cygwin: Do not use system R #29486
Description
For package rpy2 (versions 2.8.x) there is an unresolved build failure on cygwin when using system R (cygwin-standard).
This can be seen on the GitHub Actions workflow from #29403 but has also been reproduced locally. Details below.
This ticket disables use of system R on cygwin. This should be reverted with the #29441 upgrade to more recent rpy2 (python-3 only).
gcc -shared -Wl,--enable-auto-image-base -L/cygdrive/d/a/sage/sage/local/lib -Wl,-rpath,/cygdrive/d/a/sage/sage/local/lib build/temp.cygwin-3.1.4-x86_64-3.7/./rpy/rinterface/_rinterface.o -L/usr/lib/R/lib -L/cygdrive/d/a/sage/sage/local/lib/python3.7/config -L/usr/lib -Lbuild/temp.cygwin-3.1.4-x86_64-3.7 -L/usr/lib/R/lib -lreadline -lR -lpcre -llzma -lbz2 -lz -ltirpc -lrt -ldl -lm -liconv -licuuc -licui18n -lpython3.7m -lr_utils -o build/lib.cygwin-3.1.4-x86_64-3.7/rpy2/rinterface/_rinterface.cpython-37m-x86_64-cygwin.dll -fopenmp
/usr/lib/gcc/x86_64-pc-cygwin/9.3.0/../../../../x86_64-pc-cygwin/bin/ld: build/temp.cygwin-3.1.4-x86_64-3.7/libr_utils.a(r_utils.o): in function `rpy2_findfun':
/tmp/pip-req-build-ymc5_3kd/./rpy/rinterface/r_utils.c:58: undefined reference to `Rf_findVarInFrame3'
/tmp/pip-req-build-ymc5_3kd/./rpy/rinterface/r_utils.c:58:(.text+0xda): relocation truncated to fit: R_X86_64_PC32 against undefined symbol `Rf_findVarInFrame3'
/usr/lib/gcc/x86_64-pc-cygwin/9.3.0/../../../../x86_64-pc-cygwin/bin/ld: build/temp.cygwin-3.1.4-x86_64-3.7/libr_utils.a(r_utils.o): in function `rpy2_list_attr':
/tmp/pip-req-build-ymc5_3kd/./rpy/rinterface/r_utils.c:129: undefined reference to `ATTRIB'
/tmp/pip-req-build-ymc5_3kd/./rpy/rinterface/r_utils.c:129:(.text+0x340): relocation truncated to fit: R_X86_64_PC32 against undefined symbol `ATTRIB'
/usr/lib/gcc/x86_64-pc-cygwin/9.3.0/../../../../x86_64-pc-cygwin/bin/ld: build/temp.cygwin-3.1.4-x86_64-3.7/libr_utils.a(r_utils.o): in function `rpy2_remove':
/tmp/pip-req-build-ymc5_3kd/./rpy/rinterface/r_utils.c:152: undefined reference to `Rf_lang4'
Full logs can be downloaded at:
The sage-local artifact that has been built can be downloaded at
Previous tickets: https://trac.sagemath.org/search?q=rpy2+cygwin&noquickjump=1&branch=on&milestone=on&ticket=on&wiki=on
CC: @EmmanuelCharpentier @videlec @tscrim @jpflori @embray @vbraun @dimpase @jhpalmieri @darijgr @kiwifb
Component: porting: Cygwin
Author: Matthias Koeppe
Branch/Commit: 032eb86
Reviewer: Dima Pasechnik
Issue created by migration from https://trac.sagemath.org/ticket/29486