matrix and the essential parts of decision tables.
License: MIT + file LICENSE
Depends: methods
Collate: DecisionTable.R ConditionReduct.R DiscernibilityMatrix.R ValueReduct.R
Packaged: 2014-12-07 14:02:21 UTC; alber
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-12-18 09:11:32

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New package multiband with initial version 0.1.0
Package: multiband
Title: Period Estimation for Multiple Bands
Description: Algorithms for performing joint parameter estimation in astronomical survey data acquired in multiple bands.
Version: 0.1.0
Maintainer: Eric C. Chi
Author: Eric C. Chi, James P. Long
Depends: R (>= 3.0.2)
License: MIT + file LICENSE
LazyData: true
Packaged: 2014-12-18 05:28:46 UTC; ericchi
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-12-18 07:12:06

More information about multiband at CRAN
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Package ggthemes updated to version 2.1.0 with previous version 1.7.0 dated 2014-04-22

Title: Extra themes, scales and geoms for ggplot
Description: Some extra themes, geoms, and scales for ggplot2.
Author: Jeffrey B. Arnold [aut, cre], Gergely Daroczi [ctb], Bo Werth [ctb], Brian Weitzner [ctb], Joshua Kunst [ctb]
Maintainer: Jeffrey B. Arnold

Diff between ggthemes versions 1.7.0 dated 2014-04-22 and 2.1.0 dated 2014-12-18

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Package EGRET updated to version 2.1.0 with previous version 2.0.2 dated 2014-12-03

Title: Exploration and Graphics for RivEr Trends (EGRET)
Description: Statistics and graphics for streamflow history, water quality trends, and the statistical modeling algorithm: Weighted Regressions on Time, Discharge, and Season (WRTDS).
Author: Robert Hirsch [aut], Laura DeCicco [aut, cre]
Maintainer: Laura DeCicco

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Package DDD updated to version 2.6 with previous version 2.5 dated 2014-05-26

Title: Diversity-Dependent Diversification
Description: implements maximum likelihood methods based on the diversity-dependent birth-death process to test whether speciation or extinction are diversity-dependent. See Etienne et al. 2012, Proc. Roy. Soc. B 279: 1300-1309, doi: 10.1098/rspb.2011.1439. DDD also implements a maximum likelihood method to detect key innovations defined as decoupling of diversity-dependence. See Etienne & Haegeman 2012, Am. Nat. 180: E75-E89, doi: 10.1086/667574. Finally, DDD contains a function to simulate the diversity-dependent process.
Author: Rampal S. Etienne & Bart Haegeman
Maintainer: Rampal S. Etienne

Diff between DDD versions 2.5 dated 2014-05-26 and 2.6 dated 2014-12-18

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Package DCGL updated to version 2.1.2 with previous version 2.1.1 dated 2013-12-31

Title: Differential Co-expression Analysis and Differential Regulation Analysis of Gene Expression Microarray Data
Description: Functions for 1) gene filtration; 2) link filtration; 3) differential co-expression analysis: DCG (Differential Coexpressed Gene) identification and DCL (Differentially Coexpressed Link) identification; and 4) differential regulation analysis: DRG (Differential Regulated Gene) identification, DRL (Differential Regulated Link) identification, DRL visualization and regulator ranking.
Author: Jing Yang, Hui Yu, Bao-Hong Liu, Zhongming Zhao, Lei Liu, Liang-Xiao Ma, Yi-Xue Li, Yuan-Yuan Li
Maintainer: Bao-Hong Liu

Diff between DCGL versions 2.1.1 dated 2013-12-31 and 2.1.2 dated 2014-12-18

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Wed, 17 Dec 2014

Package Rlabkey updated to version 2.1.126 with previous version 2.1.125 dated 2014-08-28

Title: Data Exchange between R and LabKey Server
Description: Allow a user to discover, query and modify data from a LabKey Server.
Author: Peter Hussey
Maintainer: Cory Nathe

Diff between Rlabkey versions 2.1.125 dated 2014-08-28 and 2.1.126 dated 2014-12-17

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 man/labkey.acceptSelfSignedCerts.Rd |    2 +-
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Package RcppDL updated to version 0.0.5 with previous version 0.0.3 dated 2014-12-15

Title: Deep Learning Methods via Rcpp
Description: This package is based on the C++ code from Yusuke Sugomori, which implements basic machine learning methods with many layers (deep learning), including dA (Denoising Autoencoder), SdA (Stacked Denoising Autoencoder), RBM (Restricted Boltzmann machine) and DBN (Deep Belief Nets).
Author: Qiang Kou, Yusuke Sugomori
Maintainer: Qiang Kou

Diff between RcppDL versions 0.0.3 dated 2014-12-15 and 0.0.5 dated 2014-12-17

 DESCRIPTION                      |    6 +--
 MD5                              |   16 +++++-----
 man/RcppDL-package.Rd            |    2 -
 man/dl-class.Rd                  |   12 +++----
 src/RcppDL.cpp                   |   62 +++++++++++++++++++++++++++++++++------
 src/deeplearning/DBN.cpp         |    7 +++-
 src/deeplearning/HiddenLayer.cpp |    1 
 src/deeplearning/RBM.cpp         |   29 +++++++++++++-----
 src/deeplearning/SdA.cpp         |    7 ++--
 9 files changed, 102 insertions(+), 40 deletions(-)

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