From pdalgd at gmail.com  Thu Apr  6 14:52:23 2017
From: pdalgd at gmail.com (peter dalgaard)
Date: Thu, 6 Apr 2017 14:52:23 +0200
Subject: [Rd] failure of make check-all
In-Reply-To: <47cabe$662clt@ironport10.mayo.edu>
References: <47cabe$662clt@ironport10.mayo.edu>
Message-ID: <E86596A7-C098-411A-AB0B-2A37EF64D9BF@gmail.com>

You may want to retry that after a make distclean, in case anything changed in the toolchain.

-pd 

> On 6 Apr 2017, at 14:43 , Therneau, Terry M., Ph.D. <therneau at mayo.edu> wrote:
> 
> This run was done this AM on my linux box, and older 32 bit Dell optiplex (core 2 duo).  The failure message is at the very end. (It's due to be replaced in a couple of weeks.)  The sequence of steps was
> 
> svn up
> tools/rsync-recommended
> ./configure
> make
> make check-all |& tee zzz
> 
> 
> Terry T.
> 
> 
> Result of ./config
> R is now configured for i686-pc-linux-gnu
> 
>  Source directory:          .
>  Installation directory:    /usr/local
> 
>  C compiler:                gcc  -g -O2
>  Fortran 77 compiler:       f95  -g -O2
> 
>  Default C++ compiler:      g++
>  C++98 compiler:            g++
>  C++11 compiler:            g++ -std=gnu++11
>  C++14 compiler:            g++ -std=gnu++14
>  C++17 compiler:
>  Fortran 90/95 compiler:    gfortran -g -O2
>  Obj-C compiler:
> 
>  Interfaces supported:      X11, tcltk
>  External libraries:        readline, curl
>  Additional capabilities:   PNG, JPEG, NLS, cairo, ICU
>  Options enabled:           shared BLAS, R profiling
> 
>  Capabilities skipped:      TIFF
>  Options not enabled:       memory profiling
> 
>  Recommended packages:      yes
> 
> ----
> sessionInfo() after invoking R --vanilla
> 
> R Under development (unstable) (2017-04-06 r72489)
> Platform: i686-pc-linux-gnu (32-bit)
> Running under: Ubuntu 16.04.2 LTS
> 
> Matrix products: default
> BLAS: /usr/local/src/R-devel/lib/libRblas.so
> LAPACK: /usr/local/src/R-devel/lib/libRlapack.so
> 
> locale:
> [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
> [3] LC_TIME=en_US.UTF-8        LC_COLLATE=C
> [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
> [7] LC_PAPER=en_US.UTF-8       LC_NAME=C
> [9] LC_ADDRESS=C               LC_TELEPHONE=C
> [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
> 
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods base
> 
> loaded via a namespace (and not attached):
> [1] compiler_3.5.0
> 
> ----------------------
> The results of "make" showed nothing remarkable.
> 
> Here is make test-all
> 
> make[1]: Entering directory '/usr/local/src/R-devel/tests'
> make[2]: Entering directory '/usr/local/src/R-devel/tests'
> make[3]: Entering directory '/usr/local/src/R-devel/tests/Examples'
> Testing examples for package ?base?
>  comparing ?base-Ex.Rout? to ?base-Ex.Rout.prev? ... NOTE
>  1573,1607c1573,1608
>  <  [35] "MANDATORY_PATH" "MFLAGS"
>  <  [37] "PAGER" "PATH"
>  <  [39] "PWD" "QT4_IM_MODULE"
>  <  [41] "QT_ACCESSIBILITY" "QT_IM_MODULE"
>  <  [43] "QT_LINUX_ACCESSIBILITY_ALWAYS_ON" "R_ARCH"
>  <  [45] "R_BROWSER" "R_BZIPCMD"
>  <  [47] "R_CMD" "R_DOC_DIR"
>  <  [49] "R_ENVIRON" "R_ENVIRON_USER"
>  <  [51] "R_GZIPCMD" "R_HOME"
>  <  [53] "R_INCLUDE_DIR" "R_LIBS"
>  <  [55] "R_LIBS_SITE" "R_LIBS_USER"
>  <  [57] "R_OSTYPE" "R_PAPERSIZE"
>  <  [59] "R_PAPERSIZE_USER" "R_PDFVIEWER"
>  <  [61] "R_PLATFORM" "R_PRINTCMD"
>  <  [63] "R_PROFILE" "R_PROFILE_USER"
>  <  [65] "R_RD4PDF" "R_SESSION_TMPDIR"
>  <  [67] "R_SHARE_DIR" "R_SYSTEM_ABI"
>  <  [69] "R_TEXI2DVICMD" "R_UNZIPCMD"
>  <  [71] "R_VERSION" "R_ZIPCMD"
>  <  [73] "SED" "SESSION"
>  <  [77] "SHELL" "SHLVL"
>  <  [79] "SSH_AGENT_PID" "SSH_AUTH_SOCK"
>  <  [81] "TAR" "TERM"
>  <  [83] "TEXINPUTS" "UPSTART_EVENTS"
>  <  [85] "UPSTART_INSTANCE" "UPSTART_JOB"
>  <  [87] "UPSTART_SESSION" "USER"
>  <  [89] "WINDOWID" "XAUTHORITY"
>  <  [91] "XDG_CONFIG_DIRS" "XDG_CURRENT_DESKTOP"
>  <  [93] "XDG_DATA_DIRS" "XDG_GREETER_DATA_DIR"
>  <  [95] "XDG_MENU_PREFIX" "XDG_RUNTIME_DIR"
>  <  [97] "XDG_SEAT" "XDG_SEAT_PATH"
>  <  [99] "XDG_SESSION_DESKTOP" "XDG_SESSION_ID"
>  < [101] "XDG_SESSION_PATH" "XDG_SESSION_TYPE"
>  < [103] "XDG_VTNR" "XMODIFIERS"
>  ---
>  >  [35] "MAKE_TERMERR" "MAKE_TERMOUT"
>  >  [37] "MANDATORY_PATH" "MFLAGS"
>  >  [39] "PAGER" "PATH"
>  >  [41] "PWD" "QT4_IM_MODULE"
>  >  [43] "QT_ACCESSIBILITY" "QT_IM_MODULE"
>  >  [45] "QT_LINUX_ACCESSIBILITY_ALWAYS_ON" "R_ARCH"
>  >  [47] "R_BROWSER" "R_BZIPCMD"
>  >  [49] "R_CMD" "R_DOC_DIR"
>  >  [51] "R_ENVIRON" "R_ENVIRON_USER"
>  >  [53] "R_GZIPCMD" "R_HOME"
>  >  [55] "R_INCLUDE_DIR" "R_LIBS"
>  >  [57] "R_LIBS_SITE" "R_LIBS_USER"
>  >  [59] "R_OSTYPE" "R_PAPERSIZE"
>  >  [61] "R_PAPERSIZE_USER" "R_PDFVIEWER"
>  >  [63] "R_PLATFORM" "R_PRINTCMD"
>  >  [65] "R_PROFILE" "R_PROFILE_USER"
>  >  [67] "R_RD4PDF" "R_SESSION_TMPDIR"
>  >  [69] "R_SHARE_DIR" "R_SYSTEM_ABI"
>  >  [71] "R_TEXI2DVICMD" "R_UNZIPCMD"
>  >  [73] "R_VERSION" "R_ZIPCMD"
>  >  [75] "SED" "SESSION"
>  >  [77] "SESSIONTYPE" "SESSION_MANAGER"
>  >  [79] "SHELL" "SHLVL"
>  >  [81] "SSH_AGENT_PID" "SSH_AUTH_SOCK"
>  >  [83] "TAR" "TERM"
>  >  [85] "TEXINPUTS" "UPSTART_EVENTS"
>  >  [87] "UPSTART_INSTANCE" "UPSTART_JOB"
>  >  [89] "UPSTART_SESSION" "USER"
>  >  [91] "WINDOWID" "XAUTHORITY"
>  >  [93] "XDG_CONFIG_DIRS" "XDG_CURRENT_DESKTOP"
>  >  [95] "XDG_DATA_DIRS" "XDG_GREETER_DATA_DIR"
>  >  [97] "XDG_MENU_PREFIX" "XDG_RUNTIME_DIR"
>  >  [99] "XDG_SEAT" "XDG_SEAT_PATH"
>  > [101] "XDG_SESSION_DESKTOP" "XDG_SESSION_ID"
>  > [103] "XDG_SESSION_PATH" "XDG_SESSION_TYPE"
>  > [105] "XDG_VTNR" "XMODIFIERS"
>  7903a7905,7906
>  > MAKE_TERMERR: /dev/pts/10
>  > MAKE_TERMOUT: /dev/pts/10
>  7936c7939
>  < R_SESSION_TMPDIR: /tmp/RtmpSrm93R
>  ---
>  > R_SESSION_TMPDIR: /tmp/RtmpFkpTbp
>  11007c11010
>  < [37] "tests"          "tools"          "zzz"
>  ---
>  > [37] "tests"          "tools"
> Testing examples for package ?tools?
>  comparing ?tools-Ex.Rout? to ?tools-Ex.Rout.save? ... OK
> Testing examples for package ?utils?
>  comparing ?utils-Ex.Rout? to ?utils-Ex.Rout.prev? ... OK
> Testing examples for package ?grDevices?
>  comparing ?grDevices-Ex.Rout? to ?grDevices-Ex.Rout.save? ... OK
> Testing examples for package ?graphics?
>  comparing ?graphics-Ex.Rout? to ?graphics-Ex.Rout.save? ... OK
> Testing examples for package ?stats?
>  comparing ?stats-Ex.Rout? to ?stats-Ex.Rout.save? ... OK
> Testing examples for package ?datasets?
>  comparing ?datasets-Ex.Rout? to ?datasets-Ex.Rout.save? ... OK
> Testing examples for package ?methods?
>  comparing ?methods-Ex.Rout? to ?methods-Ex.Rout.prev? ... OK
> Testing examples for package ?grid?
>  comparing ?grid-Ex.Rout? to ?grid-Ex.Rout.save? ... OK
> Testing examples for package ?splines?
>  comparing ?splines-Ex.Rout? to ?splines-Ex.Rout.save? ... OK
> Testing examples for package ?stats4?
>  comparing ?stats4-Ex.Rout? to ?stats4-Ex.Rout.save? ... OK
> Testing examples for package ?tcltk?
>  comparing ?tcltk-Ex.Rout? to ?tcltk-Ex.Rout.prev? ... OK
> Testing examples for package ?compiler?
>  comparing ?compiler-Ex.Rout? to ?compiler-Ex.Rout.prev? ... OK
> Testing examples for package ?parallel?
>  comparing ?parallel-Ex.Rout? to ?parallel-Ex.Rout.prev? ... OK
> make[3]: Leaving directory '/usr/local/src/R-devel/tests/Examples'
> make[2]: Leaving directory '/usr/local/src/R-devel/tests'
> make[2]: Entering directory '/usr/local/src/R-devel/tests'
> running strict specific tests
> make[3]: Entering directory '/usr/local/src/R-devel/tests'
> running code in 'eval-etc.R' ... OK
>  comparing 'eval-etc.Rout' to './eval-etc.Rout.save' ... OK
> running code in 'simple-true.R' ... OK
>  comparing 'simple-true.Rout' to './simple-true.Rout.save' ... OK
> running code in 'arith-true.R' ... OK
>  comparing 'arith-true.Rout' to './arith-true.Rout.save' ... OK
> running code in 'arith.R' ... OK
>  comparing 'arith.Rout' to './arith.Rout.save' ... OK
> running code in 'lm-tests.R' ... OK
>  comparing 'lm-tests.Rout' to './lm-tests.Rout.save' ... OK
> running code in 'ok-errors.R' ... OK
>  comparing 'ok-errors.Rout' to './ok-errors.Rout.save' ... OK
> running code in 'method-dispatch.R' ... OK
>  comparing 'method-dispatch.Rout' to './method-dispatch.Rout.save' ... OK
> running code in 'any-all.R' ... OK
>   comparing 'any-all.Rout' to './any-all.Rout.save' ... OK
> running code in 'd-p-q-r-tests.R' ... OK
>  comparing 'd-p-q-r-tests.Rout' to './d-p-q-r-tests.Rout.save' ... OK
> make[3]: Leaving directory '/usr/local/src/R-devel/tests'
> running sloppy specific tests
> make[3]: Entering directory '/usr/local/src/R-devel/tests'
> running code in 'complex.R' ... OK
>  comparing 'complex.Rout' to './complex.Rout.save' ... OK
> running code in 'print-tests.R' ... OK
>  comparing 'print-tests.Rout' to './print-tests.Rout.save' ... OK
> running code in 'lapack.R' ... OK
>  comparing 'lapack.Rout' to './lapack.Rout.save' ... OK
> running code in 'datasets.R' ... OK
>  comparing 'datasets.Rout' to './datasets.Rout.save' ... OK
> running code in 'datetime.R' ... OK
>  comparing 'datetime.Rout' to './datetime.Rout.save' ... OK
> running code in 'iec60559.R' ... OK
>  comparing 'iec60559.Rout' to './iec60559.Rout.save' ... OK
> make[3]: Leaving directory '/usr/local/src/R-devel/tests'
> make[2]: Leaving directory '/usr/local/src/R-devel/tests'
> make[2]: Entering directory '/usr/local/src/R-devel/tests'
> running regression tests ...
> make[3]: Entering directory '/usr/local/src/R-devel/tests'
> running code in 'array-subset.R' ... OK
> running code in 'reg-tests-1a.R' ... OK
> running code in 'reg-tests-1b.R' ... OK
> running code in 'reg-tests-1c.R' ... OK
> running code in 'reg-tests-1d.R' ... OK
> running code in 'reg-tests-2.R' ... OK
>  comparing 'reg-tests-2.Rout' to './reg-tests-2.Rout.save' ... OK
> running code in 'reg-examples1.R' ... OK
> running code in 'reg-examples2.R' ... OK
> running code in 'reg-packages.R' ... OK
> running code in 'p-qbeta-strict-tst.R' ... OK
> running code in 'r-strict-tst.R' ... OK
> running code in 'reg-IO.R' ... OK
>  comparing 'reg-IO.Rout' to './reg-IO.Rout.save' ... OK
> running code in 'reg-IO2.R' ... OK
>  comparing 'reg-IO2.Rout' to './reg-IO2.Rout.save' ... OK
> running code in 'reg-plot.R' ... OK
>  comparing 'reg-plot.pdf' to './reg-plot.pdf.save' ... OK
> running code in 'reg-S4-examples.R' ... OK
> running code in 'reg-BLAS.R' ... OK
> make[3]: Leaving directory '/usr/local/src/R-devel/tests'
> make[3]: Entering directory '/usr/local/src/R-devel/tests'
> running code in 'reg-tests-3.R' ... OK
>  comparing 'reg-tests-3.Rout' to './reg-tests-3.Rout.save' ... OK
> running code in 'reg-examples3.R' ...Makefile.common:98: recipe for target 'reg-
> examples3.Rout' failed
> make[3]: *** [reg-examples3.Rout] Error 1
> make[3]: Leaving directory '/usr/local/src/R-devel/tests'
> Makefile.common:273: recipe for target 'test-Reg' failed
> make[2]: *** [test-Reg] Error 2
> make[2]: Leaving directory '/usr/local/src/R-devel/tests'
> Makefile.common:165: recipe for target 'test-all-basics' failed
> make[1]: *** [test-all-basics] Error 1
> make[1]: Leaving directory '/usr/local/src/R-devel/tests'
> Makefile:239: recipe for target 'check-all' failed
> make: *** [check-all] Error 2
> 
> ______________________________________________
> R-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel

-- 
Peter Dalgaard, Professor,
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
Office: A 4.23
Email: pd.mes at cbs.dk  Priv: PDalgd at gmail.com



[Rd] failure of make check-all
peter dalgaard