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Build failure: rPackages.gert #370628

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BerriJ opened this issue Jan 3, 2025 · 2 comments
Closed

Build failure: rPackages.gert #370628

BerriJ opened this issue Jan 3, 2025 · 2 comments
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0.kind: build failure A package fails to build

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@BerriJ
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BerriJ commented Jan 3, 2025

Steps To Reproduce

Steps to reproduce the behavior:

  1. nix-shell -p rPackages.gert

Build log

Build Log 
this derivation will be built:
  /nix/store/4ssgkq7f40fwh1riymvbydqwfkkiqi4z-r-gert-2.1.1.drv
building '/nix/store/4ssgkq7f40fwh1riymvbydqwfkkiqi4z-r-gert-2.1.1.drv'...
Running phase: unpackPhase
unpacking source archive /nix/store/mlbdyxxlznxqj1gcbra1lmfbcs327bl4-gert_2.1.1.tar.gz
source root is gert
setting SOURCE_DATE_EPOCH to timestamp 1723803602 of file gert/MD5
Running phase: patchPhase
Running phase: updateAutotoolsGnuConfigScriptsPhase
Running phase: configurePhase
Running phase: buildPhase
Running phase: checkPhase
Running phase: installPhase
* installing *source* package 'gert' ...
** package 'gert' successfully unpacked and MD5 sums checked
** using staged installation
Error in curl::curl_download("https://r-lib.github.io/gert/get-libgit2-linux.sh",  : 
  Could not resolve host: r-lib.github.io
Execution halted
Using PKG_CFLAGS=
Using PKG_LIBS=-lgit2
Configuration OK!
** libs
using C compiler: 'gcc (GCC) 14.2.1 20241116'
rm -f gert.so branch.o clone.o commit.o config.o conflicts.o files.o ignore.o init.o merge.o rebase.o stash.o submodules.o tag.o utils.o version.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c branch.c -o branch.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c clone.c -o clone.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c commit.c -o commit.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c config.c -o config.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c conflicts.c -o conflicts.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c files.c -o files.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c ignore.c -o ignore.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c init.c -o init.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c merge.c -o merge.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c rebase.c -o rebase.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c stash.c -o stash.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c submodules.c -o submodules.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c tag.c -o tag.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c utils.c -o utils.o
/nix/store/xcn9p4xxfbvlkpah7pwchpav4ab9d135-gcc-wrapper-14-20241116/bin/cc -I"/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/include" -DNDEBUG -DR_NO_REMAP -DSTRICT_R_HEADERS     -fvisibility=hidden -fpic  -g -O2  -c version.c -o version.o
In file included from commit.c:2:
commit.c: In function 'R_git_commit_create':
utils.h:28:29: error: passing argument 10 of 'git_commit_create' from incompatible pointer type [8;;https://gcc.gnu.org/onlinedocs/gcc-14.2.0/gcc/Warning-Options.html#index-Wincompatible-pointer-types-Wincompatible-pointer-types8;;]
   28 | #define no_const_workaround (git_commit **)
commit.c:162:60: note: in expansion of macro 'no_const_workaround'
  162 |                             msg.ptr, tree, number_parents, no_const_workaround parents), "git_commit_create");
      |                                                            ^~~~~~~~~~~~~~~~~~~
In file included from /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2/repository.h:14,
                 from /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2/annotated_commit.h:11,
                 from /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2.h:11,
                 from utils.h:1:
/nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2/commit.h:369:27: note: expected 'const git_commit **' but argument is of type 'git_commit **'
  369 |         const git_commit *parents[]);
      |         ~~~~~~~~~~~~~~~~~~^~~~~~~~~
make: *** [/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/etc/Makeconf:195: commit.o] Error 1
make: *** Waiting for unfinished jobs....
In file included from rebase.c:2:
rebase.c: In function 'R_git_cherry_pick':
utils.h:28:29: error: passing argument 10 of 'git_commit_create' from incompatible pointer type [8;;https://gcc.gnu.org/onlinedocs/gcc-14.2.0/gcc/Warning-Options.html#index-Wincompatible-pointer-types-Wincompatible-pointer-types8;;]
   28 | #define no_const_workaround (git_commit **)
rebase.c:110:64: note: in expansion of macro 'no_const_workaround'
  110 |                             git_commit_message(orig), tree, 1, no_const_workaround parents), "git_commit_create");
      |                                                                ^~~~~~~~~~~~~~~~~~~
In file included from /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2/repository.h:14,
                 from /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2/annotated_commit.h:11,
                 from /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2.h:11,
                 from utils.h:1:
/nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2/commit.h:369:27: note: expected 'const git_commit **' but argument is of type 'git_commit **'
  369 |         const git_commit *parents[]);
      |         ~~~~~~~~~~~~~~~~~~^~~~~~~~~
make: *** [/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/etc/Makeconf:195: rebase.o] Error 1
ERROR: compilation failed for package 'gert'
* removing '/nix/store/is6rr4ga1m1gqvp1p3w1gmdgb9ggrdq0-r-gert-2.1.1/library/gert'
error: builder for '/nix/store/4ssgkq7f40fwh1riymvbydqwfkkiqi4z-r-gert-2.1.1.drv' failed with exit code 1;
       last 25 log lines:
       >                  from /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2/annotated_commit.h:11,
       >                  from /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2.h:11,
       >                  from utils.h:1:
       > /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2/commit.h:369:27: note: expected 'const git_commit **' but argument is of type 'git_commit **'
       >   369 |         const git_commit *parents[]);
       >       |         ~~~~~~~~~~~~~~~~~~^~~~~~~~~
       > make: *** [/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/etc/Makeconf:195: commit.o] Error 1
       > make: *** Waiting for unfinished jobs....
       > In file included from rebase.c:2:
       > rebase.c: In function 'R_git_cherry_pick':
       > utils.h:28:29: error: passing argument 10 of 'git_commit_create' from incompatible pointer type [8;;https://gcc.gnu.org/onlinedocs/gcc-14.2.0/gcc/Warning-Options.html#index-Wincompatible-pointer-types-Wincompatible-pointer-types8;;]
       >    28 | #define no_const_workaround (git_commit **)
       > rebase.c:110:64: note: in expansion of macro 'no_const_workaround'
       >   110 |                             git_commit_message(orig), tree, 1, no_const_workaround parents), "git_commit_create");
       >       |                                                                ^~~~~~~~~~~~~~~~~~~
       > In file included from /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2/repository.h:14,
       >                  from /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2/annotated_commit.h:11,
       >                  from /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2.h:11,
       >                  from utils.h:1:
       > /nix/store/wqbrsq7cp0xd8kyhs9jxkh3qavyjgfm1-libgit2-1.8.4-dev/include/git2/commit.h:369:27: note: expected 'const git_commit **' but argument is of type 'git_commit **'
       >   369 |         const git_commit *parents[]);
       >       |         ~~~~~~~~~~~~~~~~~~^~~~~~~~~
       > make: *** [/nix/store/k9g3yr4md4v76ds9ypz9yjh0590bgg1m-R-4.4.1/lib/R/etc/Makeconf:195: rebase.o] Error 1
       > ERROR: compilation failed for package 'gert'
       > * removing '/nix/store/is6rr4ga1m1gqvp1p3w1gmdgb9ggrdq0-r-gert-2.1.1/library/gert'
       For full logs, run 'nix log /nix/store/4ssgkq7f40fwh1riymvbydqwfkkiqi4z-r-gert-2.1.1.drv'.

Additional context

This is probably related to r-lib/gert#213 and https://github.com/libgit2/libgit2/releases/tag/v1.8.2-rc1

Metadata

  • system: "x86_64-linux"
  • host os: Linux 6.6.68, NixOS, 25.05 (Warbler), 25.05beta729683.88195a94f390
  • multi-user?: yes
  • sandbox: yes
  • version: nix-env (Nix) 2.24.11
  • channels(root): "nixos"
  • nixpkgs: /nix/var/nix/profiles/per-user/root/channels/nixos

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@BerriJ BerriJ added the 0.kind: build failure A package fails to build label Jan 3, 2025
@BerriJ BerriJ mentioned this issue Jan 4, 2025
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@jeroen
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jeroen commented Jan 4, 2025

Try with the latest gert from https://cran.r-project.org/web/packages/gert/index.html

@BerriJ
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BerriJ commented Jan 4, 2025

This is already fixed in the latest unstable channel.

@BerriJ BerriJ closed this as completed Jan 4, 2025
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@jeroen @BerriJ