- github
- ocaml
- opam-repository
- 3e0c39
- compilers,4.14,dune.3.22.2,revdeps,bio_io.0.6.0
(not at the head of any monitored branch or PR)
2026-04-10 17:57.47: New job: test bio_io.0.6.0 with dune.3.22.2, using opam dev
from https://github.com/ocaml/opam-repository.git#refs/pull/29704/head (3e0c395e7b1393a792367f8edca3654dac71e6fd)
on debian-13-ocaml-4.14/amd64
To reproduce locally:
cd $(mktemp -d)
git clone --recursive "https://github.com/ocaml/opam-repository.git" && cd "opam-repository" && git fetch origin "refs/pull/29704/head" && git reset --hard 3e0c395e
git fetch origin master
git merge --no-edit 9d8ceab8e9f49f5671cf459997c8a47cf0e675ca
cat > ../Dockerfile <<'END-OF-DOCKERFILE'
FROM ocaml/opam:debian-13-ocaml-4.14@sha256:4457c533769cd1c32fd9fb5fb13e5a0a285ba114860db7ac2f34c1c21e5690e4
USER 1000:1000
WORKDIR /home/opam
RUN sudo ln -f /usr/bin/opam-dev /usr/bin/opam
RUN opam init --reinit -ni
RUN opam option solver=builtin-0install && opam config report
ENV OPAMDOWNLOADJOBS="1"
ENV OPAMERRLOGLEN="0"
ENV OPAMPRECISETRACKING="1"
ENV CI="true"
ENV OPAM_REPO_CI="true"
RUN rm -rf opam-repository/
COPY --chown=1000:1000 . opam-repository/
RUN opam repository set-url --strict default opam-repository/
RUN opam update --depexts || true
RUN opam pin add -k version -yn dune.3.22.2 3.22.2
RUN opam reinstall dune.3.22.2; \
res=$?; \
test "$res" != 31 && exit "$res"; \
export OPAMCLI=2.0; \
build_dir=$(opam var prefix)/.opam-switch/build; \
failed=$(ls "$build_dir"); \
partial_fails=""; \
for pkg in $failed; do \
if opam show -f x-ci-accept-failures: "$pkg" | grep -qF "\"debian-13\""; then \
echo "A package failed and has been disabled for CI using the 'x-ci-accept-failures' field."; \
fi; \
test "$pkg" != 'dune.3.22.2' && partial_fails="$partial_fails $pkg"; \
done; \
test "${partial_fails}" != "" && echo "opam-repo-ci detected dependencies failing: ${partial_fails}"; \
exit 1
RUN opam reinstall bio_io.0.6.0; \
res=$?; \
test "$res" != 31 && exit "$res"; \
export OPAMCLI=2.0; \
build_dir=$(opam var prefix)/.opam-switch/build; \
failed=$(ls "$build_dir"); \
partial_fails=""; \
for pkg in $failed; do \
if opam show -f x-ci-accept-failures: "$pkg" | grep -qF "\"debian-13\""; then \
echo "A package failed and has been disabled for CI using the 'x-ci-accept-failures' field."; \
fi; \
test "$pkg" != 'bio_io.0.6.0' && partial_fails="$partial_fails $pkg"; \
done; \
test "${partial_fails}" != "" && echo "opam-repo-ci detected dependencies failing: ${partial_fails}"; \
exit 1
RUN (opam reinstall --with-test bio_io.0.6.0) || true
RUN opam reinstall --with-test --verbose bio_io.0.6.0; \
res=$?; \
test "$res" != 31 && exit "$res"; \
export OPAMCLI=2.0; \
build_dir=$(opam var prefix)/.opam-switch/build; \
failed=$(ls "$build_dir"); \
partial_fails=""; \
for pkg in $failed; do \
if opam show -f x-ci-accept-failures: "$pkg" | grep -qF "\"debian-13\""; then \
echo "A package failed and has been disabled for CI using the 'x-ci-accept-failures' field."; \
fi; \
test "$pkg" != 'bio_io.0.6.0' && partial_fails="$partial_fails $pkg"; \
done; \
test "${partial_fails}" != "" && echo "opam-repo-ci detected dependencies failing: ${partial_fails}"; \
exit 1
END-OF-DOCKERFILE
docker build -f ../Dockerfile .
2026-04-10 17:57.47: Using cache hint "ocaml/opam:debian-13-ocaml-4.14@sha256:4457c533769cd1c32fd9fb5fb13e5a0a285ba114860db7ac2f34c1c21e5690e4-dune.3.22.2-bio_io.0.6.0-3e0c395e7b1393a792367f8edca3654dac71e6fd"
2026-04-10 17:57.47: Using OBuilder spec:
((from ocaml/opam:debian-13-ocaml-4.14@sha256:4457c533769cd1c32fd9fb5fb13e5a0a285ba114860db7ac2f34c1c21e5690e4)
(user (uid 1000) (gid 1000))
(workdir /home/opam)
(run (shell "sudo ln -f /usr/bin/opam-dev /usr/bin/opam"))
(run (network host)
(shell "opam init --reinit --config .opamrc-sandbox -ni"))
(run (shell "opam option solver=builtin-0install && opam config report"))
(env OPAMDOWNLOADJOBS 1)
(env OPAMERRLOGLEN 0)
(env OPAMPRECISETRACKING 1)
(env CI true)
(env OPAM_REPO_CI true)
(run (shell "rm -rf opam-repository/"))
(copy (src .) (dst opam-repository/))
(run (shell "opam repository set-url --strict default opam-repository/"))
(run (network host)
(shell "opam update --depexts || true"))
(run (shell "opam pin add -k version -yn dune.3.22.2 3.22.2"))
(run (cache (opam-archives (target /home/opam/.opam/download-cache)))
(network host)
(shell "opam reinstall dune.3.22.2;\
\n res=$?;\
\n test \"$res\" != 31 && exit \"$res\";\
\n export OPAMCLI=2.0;\
\n build_dir=$(opam var prefix)/.opam-switch/build;\
\n failed=$(ls \"$build_dir\");\
\n partial_fails=\"\";\
\n for pkg in $failed; do\
\n if opam show -f x-ci-accept-failures: \"$pkg\" | grep -qF \"\\\"debian-13\\\"\"; then\
\n echo \"A package failed and has been disabled for CI using the 'x-ci-accept-failures' field.\";\
\n fi;\
\n test \"$pkg\" != 'dune.3.22.2' && partial_fails=\"$partial_fails $pkg\";\
\n done;\
\n test \"${partial_fails}\" != \"\" && echo \"opam-repo-ci detected dependencies failing: ${partial_fails}\";\
\n exit 1"))
(run (cache (opam-archives (target /home/opam/.opam/download-cache)))
(network host)
(shell "opam reinstall bio_io.0.6.0;\
\n res=$?;\
\n test \"$res\" != 31 && exit \"$res\";\
\n export OPAMCLI=2.0;\
\n build_dir=$(opam var prefix)/.opam-switch/build;\
\n failed=$(ls \"$build_dir\");\
\n partial_fails=\"\";\
\n for pkg in $failed; do\
\n if opam show -f x-ci-accept-failures: \"$pkg\" | grep -qF \"\\\"debian-13\\\"\"; then\
\n echo \"A package failed and has been disabled for CI using the 'x-ci-accept-failures' field.\";\
\n fi;\
\n test \"$pkg\" != 'bio_io.0.6.0' && partial_fails=\"$partial_fails $pkg\";\
\n done;\
\n test \"${partial_fails}\" != \"\" && echo \"opam-repo-ci detected dependencies failing: ${partial_fails}\";\
\n exit 1"))
(run (network host)
(shell "(opam reinstall --with-test bio_io.0.6.0) || true"))
(run (shell "opam reinstall --with-test --verbose bio_io.0.6.0;\
\n res=$?;\
\n test \"$res\" != 31 && exit \"$res\";\
\n export OPAMCLI=2.0;\
\n build_dir=$(opam var prefix)/.opam-switch/build;\
\n failed=$(ls \"$build_dir\");\
\n partial_fails=\"\";\
\n for pkg in $failed; do\
\n if opam show -f x-ci-accept-failures: \"$pkg\" | grep -qF \"\\\"debian-13\\\"\"; then\
\n echo \"A package failed and has been disabled for CI using the 'x-ci-accept-failures' field.\";\
\n fi;\
\n test \"$pkg\" != 'bio_io.0.6.0' && partial_fails=\"$partial_fails $pkg\";\
\n done;\
\n test \"${partial_fails}\" != \"\" && echo \"opam-repo-ci detected dependencies failing: ${partial_fails}\";\
\n exit 1"))
)
2026-04-10 17:57.47: Waiting for resource in pool OCluster
2026-04-11 03:54.34: Waiting for worker…
2026-04-11 03:56.40: Got resource from pool OCluster
Building on asteria.caelum.ci.dev
All commits already cached
HEAD is now at 9d8ceab8e9 Merge pull request #29697 from filipeom/opam-publish-smtml.0.25.0
Updating 9d8ceab8e9..3e0c395e7b
Fast-forward
packages/chrome-trace/chrome-trace.3.22.2/opam | 39 +++++++++++
.../dune-action-plugin.3.22.2/opam | 52 +++++++++++++++
.../dune-action-trace.3.22.2/opam | 39 +++++++++++
.../dune-build-info/dune-build-info.3.22.2/opam | 45 +++++++++++++
.../dune-configurator.3.22.2/opam | 49 ++++++++++++++
packages/dune-glob/dune-glob.3.22.2/opam | 42 ++++++++++++
.../dune-private-libs.3.22.2/opam | 50 +++++++++++++++
packages/dune-rpc-lwt/dune-rpc-lwt.3.22.2/opam | 41 ++++++++++++
packages/dune-rpc/dune-rpc.3.22.2/opam | 44 +++++++++++++
packages/dune-site/dune-site.3.22.2/opam | 37 +++++++++++
packages/dune/dune.3.22.2/opam | 75 ++++++++++++++++++++++
packages/dyn/dyn.3.22.2/opam | 40 ++++++++++++
packages/fs-io/fs-io.3.22.2/opam | 39 +++++++++++
packages/ocamlc-loc/ocamlc-loc.3.22.2/opam | 43 +++++++++++++
packages/ordering/ordering.3.22.2/opam | 38 +++++++++++
packages/stdune/stdune.3.22.2/opam | 46 +++++++++++++
packages/top-closure/top-closure.3.22.2/opam | 38 +++++++++++
packages/xdg/xdg.3.22.2/opam | 39 +++++++++++
18 files changed, 796 insertions(+)
create mode 100644 packages/chrome-trace/chrome-trace.3.22.2/opam
create mode 100644 packages/dune-action-plugin/dune-action-plugin.3.22.2/opam
create mode 100644 packages/dune-action-trace/dune-action-trace.3.22.2/opam
create mode 100644 packages/dune-build-info/dune-build-info.3.22.2/opam
create mode 100644 packages/dune-configurator/dune-configurator.3.22.2/opam
create mode 100644 packages/dune-glob/dune-glob.3.22.2/opam
create mode 100644 packages/dune-private-libs/dune-private-libs.3.22.2/opam
create mode 100644 packages/dune-rpc-lwt/dune-rpc-lwt.3.22.2/opam
create mode 100644 packages/dune-rpc/dune-rpc.3.22.2/opam
create mode 100644 packages/dune-site/dune-site.3.22.2/opam
create mode 100644 packages/dune/dune.3.22.2/opam
create mode 100644 packages/dyn/dyn.3.22.2/opam
create mode 100644 packages/fs-io/fs-io.3.22.2/opam
create mode 100644 packages/ocamlc-loc/ocamlc-loc.3.22.2/opam
create mode 100644 packages/ordering/ordering.3.22.2/opam
create mode 100644 packages/stdune/stdune.3.22.2/opam
create mode 100644 packages/top-closure/top-closure.3.22.2/opam
create mode 100644 packages/xdg/xdg.3.22.2/opam
(from ocaml/opam:debian-13-ocaml-4.14@sha256:4457c533769cd1c32fd9fb5fb13e5a0a285ba114860db7ac2f34c1c21e5690e4)
2026-04-11 03:56.44 ---> using "e7349b5faa6e8ea47e3f73a0784842b9d8524e468ce596e92633dbea53bd1c16" from cache
/: (user (uid 1000) (gid 1000))
/: (workdir /home/opam)
/home/opam: (run (shell "sudo ln -f /usr/bin/opam-dev /usr/bin/opam"))
2026-04-11 03:56.44 ---> using "345d07c1ddcf0b692213607682954d9bdf190a7dc793f33951a109185e732dcb" from cache
/home/opam: (run (network host)
(shell "opam init --reinit --config .opamrc-sandbox -ni"))
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.
This version of opam requires an update to the layout of /home/opam/.opam from version 2.0 to version 2.2, which can't be reverted.
You may want to back it up before going further.
Continue? [Y/n] y
[NOTE] The 'jobs' option was reset, its value was 71 and its new value will vary according to the current number of cores on your machine. You can restore the fixed value using:
opam option jobs=71 --global
Format upgrade done.
<><> Updating repositories ><><><><><><><><><><><><><><><><><><><><><><><><><><>
[default] Initialised
2026-04-11 03:56.44 ---> using "6e021c655ca00bde9af60e23db55b09a0bcc3db0d3ca38d66f78ad53e254a31c" from cache
/home/opam: (run (shell "opam option solver=builtin-0install && opam config report"))
Set to 'builtin-0install' the field solver in global configuration
# opam config report
# opam-version 2.5.0
# self-upgrade no
# system arch=x86_64 os=linux os-distribution=debian os-version=13
# solver builtin-0install
# install-criteria -changed,-count[avoid-version,solution]
# upgrade-criteria -count[avoid-version,solution]
# jobs 255
# repositories 1 (version-controlled)
# pinned 1 (version)
# current-switch 4.14
# invariant ["ocaml-base-compiler" {= "4.14.3"}]
# compiler-packages ocaml-base-compiler.4.14.3, ocaml-options-vanilla.1
# ocaml:native true
# ocaml:native-tools true
# ocaml:native-dynlink true
# ocaml:stubsdir /home/opam/.opam/4.14/lib/ocaml/stublibs:/home/opam/.opam/4.14/lib/ocaml
# ocaml:preinstalled false
# ocaml:compiler 4.14.3
2026-04-11 03:56.44 ---> using "7b2a5ae62cf702b99c177da358372ff585494a0b1c5dfffe5c4eda3046bc59fb" from cache
/home/opam: (env OPAMDOWNLOADJOBS 1)
/home/opam: (env OPAMERRLOGLEN 0)
/home/opam: (env OPAMPRECISETRACKING 1)
/home/opam: (env CI true)
/home/opam: (env OPAM_REPO_CI true)
/home/opam: (run (shell "rm -rf opam-repository/"))
2026-04-11 03:56.44 ---> using "2d8e28a183d0990d4c5f7a587471f7c743cdf0d9f00bdf4de7761e94ec09202a" from cache
/home/opam: (copy (src .) (dst opam-repository/))
2026-04-11 03:56.45 ---> using "43c49734bd8015921029b9a907dd77c0e05208c46b686916515831f5a9e9d500" from cache
/home/opam: (run (shell "opam repository set-url --strict default opam-repository/"))
[default] Initialised
2026-04-11 03:56.45 ---> using "bb36992fd0066703535b2984ee1ead3db92bb1f04a8df092631924067dac4082" from cache
/home/opam: (run (network host)
(shell "opam update --depexts || true"))
+ /usr/bin/sudo "apt-get" "update"
- Hit:1 http://deb.debian.org/debian trixie InRelease
- Get:2 http://deb.debian.org/debian trixie-updates InRelease [47.3 kB]
- Get:3 http://deb.debian.org/debian-security trixie-security InRelease [43.4 kB]
- Get:4 http://deb.debian.org/debian-security trixie-security/main amd64 Packages [121 kB]
- Fetched 211 kB in 0s (2063 kB/s)
- Reading package lists...
2026-04-11 03:56.45 ---> using "e0d9ada0baddc41d2c835edef7d0cf7cceebd2dadac41fda17c9e860b5313a74" from cache
/home/opam: (run (shell "opam pin add -k version -yn dune.3.22.2 3.22.2"))
dune is now pinned to version 3.22.2
2026-04-11 03:56.45 ---> using "a60db6b945be7f2fc9953546cee71bf416921d54f02951a4c9176dbdf1065520" from cache
/home/opam: (run (cache (opam-archives (target /home/opam/.opam/download-cache)))
(network host)
(shell "opam reinstall dune.3.22.2;\
\n res=$?;\
\n test \"$res\" != 31 && exit \"$res\";\
\n export OPAMCLI=2.0;\
\n build_dir=$(opam var prefix)/.opam-switch/build;\
\n failed=$(ls \"$build_dir\");\
\n partial_fails=\"\";\
\n for pkg in $failed; do\
\n if opam show -f x-ci-accept-failures: \"$pkg\" | grep -qF \"\\\"debian-13\\\"\"; then\
\n echo \"A package failed and has been disabled for CI using the 'x-ci-accept-failures' field.\";\
\n fi;\
\n test \"$pkg\" != 'dune.3.22.2' && partial_fails=\"$partial_fails $pkg\";\
\n done;\
\n test \"${partial_fails}\" != \"\" && echo \"opam-repo-ci detected dependencies failing: ${partial_fails}\";\
\n exit 1"))
dune.3.22.2 is not installed. Install it? [Y/n] y
The following actions will be performed:
=== install 1 package
- install dune 3.22.2 (pinned)
<><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><>
-> retrieved dune.3.22.2 (cached)
-> installed dune.3.22.2
Done.
# To update the current shell environment, run: eval $(opam env)
2026-04-11 03:56.45 ---> using "59eacf68137f7dccf94b9ebc5274fdc537230a8c71c2eb52f8fcf698829c6d46" from cache
/home/opam: (run (cache (opam-archives (target /home/opam/.opam/download-cache)))
(network host)
(shell "opam reinstall bio_io.0.6.0;\
\n res=$?;\
\n test \"$res\" != 31 && exit \"$res\";\
\n export OPAMCLI=2.0;\
\n build_dir=$(opam var prefix)/.opam-switch/build;\
\n failed=$(ls \"$build_dir\");\
\n partial_fails=\"\";\
\n for pkg in $failed; do\
\n if opam show -f x-ci-accept-failures: \"$pkg\" | grep -qF \"\\\"debian-13\\\"\"; then\
\n echo \"A package failed and has been disabled for CI using the 'x-ci-accept-failures' field.\";\
\n fi;\
\n test \"$pkg\" != 'bio_io.0.6.0' && partial_fails=\"$partial_fails $pkg\";\
\n done;\
\n test \"${partial_fails}\" != \"\" && echo \"opam-repo-ci detected dependencies failing: ${partial_fails}\";\
\n exit 1"))
bio_io.0.6.0 is not installed. Install it? [Y/n] y
The following actions will be performed:
=== install 14 packages
- install base v0.16.4 [required by bio_io]
- install bio_io 0.6.0
- install csexp 1.5.2 [required by dune-configurator]
- install dune-configurator 3.22.2 [required by base]
- install fieldslib v0.16.0 [required by ppx_fields_conv]
- install ocaml-compiler-libs v0.12.4 [required by ppxlib]
- install ppx_compare v0.16.0 [required by bio_io]
- install ppx_derivers 1.2.1 [required by ppxlib]
- install ppx_fields_conv v0.16.0 [required by bio_io]
- install ppx_sexp_conv v0.16.0 [required by bio_io]
- install ppxlib 0.35.0 [required by ppx_fields_conv, ppx_compare, ppx_sexp_conv]
- install sexplib0 v0.16.0 [required by base, ppx_sexp_conv]
- install stdio v0.16.0 [required by bio_io]
- install stdlib-shims 0.3.0 [required by ppxlib]
<><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><>
-> retrieved base.v0.16.4 (cached)
-> retrieved bio_io.0.6.0 (https://opam.ocaml.org/cache)
-> retrieved csexp.1.5.2 (cached)
-> installed csexp.1.5.2
-> retrieved dune-configurator.3.22.2 (cached)
-> retrieved fieldslib.v0.16.0 (cached)
-> retrieved ocaml-compiler-libs.v0.12.4 (cached)
-> retrieved ppx_compare.v0.16.0 (cached)
-> retrieved ppx_derivers.1.2.1 (cached)
-> retrieved ppx_fields_conv.v0.16.0 (cached)
-> retrieved ppx_sexp_conv.v0.16.0 (cached)
-> retrieved ppxlib.0.35.0 (cached)
-> installed ppx_derivers.1.2.1
-> retrieved sexplib0.v0.16.0 (cached)
-> retrieved stdio.v0.16.0 (cached)
-> retrieved stdlib-shims.0.3.0 (cached)
-> installed stdlib-shims.0.3.0
-> installed sexplib0.v0.16.0
-> installed ocaml-compiler-libs.v0.12.4
-> installed dune-configurator.3.22.2
-> installed base.v0.16.4
-> installed fieldslib.v0.16.0
-> installed stdio.v0.16.0
-> installed ppxlib.0.35.0
-> installed ppx_compare.v0.16.0
-> installed ppx_fields_conv.v0.16.0
-> installed ppx_sexp_conv.v0.16.0
-> installed bio_io.0.6.0
Done.
# To update the current shell environment, run: eval $(opam env)
2026-04-11 03:57.12 ---> saved as "3210cd17376ae9f37fc9ee69909feae29f8b60e2b13e61d93bd6dc5a30bf2dd2"
/home/opam: (run (network host)
(shell "(opam reinstall --with-test bio_io.0.6.0) || true"))
The following actions will be performed:
=== recompile 1 package
- recompile bio_io 0.6.0
=== install 20 packages
- install base_quickcheck v0.16.0 [required by bio_io]
- install jane-street-headers v0.16.0 [required by time_now]
- install jst-config v0.16.0 [required by time_now]
- install ppx_assert v0.16.0 [required by bio_io]
- install ppx_base v0.16.0 [required by base_quickcheck]
- install ppx_bench v0.16.0 [required by splittable_random]
- install ppx_cold v0.16.0 [required by ppx_base]
- install ppx_enumerate v0.16.0 [required by ppx_base]
- install ppx_expect v0.16.2 [required by bio_io]
- install ppx_globalize v0.16.0 [required by ppx_base]
- install ppx_hash v0.16.0 [required by ppx_base]
- install ppx_here v0.16.0 [required by ppx_expect]
- install ppx_inline_test v0.16.1 [required by bio_io]
- install ppx_let v0.16.0 [required by base_quickcheck]
- install ppx_optcomp v0.16.0 [required by time_now]
- install ppx_sexp_message v0.16.0 [required by base_quickcheck]
- install ppx_sexp_value v0.16.0 [required by base_quickcheck]
- install re 1.14.0 [required by bio_io]
- install splittable_random v0.16.0 [required by base_quickcheck]
- install time_now v0.16.0 [required by ppx_inline_test]
<><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><>
-> retrieved base_quickcheck.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved bio_io.0.6.0 (https://opam.ocaml.org/cache)
-> retrieved jane-street-headers.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved jst-config.v0.16.0 (https://opam.ocaml.org/cache)
-> installed jane-street-headers.v0.16.0
-> retrieved ppx_assert.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved ppx_base.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved ppx_bench.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved ppx_cold.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved ppx_enumerate.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved ppx_expect.v0.16.2 (https://opam.ocaml.org/cache)
-> retrieved ppx_globalize.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved ppx_hash.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved ppx_here.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved ppx_inline_test.v0.16.1 (https://opam.ocaml.org/cache)
-> retrieved ppx_let.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved ppx_optcomp.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved ppx_sexp_message.v0.16.0 (https://opam.ocaml.org/cache)
-> installed ppx_globalize.v0.16.0
-> retrieved ppx_sexp_value.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved re.1.14.0 (https://opam.ocaml.org/cache)
-> retrieved splittable_random.v0.16.0 (https://opam.ocaml.org/cache)
-> retrieved time_now.v0.16.0 (https://opam.ocaml.org/cache)
-> installed ppx_cold.v0.16.0
-> installed ppx_enumerate.v0.16.0
-> installed ppx_optcomp.v0.16.0
-> installed ppx_here.v0.16.0
-> installed ppx_hash.v0.16.0
-> removed bio_io.0.6.0
-> installed re.1.14.0
-> installed ppx_let.v0.16.0
-> installed ppx_base.v0.16.0
-> installed ppx_sexp_value.v0.16.0
-> installed ppx_assert.v0.16.0
-> installed ppx_sexp_message.v0.16.0
-> installed jst-config.v0.16.0
-> installed time_now.v0.16.0
-> installed ppx_inline_test.v0.16.1
-> installed ppx_bench.v0.16.0
-> installed ppx_expect.v0.16.2
-> installed splittable_random.v0.16.0
-> installed base_quickcheck.v0.16.0
-> installed bio_io.0.6.0
Done.
# To update the current shell environment, run: eval $(opam env)
2026-04-11 03:57.40 ---> saved as "71b5d55d1142079ae64a1e3611c74ba28bc809417bcff2d9a0a1fe2fd0b4c102"
/home/opam: (run (shell "opam reinstall --with-test --verbose bio_io.0.6.0;\
\n res=$?;\
\n test \"$res\" != 31 && exit \"$res\";\
\n export OPAMCLI=2.0;\
\n build_dir=$(opam var prefix)/.opam-switch/build;\
\n failed=$(ls \"$build_dir\");\
\n partial_fails=\"\";\
\n for pkg in $failed; do\
\n if opam show -f x-ci-accept-failures: \"$pkg\" | grep -qF \"\\\"debian-13\\\"\"; then\
\n echo \"A package failed and has been disabled for CI using the 'x-ci-accept-failures' field.\";\
\n fi;\
\n test \"$pkg\" != 'bio_io.0.6.0' && partial_fails=\"$partial_fails $pkg\";\
\n done;\
\n test \"${partial_fails}\" != \"\" && echo \"opam-repo-ci detected dependencies failing: ${partial_fails}\";\
\n exit 1"))
The following actions will be performed:
=== recompile 1 package
- recompile bio_io 0.6.0
<><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><>
Processing 1/4: [bio_io.0.6.0: extract]
-> retrieved bio_io.0.6.0 (cached)
Processing 2/4: [bio_io: dune build]
+ /home/opam/.opam/opam-init/hooks/sandbox.sh "build" "dune" "build" "-p" "bio_io" "-j" "255" "@install" "@runtest" (CWD=/home/opam/.opam/4.14/.opam-switch/build/bio_io.0.6.0)
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlc.opt -w -40 -g -bin-annot -I lib/.bio_io.objs/byte -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/stdio -no-alias-deps -open Bio_io -o lib/.bio_io.objs/byte/bio_io__Private.cmo -c -impl lib/private.pp.ml)
- File "lib/private.ml", line 98, characters 6-29:
- 98 | Caml.Buffer.add_channel buffer ic chunk_size;
- ^^^^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlopt.opt -w -40 -g -I lib/.bio_io.objs/byte -I lib/.bio_io.objs/native -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/stdio -intf-suffix .ml -no-alias-deps -open Bio_io -o lib/.bio_io.objs/native/bio_io__Private.cmx -c -impl lib/private.pp.ml)
- File "lib/private.ml", line 98, characters 6-29:
- 98 | Caml.Buffer.add_channel buffer ic chunk_size;
- ^^^^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlc.opt -w -40 -g -bin-annot -I test/.test_bio_io.objs/byte -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/byte/test_bio_io__Robust.cmo -c -impl test/robust.pp.ml)
- File "test/robust.ml", line 7, characters 10-21:
- 7 | let d = Caml.( -. ) x y in
- ^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/robust.ml", line 8, characters 9-21:
- 8 | if d < Caml.( ~-. ) robust_comparison_tolerance then -1
- ^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlc.opt -w -40 -g -bin-annot -I test/.test_bio_io.objs/byte -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/byte/test_bio_io__Test_fastq_in_channel.cmo -c -impl test/test_fastq_in_channel.pp.ml)
- File "test/test_fastq_in_channel.ml", line 3, characters 18-31:
- 3 | module Filename = Caml.Filename
- ^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fastq_in_channel.ml", line 13, characters 11-20:
- 13 | let exit = Caml.exit
- ^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fastq_in_channel.ml", line 14, characters 20-38:
- 14 | let raise_notrace = Caml.raise_notrace
- ^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fastq_in_channel.ml", line 23, characters 10-30:
- 23 | match Caml.Sys.file_exists fname with
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fastq_in_channel.ml", line 24, characters 14-29:
- 24 | | true -> Caml.Sys.remove fname
- ^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlc.opt -w -40 -g -bin-annot -I test/.test_bio_io.objs/byte -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/byte/test_bio_io__Test_fasta_in_channel.cmo -c -impl test/test_fasta_in_channel.pp.ml)
- File "test/test_fasta_in_channel.ml", line 7, characters 18-31:
- 7 | module Filename = Caml.Filename
- ^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fasta_in_channel.ml", line 17, characters 11-20:
- 17 | let exit = Caml.exit
- ^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fasta_in_channel.ml", line 18, characters 20-38:
- 18 | let raise_notrace = Caml.raise_notrace
- ^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fasta_in_channel.ml", line 28, characters 10-30:
- 28 | match Caml.Sys.file_exists fname with
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fasta_in_channel.ml", line 29, characters 14-29:
- 29 | | true -> Caml.Sys.remove fname
- ^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlc.opt -w -40 -g -bin-annot -I test/.test_bio_io.objs/byte -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/byte/test_bio_io__Test_fasta_record.cmo -c -impl test/test_fasta_record.pp.ml)
- File "test/test_fasta_record.ml", line 9, characters 11-20:
- 9 | let exit = Caml.exit
- ^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fasta_record.ml", line 10, characters 20-38:
- 10 | let raise_notrace = Caml.raise_notrace
- ^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlc.opt -w -40 -g -bin-annot -I test/.test_bio_io.objs/byte -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/byte/test_bio_io__Test_fastq_record.cmo -c -impl test/test_fastq_record.pp.ml)
- File "test/test_fastq_record.ml", line 9, characters 11-20:
- 9 | let exit = Caml.exit
- ^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fastq_record.ml", line 10, characters 20-38:
- 10 | let raise_notrace = Caml.raise_notrace
- ^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlc.opt -w -40 -g -bin-annot -I test/.test_bio_io.objs/byte -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/byte/test_bio_io__Test_peekable_in_channel.cmo -c -impl test/test_peekable_in_channel.pp.ml)
- File "test/test_peekable_in_channel.ml", line 16, characters 4-24:
- 16 | Caml.Filename.concat
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 17, characters 7-38:
- 17 | (Caml.Filename.get_temp_dir_name ())
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 21, characters 10-30:
- 21 | match Caml.Sys.file_exists fname with
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 22, characters 14-29:
- 22 | | true -> Caml.Sys.remove fname
- ^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 33, characters 4-24:
- 33 | Caml.Filename.concat
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 34, characters 7-38:
- 34 | (Caml.Filename.get_temp_dir_name ())
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 38, characters 10-30:
- 38 | match Caml.Sys.file_exists fname with
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 39, characters 14-29:
- 39 | | true -> Caml.Sys.remove fname
- ^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlc.opt -w -40 -g -bin-annot -I test/.test_bio_io.objs/byte -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/byte/test_bio_io__Test_delimited.cmo -c -impl test/test_delimited.pp.ml)
- File "test/test_delimited.ml", line 15, characters 4-24:
- 15 | Caml.Filename.concat
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_delimited.ml", line 16, characters 7-38:
- 16 | (Caml.Filename.get_temp_dir_name ())
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_delimited.ml", line 20, characters 10-30:
- 20 | match Caml.Sys.file_exists fname with
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_delimited.ml", line 21, characters 14-29:
- 21 | | true -> Caml.Sys.remove fname
- ^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlopt.opt -w -40 -g -I test/.test_bio_io.objs/byte -I test/.test_bio_io.objs/native -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -I lib/.bio_io.objs/native -intf-suffix .ml -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/native/test_bio_io__Robust.cmx -c -impl test/robust.pp.ml)
- File "test/robust.ml", line 7, characters 10-21:
- 7 | let d = Caml.( -. ) x y in
- ^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/robust.ml", line 8, characters 9-21:
- 8 | if d < Caml.( ~-. ) robust_comparison_tolerance then -1
- ^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlopt.opt -w -40 -g -I test/.test_bio_io.objs/byte -I test/.test_bio_io.objs/native -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -I lib/.bio_io.objs/native -intf-suffix .ml -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/native/test_bio_io__Test_fastq_in_channel.cmx -c -impl test/test_fastq_in_channel.pp.ml)
- File "test/test_fastq_in_channel.ml", line 3, characters 18-31:
- 3 | module Filename = Caml.Filename
- ^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fastq_in_channel.ml", line 13, characters 11-20:
- 13 | let exit = Caml.exit
- ^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fastq_in_channel.ml", line 14, characters 20-38:
- 14 | let raise_notrace = Caml.raise_notrace
- ^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fastq_in_channel.ml", line 23, characters 10-30:
- 23 | match Caml.Sys.file_exists fname with
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fastq_in_channel.ml", line 24, characters 14-29:
- 24 | | true -> Caml.Sys.remove fname
- ^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlopt.opt -w -40 -g -I test/.test_bio_io.objs/byte -I test/.test_bio_io.objs/native -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -I lib/.bio_io.objs/native -intf-suffix .ml -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/native/test_bio_io__Test_fasta_in_channel.cmx -c -impl test/test_fasta_in_channel.pp.ml)
- File "test/test_fasta_in_channel.ml", line 7, characters 18-31:
- 7 | module Filename = Caml.Filename
- ^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fasta_in_channel.ml", line 17, characters 11-20:
- 17 | let exit = Caml.exit
- ^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fasta_in_channel.ml", line 18, characters 20-38:
- 18 | let raise_notrace = Caml.raise_notrace
- ^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fasta_in_channel.ml", line 28, characters 10-30:
- 28 | match Caml.Sys.file_exists fname with
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fasta_in_channel.ml", line 29, characters 14-29:
- 29 | | true -> Caml.Sys.remove fname
- ^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlopt.opt -w -40 -g -I test/.test_bio_io.objs/byte -I test/.test_bio_io.objs/native -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -I lib/.bio_io.objs/native -intf-suffix .ml -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/native/test_bio_io__Test_fasta_record.cmx -c -impl test/test_fasta_record.pp.ml)
- File "test/test_fasta_record.ml", line 9, characters 11-20:
- 9 | let exit = Caml.exit
- ^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fasta_record.ml", line 10, characters 20-38:
- 10 | let raise_notrace = Caml.raise_notrace
- ^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlopt.opt -w -40 -g -I test/.test_bio_io.objs/byte -I test/.test_bio_io.objs/native -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -I lib/.bio_io.objs/native -intf-suffix .ml -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/native/test_bio_io__Test_peekable_in_channel.cmx -c -impl test/test_peekable_in_channel.pp.ml)
- File "test/test_peekable_in_channel.ml", line 16, characters 4-24:
- 16 | Caml.Filename.concat
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 17, characters 7-38:
- 17 | (Caml.Filename.get_temp_dir_name ())
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 21, characters 10-30:
- 21 | match Caml.Sys.file_exists fname with
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 22, characters 14-29:
- 22 | | true -> Caml.Sys.remove fname
- ^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 33, characters 4-24:
- 33 | Caml.Filename.concat
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 34, characters 7-38:
- 34 | (Caml.Filename.get_temp_dir_name ())
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 38, characters 10-30:
- 38 | match Caml.Sys.file_exists fname with
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_peekable_in_channel.ml", line 39, characters 14-29:
- 39 | | true -> Caml.Sys.remove fname
- ^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlopt.opt -w -40 -g -I test/.test_bio_io.objs/byte -I test/.test_bio_io.objs/native -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -I lib/.bio_io.objs/native -intf-suffix .ml -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/native/test_bio_io__Test_fastq_record.cmx -c -impl test/test_fastq_record.pp.ml)
- File "test/test_fastq_record.ml", line 9, characters 11-20:
- 9 | let exit = Caml.exit
- ^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_fastq_record.ml", line 10, characters 20-38:
- 10 | let raise_notrace = Caml.raise_notrace
- ^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- (cd _build/default && /home/opam/.opam/4.14/bin/ocamlopt.opt -w -40 -g -I test/.test_bio_io.objs/byte -I test/.test_bio_io.objs/native -I /home/opam/.opam/4.14/lib/base -I /home/opam/.opam/4.14/lib/base/base_internalhash_types -I /home/opam/.opam/4.14/lib/base/caml -I /home/opam/.opam/4.14/lib/base/shadow_stdlib -I /home/opam/.opam/4.14/lib/base_quickcheck -I /home/opam/.opam/4.14/lib/fieldslib -I /home/opam/.opam/4.14/lib/jane-street-headers -I /home/opam/.opam/4.14/lib/ppx_assert/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_bench/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_compare/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_enumerate/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_expect/collector -I /home/opam/.opam/4.14/lib/ppx_expect/common -I /home/opam/.opam/4.14/lib/ppx_expect/config -I /home/opam/.opam/4.14/lib/ppx_expect/config_types -I /home/opam/.opam/4.14/lib/ppx_hash/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_here/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_inline_test/config -I /home/opam/.opam/4.14/lib/ppx_inline_test/runtime-lib -I /home/opam/.opam/4.14/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/4.14/lib/re -I /home/opam/.opam/4.14/lib/sexplib0 -I /home/opam/.opam/4.14/lib/splittable_random -I /home/opam/.opam/4.14/lib/stdio -I /home/opam/.opam/4.14/lib/time_now -I lib/.bio_io.objs/byte -I lib/.bio_io.objs/native -intf-suffix .ml -no-alias-deps -open Test_bio_io -o test/.test_bio_io.objs/native/test_bio_io__Test_delimited.cmx -c -impl test/test_delimited.pp.ml)
- File "test/test_delimited.ml", line 15, characters 4-24:
- 15 | Caml.Filename.concat
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_delimited.ml", line 16, characters 7-38:
- 16 | (Caml.Filename.get_temp_dir_name ())
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_delimited.ml", line 20, characters 10-30:
- 20 | match Caml.Sys.file_exists fname with
- ^^^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
- File "test/test_delimited.ml", line 21, characters 14-29:
- 21 | | true -> Caml.Sys.remove fname
- ^^^^^^^^^^^^^^^
- Alert deprecated: module Caml
- [since v0.16] use Stdlib instead of Caml
-> compiled bio_io.0.6.0
-> removed bio_io.0.6.0
-> installed bio_io.0.6.0
Done.
# To update the current shell environment, run: eval $(opam env)
2026-04-11 03:57.47 ---> saved as "3c27a56f006d13dfabf425ffa2c350324028ac23dce5e62e138b524c292f4f84"
Job succeeded
2026-04-11 03:57.57: Job succeeded