Building on x86-bm-c9.sw.ocaml.org
(from ocaml/opam:debian-unstable)
Unable to find image 'ocaml/opam:debian-unstable' locally
debian-unstable: Pulling from ocaml/opam
63563b31af74: Pulling fs layer
63563b31af74: Verifying Checksum
63563b31af74: Download complete
63563b31af74: Pull complete
Digest: sha256:8f6038a9795a3c7cc61b90b742e29558b247d69f92f73dea67cb146602ff83f6
Status: Downloaded newer image for ocaml/opam:debian-unstable
2025-03-03 14:26.48 ---> using "0acd5aeaa8f7bc314514d9795d14a7f12ec72a6a5b11c5904350189734c6859b" from cache
/: (user (uid 1000) (gid 1000))
/: (env OPAMPRECISETRACKING 1)
/: (env OPAMUTF8 never)
/: (env OPAMEXTERNALSOLVER builtin-0install)
/: (env OPAMCRITERIA +removed)
/: (env CI true)
/: (env OPAM_HEALTH_CHECK_CI true)
/: (run (shell "sudo ln -f /usr/bin/opam-dev /usr/bin/opam"))
2025-03-03 14:26.48 ---> using "40df4fa4cdfc68a5fa7a326047e82a7adc5df52b8059d4a7b745bdd50aad56e7" from cache
/: (run (network host)
(shell "rm -rf ~/opam-repository && git clone -q 'https://github.com/ocaml/opam-repository' ~/opam-repository && git -C ~/opam-repository checkout -q ef90a2b03158d292539672d3f7cbaadbc9686e00"))
2025-03-03 14:26.48 ---> using "f8a7eaeb9f5c92be7084e0f999dd7e7e4a1eefb297e66373751e952159afda2d" from cache
/: (run (shell "rm -rf ~/.opam && opam init -ya --bare --config ~/.opamrc-sandbox ~/opam-repository"))
Configuring from /home/opam/.opamrc-sandbox, then /home/opam/.opamrc, and finally from built-in defaults.
Checking for available remotes: rsync and local, git.
- you won't be able to use mercurial repositories unless you install the hg command on your system.
- you won't be able to use darcs repositories unless you install the darcs command on your system.
<><> Fetching repository information ><><><><><><><><><><><><><><><><><><><><><>
[default] Initialised
User configuration:
~/.profile is already up-to-date.
[NOTE] Make sure that ~/.profile is well sourced in your ~/.bashrc.
2025-03-03 14:26.48 ---> using "1ebcf8e3761a93ad88b5037369014c0e29617030bb8dd94d78d6dedd98943762" from cache
/: (run (cache (opam-archives (target /home/opam/.opam/download-cache)) (opam-dune-cache (target /home/opam/.cache/dune)))
(network host)
(shell "opam switch create --repositories=default '5.3' '5.3.0'"))
<><> Installing new switch packages <><><><><><><><><><><><><><><><><><><><><><>
Switch invariant: ["ocaml-base-compiler" {= "5.3.0"} | "ocaml-system" {= "5.3.0"}]
<><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><>
-> retrieved ocaml-config.3 (cached)
-> installed base-bigarray.base
-> installed base-threads.base
-> installed base-unix.base
-> installed ocaml-options-vanilla.1
-> retrieved ocaml-compiler.5.3.0 (cached)
-> installed ocaml-compiler.5.3.0
-> installed ocaml-base-compiler.5.3.0
-> installed ocaml-config.3
-> installed ocaml.5.3.0
-> installed base-domains.base
-> installed base-effects.base
-> installed base-nnp.base
Done.
# To update the current shell environment, run: eval $(opam env --switch=5.3)
2025-03-03 14:26.48 ---> using "f3fc5dd5dfcbe8e5493a4563bca5034ac862b7842eb9f16d453e6549334b9a79" from cache
/: (run (network host)
(shell "opam update --depexts"))
+ /usr/bin/sudo "apt-get" "update"
- Get:1 http://deb.debian.org/debian unstable InRelease [205 kB]
- Get:2 http://deb.debian.org/debian unstable/main amd64 Packages.diff/Index [63.6 kB]
- Err:2 http://deb.debian.org/debian unstable/main amd64 Packages.diff/Index
- Couldn't find the start of the patch series
- Get:2 http://deb.debian.org/debian unstable/main amd64 Packages.diff/Index [63.6 kB]
- Ign:2 http://deb.debian.org/debian unstable/main amd64 Packages.diff/Index
- Get:3 http://deb.debian.org/debian unstable/main amd64 Packages [10.1 MB]
- Fetched 10.4 MB in 2s (4667 kB/s)
- Reading package lists...
-
2025-03-03 14:26.48 ---> using "9a78c93989d5550bb49e48632a1de75ead785056e5e8a108c010951463436220" from cache
/: (run (cache (opam-archives (target /home/opam/.opam/download-cache)) (opam-dune-cache (target /home/opam/.cache/dune)))
(network host)
(shell "opam pin add -k version dune $(opam show -f version dune)"))
dune is now pinned to version 3.17.2
The following actions will be performed:
=== install 1 package
- install dune 3.17.2 (pinned)
<><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><>
-> retrieved dune.3.17.2 (cached)
-> installed dune.3.17.2
Done.
# To update the current shell environment, run: eval $(opam env)
2025-03-03 14:26.48 ---> using "8c970a2b6e083fc728908364a8d3768a0f4ede73a1fdaf0ff7dd6771a2ecdd96" from cache
/: (env DUNE_CACHE enabled)
/: (env DUNE_CACHE_TRANSPORT direct)
/: (env DUNE_CACHE_DUPLICATION copy)
/: (run (cache (opam-archives (target /home/opam/.opam/download-cache)) (opam-dune-cache (target /home/opam/.cache/dune)))
(network host)
(shell "curl -fsSL https://get.dune.build/install | sh"))
#=#=#
##O#-#
0.1%
1.2%
## 3.4%
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################## 26.1%
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dune x86_64-unknown-linux-musl was installed successfully to ~/.local/bin/dune
To use dune you will need to source the file "$HOME/.local/share/dune/env/env.bash" (or similar as appropriate for your shell)
export PATH="/home/opam/.local/bin:$PATH"
To get started, run:
dune --help
2025-03-03 14:26.48 ---> using "14aa2861c13f12cb4ee28b98952b1839ff48cfaf20d65aa237f68c77954270eb" from cache
/: (run (cache (opam-archives (target /home/opam/.opam/download-cache)) (opam-dune-cache (target /home/opam/.cache/dune)))
(network host)
(shell "sudo apt-get install -y python3-sexpdata && echo 'import sexpdata\
\nwith open(\"dune-project\", \"r\") as f:\
\n content = [i for i in sexpdata.loads(\"(\" + f.read() + \")\") if not i[0] == sexpdata.Symbol(\"package\")]\
\n print(sexpdata.dumps(content[0]))\
\n for i in content[1:]:\
\n print(sexpdata.dumps(i))' > /tmp/opam-health-check-remove-package.py"))
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib media-types
python3 python3-minimal python3.13 python3.13-minimal
Suggested packages:
python3-doc python3-tk python3-venv python3.13-venv python3.13-doc
binfmt-support
The following NEW packages will be installed:
libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib media-types
python3 python3-minimal python3-sexpdata python3.13 python3.13-minimal
0 upgraded, 9 newly installed, 0 to remove and 70 not upgraded.
Need to get 5893 kB of archives.
After this operation, 23.1 MB of additional disk space will be used.
Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.2-1 [859 kB]
Get:2 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.2-1 [2205 kB]
Get:3 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.13.2-1 [27.1 kB]
Get:4 http://deb.debian.org/debian unstable/main amd64 media-types all 12.0.0 [28.9 kB]
Get:5 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.2-1 [1979 kB]
Get:6 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.2-1 [745 kB]
Get:7 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.13.2-1 [10.0 kB]
Get:8 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.13.2-1 [28.1 kB]
Get:9 http://deb.debian.org/debian unstable/main amd64 python3-sexpdata all 1.0.2-1 [9940 B]
Fetched 5893 kB in 0s (79.7 MB/s)
Selecting previously unselected package libpython3.13-minimal:amd64.
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Unpacking libpython3.13-stdlib:amd64 (3.13.2-1) ...
Selecting previously unselected package python3.13.
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Preparing to unpack .../libpython3-stdlib_3.13.2-1_amd64.deb ...
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Setting up libpython3-stdlib:amd64 (3.13.2-1) ...
Setting up python3.13 (3.13.2-1) ...
Setting up python3 (3.13.2-1) ...
running python rtupdate hooks for python3.13...
running python post-rtupdate hooks for python3.13...
Setting up python3-sexpdata (1.0.2-1) ...
2025-03-03 14:26.48 ---> using "8c20028a802cbf97b7848eb86323ea18fc654d771517c3a444280a798b3cba6f" from cache
/: (run (cache (opam-archives (target /home/opam/.opam/download-cache)) (opam-dune-cache (target /home/opam/.cache/dune)))
(network host)
(shell "PLACE=$(mktemp -d) && cd $PLACE && echo '(lang dune 3.17)\
\n(package\
\n (name dummy)\
\n (allow_empty true)\
\n (depends (ocaml (= 5.3.0))))' > dune-project && PATH=$HOME/.local/bin:$PATH dune pkg lock && PATH=$HOME/.local/bin:$PATH dune build"))
Solution for dune.lock:
- ocaml.5.3.0
- ocaml-base-compiler.5.3.0
- ocaml-compiler.5.3.0
- ocaml-config.3
Downloading ocaml-compiler.5.3.0
Building ocaml-compiler.5.3.0
Building ocaml-base-compiler.5.3.0
2025-03-03 14:26.48 ---> using "ed5574b30d6a55598c49402afe63541d40e6d3df78b5f1b3d250ee114712f692" from cache
/: (run (cache (opam-archives (target /home/opam/.opam/download-cache)) (opam-dune-cache (target /home/opam/.cache/dune)))
(network host)
(shell "cd $HOME && opam source biotk.0.3 && cd biotk.0.3 && for opam in *.opam; do opam show --raw ${opam%.opam} > $opam; done && python3 /tmp/opam-health-check-remove-package.py > dune-project-new && mv dune-project-new dune-project && sudo apt-get remove -y python3-sexpdata && sudo apt-get autoremove -y && opam install ./ --depext-only --with-test --with-doc && echo '(lang dune 3.17)\
\n(lock_dir\
\n (repositories overlay default))\
\n\
\n(repository\
\n (name default)\
\n (url \"file:///home/opam/opam-repository\"))\
\n\
\n\
\n' > dune-workspace && PATH=$HOME/.local/bin:$PATH dune pkg lock && PATH=$HOME/.local/bin:$PATH dune build --profile=release || (echo \"opam-health-check: Build failed\" && exit 1)"))
Successfully extracted to /home/opam/biotk.0.3
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib media-types
python3 python3-minimal python3.13 python3.13-minimal
Use 'sudo apt autoremove' to remove them.
The following packages will be REMOVED:
python3-sexpdata
0 upgraded, 0 newly installed, 1 to remove and 70 not upgraded.
After this operation, 46.1 kB disk space will be freed.
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Removing python3-sexpdata (1.0.2-1) ...
Reading package lists...
Building dependency tree...
Reading state information...
The following packages will be REMOVED:
libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib media-types
python3 python3-minimal python3.13 python3.13-minimal
0 upgraded, 0 newly installed, 8 to remove and 70 not upgraded.
After this operation, 23.0 MB disk space will be freed.
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Removing python3 (3.13.2-1) ...
Removing libpython3-stdlib:amd64 (3.13.2-1) ...
Removing python3.13 (3.13.2-1) ...
Removing libpython3.13-stdlib:amd64 (3.13.2-1) ...
find: '/usr/lib/python3': No such file or directory
Removing python3-minimal (3.13.2-1) ...
Removing python3.13-minimal (3.13.2-1) ...
Unlinking and removing bytecode for runtime python3.13
Removing libpython3.13-minimal:amd64 (3.13.2-1) ...
find: '/usr/lib/python3': No such file or directory
Removing media-types (12.0.0) ...
The following system packages will first need to be installed:
libgsl-dev pkg-config zlib1g-dev
<><> Handling external dependencies <><><><><><><><><><><><><><><><><><><><><><>
+ /usr/bin/sudo "apt-get" "install" "-qq" "-yy" "libgsl-dev" "pkg-config" "zlib1g-dev"
- Selecting previously unselected package libgslcblas0:amd64.
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- Preparing to unpack .../0-libgslcblas0_2.8+dfsg-5_amd64.deb ...
- Unpacking libgslcblas0:amd64 (2.8+dfsg-5) ...
- Selecting previously unselected package libgsl28:amd64.
- Preparing to unpack .../1-libgsl28_2.8+dfsg-5_amd64.deb ...
- Unpacking libgsl28:amd64 (2.8+dfsg-5) ...
- Selecting previously unselected package libgsl-dev.
- Preparing to unpack .../2-libgsl-dev_2.8+dfsg-5_amd64.deb ...
- Unpacking libgsl-dev (2.8+dfsg-5) ...
- Selecting previously unselected package libpkgconf3:amd64.
- Preparing to unpack .../3-libpkgconf3_1.8.1-4_amd64.deb ...
- Unpacking libpkgconf3:amd64 (1.8.1-4) ...
- Selecting previously unselected package pkgconf-bin.
- Preparing to unpack .../4-pkgconf-bin_1.8.1-4_amd64.deb ...
- Unpacking pkgconf-bin (1.8.1-4) ...
- Selecting previously unselected package pkgconf:amd64.
- Preparing to unpack .../5-pkgconf_1.8.1-4_amd64.deb ...
- Unpacking pkgconf:amd64 (1.8.1-4) ...
- Selecting previously unselected package pkg-config:amd64.
- Preparing to unpack .../6-pkg-config_1.8.1-4_amd64.deb ...
- Unpacking pkg-config:amd64 (1.8.1-4) ...
- Selecting previously unselected package zlib1g-dev:amd64.
- Preparing to unpack .../7-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_amd64.deb ...
- Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ...
- Setting up libgslcblas0:amd64 (2.8+dfsg-5) ...
- Setting up libpkgconf3:amd64 (1.8.1-4) ...
- Setting up pkgconf-bin (1.8.1-4) ...
- Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ...
- Setting up libgsl28:amd64 (2.8+dfsg-5) ...
- Setting up libgsl-dev (2.8+dfsg-5) ...
- Setting up pkgconf:amd64 (1.8.1-4) ...
- Setting up pkg-config:amd64 (1.8.1-4) ...
- Processing triggers for libc-bin (2.40-7) ...
Solution for dune.lock:
- angstrom.0.16.1
- angstrom-unix.0.16.1
- async.v0.17.0
- async_kernel.v0.17.0
- async_log.v0.17.0
- async_rpc_kernel.v0.17.0
- async_unix.v0.17.0
- base.v0.17.1
- base-bigarray.base
- base-threads.base
- base-unix.base
- base_bigstring.v0.17.0
- base_quickcheck.v0.17.0
- bigstringaf.0.10.0
- bin_prot.v0.17.0
- binning.0.0.0
- camlzip.1.13
- capitalization.v0.17.0
- cmdliner.1.3.0
- conf-gsl.2
- conf-pkg-config.4
- conf-zlib.1
- core.v0.17.1
- core_bench.v0.17.0
- core_extended.v0.17.0
- core_kernel.v0.17.0
- core_unix.v0.17.0
- cppo.1.8.0
- crunch.4.0.0
- csexp.1.5.2
- cstruct.6.2.0
- csvfields.v0.17.0
- delimited_parsing.v0.17.0
- dune-configurator.3.17.2
- expect_test_helpers_core.v0.17.0
- fieldslib.v0.17.0
- fmt.0.9.0
- gel.v0.17.0
- gg.1.0.0
- gsl.1.25.1
- int_repr.v0.17.0
- jane-street-headers.v0.17.0
- jst-config.v0.17.0
- num.1.5-1
- ocaml.5.3.0
- ocaml-base-compiler.5.3.0
- ocaml-compiler.5.3.0
- ocaml-compiler-libs.v0.17.0
- ocaml-config.3
- ocaml-syntax-shims.1.0.0
- ocaml_intrinsics_kernel.v0.17.1
- ocamlbuild.0.16.1+dune
- ocamlfind.1.9.8+dune
- otfm.0.4.0
- parsexp.v0.17.0
- ppx_assert.v0.17.0
- ppx_base.v0.17.0
- ppx_bench.v0.17.0
- ppx_bin_prot.v0.17.0
- ppx_cold.v0.17.0
- ppx_compare.v0.17.0
- ppx_conv_func.v0.17.0
- ppx_csv_conv.v0.17.0
- ppx_custom_printf.v0.17.0
- ppx_derivers.1.2.1
- ppx_deriving.6.0.3
- ppx_diff.v0.17.0
- ppx_disable_unused_warnings.v0.17.0
- ppx_enumerate.v0.17.0
- ppx_expect.v0.17.2
- ppx_fields_conv.v0.17.0
- ppx_fixed_literal.v0.17.0
- ppx_globalize.v0.17.0
- ppx_hash.v0.17.0
- ppx_here.v0.17.0
- ppx_ignore_instrumentation.v0.17.0
- ppx_inline_test.v0.17.0
- ppx_jane.v0.17.0
- ppx_let.v0.17.0
- ppx_log.v0.17.0
- ppx_module_timer.v0.17.0
- ppx_optcomp.v0.17.0
- ppx_optional.v0.17.0
- ppx_pipebang.v0.17.0
- ppx_sexp_conv.v0.17.0
- ppx_sexp_message.v0.17.0
- ppx_sexp_value.v0.17.0
- ppx_stable.v0.17.0
- ppx_stable_witness.v0.17.0
- ppx_string.v0.17.0
- ppx_string_conv.v0.17.0
- ppx_tydi.v0.17.0
- ppx_typerep_conv.v0.17.0
- ppx_variants_conv.v0.17.0
- ppxlib.0.35.0
- ppxlib_jane.v0.17.2
- protocol_version_header.v0.17.0
- ptime.1.2.0
- re.1.12.0
- record_builder.v0.17.0
- result.1.5
- rresult.0.7.0
- seq.base
- sexp_pretty.v0.17.0
- sexplib.v0.17.0
- sexplib0.v0.17.0
- spawn.v0.17.0
- splittable_random.v0.17.0
- stdio.v0.17.0
- stdlib-shims.0.3.0
- stringext.1.6.0
- textutils.v0.17.0
- time_now.v0.17.0
- timezone.v0.17.0
- topkg.1.0.7
- typerep.v0.17.1
- tyxml.4.6.0
- uopt.v0.17.0
- uri.4.4.0
- uutf.1.0.3
- variantslib.v0.17.0
- vg.0.9.5
- zlib.0.8
Downloading ocaml-compiler.5.3.0
Building ocaml-compiler.5.3.0
Building ocaml-base-compiler.5.3.0
Building base-bigarray.base
Building conf-pkg-config.4
Building conf-zlib.1
Building ocaml-config.3
Building ocaml.5.3.0
Downloading zlib.0.8
Building zlib.0.8
Downloading cmdliner.1.3.0
Building cmdliner.1.3.0
Downloading ocamlfind.1.9.8+dune
Building ocamlfind.1.9.8+dune
Downloading ocamlbuild.0.16.1+dune
Building ocamlbuild.0.16.1+dune
Downloading topkg.1.0.7
Building topkg.1.0.7
Downloading uutf.1.0.3
Building uutf.1.0.3
Downloading gg.1.0.0
Building gg.1.0.0
Downloading otfm.0.4.0
Building otfm.0.4.0
Downloading vg.0.9.5
Building vg.0.9.5
Building base-unix.base
Downloading stringext.1.6.0
Building stringext.1.6.0
Downloading csexp.1.5.2
Downloading ocaml-syntax-shims.1.0.0
Building csexp.1.5.2
Building ocaml-syntax-shims.1.0.0
Downloading dune-configurator.3.17.2
Building dune-configurator.3.17.2
Downloading bigstringaf.0.10.0
Building bigstringaf.0.10.0
Downloading angstrom.0.16.1
Building angstrom.0.16.1
Downloading uri.4.4.0
Building uri.4.4.0
Building seq.base
Downloading re.1.12.0
Building re.1.12.0
Downloading tyxml.4.6.0
Building tyxml.4.6.0
Downloading rresult.0.7.0
Building rresult.0.7.0
Downloading result.1.5
Building result.1.5
Downloading ppx_derivers.1.2.1
Building ppx_derivers.1.2.1
Downloading sexplib0.v0.17.0
Building sexplib0.v0.17.0
Downloading ocaml-compiler-libs.v0.17.0
Downloading cppo.1.8.0
Building ocaml-compiler-libs.v0.17.0
Building cppo.1.8.0
Downloading stdlib-shims.0.3.0
Building stdlib-shims.0.3.0
Downloading ppxlib.0.35.0
Building ppxlib.0.35.0
Downloading ppx_deriving.6.0.3
Building ppx_deriving.6.0.3
Downloading jane-street-headers.v0.17.0
Building jane-street-headers.v0.17.0
Downloading ocaml_intrinsics_kernel.v0.17.1
Building ocaml_intrinsics_kernel.v0.17.1
Downloading ppx_ignore_instrumentation.v0.17.0
Downloading num.1.5-1
Building num.1.5-1
Downloading ppxlib_jane.v0.17.2
Downloading parsexp.v0.17.0
Building ppx_ignore_instrumentation.v0.17.0
Building parsexp.v0.17.0
Downloading ppx_pipebang.v0.17.0
Building ppxlib_jane.v0.17.2
Building ppx_pipebang.v0.17.0
Downloading base.v0.17.1
Building base.v0.17.1
Downloading sexplib.v0.17.0
Building sexplib.v0.17.0
Downloading ppx_sexp_conv.v0.17.0
Downloading ppx_cold.v0.17.0
Downloading ppx_compare.v0.17.0
Downloading stdio.v0.17.0
Downloading ppx_enumerate.v0.17.0
Downloading ppx_here.v0.17.0
Downloading variantslib.v0.17.0
Downloading ppx_conv_func.v0.17.0
Downloading ppx_tydi.v0.17.0
Downloading typerep.v0.17.1
Downloading ppx_optional.v0.17.0
Downloading fieldslib.v0.17.0
Building stdio.v0.17.0
Downloading ppx_stable.v0.17.0
Downloading ppx_disable_unused_warnings.v0.17.0
Building ppx_compare.v0.17.0
Downloading ppx_fixed_literal.v0.17.0
Building ppx_sexp_conv.v0.17.0
Downloading ppx_stable_witness.v0.17.0
Building ppx_cold.v0.17.0
Building variantslib.v0.17.0
Building ppx_enumerate.v0.17.0
Building ppx_here.v0.17.0
Building ppx_conv_func.v0.17.0
Building typerep.v0.17.1
Building ppx_tydi.v0.17.0
Building fieldslib.v0.17.0
Building ppx_optional.v0.17.0
Building ppx_stable.v0.17.0
Building ppx_disable_unused_warnings.v0.17.0
Building ppx_fixed_literal.v0.17.0
Building ppx_stable_witness.v0.17.0
Downloading ppx_optcomp.v0.17.0
Downloading ppx_variants_conv.v0.17.0
Building ppx_optcomp.v0.17.0
Downloading ppx_fields_conv.v0.17.0
Downloading ppx_globalize.v0.17.0
Building ppx_variants_conv.v0.17.0
Building ppx_fields_conv.v0.17.0
Building ppx_globalize.v0.17.0
Downloading ppx_typerep_conv.v0.17.0
Building ppx_typerep_conv.v0.17.0
Downloading ppx_let.v0.17.0
Building ppx_let.v0.17.0
Downloading ppx_sexp_value.v0.17.0
Downloading ppx_hash.v0.17.0
Downloading ppx_assert.v0.17.0
Downloading ppx_sexp_message.v0.17.0
Downloading ppx_custom_printf.v0.17.0
Building ppx_sexp_value.v0.17.0
Building ppx_hash.v0.17.0
Building ppx_assert.v0.17.0
Building ppx_custom_printf.v0.17.0
Building ppx_sexp_message.v0.17.0
Downloading ppx_base.v0.17.0
Building ppx_base.v0.17.0
Downloading jst-config.v0.17.0
Building jst-config.v0.17.0
Downloading bin_prot.v0.17.0
Building bin_prot.v0.17.0
Downloading ppx_string.v0.17.0
Downloading capitalization.v0.17.0
Building ppx_string.v0.17.0
Building capitalization.v0.17.0
Downloading time_now.v0.17.0
Building time_now.v0.17.0
Downloading ppx_bin_prot.v0.17.0
Building ppx_bin_prot.v0.17.0
Downloading ppx_inline_test.v0.17.0
Downloading ppx_module_timer.v0.17.0
Downloading ppx_string_conv.v0.17.0
Building ppx_inline_test.v0.17.0
Building ppx_module_timer.v0.17.0
Building ppx_string_conv.v0.17.0
Downloading ppx_bench.v0.17.0
Downloading ppx_expect.v0.17.2
Building ppx_bench.v0.17.0
Building ppx_expect.v0.17.2
Downloading splittable_random.v0.17.0
Building splittable_random.v0.17.0
Downloading ppx_log.v0.17.0
Building ppx_log.v0.17.0
Downloading base_quickcheck.v0.17.0
Building base_quickcheck.v0.17.0
Downloading ppx_jane.v0.17.0
Building ppx_jane.v0.17.0
Downloading gel.v0.17.0
Downloading int_repr.v0.17.0
Building gel.v0.17.0
Building int_repr.v0.17.0
Downloading ppx_diff.v0.17.0
Building ppx_diff.v0.17.0
Downloading base_bigstring.v0.17.0
Building base_bigstring.v0.17.0
Downloading core.v0.17.1
Building core.v0.17.1
Downloading csvfields.v0.17.0
Building csvfields.v0.17.0
Downloading ppx_csv_conv.v0.17.0
Building ppx_csv_conv.v0.17.0
Building conf-gsl.2
Downloading gsl.1.25.1
Building gsl.1.25.1
Downloading ptime.1.2.0
Building ptime.1.2.0
Downloading crunch.4.0.0
Building crunch.4.0.0
Building base-threads.base
Downloading fmt.0.9.0
Building fmt.0.9.0
Downloading uopt.v0.17.0
Downloading sexp_pretty.v0.17.0
Downloading timezone.v0.17.0
Downloading record_builder.v0.17.0
Downloading protocol_version_header.v0.17.0
Downloading spawn.v0.17.0
Building sexp_pretty.v0.17.0
Building uopt.v0.17.0
Building spawn.v0.17.0
Building record_builder.v0.17.0
Building timezone.v0.17.0
Building protocol_version_header.v0.17.0
Downloading cstruct.6.2.0
Building cstruct.6.2.0
Downloading expect_test_helpers_core.v0.17.0
Downloading core_kernel.v0.17.0
Building expect_test_helpers_core.v0.17.0
Building core_kernel.v0.17.0
Downloading async_kernel.v0.17.0
Downloading core_unix.v0.17.0
Building async_kernel.v0.17.0
Building core_unix.v0.17.0
Downloading async_rpc_kernel.v0.17.0
Building async_rpc_kernel.v0.17.0
File "dune.lock/core_unix.pkg", line 4, characters 6-10:
4 | (run dune build -p %{pkg-self:name} -j %{jobs}))
^^^^
Error: Logs for package core_unix
(cd _build/default && /home/opam/.cache/dune/toolchains/ocaml-compiler.5.3.0-23da502d9f7a35404ba47aaa0ec40e91/target/bin/ocamlopt.opt -w -40 -g -I time_float_unix/time_unix/.time_unix.objs/byte -I time_float_unix/time_unix/.time_unix.objs/native -I /home/opam/.cache/dune/toolchains/ocaml-compiler.5.3.0-23da502d9f7a35404ba47aaa0ec40e91/target/lib/ocaml/threads -I /home/opam/.cache/dune/toolchains/ocaml-compiler.5.3.0-23da502d9f7a35404ba47aaa0ec40e91/target/lib/ocaml/unix -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base/target/lib/base -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base/target/lib/base/base_internalhash_types -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base/target/lib/base/md5 -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base/target/lib/base/shadow_stdlib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base_bigstring/target/lib/base_bigstring -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base_quickcheck/target/lib/base_quickcheck -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base_quickcheck/target/lib/base_quickcheck/ppx_quickcheck/runtime -I /home/opam/biotk.0.3/_build/_private/default/.pkg/bin_prot/target/lib/bin_prot -I /home/opam/biotk.0.3/_build/_private/default/.pkg/bin_prot/target/lib/bin_prot/shape -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core/base_for_tests -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core/command -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core/filename_base -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core/heap_block -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core/univ_map -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core/validate -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core_kernel/target/lib/core_kernel/caml_threads -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core_kernel/target/lib/core_kernel/caml_unix -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core_kernel/target/lib/core_kernel/flags -I /home/opam/biotk.0.3/_build/_private/default/.pkg/fieldslib/target/lib/fieldslib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/gel/target/lib/gel -I /home/opam/biotk.0.3/_build/_private/default/.pkg/int_repr/target/lib/int_repr -I /home/opam/biotk.0.3/_build/_private/default/.pkg/jane-street-headers/target/lib/jane-street-headers -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ocaml_intrinsics_kernel/target/lib/ocaml_intrinsics_kernel -I /home/opam/biotk.0.3/_build/_private/default/.pkg/parsexp/target/lib/parsexp -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_assert/target/lib/ppx_assert/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_bench/target/lib/ppx_bench/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_compare/target/lib/ppx_compare/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_diff/target/lib/ppx_diff/diffable -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_diff/target/lib/ppx_diff/diffable_cinaps -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_enumerate/target/lib/ppx_enumerate/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_expect/target/lib/ppx_expect/config -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_expect/target/lib/ppx_expect/config_types -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_expect/target/lib/ppx_expect/make_corrected_file -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_expect/target/lib/ppx_expect/runtime -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_hash/target/lib/ppx_hash/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_here/target/lib/ppx_here/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_inline_test/target/lib/ppx_inline_test/config -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_inline_test/target/lib/ppx_inline_test/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_log/target/lib/ppx_log/syntax -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_log/target/lib/ppx_log/types -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_module_timer/target/lib/ppx_module_timer/runtime -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_sexp_conv/target/lib/ppx_sexp_conv/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_stable_witness/target/lib/ppx_stable_witness/runtime -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_stable_witness/target/lib/ppx_stable_witness/stable_witness -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_string/target/lib/ppx_string/runtime -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppxlib/target/lib/ppxlib/print_diff -I /home/opam/biotk.0.3/_build/_private/default/.pkg/sexplib/target/lib/sexplib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/sexplib/target/lib/sexplib/unix -I /home/opam/biotk.0.3/_build/_private/default/.pkg/sexplib0/target/lib/sexplib0 -I /home/opam/biotk.0.3/_build/_private/default/.pkg/spawn/target/lib/spawn -I /home/opam/biotk.0.3/_build/_private/default/.pkg/splittable_random/target/lib/splittable_random -I /home/opam/biotk.0.3/_build/_private/default/.pkg/stdio/target/lib/stdio -I /home/opam/biotk.0.3/_build/_private/default/.pkg/time_now/target/lib/time_now -I /home/opam/biotk.0.3/_build/_private/default/.pkg/timezone/target/lib/timezone -I /home/opam/biotk.0.3/_build/_private/default/.pkg/typerep/target/lib/typerep -I /home/opam/biotk.0.3/_build/_private/default/.pkg/variantslib/target/lib/variantslib -I core_unix/src/.core_unix.objs/byte -I core_unix/src/.core_unix.objs/native -I error_checking_mutex/src/.error_checking_mutex.objs/byte -I error_checking_mutex/src/.error_checking_mutex.objs/native -I signal_unix/src/.signal_unix.objs/byte -I signal_unix/src/.signal_unix.objs/native -I time_float_unix/src/.time_float_unix.objs/byte -I time_float_unix/src/.time_float_unix.objs/native -intf-suffix .ml -no-alias-deps -o time_float_unix/time_unix/.time_unix.objs/native/time_unix.cmx -c -impl time_float_unix/time_unix/time_unix.pp.ml)
File "time_float_unix/time_unix/time_unix.ml", line 1, characters 4-14:
1 | [@@@deprecated "[since 2022-04] Use [Time_float_unix] instead"]
^^^^^^^^^^
Warning 53 [misplaced-attribute]: the "deprecated" attribute cannot appear in this context
File "bigstring_unix/src/dune", line 4, characters 9-29:
4 | (names bigstring_unix_stubs recvmmsg))
^^^^^^^^^^^^^^^^^^^^
(cd _build/default/bigstring_unix/src && /usr/bin/gcc -O2 -fno-strict-aliasing -fwrapv -fPIC -pthread -D_FILE_OFFSET_BITS=64 -fdiagnostics-color=always -g -I /home/opam/.cache/dune/toolchains/ocaml-compiler.5.3.0-23da502d9f7a35404ba47aaa0ec40e91/target/lib/ocaml -I /home/opam/.cache/dune/toolchains/ocaml-compiler.5.3.0-23da502d9f7a35404ba47aaa0ec40e91/target/lib/ocaml/threads -I /home/opam/.cache/dune/toolchains/ocaml-compiler.5.3.0-23da502d9f7a35404ba47aaa0ec40e91/target/lib/ocaml/unix -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base/target/lib/base -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base/target/lib/base/base_internalhash_types -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base/target/lib/base/md5 -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base/target/lib/base/shadow_stdlib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base_bigstring/target/lib/base_bigstring -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base_quickcheck/target/lib/base_quickcheck -I /home/opam/biotk.0.3/_build/_private/default/.pkg/base_quickcheck/target/lib/base_quickcheck/ppx_quickcheck/runtime -I /home/opam/biotk.0.3/_build/_private/default/.pkg/bin_prot/target/lib/bin_prot -I /home/opam/biotk.0.3/_build/_private/default/.pkg/bin_prot/target/lib/bin_prot/shape -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core/base_for_tests -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core/command -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core/filename_base -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core/heap_block -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core/univ_map -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core/target/lib/core/validate -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core_kernel/target/lib/core_kernel/caml_threads -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core_kernel/target/lib/core_kernel/caml_unix -I /home/opam/biotk.0.3/_build/_private/default/.pkg/core_kernel/target/lib/core_kernel/flags -I /home/opam/biotk.0.3/_build/_private/default/.pkg/fieldslib/target/lib/fieldslib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/gel/target/lib/gel -I /home/opam/biotk.0.3/_build/_private/default/.pkg/int_repr/target/lib/int_repr -I /home/opam/biotk.0.3/_build/_private/default/.pkg/jane-street-headers/target/lib/jane-street-headers -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ocaml_intrinsics_kernel/target/lib/ocaml_intrinsics_kernel -I /home/opam/biotk.0.3/_build/_private/default/.pkg/parsexp/target/lib/parsexp -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_assert/target/lib/ppx_assert/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_bench/target/lib/ppx_bench/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_compare/target/lib/ppx_compare/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_diff/target/lib/ppx_diff/diffable -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_diff/target/lib/ppx_diff/diffable_cinaps -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_enumerate/target/lib/ppx_enumerate/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_expect/target/lib/ppx_expect/config -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_expect/target/lib/ppx_expect/config_types -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_expect/target/lib/ppx_expect/make_corrected_file -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_expect/target/lib/ppx_expect/runtime -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_hash/target/lib/ppx_hash/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_here/target/lib/ppx_here/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_inline_test/target/lib/ppx_inline_test/config -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_inline_test/target/lib/ppx_inline_test/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_log/target/lib/ppx_log/syntax -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_log/target/lib/ppx_log/types -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_module_timer/target/lib/ppx_module_timer/runtime -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_sexp_conv/target/lib/ppx_sexp_conv/runtime-lib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_stable_witness/target/lib/ppx_stable_witness/runtime -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_stable_witness/target/lib/ppx_stable_witness/stable_witness -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppx_string/target/lib/ppx_string/runtime -I /home/opam/biotk.0.3/_build/_private/default/.pkg/ppxlib/target/lib/ppxlib/print_diff -I /home/opam/biotk.0.3/_build/_private/default/.pkg/sexplib/target/lib/sexplib -I /home/opam/biotk.0.3/_build/_private/default/.pkg/sexplib/target/lib/sexplib/unix -I /home/opam/biotk.0.3/_build/_private/default/.pkg/sexplib0/target/lib/sexplib0 -I /home/opam/biotk.0.3/_build/_private/default/.pkg/spawn/target/lib/spawn -I /home/opam/biotk.0.3/_build/_private/default/.pkg/splittable_random/target/lib/splittable_random -I /home/opam/biotk.0.3/_build/_private/default/.pkg/stdio/target/lib/stdio -I /home/opam/biotk.0.3/_build/_private/default/.pkg/time_now/target/lib/time_now -I /home/opam/biotk.0.3/_build/_private/default/.pkg/typerep/target/lib/typerep -I /home/opam/biotk.0.3/_build/_private/default/.pkg/variantslib/target/lib/variantslib -I ../../core_unix/src -I ../../error_checking_mutex/src -I ../../ocaml_c_utils/src -I ../../signal_unix/src -o bigstring_unix_stubs.o -c bigstring_unix_stubs.c)
In file included from /home/opam/.cache/dune/toolchains/ocaml-compiler.5.3.0-23da502d9f7a35404ba47aaa0ec40e91/target/lib/ocaml/caml/io.h:28,
from bigstring_unix_stubs.c:316:
/home/opam/.cache/dune/toolchains/ocaml-compiler.5.3.0-23da502d9f7a35404ba47aaa0ec40e91/target/lib/ocaml/caml/platform.h: In function 'caml_plat_latch_is_released':
/home/opam/.cache/dune/toolchains/ocaml-compiler.5.3.0-23da502d9f7a35404ba47aaa0ec40e91/target/lib/ocaml/caml/platform.h:222:10: error: implicit declaration of function 'atomic_load_acquire' [-Wimplicit-function-declaration]
222 | return atomic_load_acquire(&latch->value) == Latch_released;
| ^~~~~~~~~~~~~~~~~~~
/home/opam/.cache/dune/toolchains/ocaml-compiler.5.3.0-23da502d9f7a35404ba47aaa0ec40e91/target/lib/ocaml/caml/platform.h: In function 'caml_plat_latch_set':
/home/opam/.cache/dune/toolchains/ocaml-compiler.5.3.0-23da502d9f7a35404ba47aaa0ec40e91/target/lib/ocaml/caml/platform.h:230:3: error: implicit declaration of function 'atomic_store_release'; did you mean 'atomic_store_explicit'? [-Wimplicit-function-declaration]
230 | atomic_store_release(&latch->value, Latch_unreleased);
| ^~~~~~~~~~~~~~~~~~~~
| atomic_store_explicit
opam-health-check: Build failed
"/usr/bin/env" "bash" "-c" "cd $HOME && opam source biotk.0.3 && cd biotk.0.3 && for opam in *.opam; do opam show --raw ${opam%.opam} > $opam; done && python3 /tmp/opam-health-check-remove-package.py > dune-project-new && mv dune-project-new dune-project && sudo apt-get remove -y python3-sexpdata && sudo apt-get autoremove -y && opam install ./ --depext-only --with-test --with-doc && echo '(lang dune 3.17)
(lock_dir
(repositories overlay default))
(repository
(name default)
(url "file:///home/opam/opam-repository"))
' > dune-workspace && PATH=$HOME/.local/bin:$PATH dune pkg lock && PATH=$HOME/.local/bin:$PATH dune build --profile=release || (echo "opam-health-check: Build failed" && exit 1)" failed with exit status 1
Failed: Build failed
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