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- return 0; -} -_ACEOF -rm -f conftest.$ac_objext -if { (eval echo "$as_me:$LINENO: \"$ac_compile\"") >&5 - (eval $ac_compile) 2>conftest.er1 - ac_status=$? - grep -v '^ *+' conftest.er1 >conftest.err - rm -f conftest.er1 - cat conftest.err >&5 - echo "$as_me:$LINENO: \$? = $ac_status" >&5 - (exit $ac_status); } && - { ac_try='test -z "$ac_cxx_werror_flag" || test ! -s conftest.err' - { (eval echo "$as_me:$LINENO: \"$ac_try\"") >&5 - (eval $ac_try) 2>&5 - ac_status=$? - echo "$as_me:$LINENO: \$? = $ac_status" >&5 - (exit $ac_status); }; } && - { ac_try='test -s conftest.$ac_objext' - { (eval echo "$as_me:$LINENO: \"$ac_try\"") >&5 - (eval $ac_try) 2>&5 - ac_status=$? - echo "$as_me:$LINENO: \$? = $ac_status" >&5 - (exit $ac_status); }; }; then - ac_cv_prog_cxx_g=yes -else - echo "$as_me: failed program was:" >&5 -sed 's/^/| /' conftest.$ac_ext >&5 - -ac_cv_prog_cxx_g=no -fi -rm -f conftest.err conftest.$ac_objext conftest.$ac_ext -fi -echo "$as_me:$LINENO: result: $ac_cv_prog_cxx_g" >&5 -echo "${ECHO_T}$ac_cv_prog_cxx_g" >&6 -if test "$ac_test_CXXFLAGS" = set; then - CXXFLAGS=$ac_save_CXXFLAGS -elif test $ac_cv_prog_cxx_g = yes; then - if test "$GXX" = yes; then - CXXFLAGS="-g -O2" - else - CXXFLAGS="-g" - fi -else - if test "$GXX" = yes; then - CXXFLAGS="-O2" - else - CXXFLAGS= - fi -fi -for ac_declaration in \ - '' \ - 'extern "C" void std::exit (int) throw (); using std::exit;' \ - 'extern "C" void std::exit (int); using std::exit;' \ - 'extern "C" void exit (int) throw ();' \ - 'extern "C" void exit (int);' \ - 'void exit (int);' -do - cat >conftest.$ac_ext <<_ACEOF -/* confdefs.h. */ -_ACEOF -cat confdefs.h >>conftest.$ac_ext -cat >>conftest.$ac_ext <<_ACEOF -/* end confdefs.h. */ -$ac_declaration -#include -int -main () -{ -exit (42); - ; - return 0; -} -_ACEOF -rm -f conftest.$ac_objext -if { (eval echo "$as_me:$LINENO: \"$ac_compile\"") >&5 - (eval $ac_compile) 2>conftest.er1 - ac_status=$? - grep -v '^ *+' conftest.er1 >conftest.err - rm -f conftest.er1 - cat conftest.err >&5 - echo "$as_me:$LINENO: \$? = $ac_status" >&5 - (exit $ac_status); } && - { ac_try='test -z "$ac_cxx_werror_flag" || test ! -s conftest.err' - { (eval echo "$as_me:$LINENO: \"$ac_try\"") >&5 - (eval $ac_try) 2>&5 - ac_status=$? - echo "$as_me:$LINENO: \$? = $ac_status" >&5 - (exit $ac_status); }; } && - { ac_try='test -s conftest.$ac_objext' - { (eval echo "$as_me:$LINENO: \"$ac_try\"") >&5 - (eval $ac_try) 2>&5 - ac_status=$? - echo "$as_me:$LINENO: \$? = $ac_status" >&5 - (exit $ac_status); }; }; then - : -else - echo "$as_me: failed program was:" >&5 -sed 's/^/| /' conftest.$ac_ext >&5 - -continue -fi -rm -f conftest.err conftest.$ac_objext conftest.$ac_ext - cat >conftest.$ac_ext <<_ACEOF -/* confdefs.h. */ -_ACEOF -cat confdefs.h >>conftest.$ac_ext -cat >>conftest.$ac_ext <<_ACEOF -/* end confdefs.h. */ -$ac_declaration -int -main () -{ -exit (42); - ; - return 0; -} -_ACEOF -rm -f conftest.$ac_objext -if { (eval echo "$as_me:$LINENO: \"$ac_compile\"") >&5 - (eval $ac_compile) 2>conftest.er1 - ac_status=$? - grep -v '^ *+' conftest.er1 >conftest.err - rm -f conftest.er1 - cat conftest.err >&5 - echo "$as_me:$LINENO: \$? = $ac_status" >&5 - (exit $ac_status); } && - { ac_try='test -z "$ac_cxx_werror_flag" || test ! -s conftest.err' - { (eval echo "$as_me:$LINENO: \"$ac_try\"") >&5 - (eval $ac_try) 2>&5 - ac_status=$? - echo "$as_me:$LINENO: \$? = $ac_status" >&5 - (exit $ac_status); }; } && - { ac_try='test -s conftest.$ac_objext' - { (eval echo "$as_me:$LINENO: \"$ac_try\"") >&5 - (eval $ac_try) 2>&5 - ac_status=$? - echo "$as_me:$LINENO: \$? = $ac_status" >&5 - (exit $ac_status); }; }; then - break -else - echo "$as_me: failed program was:" >&5 -sed 's/^/| /' conftest.$ac_ext >&5 - -fi -rm -f conftest.err conftest.$ac_objext conftest.$ac_ext -done -rm -f conftest* -if test -n "$ac_declaration"; then - echo '#ifdef __cplusplus' >>confdefs.h - echo $ac_declaration >>confdefs.h - echo '#endif' >>confdefs.h -fi - -ac_ext=c -ac_cpp='$CPP $CPPFLAGS' -ac_compile='$CC -c $CFLAGS $CPPFLAGS conftest.$ac_ext >&5' -ac_link='$CC -o conftest$ac_exeext $CFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $LIBS >&5' -ac_compiler_gnu=$ac_cv_c_compiler_gnu - - -if test "${GXX}" = yes; then - gxx_version=`${CXX} --version` - case ${gxx_version} in - 2.96*) - { echo "$as_me:$LINENO: WARNING: g++ 2.96 cannot reliably be used with this package." >&5 -echo "$as_me: WARNING: g++ 2.96 cannot reliably be used with this package." >&2;} - { { echo "$as_me:$LINENO: error: Please use a newer version of g++ or a different C++ compiler." >&5 -echo "$as_me: error: Please use a newer version of g++ or a different C++ compiler." >&2;} - { (exit 1); exit 1; }; } - ;; - esac -fi diff -Nru r-cran-e1071-1.7-6/configure.ac r-cran-e1071-1.7-9/configure.ac --- r-cran-e1071-1.7-6/configure.ac 2010-05-30 08:33:41.000000000 +0000 +++ r-cran-e1071-1.7-9/configure.ac 1970-01-01 00:00:00.000000000 +0000 @@ -1,21 +0,0 @@ -AC_PREREQ(2.50) -AC_INIT([DESCRIPTION]) - -: ${R_HOME=`R RHOME`} -if test -z "${R_HOME}"; then - echo "could not determine R_HOME" - exit 1 -fi -CXX=`${R_HOME}/bin/R CMD config CXX` - -AC_PROG_CXX - -if test "${GXX}" = yes; then - gxx_version=`${CXX} --version` - case ${gxx_version} in - 2.96*) - AC_MSG_WARN([g++ 2.96 cannot reliably be used with this package.]) - AC_MSG_ERROR([Please use a newer version of g++ or a different C++ compiler.]) - ;; - esac -fi diff -Nru r-cran-e1071-1.7-6/debian/changelog r-cran-e1071-1.7-9/debian/changelog --- r-cran-e1071-1.7-6/debian/changelog 2021-03-18 17:17:23.000000000 +0000 +++ r-cran-e1071-1.7-9/debian/changelog 2021-09-16 18:16:24.000000000 +0000 @@ -1,3 +1,34 @@ +r-cran-e1071 (1.7-9-1) unstable; urgency=medium + + * New upstream release + + * debian/control: Set Standards-Version: to current version + + -- Dirk Eddelbuettel Thu, 16 Sep 2021 13:16:24 -0500 + +r-cran-e1071 (1.7-8-2) unstable; urgency=medium + + * Simple rebuild for unstable following Debian 11 release + + * debian/control: Set Build-Depends: to current R version + + -- Dirk Eddelbuettel Mon, 16 Aug 2021 12:59:40 -0500 + +r-cran-e1071 (1.7-8-1) experimental; urgency=medium + + * New upstream release (to experimental during freeze) + + -- Dirk Eddelbuettel Sun, 01 Aug 2021 15:45:42 -0500 + +r-cran-e1071 (1.7-7-1) experimental; urgency=medium + + * New upstream release (to experimental during freeze) + + * debian/control: Set Build-Depends: to recent R version + * debian/control: Set Standards-Version: to current version + + -- Dirk Eddelbuettel Sun, 06 Jun 2021 08:27:54 -0500 + r-cran-e1071 (1.7-6-1) unstable; urgency=medium * New upstream release diff -Nru r-cran-e1071-1.7-6/debian/control r-cran-e1071-1.7-9/debian/control --- r-cran-e1071-1.7-6/debian/control 2021-03-18 17:17:23.000000000 +0000 +++ r-cran-e1071-1.7-9/debian/control 2021-09-16 18:16:24.000000000 +0000 @@ -2,8 +2,8 @@ Section: gnu-r Priority: optional Maintainer: Dirk Eddelbuettel -Build-Depends: debhelper-compat (= 11), r-base-dev (>= 4.0.3), dh-r, r-cran-class, r-cran-proxy -Standards-Version: 4.5.0 +Build-Depends: debhelper-compat (= 11), r-base-dev (>= 4.1.1), dh-r, r-cran-class, r-cran-proxy +Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/edd/r-cran-e1071 Vcs-Git: https://salsa.debian.org/edd/r-cran-e1071.git Homepage: https://cran.r-project.org/package=e1071 diff -Nru r-cran-e1071-1.7-6/DESCRIPTION r-cran-e1071-1.7-9/DESCRIPTION --- r-cran-e1071-1.7-6/DESCRIPTION 2021-03-18 16:08:58.000000000 +0000 +++ r-cran-e1071-1.7-9/DESCRIPTION 2021-09-16 16:42:50.000000000 +0000 @@ -1,5 +1,5 @@ Package: e1071 -Version: 1.7-6 +Version: 1.7-9 Title: Misc Functions of the Department of Statistics, Probability Theory Group (Formerly: E1071), TU Wien Imports: graphics, grDevices, class, stats, methods, utils, proxy @@ -19,7 +19,7 @@ License: GPL-2 | GPL-3 LazyLoad: yes NeedsCompilation: yes -Packaged: 2021-03-18 08:09:30 UTC; meyer +Packaged: 2021-09-16 06:33:26 UTC; meyer Author: David Meyer [aut, cre], Evgenia Dimitriadou [aut, cph], Kurt Hornik [aut], @@ -29,4 +29,4 @@ Chih-Chen Lin [ctb, cph] (libsvm C++-code) Maintainer: David Meyer Repository: CRAN -Date/Publication: 2021-03-18 16:08:58 UTC +Date/Publication: 2021-09-16 16:42:50 UTC Binary files /tmp/tmp2y7y8zle/ukTf3Lw_3T/r-cran-e1071-1.7-6/inst/doc/svmdoc.pdf and /tmp/tmp2y7y8zle/wRm1O636nM/r-cran-e1071-1.7-9/inst/doc/svmdoc.pdf differ Binary files /tmp/tmp2y7y8zle/ukTf3Lw_3T/r-cran-e1071-1.7-6/inst/doc/svminternals.pdf and /tmp/tmp2y7y8zle/wRm1O636nM/r-cran-e1071-1.7-9/inst/doc/svminternals.pdf differ diff -Nru r-cran-e1071-1.7-6/inst/NEWS.Rd r-cran-e1071-1.7-9/inst/NEWS.Rd --- r-cran-e1071-1.7-6/inst/NEWS.Rd 2021-03-16 18:18:08.000000000 +0000 +++ r-cran-e1071-1.7-9/inst/NEWS.Rd 2021-09-16 06:09:34.000000000 +0000 @@ -2,6 +2,24 @@ \title{News for Package \pkg{e1071}} \newcommand{\cpkg}{\href{https://CRAN.R-project.org/package=#1}{\pkg{#1}}} +\section{Changes in version 1.7-9}{ + \itemize{ + \item Remove configure code testing for gcc 2.96. + } +} + +\section{Changes in version 1.7-8}{ + \itemize{ + \item Bugfixes in \code{gknn()}: wrong behavior in case of tied k-nearest neighbors (for \code{use_all=TRUE}), and also in case of an overall class tie. + } +} + +\section{Changes in version 1.7-7}{ + \itemize{ + \item Bugfix in examples of \code{cshell()} + } +} + \section{Changes in version 1.7-6}{ \itemize{ \item Bugfix in \code{scale_data_frame()} - now calls \code{scale()} if x is not a data frame. diff -Nru r-cran-e1071-1.7-6/man/cshell.Rd r-cran-e1071-1.7-9/man/cshell.Rd --- r-cran-e1071-1.7-6/man/cshell.Rd 2010-05-30 08:33:41.000000000 +0000 +++ r-cran-e1071-1.7-9/man/cshell.Rd 2021-05-22 07:41:25.000000000 +0000 @@ -18,7 +18,7 @@ clustering method} \item{m}{The degree of fuzzification. It is defined for values greater than \emph{1}} - \item{radius}{The radius of resulting clusters} + \item{radius}{The radius of resulting clusters} } \description{ The \emph{c}-shell clustering algorithm, the shell prototype-based version @@ -79,14 +79,9 @@ } \examples{ ## a 2-dimensional example -x<-rbind(matrix(rnorm(50,sd=0.3),ncol=2), - matrix(rnorm(50,mean=1,sd=0.3),ncol=2)) -cl<-cshell(x,2,20,verbose=TRUE,method="cshell",m=2) +x <- rbind(matrix(rnorm(50, sd = 0.3), ncol = 2), + matrix(rnorm(50, mean = 1, sd=0.3), ncol = 2)) +cl <- cshell(x, 2, 20, verbose = TRUE, method = "cshell", m = 2) print(cl) - -# assign classes to some new data -y<-rbind(matrix(rnorm(13,sd=0.3),ncol=2), - matrix(rnorm(13,mean=1,sd=0.3),ncol=2)) -# ycl<-predict(cl, y, type="both") - } +} \keyword{cluster} diff -Nru r-cran-e1071-1.7-6/man/gknn.Rd r-cran-e1071-1.7-9/man/gknn.Rd --- r-cran-e1071-1.7-6/man/gknn.Rd 2021-03-10 13:32:22.000000000 +0000 +++ r-cran-e1071-1.7-9/man/gknn.Rd 2021-07-25 18:14:27.000000000 +0000 @@ -52,7 +52,7 @@ } \value{ - For \code{gknn()}, an object of class \code{"gknn"} containing the data and the specified parameters. For \code{predict.gknn()}, a vector of predictions, or a matrix with votes for all classes. + For \code{gknn()}, an object of class \code{"gknn"} containing the data and the specified parameters. For \code{predict.gknn()}, a vector of predictions, or a matrix with votes for all classes. In case of an overall class tie, the predicted class is chosen by random. } \author{ David Meyer (\email{David.Meyer@R-project.org}) diff -Nru r-cran-e1071-1.7-6/MD5 r-cran-e1071-1.7-9/MD5 --- r-cran-e1071-1.7-6/MD5 2021-03-18 16:08:58.000000000 +0000 +++ r-cran-e1071-1.7-9/MD5 2021-09-16 16:42:50.000000000 +0000 @@ -1,15 +1,15 @@ -e8c91c2a1f8d0697129f94a5b29924fc *DESCRIPTION -f843f619fd575e640793040506d4a6e6 *NAMESPACE +aab72c5ace77b31911f51c72bf1a9f88 *DESCRIPTION +46aa60cb9ba88bb40ce42a1532df7a5c *NAMESPACE e8db4b66edf88cba9f12e4b0498fb742 *R/bclust.R b6dce356797c9f7cb3077469773b030e *R/bincombinations.R aa8bc82108cc500067f9f46a973cb1d1 *R/cmeans.R fd4d3eb836e8d3c0cfcdfc2ea51950c3 *R/countpattern.R -650d662d56c90f25329a63fdff39bfab *R/cshell.R +27d13b1b67006a82641886f51d02e2da *R/cshell.R 971efff8ec1f8b3a4a0f3dd6c58e4014 *R/discrete.R d41d8cd98f00b204e9800998ecf8427e *R/e1071-deprecated.R 4287fb25fb942b55d950e9de2d1aaa36 *R/element.R 4aaa630b440da4ffcad0f29b0a47a319 *R/fclustIndex.R -e931b5c617ebbeb99b8193abfc1473fa *R/gknn.R +14061dcb8adea1563fe07ff377d4b5b9 *R/gknn.R 6daec6d2db476530b6d439af0aafdce1 *R/hamming.distance.R 56906cfd1a1ce8fcc772e85fc39f0325 *R/hamming.window.R 3c39c73411e9280258b9e5043a654900 *R/hanning.window.R @@ -35,16 +35,13 @@ bed8f86b4b9c45ebf4c847960b7a6824 *R/stft.R 940c8accdd912816fda4545fd2d7b36f *R/svm.R c255efada482db5738a7019c9b1567d0 *R/tune.R -6e4e41f9e6e741f363a2ba480155f46b *build/vignette.rds -fb6b792a9e8e2594594fa576710065cf *cleanup -01d04a23dccc58d5ac29e6f77a01ea11 *configure -4563bd3d99118cc5843e6fada62bd8cd *configure.ac -94e7bff0c308e87c2b89eeadcc87b31a *inst/NEWS.Rd +b98af6a2c6a6b559d82e5e4679391b75 *build/vignette.rds +ca3b1ce9426c15d5d1f297c7c4f8906d *inst/NEWS.Rd 83303ca1cdf472b2962d78f7c04078a1 *inst/doc/svmdoc.R 2f8a349b4f6dbbcc5ce181a81c418e55 *inst/doc/svmdoc.Rnw -74ec1a2eb1802a3bf8da48521cb0bd23 *inst/doc/svmdoc.pdf +6df5da7838b3d76b48ed4245d25da908 *inst/doc/svmdoc.pdf 0b80939360bc7f55d1e04be24adf8872 *inst/doc/svminternals.Rnw -9f8908b83af118ed35beb935c1d84ca0 *inst/doc/svminternals.pdf +3b71f1d83118126356881cbc939b4d9b *inst/doc/svminternals.pdf e7d7541d75e4ecda9570a9f8f90d2439 *man/Discrete.Rd e1741200d5204babfd7752fd283e03e8 *man/bclust.Rd 168807874afed9032ae4b1732f25a73e *man/bincombinations.Rd @@ -53,11 +50,11 @@ 8603274376f301d1d9ddf5a096c4b765 *man/classAgreement.Rd 5394b0243c4f5ea7d0adc29d906e9615 *man/cmeans.Rd 1f2181682f48caf798cb7d49bd7f3c07 *man/countpattern.Rd -c70249d75c2d8035982303c4a18dd915 *man/cshell.Rd +d9d767fa46dda39f428f73555ba21d23 *man/cshell.Rd e9df0cc673e6fcbb343ddb75ab347c0f *man/e1071-deprecated.Rd fb37ec4196c22c3702a7f83616f0f132 *man/element.Rd 36da964aaa376b6e05fc9f696fa270da *man/fclustIndex.Rd -eb69219de9a27b2a3fa9e5e4163439d9 *man/gknn.Rd +c0db4ff8714f87f8cc868612d1dac379 *man/gknn.Rd 88d0e6f9c58e13547be01a5c53483321 *man/hamming.distance.Rd c4a293671687db22aedd5d1bcd4cb670 *man/hamming.window.Rd b14517cf4646473fb9c342fafbceb4b3 *man/hanning.window.Rd diff -Nru r-cran-e1071-1.7-6/NAMESPACE r-cran-e1071-1.7-9/NAMESPACE --- r-cran-e1071-1.7-6/NAMESPACE 2021-03-14 19:52:19.000000000 +0000 +++ r-cran-e1071-1.7-9/NAMESPACE 2021-07-25 18:23:39.000000000 +0000 @@ -12,7 +12,7 @@ "terms", "time", "ts", "var", "xtabs") importFrom("proxy", "dist") - +importFrom("utils", "head") importFrom("methods", "as", "getClass", "new") importFrom("class", "knn", "knn1") if(getRversion() >= "2.5.0") diff -Nru r-cran-e1071-1.7-6/R/cshell.R r-cran-e1071-1.7-9/R/cshell.R --- r-cran-e1071-1.7-6/R/cshell.R 2017-01-31 17:53:08.000000000 +0000 +++ r-cran-e1071-1.7-9/R/cshell.R 2021-05-22 07:40:50.000000000 +0000 @@ -177,45 +177,47 @@ } -#predict.cshell <- function( clobj, x){ +## unfinished! +## +## predict.cshell <- function(object, newdata, ...){ + +## xrows<-dim(newdata)[1] +## xcols<-dim(newdata)[2] +## ncenters <- object$centers +## cluster <- integer(xrows) +## clustersize <- integer(ncenters) +## f <- object$m +## radius <- object$radius + +## if(dim(object$centers)[2] != xcols){ +## stop("Number of variables in cluster object and x are not the same!") +## } + + +## retval <- .C("cshell_assign", +## xrows = as.integer(xrows), +## xcols = as.integer(xcols), +## x = as.double(newdata), +## ncenters = as.integer(ncenters), +## centers = as.double(object$centers), +## dist = as.integer(object$dist-1), +## U = double(xrows*ncenters), +## f = as.double(f), +## radius = as.double(radius)) -# xrows<-dim(x)[1] -# xcols<-dim(x)[2] -# ncenters <- clobj$ncenters -# cluster <- integer(xrows) -# clustersize <- integer(ncenters) -# f <- clobj$m -# radius <- clobj$radius -# if(dim(clobj$centers)[2] != xcols){ -# stop("Number of variables in cluster object and x are not the same!") -# } +## U <- retval$U +## U <- matrix(U, ncol=ncenters) + +## clusterU <- apply(U,1,which.max) +## clustersize <- as.integer(table(clusterU)) + + +## object$iter <- NULL +## object$cluster <- clusterU +## object$size <- retval$clustersize +## object$membership <- U -# retval <- .C("cshell_assign", -# xrows = as.integer(xrows), -# xcols = as.integer(xcols), -# x = as.double(x), -# ncenters = as.integer(ncenters), -# centers = as.double(clobj$centers), -# dist = as.integer(clobj$dist-1), -# U = double(xrows*ncenters), -# f = as.double(f), -# radius = as.double(radius)) - - - -# U <- retval$U -# U <- matrix(U, ncol=ncenters) - -# clusterU <- apply(U,1,which.max) -# clustersize <- as.integer(table(clusterU)) - - -# clobj$iter <- NULL -# clobj$cluster <- clusterU -# clobj$size <- retval$clustersize -# clobj$membership <- U - -# return(clobj) -#} +## return(object) +## } diff -Nru r-cran-e1071-1.7-6/R/gknn.R r-cran-e1071-1.7-9/R/gknn.R --- r-cran-e1071-1.7-6/R/gknn.R 2021-03-18 08:09:19.000000000 +0000 +++ r-cran-e1071-1.7-9/R/gknn.R 2021-07-26 12:55:24.000000000 +0000 @@ -87,7 +87,7 @@ } if (object$scaled) - newdata[,object$scale] <- scale(newdata[,object$scale], + newdata[,object$scale] <- scale(newdata[,object$scale, drop = FALSE], center = attr(object$x, "scaled:center"), scale = attr(object$x, "scaled:scale") ) @@ -95,15 +95,17 @@ FUN <- function(x) { o <- order(x) ks <- which(x[o][object$k] == x) ## check for ties on kth place - if (!object$use_all) ks <- sample(ks, 1) ## handle ties - lab <- object$y[c(o[1:object$k][-1], ks)] + if (!object$use_all) ks <- sample(c(ks, ks), 1) ## handle ties + lab <- object$y[c(head(o[1:object$k], -1), ks)] if (is.numeric(lab)) object$FUN(lab) - else + else { + tab <- table(lab) switch(type, - class = levels(object$y)[which.max(table(lab))], - prob = prop.table(table(lab)), - table(lab)) + class = levels(object$y)[sample(rep(which(tab == max(tab)), 2), 1)], ## break class tie by random + prob = prop.table(tab), + tab) + } } ret <- apply(d, 2, FUN) if (is.matrix(ret))