- github
- ocaml
- opam-repository
- e26ca3
- compilers,4.14,conf-m4.1,revdeps,molenc.1.1.0
(not at the head of any monitored branch or PR)
2026-03-21 18:50.25: New job: test molenc.1.1.0 with conf-m4.1, using opam dev
from https://github.com/ocaml/opam-repository.git#refs/pull/29579/head (e26ca330660bcb49f8bb8e3d37703d278be8c4bd)
on debian-13-ocaml-4.14/amd64
To reproduce locally:
cd $(mktemp -d)
git clone --recursive "https://github.com/ocaml/opam-repository.git" && cd "opam-repository" && git fetch origin "refs/pull/29579/head" && git reset --hard e26ca330
git fetch origin master
git merge --no-edit 76bf2ed9443fdee37e6f046c6295d358be3f8598
cat > ../Dockerfile <<'END-OF-DOCKERFILE'
FROM ocaml/opam:debian-13-ocaml-4.14@sha256:37323dc71cac48a3e4688e16b45b95486f3cc440c55ab3f83114e8973362f41e
USER 1000:1000
WORKDIR /home/opam
RUN sudo ln -f /usr/bin/opam-dev /usr/bin/opam
RUN opam init --reinit -ni
RUN opam option solver=builtin-0install && opam config report
ENV OPAMDOWNLOADJOBS="1"
ENV OPAMERRLOGLEN="0"
ENV OPAMPRECISETRACKING="1"
ENV CI="true"
ENV OPAM_REPO_CI="true"
RUN rm -rf opam-repository/
COPY --chown=1000:1000 . opam-repository/
RUN opam repository set-url --strict default opam-repository/
RUN opam update --depexts || true
RUN opam pin add -k version -yn conf-m4.1 1
RUN opam reinstall conf-m4.1; \
res=$?; \
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 "$pkg" != 'conf-m4.1' && partial_fails="$partial_fails $pkg"; \
done; \
test "${partial_fails}" != "" && echo "opam-repo-ci detected dependencies failing: ${partial_fails}"; \
exit 1
RUN opam reinstall molenc.1.1.0; \
res=$?; \
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 "$pkg" != 'molenc.1.1.0' && partial_fails="$partial_fails $pkg"; \
done; \
test "${partial_fails}" != "" && echo "opam-repo-ci detected dependencies failing: ${partial_fails}"; \
exit 1
RUN (opam reinstall --with-test molenc.1.1.0) || true
RUN opam reinstall --with-test --verbose molenc.1.1.0; \
res=$?; \
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 "$pkg" != 'molenc.1.1.0' && partial_fails="$partial_fails $pkg"; \
done; \
test "${partial_fails}" != "" && echo "opam-repo-ci detected dependencies failing: ${partial_fails}"; \
exit 1
END-OF-DOCKERFILE
docker build -f ../Dockerfile .
2026-03-21 18:50.25: Using cache hint "ocaml/opam:debian-13-ocaml-4.14@sha256:37323dc71cac48a3e4688e16b45b95486f3cc440c55ab3f83114e8973362f41e-conf-m4.1-molenc.1.1.0-e26ca330660bcb49f8bb8e3d37703d278be8c4bd"
2026-03-21 18:50.25: Using OBuilder spec:
((from ocaml/opam:debian-13-ocaml-4.14@sha256:37323dc71cac48a3e4688e16b45b95486f3cc440c55ab3f83114e8973362f41e)
(user (uid 1000) (gid 1000))
(workdir /home/opam)
(run (shell "sudo ln -f /usr/bin/opam-dev /usr/bin/opam"))
(run (network host)
(shell "opam init --reinit --config .opamrc-sandbox -ni"))
(run (shell "opam option solver=builtin-0install && opam config report"))
(env OPAMDOWNLOADJOBS 1)
(env OPAMERRLOGLEN 0)
(env OPAMPRECISETRACKING 1)
(env CI true)
(env OPAM_REPO_CI true)
(run (shell "rm -rf opam-repository/"))
(copy (src .) (dst opam-repository/))
(run (shell "opam repository set-url --strict default opam-repository/"))
(run (network host)
(shell "opam update --depexts || true"))
(run (shell "opam pin add -k version -yn conf-m4.1 1"))
(run (cache (opam-archives (target /home/opam/.opam/download-cache)))
(network host)
(shell "opam reinstall conf-m4.1;\
\n res=$?;\
\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 \"$pkg\" != 'conf-m4.1' && partial_fails=\"$partial_fails $pkg\";\
\n done;\
\n test \"${partial_fails}\" != \"\" && echo \"opam-repo-ci detected dependencies failing: ${partial_fails}\";\
\n exit 1"))
(run (cache (opam-archives (target /home/opam/.opam/download-cache)))
(network host)
(shell "opam reinstall molenc.1.1.0;\
\n res=$?;\
\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 \"$pkg\" != 'molenc.1.1.0' && partial_fails=\"$partial_fails $pkg\";\
\n done;\
\n test \"${partial_fails}\" != \"\" && echo \"opam-repo-ci detected dependencies failing: ${partial_fails}\";\
\n exit 1"))
(run (network host)
(shell "(opam reinstall --with-test molenc.1.1.0) || true"))
(run (shell "opam reinstall --with-test --verbose molenc.1.1.0;\
\n res=$?;\
\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 \"$pkg\" != 'molenc.1.1.0' && partial_fails=\"$partial_fails $pkg\";\
\n done;\
\n test \"${partial_fails}\" != \"\" && echo \"opam-repo-ci detected dependencies failing: ${partial_fails}\";\
\n exit 1"))
)
2026-03-21 18:50.25: Waiting for resource in pool OCluster
2026-03-21 21:19.11: Waiting for worker…
2026-03-21 21:21.05: Got resource from pool OCluster
Building on toxis.caelum.ci.dev
All commits already cached
HEAD is now at 76bf2ed944 Merge pull request #29572 from hannesm/release-letsencrypt-v2.0.0
Updating 76bf2ed944..e26ca33066
Fast-forward
Auto packing the repository in the background for optimum performance.
See "git help gc" for manual housekeeping.
warning: The last gc run reported the following. Please correct the root cause
and remove .git/gc.log
Automatic cleanup will not be performed until the file is removed.
warning: There are too many unreachable loose objects; run 'git prune' to remove them.
packages/conf-findutils/conf-findutils.1/opam | 2 ++
packages/conf-m4/conf-m4.1/opam | 1 +
.../conf-mingw-w64-bzip2-x86_64/conf-mingw-w64-bzip2-x86_64.1/opam | 4 ++--
packages/conf-mingw-w64-gcc-x86_64/conf-mingw-w64-gcc-x86_64.1/opam | 4 ++--
packages/conf-mingw-w64-gmp-x86_64/conf-mingw-w64-gmp-x86_64.1/opam | 4 ++--
.../conf-mingw-w64-pkgconf-x86_64.1/opam | 6 +++---
.../conf-mingw-w64-zlib-x86_64/conf-mingw-w64-zlib-x86_64.1/opam | 4 ++--
.../conf-mingw-w64-zstd-x86_64/conf-mingw-w64-zstd-x86_64.1/opam | 4 ++--
packages/conf-perl/conf-perl.2/opam | 1 +
9 files changed, 17 insertions(+), 13 deletions(-)
(from ocaml/opam:debian-13-ocaml-4.14@sha256:37323dc71cac48a3e4688e16b45b95486f3cc440c55ab3f83114e8973362f41e)
2026-03-21 21:24.23 ---> using "32cd5b5baf995c02200cf270da597dbb25becd220af2c200c00b8b241a742195" from cache
/: (user (uid 1000) (gid 1000))
/: (workdir /home/opam)
/home/opam: (run (shell "sudo ln -f /usr/bin/opam-dev /usr/bin/opam"))
2026-03-21 21:24.23 ---> using "f3ed7bdbef828c9c0b079b10505c5f05c3c9adcca11ce5bf2dac2a4183e099d8" 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
Format upgrade done.
<><> Updating repositories ><><><><><><><><><><><><><><><><><><><><><><><><><><>
[default] Initialised
2026-03-21 21:24.24 ---> using "5bf6adb7b45bb7e0c215b8f509c71a8dae73a9a2060efcc27df9d4ef6c6d3350" 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 71
# repositories 1 (version-controlled)
# pinned 1 (version)
# current-switch 4.14
# invariant ["ocaml-base-compiler" {= "4.14.2"}]
# compiler-packages ocaml-base-compiler.4.14.2, 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 4.14.2
2026-03-21 21:24.24 ---> using "0546f18fa5979677ee22eb9f2fcf19ab371564e845d317c2c70e41dd97dc22dd" 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/"))
2026-03-21 21:24.24 ---> using "0a7188cbe95f4fe0ff26694977eb8794c975bdb534078da98a06d6c7373289b4" from cache
/home/opam: (copy (src .) (dst opam-repository/))
2026-03-21 21:24.25 ---> using "64b0b1c5956282be62155632b73d49a512770a013b8177e3bd97cfd5e30573f3" from cache
/home/opam: (run (shell "opam repository set-url --strict default opam-repository/"))
[default] Initialised
2026-03-21 21:24.25 ---> using "5bbc18b187922ee43ab28303966f314ef55d58cc243daaa1a62d891c4651643d" from cache
/home/opam: (run (network host)
(shell "opam update --depexts || true"))
+ /usr/bin/sudo "apt-get" "update"
- Get:1 http://deb.debian.org/debian trixie InRelease [140 kB]
- 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 trixie/main amd64 Packages [9671 kB]
- Get:5 http://deb.debian.org/debian-security trixie-security/main amd64 Packages [113 kB]
- Fetched 10.0 MB in 1s (7242 kB/s)
- Reading package lists...
-
2026-03-21 21:24.26 ---> using "26c4cf2d2932a5613ac2db8ae671186642ac802d5db4f44c87661f5676362dec" from cache
/home/opam: (run (shell "opam pin add -k version -yn conf-m4.1 1"))
conf-m4 is now pinned to version 1
2026-03-21 21:24.26 ---> using "1f550c38f5bac1e80ecbaf30222372f1ba650bb720c00e72e38ddd72856eafa1" from cache
/home/opam: (run (cache (opam-archives (target /home/opam/.opam/download-cache)))
(network host)
(shell "opam reinstall conf-m4.1;\
\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 \"$pkg\" != 'conf-m4.1' && partial_fails=\"$partial_fails $pkg\";\
\n done;\
\n test \"${partial_fails}\" != \"\" && echo \"opam-repo-ci detected dependencies failing: ${partial_fails}\";\
\n exit 1"))
conf-m4.1 is not installed. Install it? [Y/n] y
The following actions will be performed:
=== install 1 package
- install conf-m4 1 (pinned)
The following system packages will first need to be installed:
m4
<><> Handling external dependencies <><><><><><><><><><><><><><><><><><><><><><>
opam believes some required external dependencies are missing. opam can:
> 1. Run apt-get to install them (may need root/sudo access)
2. Display the recommended apt-get command and wait while you run it manually (e.g. in another terminal)
3. Continue anyway, and, upon success, permanently register that this external dependency is present, but not detectable
4. Abort the installation
[1/2/3/4] 1
+ /usr/bin/sudo "apt-get" "install" "-qq" "-yy" "m4"
- Selecting previously unselected package m4.
- (Reading database ...
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- Preparing to unpack .../archives/m4_1.4.19-8_amd64.deb ...
- Unpacking m4 (1.4.19-8) ...
- Setting up m4 (1.4.19-8) ...
<><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><>
-> installed conf-m4.1
Done.
# To update the current shell environment, run: eval $(opam env)
2026-03-21 21:24.26 ---> using "e0baf65572c68338ca7ad6c8769e7aeb1e3d03e85ea3541782477400153674e3" from cache
/home/opam: (run (cache (opam-archives (target /home/opam/.opam/download-cache)))
(network host)
(shell "opam reinstall molenc.1.1.0;\
\n res=$?;\
\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 \"$pkg\" != 'molenc.1.1.0' && partial_fails=\"$partial_fails $pkg\";\
\n done;\
\n test \"${partial_fails}\" != \"\" && echo \"opam-repo-ci detected dependencies failing: ${partial_fails}\";\
\n exit 1"))
molenc.1.1.0 is not installed. Install it? [Y/n] y
The following actions will be performed:
=== install 11 packages
- install batteries 3.10.0 [required by molenc]
- install camlp-streams 5.0.1 [required by batteries]
- install conf-python-3 9.0.0 [required by molenc]
- install conf-rdkit 1 [required by molenc]
- install dolog 3.0 [required by molenc]
- install dune 2.9.3 [required by molenc]
- install minicli 5.0.2 [required by molenc]
- install molenc 1.1.0
- install num 1.6 [required by batteries]
- install ocamlbuild 0.16.1 [required by dolog]
- install ocamlfind 1.9.8 [required by batteries, dolog]
The following system packages will first need to be installed:
librdkit-dev python3 python3-rdkit
<><> Handling external dependencies <><><><><><><><><><><><><><><><><><><><><><>
opam believes some required external dependencies are missing. opam can:
> 1. Run apt-get to install them (may need root/sudo access)
2. Display the recommended apt-get command and wait while you run it manually (e.g. in another terminal)
3. Continue anyway, and, upon success, permanently register that this external dependency is present, but not detectable
4. Abort the installation
[1/2/3/4] 1
+ /usr/bin/sudo "apt-get" "install" "-qq" "-yy" "librdkit-dev" "python3" "python3-rdkit"
- Preconfiguring packages ...
- Selecting previously unselected package libpython3.13-minimal:amd64.
- (Reading database ...
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(Reading database ... 20710 files and directories currently installed.)
- Preparing to unpack .../libpython3.13-minimal_3.13.5-2_amd64.deb ...
- Unpacking libpython3.13-minimal:amd64 (3.13.5-2) ...
- Selecting previously unselected package python3.13-minimal.
- Preparing to unpack .../python3.13-minimal_3.13.5-2_amd64.deb ...
- Unpacking python3.13-minimal (3.13.5-2) ...
- Setting up libpython3.13-minimal:amd64 (3.13.5-2) ...
- Setting up python3.13-minimal (3.13.5-2) ...
- Selecting previously unselected package python3-minimal.
- (Reading database ...
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(Reading database ... 21035 files and directories currently installed.)
- Preparing to unpack .../0-python3-minimal_3.13.5-1_amd64.deb ...
- Unpacking python3-minimal (3.13.5-1) ...
- Selecting previously unselected package media-types.
- Preparing to unpack .../1-media-types_13.0.0_all.deb ...
- Unpacking media-types (13.0.0) ...
- Selecting previously unselected package readline-common.
- Preparing to unpack .../2-readline-common_8.2-6_all.deb ...
- Unpacking readline-common (8.2-6) ...
- Selecting previously unselected package libreadline8t64:amd64.
- Preparing to unpack .../3-libreadline8t64_8.2-6_amd64.deb ...
- Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64'
- Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64'
- Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64'
- Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64'
- Unpacking libreadline8t64:amd64 (8.2-6) ...
- Selecting previously unselected package libpython3.13-stdlib:amd64.
- Preparing to unpack .../4-libpython3.13-stdlib_3.13.5-2_amd64.deb ...
- Unpacking libpython3.13-stdlib:amd64 (3.13.5-2) ...
- Selecting previously unselected package python3.13.
- Preparing to unpack .../5-python3.13_3.13.5-2_amd64.deb ...
- Unpacking python3.13 (3.13.5-2) ...
- Selecting previously unselected package libpython3-stdlib:amd64.
- Preparing to unpack .../6-libpython3-stdlib_3.13.5-1_amd64.deb ...
- Unpacking libpython3-stdlib:amd64 (3.13.5-1) ...
- Setting up python3-minimal (3.13.5-1) ...
- Selecting previously unselected package python3.
- (Reading database ...
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- Preparing to unpack .../00-python3_3.13.5-1_amd64.deb ...
- Unpacking python3 (3.13.5-1) ...
- Selecting previously unselected package python3-numpy-dev:amd64.
- Preparing to unpack .../01-python3-numpy-dev_1%3a2.2.4+ds-1_amd64.deb ...
- Unpacking python3-numpy-dev:amd64 (1:2.2.4+ds-1) ...
- Selecting previously unselected package libblas3:amd64.
- Preparing to unpack .../02-libblas3_3.12.1-6_amd64.deb ...
- Unpacking libblas3:amd64 (3.12.1-6) ...
- Selecting previously unselected package libgfortran5:amd64.
- Preparing to unpack .../03-libgfortran5_14.2.0-19_amd64.deb ...
- Unpacking libgfortran5:amd64 (14.2.0-19) ...
- Selecting previously unselected package liblapack3:amd64.
- Preparing to unpack .../04-liblapack3_3.12.1-6_amd64.deb ...
- Unpacking liblapack3:amd64 (3.12.1-6) ...
- Selecting previously unselected package python3-numpy.
- Preparing to unpack .../05-python3-numpy_1%3a2.2.4+ds-1_amd64.deb ...
- Unpacking python3-numpy (1:2.2.4+ds-1) ...
- Selecting previously unselected package fonts-dejavu-mono.
- Preparing to unpack .../06-fonts-dejavu-mono_2.37-8_all.deb ...
- Unpacking fonts-dejavu-mono (2.37-8) ...
- Selecting previously unselected package fonts-dejavu-core.
- Preparing to unpack .../07-fonts-dejavu-core_2.37-8_all.deb ...
- Unpacking fonts-dejavu-core (2.37-8) ...
- Selecting previously unselected package fonts-freefont-ttf.
- Preparing to unpack .../08-fonts-freefont-ttf_20211204+svn4273-2_all.deb ...
- Unpacking fonts-freefont-ttf (20211204+svn4273-2) ...
- Selecting previously unselected package fontconfig-config.
- Preparing to unpack .../09-fontconfig-config_2.15.0-2.3_amd64.deb ...
- Unpacking fontconfig-config (2.15.0-2.3) ...
- Selecting previously unselected package libboost-iostreams1.83.0:amd64.
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- Unpacking libboost-iostreams1.83.0:amd64 (1.83.0-4.2) ...
- Selecting previously unselected package libboost-python1.83.0.
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- Unpacking libboost-python1.83.0 (1.83.0-4.2) ...
- Selecting previously unselected package libboost-numpy1.83.0.
- Preparing to unpack .../12-libboost-numpy1.83.0_1.83.0-4.2_amd64.deb ...
- Unpacking libboost-numpy1.83.0 (1.83.0-4.2) ...
- Selecting previously unselected package libboost-serialization1.83.0:amd64.
- Preparing to unpack .../13-libboost-serialization1.83.0_1.83.0-4.2_amd64.deb ...
- Unpacking libboost-serialization1.83.0:amd64 (1.83.0-4.2) ...
- Selecting previously unselected package libpng16-16t64:amd64.
- Preparing to unpack .../14-libpng16-16t64_1.6.48-1+deb13u3_amd64.deb ...
- Unpacking libpng16-16t64:amd64 (1.6.48-1+deb13u3) ...
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- Unpacking libfreetype6:amd64 (2.13.3+dfsg-1+deb13u1) ...
- Selecting previously unselected package libfontconfig1:amd64.
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- Unpacking libpixman-1-0:amd64 (0.44.0-3) ...
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- Unpacking python3-rdkit (202503.1-4) ...
- Setting up media-types (13.0.0) ...
- Setting up libboost-python1.83.0 (1.83.0-4.2) ...
- Setting up libpixman-1-0:amd64 (0.44.0-3) ...
- Setting up libxrender1:amd64 (1:0.9.12-1) ...
- Setting up libxcb-render0:amd64 (1.17.0-2+b1) ...
- Setting up fonts-freefont-ttf (20211204+svn4273-2) ...
- Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ...
- Setting up rdkit-data (202503.1-4) ...
- Setting up libboost-serialization1.83.0:amd64 (1.83.0-4.2) ...
- Setting up libboost-numpy1.83.0 (1.83.0-4.2) ...
- Setting up libblas3:amd64 (3.12.1-6) ...
- update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode
- Setting up libboost-iostreams1.83.0:amd64 (1.83.0-4.2) ...
- Setting up fonts-dejavu-mono (2.37-8) ...
- Setting up libpng16-16t64:amd64 (1.6.48-1+deb13u3) ...
- Setting up python3-numpy-dev:amd64 (1:2.2.4+ds-1) ...
- Setting up fonts-dejavu-core (2.37-8) ...
- Setting up libgfortran5:amd64 (14.2.0-19) ...
- Setting up libcoordgen3:amd64 (3.0.2-1+b2) ...
- Setting up libinchi1.07 (1.07.3+dfsg-1) ...
- Setting up readline-common (8.2-6) ...
- Setting up liblapack3:amd64 (3.12.1-6) ...
- update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode
- Setting up fontconfig-config (2.15.0-2.3) ...
- Setting up libmaeparser1:amd64 (1.3.1-1+b2) ...
- Setting up libfreetype6:amd64 (2.13.3+dfsg-1+deb13u1) ...
- Setting up libreadline8t64:amd64 (8.2-6) ...
- Setting up libfontconfig1:amd64 (2.15.0-2.3) ...
- Setting up libpython3.13-stdlib:amd64 (3.13.5-2) ...
- Setting up libpython3-stdlib:amd64 (3.13.5-1) ...
- Setting up python3.13 (3.13.5-2) ...
- Setting up python3 (3.13.5-1) ...
- running python rtupdate hooks for python3.13...
- running python post-rtupdate hooks for python3.13...
- Setting up libcairo2:amd64 (1.18.4-1+b1) ...
- Setting up python3-numpy (1:2.2.4+ds-1) ...
- Setting up librdkit1t64 (202503.1-4) ...
- Setting up python3-rdkit (202503.1-4) ...
- Setting up librdkit-dev (202503.1-4) ...
- Processing triggers for libc-bin (2.41-12+deb13u1) ...
<><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><>
-> retrieved batteries.3.10.0 (cached)
-> retrieved camlp-streams.5.0.1 (cached)
-> retrieved conf-python-3.9.0.0 (cached)
-> retrieved conf-rdkit.1 (cached)
-> retrieved dolog.3.0 (cached)
-> installed conf-python-3.9.0.0
-> installed conf-rdkit.1
-> retrieved dune.2.9.3 (cached)
-> retrieved minicli.5.0.2 (cached)
-> retrieved molenc.1.1.0 (cached)
-> retrieved num.1.6 (cached)
-> retrieved ocamlbuild.0.16.1 (cached)
-> retrieved ocamlfind.1.9.8 (cached)
-> installed num.1.6
-> installed ocamlfind.1.9.8
-> installed ocamlbuild.0.16.1
-> installed dolog.3.0
-> installed dune.2.9.3
-> installed minicli.5.0.2
-> installed camlp-streams.5.0.1
-> installed batteries.3.10.0
-> installed molenc.1.1.0
Done.
# To update the current shell environment, run: eval $(opam env)
2026-03-21 21:25.32 ---> saved as "60f92556ebd6b839ee74c3d8f3c4797f1f55322732343f01d51da7529eb935a3"
/home/opam: (run (network host)
(shell "(opam reinstall --with-test molenc.1.1.0) || true"))
The following actions will be performed:
=== recompile 1 package
- recompile molenc 1.1.0
<><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><>
-> retrieved molenc.1.1.0 (https://opam.ocaml.org/cache)
-> removed molenc.1.1.0
-> installed molenc.1.1.0
Done.
# To update the current shell environment, run: eval $(opam env)
2026-03-21 21:25.45 ---> saved as "b1ddf5d0d37bf71ad41a4116f12383bae405fcf9e11c13b90118df1aca24a6ed"
/home/opam: (run (shell "opam reinstall --with-test --verbose molenc.1.1.0;\
\n res=$?;\
\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 \"$pkg\" != 'molenc.1.1.0' && partial_fails=\"$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 molenc 1.1.0
<><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><>
Processing 1/4: [molenc.1.1.0: extract]
-> retrieved molenc.1.1.0 (cached)
Processing 2/4: [molenc: dune build]
+ /home/opam/.opam/opam-init/hooks/sandbox.sh "build" "dune" "build" "-p" "molenc" "-j" "71" (CWD=/home/opam/.opam/4.14/.opam-switch/build/molenc.1.1.0)
- Info: Creating file dune-project with this contents:
- | (lang dune 2.9)
- | (name molenc)
- ocamlc src/.encoder.eobjs/byte/dune__exe__Utls.{cmi,cmo,cmt}
- File "src/utls.ml", line 337, characters 13-31:
- 337 | Array.sort Pervasives.compare xs;
- ^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Stdlib.Pervasives
- Use Stdlib instead.
-
- If you need to stay compatible with OCaml < 4.07, you can use the
- stdlib-shims library: https://github.com/ocaml/stdlib-shims
- ocamlc src/.encoder.eobjs/byte/dune__exe__MyList.{cmi,cmo,cmt}
- File "src/myList.ml", line 19, characters 14-30:
- 19 | map of_str (BatString.nsplit s' ~by:";")
- ^^^^^^^^^^^^^^^^
- Alert deprecated: BatString.nsplit
- Use split_on_string instead.
- ocamlc src/.encoder.eobjs/byte/dune__exe__Atom_env.{cmi,cmo,cmt}
- File "src/atom_env.ml", line 21, characters 16-32:
- 21 | let strings = BatString.nsplit s ~by:"," in
- ^^^^^^^^^^^^^^^^
- Alert deprecated: BatString.nsplit
- Use split_on_string instead.
- File "src/atom_env.ml", line 41, characters 22-38:
- 41 | let layer_strings = BatString.nsplit s ~by:";" in
- ^^^^^^^^^^^^^^^^
- Alert deprecated: BatString.nsplit
- Use split_on_string instead.
- ocamlopt src/.encoder.eobjs/native/dune__exe__Utls.{cmx,o}
- File "src/utls.ml", line 337, characters 13-31:
- 337 | Array.sort Pervasives.compare xs;
- ^^^^^^^^^^^^^^^^^^
- Alert deprecated: module Stdlib.Pervasives
- Use Stdlib instead.
-
- If you need to stay compatible with OCaml < 4.07, you can use the
- stdlib-shims library: https://github.com/ocaml/stdlib-shims
- ocamlc src/.encoder.eobjs/byte/dune__exe__Ap_types.{cmi,cmo,cmt}
- File "src/ap_types.ml", line 46, characters 25-41:
- 46 | let dist_strings = BatString.nsplit line ~by:" " in
- ^^^^^^^^^^^^^^^^
- Alert deprecated: BatString.nsplit
- Use split_on_string instead.
- ocamlopt src/.encoder.eobjs/native/dune__exe__MyList.{cmx,o}
- File "src/myList.ml", line 19, characters 14-30:
- 19 | map of_str (BatString.nsplit s' ~by:";")
- ^^^^^^^^^^^^^^^^
- Alert deprecated: BatString.nsplit
- Use split_on_string instead.
- ocamlopt src/.encoder.eobjs/native/dune__exe__Atom_env.{cmx,o}
- File "src/atom_env.ml", line 21, characters 16-32:
- 21 | let strings = BatString.nsplit s ~by:"," in
- ^^^^^^^^^^^^^^^^
- Alert deprecated: BatString.nsplit
- Use split_on_string instead.
- File "src/atom_env.ml", line 41, characters 22-38:
- 41 | let layer_strings = BatString.nsplit s ~by:";" in
- ^^^^^^^^^^^^^^^^
- Alert deprecated: BatString.nsplit
- Use split_on_string instead.
- ocamlopt src/.encoder.eobjs/native/dune__exe__Ap_types.{cmx,o}
- File "src/ap_types.ml", line 46, characters 25-41:
- 46 | let dist_strings = BatString.nsplit line ~by:" " in
- ^^^^^^^^^^^^^^^^
- Alert deprecated: BatString.nsplit
- Use split_on_string instead.
-> compiled molenc.1.1.0
-> removed molenc.1.1.0
Processing 4/4: [molenc: cp]
+ /home/opam/.opam/opam-init/hooks/sandbox.sh "install" "cp" "bin/molenc_type_atoms.py" "/home/opam/.opam/4.14/bin/molenc_type_atoms.py" (CWD=/home/opam/.opam/4.14/.opam-switch/build/molenc.1.1.0)
+ /home/opam/.opam/opam-init/hooks/sandbox.sh "install" "cp" "bin/molenc_common.py" "/home/opam/.opam/4.14/bin/molenc_common.py" (CWD=/home/opam/.opam/4.14/.opam-switch/build/molenc.1.1.0)
+ /home/opam/.opam/opam-init/hooks/sandbox.sh "install" "cp" "bin/molenc.sh" "/home/opam/.opam/4.14/bin/molenc.sh" (CWD=/home/opam/.opam/4.14/.opam-switch/build/molenc.1.1.0)
-> installed molenc.1.1.0
Done.
# To update the current shell environment, run: eval $(opam env)
2026-03-21 21:25.57 ---> saved as "a7f07862660056ca49707d444ce1174a991831729919c368e8d1bf73f2daf18a"
Job succeeded
2026-03-21 21:27.21: Job succeeded