[Rd] make check-recommended hanging on up-to-date Rdevel from SVN
Gabriel Becker
gmbecker at ucdavis.edu
Thu Jul 6 23:26:39 CEST 2017
Hi all,
I'm getting an issue with Rdevel where make check-recommended hangs
consistently for me on Mac El Capitan when checking the Matrix package. I
did svn update and tools/rsync_recommended earlier today and it didn't fix
the issue.
Specifically, it is hanging on the
* checking dependencies in R code ...
stage (while checking Matrix, it passes fine for MASS and lattice).
Currently I'm getting the same behavior when I do
tools:::.check_packages("<builddir>/tests/RecPackages/Matrix")
Is this a known issue and if not, do other people see this behavior?
Best,
~G
Various info:
Build script:
#!/bin/bash
export CC="gcc -std=gnu99 -fsanitize=address"
# make -O0 if we want full debugging symbols
export CFLAGS="-fno-omit-frame-pointer -g -O2 -Wall -pedantic -mtune=native"
#export CFLAGS="-fno-omit-frame-pointer -g -O0 -Wall -pedantic
-mtune=native"
export CXX="g++ -fsanitize=address -fno-omit-frame-pointer"
export F77="gfortran -arch x86_64"
export FC="gfortran -arch x86_64"
export MAIN_LDFLAGS=" -fsanitize=address"
../checkedout/Rsource/rawtrunk/configure
--prefix=/Users/beckerg4/local/Rdevel --enable-R-framework
--enable-memory-profiling
make -j3
make install
Svn Info:
beckerg4-T4G3QN:rawtrunk beckerg4$ *svn info*
Path: .
Working Copy Root Path: /Users/beckerg4/gabe/checkedout/Rsource/rawtrunk
URL: https://svn.r-project.org/R/trunk
Relative URL: ^/trunk
Repository Root: https://svn.r-project.org/R
Repository UUID: 00db46b3-68df-0310-9c12-caf00c1e9a41
Revision: 72894
Node Kind: directory
Schedule: normal
Last Changed Author: lawrence
Last Changed Rev: 72894
Last Changed Date: 2017-07-06 00:12:06 -0700 (Thu, 06 Jul 2017)
Svn status (no local changes)
beckerg4-T4G3QN:rawtrunk beckerg4$* svn status*
beckerg4-T4G3QN:rawtrunk beckerg4$
Session info after Matrix is attached:
*> library(Matrix)*
*> sessionInfo()*
R Under development (unstable) (2017-07-06 r72894)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: OS X El Capitan 10.11.6
Matrix products: default
BLAS: /Users/beckerg4/gabe/Rdevelbuild/lib/libRblas.dylib
LAPACK: /Users/beckerg4/gabe/Rdevelbuild/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] Matrix_1.2-10
loaded via a namespace (and not attached):
[1] compiler_3.5.0 grid_3.5.0 lattice_0.20-35
--
Gabriel Becker, PhD
Associate Scientist (Bioinformatics)
Genentech Research
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