Running ‘doRUnit.R’ [180s/229s]
Running the tests in ‘tests/doRUnit.R’ failed.
Complete output:
  > # Copyright (C) 2010 - 2013  Dirk Eddelbuettel, Romain Francois and Douglas Bates
  > # Copyright (C) 2014 - 2017  Dirk Eddelbuettel
  > # Earlier copyrights Gregor Gorjanc, Martin Maechler and Murray Stokely as detailed below
  > #
  > # This file is part of RcppArmadillo.
  > #
  > # RcppArmadillo is free software: you can redistribute it and/or
  > # modify it under the terms of the GNU General Public License as
  > # published by the Free Software Foundation, either version 2 of the
  > # License, or (at your option) any later version.
  > #
  > # RcppArmadillo is distributed in the hope that it will be useful, but
  > # WITHOUT ANY WARRANTY; without even the implied warranty of
  > # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
  > # General Public License for more details.
  > #
  > # You should have received a copy of the GNU General Public License
  > # along with RcppArmadillo.  If not, see <http://www.gnu.org/licenses/>.
  > 
  > ## doRUnit.R --- Run RUnit tests
  > ##
  > ## with credits to package fUtilities in RMetrics
  > ## which credits Gregor Gojanc's example in CRAN package  'gdata'
  > ## as per the R Wiki http://wiki.r-project.org/rwiki/doku.php?id=developers:runit
  > ## and changed further by Martin Maechler
  > ## and more changes by Murray Stokely in HistogramTools
  > ## and then used adapted in RProtoBuf
  > ## and now used in Rcpp and here
  > ##
  > ## Dirk Eddelbuettel, Feb - June 2014
  > 
  > if (requireNamespace("RUnit", quietly=TRUE) &&
  +     requireNamespace("RcppArmadillo", quietly=TRUE)) {
  + 
  +     library(RUnit)
  +     library(RcppArmadillo)
  + 
  +     ## Define tests
  +     testSuite <- defineTestSuite(name="RcppArmadillo Unit Tests",
  +                                  dirs=system.file("unitTests", package = "RcppArmadillo"),
  +                                  testFuncRegexp = "^[Tt]est.+")
  + 
  +     Sys.setenv("R_TESTS"="")	    	# without this, we get (or used to get) unit test failures
  + 
  +     tests <- runTestSuite(testSuite)    # run tests
  +     printTextProtocol(tests)		# print results
  + 
  +     ## Return success or failure to R CMD CHECK
  +     if (getErrors(tests)$nFail > 0) stop("TEST FAILED!")
  +     if (getErrors(tests)$nErr > 0) stop("TEST HAD ERRORS!")
  +     if (getErrors(tests)$nTestFunc < 1) stop("NO TEST FUNCTIONS RUN!")
  + }
  
  
  Executing test function test.armadillo.as_vector  ...  done successfully.
  
  
  
  Executing test function test.armadillo.mat.const  ...  done successfully.
  
  
  
  Executing test function test.armadillo.mat.const.ref  ...  done successfully.
  
  
  
  Executing test function test.armadillo.mat.plain  ...  done successfully.
  
  
  
  Executing test function test.armadillo.mat.ref  ...  done successfully.
  
  
  
  Executing test function test.armadillo.sugar.ctor  ...  done successfully.
  
  
  
  Executing test function test.armadillo.sugar.matrix.ctor  ...  done successfully.
  
  
  
  Executing test function test.armadillo.unsigned.as  ...  done successfully.
  
  
  
  Executing test function test.armadillo.vec.const  ...  done successfully.
  
  
  
  Executing test function test.armadillo.vec.const.ref  ...  done successfully.
  
  
  
  Executing test function test.armadillo.vec.plain  ...  done successfully.
  
  
  
  Executing test function test.armadillo.vec.ref  ...  done successfully.
  
  
  
  Executing test function test.as.Col  ...  done successfully.
  
  
  
  Executing test function test.as.Mat  ...  done successfully.
  
  
  
  Executing test function test.as.Row  ...  done successfully.
  
  
  
  Executing test function test.cxmat  ...  done successfully.
  
  
  
  Executing test function test.mtGlue  ...  done successfully.
  
  
  
  Executing test function test.mtOp  ...  done successfully.
  
  
  
  Executing test function test.sugar  ...  done successfully.
  
  
  
  Executing test function test.sugar.cplx  ...  done successfully.
  
  
  
  Executing test function test.wrap.Glue  ...  done successfully.
  
  
  
  Executing test function test.wrap.Op  ...  done successfully.
  
  
  
  Executing test function test.wrap.R  ...  done successfully.
  
  
  
  Executing test function test.complex  ...  done successfully.
  
  
  
  Executing test function test.cube  ...  done successfully.
  
  
  
  Executing test function test.fastLm  ...  done successfully.
  
  
  
  Executing test function test.fastLm.default  ...  done successfully.
  
  
  
  Executing test function test.fastLm.formula  ...  done successfully.
  
  
  
  Executing test function test.summary.fastLm  ...  done successfully.
  
  
  
  Executing test function test.rmultinom  ... Error in rmultinom(n, size, prob) : NA in probability vector
  Error in rmultinomC(n, size, prob) : NAs not allowed in probability
  Error in rmultinom(n, size, prob) : no positive probabilities
  Error in rmultinomC(n, size, prob) : Not enough positive probabilities
   done successfully.
  
  
  
  Executing test function test.randi  ...  done successfully.
  
  
  
  Executing test function test.randi.seed  ...  done successfully.
  
  
  
  Executing test function test.randn  ...  done successfully.
  
  
  
  Executing test function test.randn.seed  ...  done successfully.
  
  
  
  Executing test function test.randu  ...  done successfully.
  
  
  
  Executing test function test.randu.seed  ...  done successfully.
  
  
  
  Executing test function test.sample  ...  done successfully.
  
  
  
  Executing test function test.coo2dgt  ...  done successfully.
  
  
  
  Executing test function test.csc2dgc  ...  done successfully.
  
  
  
  Executing test function test.csr2dgr  ...  done successfully.
  
  
  
  Executing test function test.other  ... Error : Only CSC, COO and CSR matrices from SciPy are supported.
   done successfully.
  
  
  
  Executing test function test.as.sparse  ...  done successfully.
  
  
  
  Executing test function test.sparse.addition  ...  done successfully.
  
  
  
  Executing test function test.sparse.fromTriplet  ...  done successfully.
  
  
  
  Executing test function test.sparse.iterators  ...  done successfully.
  
  
  
  Executing test function test.sparse.list  ...  done successfully.
  
  
  
  Executing test function test.sparse.multiplication  ...  done successfully.
  
  
  
  Executing test function test.sparse.sqrt  ...  done successfully.
  
  
  
  Executing test function test.sparse.square  ...  done successfully.
  
  
  
  Executing test function test.sparse.transpose  ...  done successfully.
  
  
  
  Executing test function test.speye  ...  done successfully.
  
  
  
  Executing test function test.as.ddi2dgc  ...  done successfully.
  
  
  
  Executing test function test.as.dgc2dgc  ... dimnames(.) <- NULL:  translated to 
  dimnames(.) <- list(NULL,NULL)  <==>  unname(.)
  dimnames(.) <- NULL:  translated to 
  dimnames(.) <- list(NULL,NULL)  <==>  unname(.)
   done successfully.
  
  
  
  Executing test function test.as.dgr2dgc  ...  done successfully.
  
  
  
  Executing test function test.as.dgt2dgc  ...  done successfully.
  
  
  
  Executing test function test.as.dsc2dgc  ...  done successfully.
  
  
  
  Executing test function test.as.dsr2dgc  ...  done successfully.
  
  
  
  Executing test function test.as.dst2dgc  ...  done successfully.
  
  
  
  Executing test function test.as.dtc2dgc  ...  done successfully.
  
  
  
  Executing test function test.as.dtr2dgc  ...  done successfully.
  
  
  
  Executing test function test.as.dtt2dgc  ...  done successfully.
  
  
  
  Executing test function test.as.ind2dgc  ...  done successfully.
  
  
  
  Executing test function test.as.p2dgc  ...  done successfully.
  
  
  
  Executing test function test.stop  ... *** Error in `/data/gannet/ripley/R/R-clang/bin/exec/R': double free or corruption (fasttop): 0x000000000915f820 ***
  ======= Backtrace: =========
  /lib64/libc.so.6(+0x7c8dc)[0x7f910353f8dc]
  /lib64/libc.so.6(+0x87789)[0x7f910354a789]
  /lib64/libc.so.6(cfree+0x16e)[0x7f91035500ee]
  /tmp/RtmpzWED7s/sourceCpp-x86_64-pc-linux-gnu-0.12.13/sourcecpp_5f6574177c5c/sourceCpp_18.so(_Z29rcpp_exception_to_r_conditionRKN4Rcpp9exceptionE+0x31d)[0x7f90e983931d]
  /tmp/RtmpzWED7s/sourceCpp-x86_64-pc-linux-gnu-0.12.13/sourcecpp_5f6574177c5c/sourceCpp_18.so(sourceCpp_17_asSpMat+0x1de)[0x7f90e983424e]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x49516d]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4977e5]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x574)[0x4c82a4]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d87b2]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x5f0)[0x4c8320]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d6e40]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x3ff)[0x4c812f]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d6e40]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4e1337]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4cae53]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x18e)[0x4c7ebe]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d87b2]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x5f0)[0x4c8320]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d6e40]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4e1337]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4cae53]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x18e)[0x4c7ebe]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d6e40]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4e1337]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4cae53]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x18e)[0x4c7ebe]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d6e40]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4e1337]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4cae53]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x18e)[0x4c7ebe]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d6e40]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4e1337]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4cae53]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x18e)[0x4c7ebe]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d6e40]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4e1337]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4cae53]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x18e)[0x4c7ebe]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d87b2]
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  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x18e)[0x4c7ebe]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d87b2]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4cc1f1]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x18e)[0x4c7ebe]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d87b2]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4cc1f1]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x18e)[0x4c7ebe]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d87b2]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4cc1f1]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x18e)[0x4c7ebe]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d87b2]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x5f0)[0x4c8320]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d6e40]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4e1337]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4cae53]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x18e)[0x4c7ebe]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d87b2]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x5f0)[0x4c8320]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d6f48]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x47b)[0x4c81ab]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4d9548]
  /data/gannet/ripley/R/R-clang/bin/exec/R(Rf_eval+0x327)[0x4c8057]
  /data/gannet/ripley/R/R-clang/bin/exec/R[0x4daa0f]
  ======= Memory map: ========
  00400000-006a8000 r-xp 00000000 fd:02 3673038                            /data/gannet/ripley/R/R-clang/bin/exec/R
  008a7000-008a8000 r--p 002a7000 fd:02 3673038                            /data/gannet/ripley/R/R-clang/bin/exec/R
  008a8000-008b3000 rw-p 002a8000 fd:02 3673038                            /data/gannet/ripley/R/R-clang/bin/exec/R
  008b3000-00a04000 rw-p 00000000 00:00 0 
  01f1d000-0a645000 rw-p 00000000 00:00 0                                  [heap]
  7f90e9829000-7f90e9856000 r-xp 00000000 00:2b 210944771                  /tmp/RtmpzWED7s/sourceCpp-x86_64-pc-linux-gnu-0.12.13/sourcecpp_5f6574177c5c/sourceCpp_18.so
  7f90e9856000-7f90e9a56000 ---p 0002d000 00:2b 210944771                  /tmp/RtmpzWED7s/sourceCpp-x86_64-pc-linux-gnu-0.12.13/sourcecpp_5f6574177c5c/sourceCpp_18.so
  7f90e9a56000-7f90e9a57000 r--p 0002d000 00:2b 210944771                  /tmp/RtmpzWED7s/sourceCpp-x86_64-pc-linux-gnu-0.12.13/sourcecpp_5f6574177c5c/sourceCpp_18.so
  7f90e9a57000-7f90e9a58000 rw-p 0002e000 00:2b 210944771                  /tmp/RtmpzWED7s/sourceCpp-x86_64-pc-linux-gnu-0.12.13/sourcecpp_5f6574177c5c/sourceCpp_18.so
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  7f9103d5e000-7f9103d67000 rw-p 00000000 00:00 0 
  7f9103d67000-7f9103fce000 r-xp 00000000 fd:01 825195                     /usr/lib64/libicui18n.so.57.1
  7f9103fce000-7f91041ce000 ---p 00267000 fd:01 825195                     /usr/lib64/libicui18n.so.57.1
  7f91041ce000-7f91041dc000 r--p 00267000 fd:01 825195                     /usr/lib64/libicui18n.so.57.1
  7f91041dc000-7f91041dd000 rw-p 00275000 fd:01 825195                     /usr/lib64/libicui18n.so.57.1
  7f91041dd000-7f9104370000 r-xp 00000000 fd:01 825570                     /usr/lib64/libicuuc.so.57.1
  7f9104370000-7f910456f000 ---p 00193000 fd:01 825570                     /usr/lib64/libicuuc.so.57.1
  7f910456f000-7f9104581000 r--p 00192000 fd:01 825570                     /usr/lib64/libicuuc.so.57.1
  7f9104581000-7f9104582000 rw-p 001a4000 fd:01 825570                     /usr/lib64/libicuuc.so.57.1
  7f9104582000-7f9104584000 rw-p 00000000 00:00 0 
  7f9104584000-7f9104587000 r-xp 00000000 fd:01 801363                     /usr/lib64/libdl-2.25.so
  7f9104587000-7f9104786000 ---p 00003000 fd:01 801363                     /usr/lib64/libdl-2.25.so
  7f9104786000-7f9104787000 r--p 00002000 fd:01 801363                     /usr/lib64/libdl-2.25.so
  7f9104787000-7f9104788000 rw-p 00003000 fd:01 801363                     /usr/lib64/libdl-2.25.so
  7f9104788000-7f910478f000 r-xp 00000000 fd:01 806284                     /usr/lib64/librt-2.25.so
  7f910478f000-7f910498e000 ---p 00007000 fd:01 806284                     /usr/lib64/librt-2.25.so
  7f910498e000-7f910498f000 r--p 00006000 fd:01 806284                     /usr/lib64/librt-2.25.so
  7f910498f000-7f9104990000 rw-p 00007000 fd:01 806284                     /usr/lib64/librt-2.25.so
  7f9104990000-7f91049a6000 r-xp 00000000 fd:01 806132                     /usr/lib64/libz.so.1.2.11
  7f91049a6000-7f9104ba5000 ---p 00016000 fd:01 806132                     /usr/lib64/libz.so.1.2.11
  7f9104ba5000-7f9104ba6000 r--p 00015000 fd:01 806132                     /usr/lib64/libz.so.1.2.11
  7f9104ba6000-7f9104ba7000 rw-p 00000000 00:00 0 
  7f9104ba7000-7f9104bb6000 r-xp 00000000 fd:01 795450                     /usr/lib64/libbz2.so.1.0.6
  7f9104bb6000-7f9104db5000 ---p 0000f000 fd:01 795450                     /usr/lib64/libbz2.so.1.0.6
  7f9104db5000-7f9104db6000 r--p 0000e000 fd:01 795450                     /usr/lib64/libbz2.so.1.0.6
  7f9104db6000-7f9104db7000 rw-p 0000f000 fd:01 795450                     /usr/lib64/libbz2.so.1.0.6
  7f9104db7000-7f9104ddc000 r-xp 00000000 fd:01 821586                     /usr/lib64/liblzma.so.5.2.3
  7f9104ddc000-7f9104fdb000 ---p 00025000 fd:01 821586                     /usr/lib64/liblzma.so.5.2.3
  7f9104fdb000-7f9104fdc000 r--p 00024000 fd:01 821586                     /usr/lib64/liblzma.so.5.2.3
  7f9104fdc000-7f9104fdd000 rw-p 00000000 00:00 0 
  7f9104fdd000-7f910504e000 r-xp 00000000 fd:01 801872                     /usr/lib64/libpcre.so.1.2.9
  7f910504e000-7f910524e000 ---p 00071000 fd:01 801872                     /usr/lib64/libpcre.so.1.2.9
  7f910524e000-7f910524f000 r--p 00071000 fd:01 801872                     /usr/lib64/libpcre.so.1.2.9
  7f910524f000-7f9105250000 rw-p 00072000 fd:01 801872                     /usr/lib64/libpcre.so.1.2.9
  7f9105250000-7f9105293000 r-xp 00000000 fd:01 822130                     /usr/lib64/libreadline.so.7.0
  7f9105293000-7f9105492000 ---p 00043000 fd:01 822130                     /usr/lib64/libreadline.so.7.0
  7f9105492000-7f9105495000 r--p 00042000 fd:01 822130                     /usr/lib64/libreadline.so.7.0
  7f9105495000-7f910549b000 rw-p 00045000 fd:01 822130                     /usr/lib64/libreadline.so.7.0
  7f910549b000-7f910549c000 rw-p 00000000 00:00 0 
  7f910549c000-7f91054da000 r-xp 00000000 fd:01 790032                     /usr/lib64/libquadmath.so.0.0.0
  7f91054da000-7f91056da000 ---p 0003e000 fd:01 790032                     /usr/lib64/libquadmath.so.0.0.0
  7f91056da000-7f91056db000 r--p 0003e000 fd:01 790032                     /usr/lib64/libquadmath.so.0.0.0
  7f91056db000-7f91056dc000 rw-p 0003f000 fd:01 790032                     /usr/lib64/libquadmath.so.0.0.0
  7f91056dc000-7f91057f1000 r-xp 00000000 fd:01 802171                     /usr/lib64/libm-2.25.so
  7f91057f1000-7f91059f0000 ---p 00115000 fd:01 802171                     /usr/lib64/libm-2.25.so
  7f91059f0000-7f91059f1000 r--p 00114000 fd:01 802171                     /usr/lib64/libm-2.25.so
  7f91059f1000-7f91059f2000 rw-p 00115000 fd:01 802171                     /usr/lib64/libm-2.25.so
  7f91059f2000-7f9105bcc000 r-xp 00000000 fd:01 789654                     /usr/lib64/libgfortran.so.4.0.0
  7f9105bcc000-7f9105dcb000 ---p 001da000 fd:01 789654                     /usr/lib64/libgfortran.so.4.0.0
  7f9105dcb000-7f9105dcc000 r--p 001d9000 fd:01 789654                     /usr/lib64/libgfortran.so.4.0.0
  7f9105dcc000-7f9105dcd000 rw-p 001da000 fd:01 789654                     /usr/lib64/libgfortran.so.4.0.0
  7f9105dcd000-7f9105dce000 rw-p 00000000 00:00 0 
  7f9105dce000-7f9105df8000 r-xp 00000000 fd:02 3670843                    /data/gannet/ripley/R/R-clang/lib/libRblas.so
  7f9105df8000-7f9105ff7000 ---p 0002a000 fd:02 3670843                    /data/gannet/ripley/R/R-clang/lib/libRblas.so
  7f9105ff7000-7f9105ff8000 r--p 00029000 fd:02 3670843                    /data/gannet/ripley/R/R-clang/lib/libRblas.so
  7f9105ff8000-7f9105ff9000 rw-p 0002a000 fd:02 3670843                    /data/gannet/ripley/R/R-clang/lib/libRblas.so
  7f9105ff9000-7f9106020000 r-xp 00000000 fd:01 787472                     /usr/lib64/ld-2.25.so
  7f9106047000-7f91061c9000 rw-p 00000000 00:00 0 
  7f9106205000-7f9106206000 rw-p 00000000 00:00 0 
  7f9106206000-7f9106216000 rwxp 00000000 00:00 0 
  7f9106216000-7f910621d000 r--s 00000000 fd:01 812834                     /usr/lib64/gconv/gconv-modules.cache
  7f910621d000-7f910621f000 rw-p 00000000 00:00 0 
  7f910621f000-7f9106220000 r--p 00026000 fd:01 787472                     /usr/lib64/ld-2.25.so
  7f9106220000-7f9106222000 rw-p 00027000 fd:01 787472                     /usr/lib64/ld-2.25.so
  7ffc6f7a5000-7ffc6f7e6000 rw-p 00000000 00:00 0                          [stack]
  7ffc6f7f0000-7ffc6f7f3000 r--p 00000000 00:00 0                          [vvar]
  7ffc6f7f3000-7ffc6f7f5000 r-xp 00000000 00:00 0                          [vdso]
  ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0                  [vsyscall]