error compiling release-1.10

[gdkrmr]

On current release-1.10

commit 404750f8586d77a7d1832e0dfb1b1931fcf191ac (HEAD -> release-1.10, tag: v1.10.0-beta3, origin/release-1.10)
Author: Kristoffer Carlsson <[email protected]>
Date:   Tue Oct 3 14:53:42 2023 +0200

    release-1.10: set VERSION to 1.10.0-beta3 (#51542)

I get the following error during compilation:

InteractiveUtils  ─  0.721761 seconds
error during bootstrap:
LoadError("sysimg.jl", 18, LoadError("/home/gkraemer/progs/julia/julia-1.10/usr/share/julia/stdlib/v1.10/LibGit2/src/LibGit2.jl", 3, ArgumentError("Package LibGit2 does not have LibGit2_jll in its dependencies:\n- You may have a partially installed environment. Try `Pkg.instantiate()`\n  to ensure all packages in the environment are installed.\n- Or, if you have LibGit2 checked out for development and have\n  added LibGit2_jll as a dependency but haven't updated your primary\n  environment's manifest file, try `Pkg.resolve()`.\n- Otherwise you may need to report an issue with LibGit2")))

Full error

InteractiveUtils  ─  0.721761 seconds
error during bootstrap:
LoadError("sysimg.jl", 18, LoadError("/home/gkraemer/progs/julia/julia-1.10/usr/share/julia/stdlib/v1.10/LibGit2/src/LibGit2.jl", 3, ArgumentError("Package LibGit2 does not have LibGit2_jll in its dependencies:\n- You may have a partially installed environment. Try `Pkg.instantiate()`\n  to ensure all packages in the environment are installed.\n- Or, if you have LibGit2 checked out for development and have\n  added LibGit2_jll as a dependency but haven't updated your primary\n  environment's manifest file, try `Pkg.resolve()`.\n- Otherwise you may need to report an issue with LibGit2")))
macro expansion at ./loading.jl:1770 [inlined]
macro expansion at ./lock.jl:267 [inlined]
__require at ./loading.jl:1747
unknown function (ip: 0x7f2adc1a8219)
jl_apply at /home/gkraemer/progs/julia/julia-1.10/src/julia.h:1976 [inlined]
jl_f__call_latest at /home/gkraemer/progs/julia/julia-1.10/src/builtins.c:812
#invokelatest#2 at ./essentials.jl:887 [inlined]
invokelatest at ./essentials.jl:884 [inlined]
require at ./loading.jl:1742
unknown function (ip: 0x7f2adc14bdd9)
jl_apply at /home/gkraemer/progs/julia/julia-1.10/src/julia.h:1976 [inlined]
call_require at /home/gkraemer/progs/julia/julia-1.10/src/toplevel.c:481 [inlined]
eval_import_path at /home/gkraemer/progs/julia/julia-1.10/src/toplevel.c:518
jl_toplevel_eval_flex at /home/gkraemer/progs/julia/julia-1.10/src/toplevel.c:752
jl_eval_module_expr at /home/gkraemer/progs/julia/julia-1.10/src/toplevel.c:215 [inlined]
jl_toplevel_eval_flex at /home/gkraemer/progs/julia/julia-1.10/src/toplevel.c:736
jl_toplevel_eval_flex at /home/gkraemer/progs/julia/julia-1.10/src/toplevel.c:877
jl_toplevel_eval_flex at /home/gkraemer/progs/julia/julia-1.10/src/toplevel.c:877
ijl_toplevel_eval_in at /home/gkraemer/progs/julia/julia-1.10/src/toplevel.c:985
eval at ./boot.jl:383 [inlined]
include_string at ./loading.jl:2070
_include at ./loading.jl:2130
include at ./Base.jl:489
unknown function (ip: 0x7f2ae4974339)
_require at ./loading.jl:2008
__require_prelocked at ./loading.jl:1806
unknown function (ip: 0x7f2ad8067e19)
jl_apply at /home/gkraemer/progs/julia/julia-1.10/src/julia.h:1976 [inlined]
jl_f__call_latest at /home/gkraemer/progs/julia/julia-1.10/src/builtins.c:812
#invokelatest#2 at ./essentials.jl:887 [inlined]
invokelatest at ./essentials.jl:884 [inlined]
_require_prelocked at ./loading.jl:1799
unknown function (ip: 0x7f2adc1a9aa9)
macro expansion at ./loading.jl:1784 [inlined]
macro expansion at ./lock.jl:267 [inlined]
__require at ./loading.jl:1747
unknown function (ip: 0x7f2adc1a8219)
jl_apply at /home/gkraemer/progs/julia/julia-1.10/src/julia.h:1976 [inlined]
jl_f__call_latest at /home/gkraemer/progs/julia/julia-1.10/src/builtins.c:812
#invokelatest#2 at ./essentials.jl:887 [inlined]
invokelatest at ./essentials.jl:884 [inlined]
require at ./loading.jl:1742
unknown function (ip: 0x7f2adc14bdd9)
macro expansion at ./timing.jl:395 [inlined]
macro expansion at ./sysimg.jl:88 [inlined]
macro expansion at ./timing.jl:395 [inlined]
top-level scope at ./sysimg.jl:87
jl_toplevel_eval_flex at /home/gkraemer/progs/julia/julia-1.10/src/toplevel.c:925
jl_parse_eval_all at /home/gkraemer/progs/julia/julia-1.10/src/toplevel.c:1058
ijl_load_ at /home/gkraemer/progs/julia/julia-1.10/src/toplevel.c:1105
ijl_load at /home/gkraemer/progs/julia/julia-1.10/src/toplevel.c:1118
exec_program at /home/gkraemer/progs/julia/julia-1.10/src/jlapi.c:541
true_main at /home/gkraemer/progs/julia/julia-1.10/src/jlapi.c:594
jl_repl_entrypoint at /home/gkraemer/progs/julia/julia-1.10/src/jlapi.c:731
main at /home/gkraemer/progs/julia/julia-1.10/cli/loader_exe.c:58
unknown function (ip: 0x7f2afca27ccf)
__libc_start_main at /usr/lib/libc.so.6 (unknown line)
_start at /home/gkraemer/progs/julia/julia-1.10/usr/bin/julia (unknown line)

*** This error might be fixed by running `make clean`. If the error persists, try `make cleanall`. ***
make[1]: *** [sysimage.mk:67: /home/gkraemer/progs/julia/julia-1.10/usr/lib/julia/sys.ji] Error 1
make: *** [Makefile:97: julia-sysimg-ji] Error 2

I am on Manjaro Linux.

[vchuravy]

I think #51479 is intended to solve this.

[denius]

Workaround: rm ~/.julia/environments/v1.10/Manifest.toml.

[NHDaly]

Thank you @denius for the workaround!

As an aside, I wonder whether make cleanall should also rm your environment's manifest?
Since julia currently suggests that after the above error:

*** This error might be fixed by running `make clean`. If the error persists, try `make cleanall`. ***

It could at least suggest it as an option, like:

$ make cleanall
...
Would you like to clear your environment Manifest? This could help if you are seeing Pkg related issues: [y/n]
y
rm ~/.julia/environments/v1.10/Manifest.toml

EDIT: Filed #51604