[R-pkg-team] Bug#957738: r-cran-desolve: ftbfs with GCC-10
Matthias Klose
doko at debian.org
Fri Apr 17 12:09:42 BST 2020
Package: src:r-cran-desolve
Version: 1.27.1-1
Severity: normal
Tags: sid bullseye
User: debian-gcc at lists.debian.org
Usertags: ftbfs-gcc-10
Please keep this issue open in the bug tracker for the package it
was filed for. If a fix in another package is required, please
file a bug for the other package (or clone), and add a block in this
package. Please keep the issue open until the package can be built in
a follow-up test rebuild.
The package fails to build in a test rebuild on at least amd64 with
gcc-10/g++-10, but succeeds to build with gcc-9/g++-9. The
severity of this report will be raised before the bullseye release,
so nothing has to be done for the buster release.
The full build log can be found at:
http://people.debian.org/~doko/logs/gcc10-20200225/r-cran-desolve_1.27.1-1_unstable_gcc10.log
The last lines of the build log are at the end of this report.
To build with GCC 10, either set CC=gcc-10 CXX=g++-10 explicitly,
or install the gcc, g++, gfortran, ... packages from experimental.
apt-get -t=experimental install g++
Common build failures are new warnings resulting in build failures with
-Werror turned on, or new/dropped symbols in Debian symbols files.
For other C/C++ related build failures see the porting guide at
http://gcc.gnu.org/gcc-10/porting_to.html
[...]
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture amd64
fakeroot debian/rules clean
dh clean --buildsystem R
dh_auto_clean -O--buildsystem=R
dh_autoreconf_clean -O--buildsystem=R
dh_clean -O--buildsystem=R
debian/rules build
make: 'build' is up to date.
fakeroot debian/rules binary
dh binary --buildsystem R
dh_update_autotools_config -O--buildsystem=R
dh_autoreconf -O--buildsystem=R
dh_auto_configure -O--buildsystem=R
dh_auto_build -O--buildsystem=R
dh_auto_test -O--buildsystem=R
create-stamp debian/debhelper-build-stamp
dh_testroot -O--buildsystem=R
dh_prep -O--buildsystem=R
dh_auto_install -O--buildsystem=R
I: R Package: deSolve Version: 1.27.1
I: Building using R version 3.6.2.20200221-1
I: R API version: r-api-3.5
I: Using built-time from d/changelog: Sat, 04 Jan 2020 09:36:49 +0100
mkdir -p /<<PKGBUILDDIR>>/debian/r-cran-desolve/usr/lib/R/site-library
R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-cran-desolve/usr/lib/R/site-library --clean . "--built-timestamp='Sat, 04 Jan 2020 09:36:49 +0100'"
* installing *source* package ‘deSolve’ ...
** package ‘deSolve’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c DLLutil.c -o DLLutil.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_init_deSolve.c -o R_init_deSolve.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c brent.c -o brent.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c call_daspk.c -o call_daspk.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c call_euler.c -o call_euler.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c call_iteration.c -o call_iteration.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c call_lsoda.c -o call_lsoda.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c call_radau.c -o call_radau.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c call_rk4.c -o call_rk4.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c call_rkAuto.c -o call_rkAuto.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c call_rkFixed.c -o call_rkFixed.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c call_rkImplicit.c -o call_rkImplicit.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c call_zvode.c -o call_zvode.o
gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -c daux.f -o daux.o
gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -c ddaspk.f -o ddaspk.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c deSolve_utils.c -o deSolve_utils.o
gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -c dintdy2.f -o dintdy2.o
gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -c dlinpk.f -o dlinpk.o
gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -c dlsoder.f -o dlsoder.o
gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -c dsparsk.f -o dsparsk.o
gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -c dvode.f -o dvode.o
gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/build/r-base-8eWJoV/r-base-3.6.2.20200221=. -fstack-protector-strong -c errmsg.f -o errmsg.o
errmsg.f:18:29:
10 | call dblepr(msg, -1, d1, 1)
| 2
......
18 | call dblepr(msg, -1, DBL, 2)
| 1
Error: Rank mismatch between actual argument at (1) and actual argument at (2) (scalar and rank-1)
make[1]: *** [/usr/lib/R/etc/Makeconf:191: errmsg.o] Error 1
make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
ERROR: compilation failed for package ‘deSolve’
* removing ‘/<<PKGBUILDDIR>>/debian/r-cran-desolve/usr/lib/R/site-library/deSolve’
dh_auto_install: error: R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-cran-desolve/usr/lib/R/site-library --clean . "--built-timestamp='Sat, 04 Jan 2020 09:36:49 +0100'" returned exit code 1
make: *** [debian/rules:4: binary] Error 25
dpkg-buildpackage: error: fakeroot debian/rules binary subprocess returned exit status 2
More information about the R-pkg-team
mailing list