[Rd] failure of make check-all
Therneau, Terry M., Ph.D.
therneau at mayo.edu
Thu Apr 6 14:43:24 CEST 2017
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
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