Build:
- 0
2024-10-02 21:18.51: New job: Voodoo prep molenc.17.0.1; 5ba11bfa0c82b54cdcb54866db9ab932 2024-10-02 21:18.51: Waiting for resource in pool OCluster 2024-10-02 21:20.29: Waiting for worker… 2024-10-02 21:20.29: Got resource from pool OCluster 2024-10-02 21:20.29: Using cache hint "docs-universe-prep-5.1.1" To reproduce locally: cat > prep.spec <<'END-OF-SPEC' ((build tools ((from ocaml/opam:debian-12-ocaml-5.1@sha256:8f56ed204049da44e6929f71bd0a97fea51803eb0925bf30aab63f51752a06bd) (user (uid 1000) (gid 1000)) (workdir /home/opam) (run (shell "sudo chown opam:opam /home/opam")) (run (network host) (shell "sudo apt-get update && sudo apt-get install -yy m4 pkg-config")) (run (cache (opam-archives (target /home/opam/.opam/download-cache)) (opam-dune-cache (target /home/opam/.cache/dune))) (network host) (shell "opam pin -ny https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 && opam depext -iy voodoo-prep")) (run (shell "cp $(opam config var bin)/voodoo-prep /home/opam")))) (from ocaml/opam:debian-12-ocaml-5.1@sha256:8f56ed204049da44e6929f71bd0a97fea51803eb0925bf30aab63f51752a06bd) (user (uid 1000) (gid 1000)) (workdir /home/opam) (run (shell "sudo chown opam:opam /home/opam")) (run (shell "sudo mkdir /src")) (copy (src packages) (dst /src/packages)) (copy (src repo) (dst /src/repo)) (run (network host) (shell "sudo ln -f /usr/bin/opam-2.1 /usr/bin/opam && opam init --reinit -ni")) (run (shell "opam repo remove default && opam repo add opam /src")) (copy (from (build tools)) (src /home/opam/voodoo-prep) (dst /home/opam/)) (run (cache (opam-archives (target /home/opam/.opam/download-cache)) (opam-dune-cache (target /home/opam/.cache/dune))) (network host) (shell "opam install dune.3.16.0 ocamlfind.1.9.6")) (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 "(sudo apt update) && ((opam depext -viy molenc.17.0.1 vector3.1.0.0 stdlib-shims.0.3.0 stdcompat.19 sexplib0.v0.17.0 pyml.20231101 ppxlib.0.33.1~5.3preview ppx_derivers.1.2.1 parany.14.0.1 ocamlgraph.2.1.0 ocamlfind.1.9.6 ocaml-compiler-libs.v0.12.4 num.1.5-1 minicli.5.0.2 line_oriented.1.3.0 extunix.0.4.2 dune-configurator.3.16.0 dune.3.16.0 dolog.6.0.0 dokeysto.4.0.1 csexp.1.5.2 cpu.2.0.0 cpm.12.2.0 conf-which.1 conf-rdkit.1 conf-python-3.9.0.0 conf-graphviz.0.1 conf-autoconf.0.2 camlp-streams.5.0.1 bst.7.1.0 batteries.3.8.0 base-bytes.base 2>&1 | tee ~/opam.err.log) || echo 'Failed to install all packages')")) (run (shell "opam exec -- ~/voodoo-prep -u molenc:5ba11bfa0c82b54cdcb54866db9ab932,extunix:04485a9d965075dadf4888db5f86822f,dokeysto:353a1cf5ef768c425126f92d2d38dd98")) (run (network host) (secrets (ssh_privkey (target /home/opam/.ssh/id_rsa)) (ssh_pubkey (target /home/opam/.ssh/id_rsa.pub)) (ssh_config (target /home/opam/.ssh/config))) (shell "(echo '0.181031') && (for DATA in prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1,dokeysto.4.0.1-353a1cf5ef768c425126f92d2d38dd98,dokeysto.4.0.1 prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2,extunix.0.4.2-04485a9d965075dadf4888db5f86822f,extunix.0.4.2 prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1,molenc.17.0.1-5ba11bfa0c82b54cdcb54866db9ab932,molenc.17.0.1; do IFS=\",\"; set -- $DATA; ([ -d $1 ] || (echo \"FAILED:$2\" && mkdir -p $1 && cp ~/opam.err.log $1 && opam show $3 --raw > $1/opam)) && (shopt -s nullglob && ((tar -cvf $1.tar $1/* && rm -R $1/* && mv $1.tar $1/content.tar) || (echo 'Empty directory'))) done) && (for DATA in prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1,dokeysto.4.0.1-353a1cf5ef768c425126f92d2d38dd98,dokeysto.4.0.1 prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2,extunix.0.4.2-04485a9d965075dadf4888db5f86822f,extunix.0.4.2 prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1,molenc.17.0.1-5ba11bfa0c82b54cdcb54866db9ab932,molenc.17.0.1; do IFS=\",\"; set -- $DATA; rsync -aR --no-p ./$1 docs.ci.ocaml.org:/data/.; done) && (for DATA in prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1,dokeysto.4.0.1-353a1cf5ef768c425126f92d2d38dd98,dokeysto.4.0.1 prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2,extunix.0.4.2-04485a9d965075dadf4888db5f86822f,extunix.0.4.2 prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1,molenc.17.0.1-5ba11bfa0c82b54cdcb54866db9ab932,molenc.17.0.1; do IFS=\",\"; set -- $DATA; HASH=$((sha256sum $1/content.tar | cut -d \" \" -f 1) || echo -n 'empty'); printf \"HASHES:$2:$HASH\\n\"; done)")) ) END-OF-SPEC ocluster-client submit-obuilder https://github.com/ocaml/opam-repository.git a19eadd80f4fb74ba2c03ed518d14fe033354892 --local-file prep.spec \ --pool linux-x86_64 --connect ocluster-submission.cap --cache-hint docs-universe-prep-5.1.1 \ --secret ssh_privkey:id_rsa --secret ssh_pubkey:id_rsa.pub--secret ssh_config:ssh_config 2024-10-02 21:20.29: RETRYING: 2024-10-02/211851-voodoo-prep-d4fa5a Number of retries: 0 (retriable error condition) Building on x86-bm-c9.sw.ocaml.org All commits already cached HEAD is now at a19eadd80f new file: packages/molenc/molenc.17.0.1/opam (build "tools" …) (from ocaml/opam:debian-12-ocaml-5.1@sha256:8f56ed204049da44e6929f71bd0a97fea51803eb0925bf30aab63f51752a06bd) Unable to find image 'ocaml/opam:debian-12-ocaml-5.1@sha256:8f56ed204049da44e6929f71bd0a97fea51803eb0925bf30aab63f51752a06bd' locally docker.io/ocaml/opam@sha256:8f56ed204049da44e6929f71bd0a97fea51803eb0925bf30aab63f51752a06bd: Pulling from ocaml/opam d26e863cfc53: Already exists Digest: sha256:8f56ed204049da44e6929f71bd0a97fea51803eb0925bf30aab63f51752a06bd Status: Downloaded newer image for ocaml/opam@sha256:8f56ed204049da44e6929f71bd0a97fea51803eb0925bf30aab63f51752a06bd 2024-10-02 21:12.58 ---> saved as "6ee1fe27fa6366d6c0b58a456592efca1ae7ebcb8c8dad869bb23ac981216fb0" /: (user (uid 1000) (gid 1000)) /: (workdir /home/opam) /home/opam: (run (shell "sudo chown opam:opam /home/opam")) 2024-10-02 21:12.58 ---> saved as "c52f69f6d0fc0798f24d82e98fb8fc67b1e3f7a6fc947cadecafb190c8f1f700" /home/opam: (run (network host) (shell "sudo apt-get update && sudo apt-get install -yy m4 pkg-config")) Hit:1 http://deb.debian.org/debian bookworm InRelease Get:2 http://deb.debian.org/debian bookworm-updates InRelease [55.4 kB] Get:3 http://deb.debian.org/debian-security bookworm-security InRelease [48.0 kB] Get:4 http://deb.debian.org/debian-security bookworm-security/main amd64 Packages [185 kB] Fetched 288 kB in 0s (1063 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libpkgconf3 pkgconf pkgconf-bin Suggested packages: m4-doc The following NEW packages will be installed: libpkgconf3 m4 pkg-config pkgconf pkgconf-bin 0 upgraded, 5 newly installed, 0 to remove and 0 not upgraded. Need to get 392 kB of archives. After this operation, 969 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 libpkgconf3 amd64 1.8.1-1 [36.1 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 m4 amd64 1.4.19-3 [287 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 pkgconf-bin amd64 1.8.1-1 [29.5 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 pkgconf amd64 1.8.1-1 [25.9 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 pkg-config amd64 1.8.1-1 [13.7 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 392 kB in 0s (17.6 MB/s) Selecting previously unselected package libpkgconf3:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18776 files and directories currently installed.) Preparing to unpack .../libpkgconf3_1.8.1-1_amd64.deb ... Unpacking libpkgconf3:amd64 (1.8.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../archives/m4_1.4.19-3_amd64.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package pkgconf-bin. Preparing to unpack .../pkgconf-bin_1.8.1-1_amd64.deb ... Unpacking pkgconf-bin (1.8.1-1) ... Selecting previously unselected package pkgconf:amd64. Preparing to unpack .../pkgconf_1.8.1-1_amd64.deb ... Unpacking pkgconf:amd64 (1.8.1-1) ... Selecting previously unselected package pkg-config:amd64. Preparing to unpack .../pkg-config_1.8.1-1_amd64.deb ... Unpacking pkg-config:amd64 (1.8.1-1) ... Setting up m4 (1.4.19-3) ... Setting up libpkgconf3:amd64 (1.8.1-1) ... Setting up pkgconf-bin (1.8.1-1) ... Setting up pkgconf:amd64 (1.8.1-1) ... Setting up pkg-config:amd64 (1.8.1-1) ... Processing triggers for libc-bin (2.36-9+deb12u8) ... 2024-10-02 21:13.00 ---> saved as "962d99c8352eab3b1473f439d2af32e051591c8e829edc6b8c4b9fd33314352e" /home/opam: (run (cache (opam-archives (target /home/opam/.opam/download-cache)) (opam-dune-cache (target /home/opam/.cache/dune))) (network host) (shell "opam pin -ny https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 && opam depext -iy voodoo-prep")) [voodoo: git] [voodoo: git] [voodoo: git] [voodoo: git] [voodoo: git] [voodoo: git] [voodoo: git] [voodoo: git] [voodoo] synchronised from git+https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 This will pin the following packages: voodoo-prep, voodoo-lib, voodoo-gen, voodoo-do. Continue? [Y/n] y Package voodoo-prep does not exist, create as a NEW package? [Y/n] y [voodoo-prep.~dev: git] [voodoo-prep.~dev: git] [voodoo-prep.~dev: git] [voodoo-prep.~dev: git] [voodoo-prep.~dev: git] [voodoo-prep.~dev: git] [voodoo-prep.~dev: git] [voodoo-prep.~dev: git] [voodoo-prep.~dev] synchronised from git+https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 voodoo-prep is now pinned to git+https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 (version ~dev) Package voodoo-lib does not exist, create as a NEW package? [Y/n] y [voodoo-lib.~dev: git] [voodoo-lib.~dev: git] [voodoo-lib.~dev: git] [voodoo-lib.~dev: git] [voodoo-lib.~dev: git] [voodoo-lib.~dev: git] [voodoo-lib.~dev: git] [voodoo-lib.~dev: git] [voodoo-lib.~dev] synchronised from git+https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 voodoo-lib is now pinned to git+https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 (version ~dev) Package voodoo-gen does not exist, create as a NEW package? [Y/n] y [voodoo-gen.~dev: git] [voodoo-gen.~dev: git] [voodoo-gen.~dev: git] [voodoo-gen.~dev: git] [voodoo-gen.~dev: git] [voodoo-gen.~dev: git] [voodoo-gen.~dev: git] [voodoo-gen.~dev: git] [voodoo-gen.~dev] synchronised from git+https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 voodoo-gen is now pinned to git+https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 (version ~dev) Package voodoo-do does not exist, create as a NEW package? [Y/n] y [voodoo-do.~dev: git] [voodoo-do.~dev: git] [voodoo-do.~dev: git] [voodoo-do.~dev: git] [voodoo-do.~dev: git] [voodoo-do.~dev: git] [voodoo-do.~dev: git] [voodoo-do.~dev: git] [voodoo-do.~dev] synchronised from git+https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 voodoo-do is now pinned to git+https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 (version ~dev) # Detecting depexts using vars: arch=x86_64, os=linux, os-distribution=debian, os-family=debian # No extra OS packages requirements found. # All required OS packages found. # Now letting opam install the packages <><> Synchronising pinned packages ><><><><><><><><><><><><><><><><><><><><><><> [voodoo-prep.~dev] no changes from git+https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 The following actions will be performed: - install ocamlbuild 0.15.0 [required by bos] - install dune 3.16.0 [required by voodoo-prep] - install ocamlfind 1.9.6 [required by bos] - install cmdliner 1.3.0 [required by voodoo-prep] - install seq base [required by re] - install swhid_core 0.1 [required by opam-core] - install stdlib-shims 0.3.0 [required by ocamlgraph, sha] - install opam-file-format 2.1.6 [required by opam-format] - install topkg 1.0.7 [required by bos] - install re 1.12.0 [required by opam-format] - install sha 1.15.4 [required by opam-core] - install ocamlgraph 2.1.0 [required by opam-core] - install uutf 1.0.3 [required by opam-core] - install rresult 0.7.0 [required by bos] - install fmt 0.9.0 [required by bos] - install astring 0.8.5 [required by bos] - install jsonm 1.0.2 [required by opam-core] - install logs 0.7.0 [required by bos] - install fpath 0.7.3 [required by voodoo-prep] - install opam-core 2.2.1 [required by opam-format] - install bos 0.2.1 [required by voodoo-prep] - install opam-format 2.2.1 [required by voodoo-prep] - install voodoo-prep ~dev* ===== 23 to install ===== <><> Gathering sources ><><><><><><><><><><><><><><><><><><><><><><><><><><><><> [astring.0.8.5] found in cache [bos.0.2.1] found in cache [cmdliner.1.3.0] found in cache [dune.3.16.0] found in cache [fmt.0.9.0] found in cache [fpath.0.7.3] found in cache [jsonm.1.0.2] found in cache [logs.0.7.0] found in cache [ocamlbuild.0.15.0] found in cache [ocamlfind.1.9.6] found in cache [ocamlgraph.2.1.0] found in cache [opam-core.2.2.1] found in cache [opam-file-format.2.1.6] found in cache [opam-format.2.2.1] found in cache [re.1.12.0] found in cache [rresult.0.7.0] found in cache [sha.1.15.4] found in cache [stdlib-shims.0.3.0] found in cache [swhid_core.0.1] found in cache [topkg.1.0.7] found in cache [uutf.1.0.3] found in cache [voodoo-prep.~dev] synchronised from git+https://github.com/ocaml-doc/voodoo.git#67ccabec49b5f4d24147839291fcae7c19d3e8c9 <><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><> -> installed seq.base -> installed cmdliner.1.3.0 -> installed ocamlfind.1.9.6 -> installed ocamlbuild.0.15.0 -> installed topkg.1.0.7 -> installed rresult.0.7.0 -> installed uutf.1.0.3 -> installed fmt.0.9.0 -> installed astring.0.8.5 -> installed fpath.0.7.3 -> installed jsonm.1.0.2 -> installed logs.0.7.0 -> installed bos.0.2.1 -> installed dune.3.16.0 -> installed stdlib-shims.0.3.0 -> installed swhid_core.0.1 -> installed opam-file-format.2.1.6 -> installed re.1.12.0 -> installed sha.1.15.4 -> installed ocamlgraph.2.1.0 -> installed opam-core.2.2.1 -> installed opam-format.2.2.1 -> installed voodoo-prep.~dev Done. # Run eval $(opam env) to update the current shell environment 2024-10-02 21:14.08 ---> saved as "926f71d74fa0e8596dd71e43f7fa7c883cf50280e47fadb3007d318ca7e2dcc2" /home/opam: (run (shell "cp $(opam config var bin)/voodoo-prep /home/opam")) 2024-10-02 21:14.09 ---> saved as "207c05b932517d702602d1699c6d98bebeb34229860117ff061992a8b54834b9" 2024-10-02 21:14.09 --> finished "tools" (from ocaml/opam:debian-12-ocaml-5.1@sha256:8f56ed204049da44e6929f71bd0a97fea51803eb0925bf30aab63f51752a06bd) Unable to find image 'ocaml/opam:debian-12-ocaml-5.1@sha256:8f56ed204049da44e6929f71bd0a97fea51803eb0925bf30aab63f51752a06bd' locally docker.io/ocaml/opam@sha256:8f56ed204049da44e6929f71bd0a97fea51803eb0925bf30aab63f51752a06bd: Pulling from ocaml/opam d26e863cfc53: Already exists Digest: sha256:8f56ed204049da44e6929f71bd0a97fea51803eb0925bf30aab63f51752a06bd Status: Downloaded newer image for ocaml/opam@sha256:8f56ed204049da44e6929f71bd0a97fea51803eb0925bf30aab63f51752a06bd 2024-10-02 21:14.09 ---> using "6ee1fe27fa6366d6c0b58a456592efca1ae7ebcb8c8dad869bb23ac981216fb0" from cache /: (user (uid 1000) (gid 1000)) /: (workdir /home/opam) /home/opam: (run (shell "sudo chown opam:opam /home/opam")) 2024-10-02 21:14.09 ---> using "c52f69f6d0fc0798f24d82e98fb8fc67b1e3f7a6fc947cadecafb190c8f1f700" from cache /home/opam: (run (shell "sudo mkdir /src")) 2024-10-02 21:14.09 ---> saved as "a60ae621350f8ba2415130524dd4c76647f9b47a6ced89d7c1a0aad7fba524f1" /home/opam: (copy (src packages) (dst /src/packages)) 2024-10-02 21:14.19 ---> saved as "b4de9f8cc83a0f30b9c3138f9b32c596ce98fe77f22f9840b03f2e5edcba1e82" /home/opam: (copy (src repo) (dst /src/repo)) 2024-10-02 21:14.19 ---> saved as "9a945a0d7d1f8f687b52feee5fe7c8d47c2d39437c8022307e5a748a36a5cc55" /home/opam: (run (network host) (shell "sudo ln -f /usr/bin/opam-2.1 /usr/bin/opam && opam init --reinit -ni")) Configuring from /home/opam/.opamrc and then 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 development version of opam requires an update to the layout of /home/opam/.opam from version 2.0 to version 2.1, 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] synchronised from file:///home/opam/opam-repository 2024-10-02 21:15.55 ---> saved as "01ae5f6053298a3b146c4ceb0d91f2ceb8182e0c4176aa5c7ddccde54033bb64" /home/opam: (run (shell "opam repo remove default && opam repo add opam /src")) Repositories removed from the selections of switch 5.1. Use '--all' to forget about them altogether. [opam] Initialised [NOTE] Repository opam has been added to the selections of switch 5.1 only. Run `opam repository add opam --all-switches|--set-default' to use it in all existing switches, or in newly created switches, respectively. 2024-10-02 21:16.24 ---> saved as "00982c6674894114d87ec568213540ba37a850e677b2dc648aeb23b4efb87d9d" /home/opam: (copy (from (build tools)) (src /home/opam/voodoo-prep) (dst /home/opam/)) 2024-10-02 21:16.24 ---> saved as "7c7d475d4863d152412d0c0aa0332984eb0b7ac8e985780c4b7fb7d1deee502a" /home/opam: (run (cache (opam-archives (target /home/opam/.opam/download-cache)) (opam-dune-cache (target /home/opam/.cache/dune))) (network host) (shell "opam install dune.3.16.0 ocamlfind.1.9.6")) The following actions will be performed: - install dune 3.16.0 - install ocamlfind 1.9.6 ===== 2 to install ===== <><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><> -> retrieved ocamlfind.1.9.6 (cached) -> retrieved dune.3.16.0 (cached) -> installed ocamlfind.1.9.6 -> installed dune.3.16.0 Done. # Run eval $(opam env) to update the current shell environment 2024-10-02 21:17.06 ---> saved as "4be231dadb6a35c1666119a77cd65fed7705c47729f1e123c6c024c28059e2fc" /home/opam: (env DUNE_CACHE enabled) /home/opam: (env DUNE_CACHE_TRANSPORT direct) /home/opam: (env DUNE_CACHE_DUPLICATION copy) /home/opam: (run (cache (opam-archives (target /home/opam/.opam/download-cache)) (opam-dune-cache (target /home/opam/.cache/dune))) (network host) (shell "(sudo apt update) && ((opam depext -viy molenc.17.0.1 vector3.1.0.0 stdlib-shims.0.3.0 stdcompat.19 sexplib0.v0.17.0 pyml.20231101 ppxlib.0.33.1~5.3preview ppx_derivers.1.2.1 parany.14.0.1 ocamlgraph.2.1.0 ocamlfind.1.9.6 ocaml-compiler-libs.v0.12.4 num.1.5-1 minicli.5.0.2 line_oriented.1.3.0 extunix.0.4.2 dune-configurator.3.16.0 dune.3.16.0 dolog.6.0.0 dokeysto.4.0.1 csexp.1.5.2 cpu.2.0.0 cpm.12.2.0 conf-which.1 conf-rdkit.1 conf-python-3.9.0.0 conf-graphviz.0.1 conf-autoconf.0.2 camlp-streams.5.0.1 bst.7.1.0 batteries.3.8.0 base-bytes.base 2>&1 | tee ~/opam.err.log) || echo 'Failed to install all packages')")) WARNING: apt does not have a stable CLI interface. Use with caution in scripts. Hit:1 http://deb.debian.org/debian bookworm InRelease Get:2 http://deb.debian.org/debian bookworm-updates InRelease [55.4 kB] Get:3 http://deb.debian.org/debian-security bookworm-security InRelease [48.0 kB] Get:4 http://deb.debian.org/debian-security bookworm-security/main amd64 Packages [185 kB] Fetched 288 kB in 0s (1066 kB/s) Reading package lists... Building dependency tree... Reading state information... All packages are up to date. Opam plugin "depext" may require upgrading/reinstalling. Reinstall the plugin on the current switch? [Y/n] y The following actions will be performed: - recompile opam-depext 1.2.3 <><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><> -> retrieved opam-depext.1.2.3 (cached) -> removed opam-depext.1.2.3 -> installed opam-depext.1.2.3 Done. <><> opam-depext.1.2.3 installed successfully <><><><><><><><><><><><><><><><><> => opam-depext is unnecessary when used with opam >= 2.1. Please use opam install directly instead # Run eval $(opam env) to update the current shell environment <><> Carrying on to "opam depext -viy molenc.17.0.1 vector3.1.0.0 stdlib-shims.0.3.0 stdcompat.19 sexplib0.v0.17.0 pyml.20231101 ppxlib.0.33.1~5.3preview ppx_derivers.1.2.1 parany.14.0.1 ocamlgraph.2.1.0 ocamlfind.1.9.6 ocaml-compiler-libs.v0.12.4 num.1.5-1 minicli.5.0.2 line_oriented.1.3.0 extunix.0.4.2 dune-configurator.3.16.0 dune.3.16.0 dolog.6.0.0 dokeysto.4.0.1 csexp.1.5.2 cpu.2.0.0 cpm.12.2.0 conf-which.1 conf-rdkit.1 conf-python-3.9.0.0 conf-graphviz.0.1 conf-autoconf.0.2 camlp-streams.5.0.1 bst.7.1.0 batteries.3.8.0 base-bytes.base" Since version 2.1, opam now handles external dependencies alongside OCaml ones, and the `depext` plugin interface is provided for backwards compatibility only. Consider using your usual `opam install` command to install both OCaml and system dependencies, or `opam install <pkg> --depext-only` if you want to only install external dependencies. # Detecting depexts using vars: arch=x86_64, os=linux, os-distribution=debian, os-family=debian # The following system packages are needed: autoconf debianutils graphviz librdkit-dev python3 python3-rdkit [NOTE] Package dune is already installed (current version is 3.16.0). [NOTE] Package ocamlfind is already installed (current version is 1.9.6). The following actions will be performed: - install conf-python-3 9.0.0 - install ppx_derivers 1.2.1 - install minicli 5.0.2 - install vector3 1.0.0 - install num 1.5-1 - install dolog 6.0.0 - install conf-autoconf 0.2 - install csexp 1.5.2 - install conf-rdkit 1 - install sexplib0 v0.17.0 - install ocaml-compiler-libs v0.12.4 - install conf-which 1 - install base-bytes base - install camlp-streams 5.0.1 - install stdlib-shims 0.3.0 - install stdcompat 19 - install cpu 2.0.0 - install dune-configurator 3.16.0 - install conf-graphviz 0.1 - install batteries 3.8.0 - install ppxlib 0.33.1~5.3preview - install ocamlgraph 2.1.0 - install pyml 20231101 - install parany 14.0.1 - install line_oriented 1.3.0 - install cpm 12.2.0 - install bst 7.1.0 - install extunix 0.4.2 - install dokeysto 4.0.1 - install molenc 17.0.1 ===== 30 to install ===== The following system packages will first need to be installed: autoconf graphviz librdkit-dev python3 python3-rdkit <><> Handling external dependencies <><><><><><><><><><><><><><><><><><><><><><> Let opam run your package manager to install the required system packages? (answer 'n' for other options) [Y/n] y + /usr/bin/sudo "apt-get" "install" "-qq" "-yy" "autoconf" "graphviz" "librdkit-dev" "python3" "python3-rdkit" - debconf: delaying package configuration, since apt-utils is not installed - Selecting previously unselected package libpython3.11-minimal:amd64. - (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18776 files and directories currently installed.) - Preparing to unpack .../libpython3.11-minimal_3.11.2-6+deb12u3_amd64.deb ... - Unpacking libpython3.11-minimal:amd64 (3.11.2-6+deb12u3) ... - Selecting previously unselected package python3.11-minimal. - Preparing to unpack .../python3.11-minimal_3.11.2-6+deb12u3_amd64.deb ... - Unpacking python3.11-minimal (3.11.2-6+deb12u3) ... - Setting up libpython3.11-minimal:amd64 (3.11.2-6+deb12u3) ... - Setting up python3.11-minimal (3.11.2-6+deb12u3) ... - Selecting previously unselected package python3-minimal. - (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19083 files and directories currently installed.) - Preparing to unpack .../python3-minimal_3.11.2-1+b1_amd64.deb ... - Unpacking python3-minimal (3.11.2-1+b1) ... - Selecting previously unselected package media-types. - Preparing to unpack .../media-types_10.0.0_all.deb ... - Unpacking media-types (10.0.0) ... - Selecting previously unselected package libpython3.11-stdlib:amd64. - Preparing to unpack .../libpython3.11-stdlib_3.11.2-6+deb12u3_amd64.deb ... - Unpacking libpython3.11-stdlib:amd64 (3.11.2-6+deb12u3) ... - Selecting previously unselected package python3.11. - Preparing to unpack .../python3.11_3.11.2-6+deb12u3_amd64.deb ... - Unpacking python3.11 (3.11.2-6+deb12u3) ... - Selecting previously unselected package libpython3-stdlib:amd64. - Preparing to unpack .../libpython3-stdlib_3.11.2-1+b1_amd64.deb ... - Unpacking libpython3-stdlib:amd64 (3.11.2-1+b1) ... - Setting up python3-minimal (3.11.2-1+b1) ... - Selecting previously unselected package python3. - (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19493 files and directories currently installed.) - Preparing to unpack .../00-python3_3.11.2-1+b1_amd64.deb ... - Unpacking python3 (3.11.2-1+b1) ... - Selecting previously unselected package m4. - Preparing to unpack .../01-m4_1.4.19-3_amd64.deb ... - Unpacking m4 (1.4.19-3) ... - Selecting previously unselected package autoconf. - Preparing to unpack .../02-autoconf_2.71-3_all.deb ... - Unpacking autoconf (2.71-3) ... - Selecting previously unselected package autotools-dev. - Preparing to unpack .../03-autotools-dev_20220109.1_all.deb ... - Unpacking autotools-dev (20220109.1) ... - Selecting previously unselected package automake. - Preparing to unpack .../04-automake_1%3a1.16.5-1.3_all.deb ... - Unpacking automake (1:1.16.5-1.3) ... - Selecting previously unselected package fontconfig. - Preparing to unpack .../05-fontconfig_2.14.1-4_amd64.deb ... - Unpacking fontconfig (2.14.1-4) ... - Selecting previously unselected package fonts-freefont-ttf. - Preparing to unpack .../06-fonts-freefont-ttf_20120503-10_all.deb ... - Unpacking fonts-freefont-ttf (20120503-10) ... - Selecting previously unselected package fonts-liberation2. - Preparing to unpack .../07-fonts-liberation2_2.1.5-1_all.deb ... - Unpacking fonts-liberation2 (2.1.5-1) ... - Selecting previously unselected package libann0. - Preparing to unpack .../08-libann0_1.1.2+doc-9+b1_amd64.deb ... - Unpacking libann0 (1.1.2+doc-9+b1) ... - Selecting previously unselected package libcdt5:amd64. - Preparing to unpack .../09-libcdt5_2.42.2-7+deb12u1_amd64.deb ... - Unpacking libcdt5:amd64 (2.42.2-7+deb12u1) ... - Selecting previously unselected package libcgraph6:amd64. - Preparing to unpack .../10-libcgraph6_2.42.2-7+deb12u1_amd64.deb ... - Unpacking libcgraph6:amd64 (2.42.2-7+deb12u1) ... - Selecting previously unselected package libglib2.0-0:amd64. - Preparing to unpack .../11-libglib2.0-0_2.74.6-2+deb12u3_amd64.deb ... - Unpacking libglib2.0-0:amd64 (2.74.6-2+deb12u3) ... - Selecting previously unselected package libgts-0.7-5:amd64. - Preparing to unpack .../12-libgts-0.7-5_0.7.6+darcs121130-5+b1_amd64.deb ... - Unpacking libgts-0.7-5:amd64 (0.7.6+darcs121130-5+b1) ... - Selecting previously unselected package libpixman-1-0:amd64. - Preparing to unpack .../13-libpixman-1-0_0.42.2-1_amd64.deb ... - Unpacking libpixman-1-0:amd64 (0.42.2-1) ... - Selecting previously unselected package libxcb-render0:amd64. - Preparing to unpack .../14-libxcb-render0_1.15-1_amd64.deb ... - Unpacking libxcb-render0:amd64 (1.15-1) ... - Selecting previously unselected package libxcb-shm0:amd64. - Preparing to unpack .../15-libxcb-shm0_1.15-1_amd64.deb ... - Unpacking libxcb-shm0:amd64 (1.15-1) ... - Selecting previously unselected package libxrender1:amd64. - Preparing to unpack .../16-libxrender1_1%3a0.9.10-1.1_amd64.deb ... - Unpacking libxrender1:amd64 (1:0.9.10-1.1) ... - Selecting previously unselected package libcairo2:amd64. - Preparing to unpack .../17-libcairo2_1.16.0-7_amd64.deb ... - Unpacking libcairo2:amd64 (1.16.0-7) ... - Selecting previously unselected package libltdl7:amd64. - Preparing to unpack .../18-libltdl7_2.4.7-7~deb12u1_amd64.deb ... - Unpacking libltdl7:amd64 (2.4.7-7~deb12u1) ... - Selecting previously unselected package libfribidi0:amd64. - Preparing to unpack .../19-libfribidi0_1.0.8-2.1_amd64.deb ... - Unpacking libfribidi0:amd64 (1.0.8-2.1) ... - Selecting previously unselected package libgraphite2-3:amd64. - Preparing to unpack .../20-libgraphite2-3_1.3.14-1_amd64.deb ... - Unpacking libgraphite2-3:amd64 (1.3.14-1) ... - Selecting previously unselected package libharfbuzz0b:amd64. - Preparing to unpack .../21-libharfbuzz0b_6.0.0+dfsg-3_amd64.deb ... - Unpacking libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... - Selecting previously unselected package libthai-data. - Preparing to unpack .../22-libthai-data_0.1.29-1_all.deb ... - Unpacking libthai-data (0.1.29-1) ... - Selecting previously unselected package libdatrie1:amd64. - Preparing to unpack .../23-libdatrie1_0.2.13-2+b1_amd64.deb ... - Unpacking libdatrie1:amd64 (0.2.13-2+b1) ... - Selecting previously unselected package libthai0:amd64. - Preparing to unpack .../24-libthai0_0.1.29-1_amd64.deb ... - Unpacking libthai0:amd64 (0.1.29-1) ... - Selecting previously unselected package libpango-1.0-0:amd64. - Preparing to unpack .../25-libpango-1.0-0_1.50.12+ds-1_amd64.deb ... - Unpacking libpango-1.0-0:amd64 (1.50.12+ds-1) ... - Selecting previously unselected package libpangoft2-1.0-0:amd64. - Preparing to unpack .../26-libpangoft2-1.0-0_1.50.12+ds-1_amd64.deb ... - Unpacking libpangoft2-1.0-0:amd64 (1.50.12+ds-1) ... - Selecting previously unselected package libpangocairo-1.0-0:amd64. - Preparing to unpack .../27-libpangocairo-1.0-0_1.50.12+ds-1_amd64.deb ... - Unpacking libpangocairo-1.0-0:amd64 (1.50.12+ds-1) ... - Selecting previously unselected package libpathplan4:amd64. - Preparing to unpack .../28-libpathplan4_2.42.2-7+deb12u1_amd64.deb ... - Unpacking libpathplan4:amd64 (2.42.2-7+deb12u1) ... - Selecting previously unselected package libgvc6. - Preparing to unpack .../29-libgvc6_2.42.2-7+deb12u1_amd64.deb ... - Unpacking libgvc6 (2.42.2-7+deb12u1) ... - Selecting previously unselected package libgvpr2:amd64. - Preparing to unpack .../30-libgvpr2_2.42.2-7+deb12u1_amd64.deb ... - Unpacking libgvpr2:amd64 (2.42.2-7+deb12u1) ... - Selecting previously unselected package liblab-gamut1:amd64. - Preparing to unpack .../31-liblab-gamut1_2.42.2-7+deb12u1_amd64.deb ... - Unpacking liblab-gamut1:amd64 (2.42.2-7+deb12u1) ... - Selecting previously unselected package x11-common. - Preparing to unpack .../32-x11-common_1%3a7.7+23_all.deb ... - Unpacking x11-common (1:7.7+23) ... - Selecting previously unselected package libice6:amd64. - Preparing to unpack .../33-libice6_2%3a1.0.10-1_amd64.deb ... - Unpacking libice6:amd64 (2:1.0.10-1) ... - Selecting previously unselected package libsm6:amd64. - Preparing to unpack .../34-libsm6_2%3a1.2.3-1_amd64.deb ... - Unpacking libsm6:amd64 (2:1.2.3-1) ... - Selecting previously unselected package libxt6:amd64. - Preparing to unpack .../35-libxt6_1%3a1.2.1-1.1_amd64.deb ... - Unpacking libxt6:amd64 (1:1.2.1-1.1) ... - Selecting previously unselected package libxmu6:amd64. - Preparing to unpack .../36-libxmu6_2%3a1.1.3-3_amd64.deb ... - Unpacking libxmu6:amd64 (2:1.1.3-3) ... - Selecting previously unselected package libxaw7:amd64. - Preparing to unpack .../37-libxaw7_2%3a1.0.14-1_amd64.deb ... - Unpacking libxaw7:amd64 (2:1.0.14-1) ... - Selecting previously unselected package graphviz. - Preparing to unpack .../38-graphviz_2.42.2-7+deb12u1_amd64.deb ... - Unpacking graphviz (2.42.2-7+deb12u1) ... - Selecting previously unselected package libblas3:amd64. - Preparing to unpack .../39-libblas3_3.11.0-2_amd64.deb ... - Unpacking libblas3:amd64 (3.11.0-2) ... - Selecting previously unselected package libboost-iostreams1.74.0:amd64. - Preparing to unpack .../40-libboost-iostreams1.74.0_1.74.0+ds1-21_amd64.deb ... - Unpacking libboost-iostreams1.74.0:amd64 (1.74.0+ds1-21) ... - Selecting previously unselected package libboost-python1.74.0. - Preparing to unpack .../41-libboost-python1.74.0_1.74.0+ds1-21_amd64.deb ... - Unpacking libboost-python1.74.0 (1.74.0+ds1-21) ... - Selecting previously unselected package libboost-serialization1.74.0:amd64. - Preparing to unpack .../42-libboost-serialization1.74.0_1.74.0+ds1-21_amd64.deb ... - Unpacking libboost-serialization1.74.0:amd64 (1.74.0+ds1-21) ... - Selecting previously unselected package libcoordgen3:amd64. - Preparing to unpack .../43-libcoordgen3_3.0.1-1_amd64.deb ... - Unpacking libcoordgen3:amd64 (3.0.1-1) ... - Selecting previously unselected package libgfortran5:amd64. - Preparing to unpack .../44-libgfortran5_12.2.0-14_amd64.deb ... - Unpacking libgfortran5:amd64 (12.2.0-14) ... - Selecting previously unselected package libglib2.0-data. - Preparing to unpack .../45-libglib2.0-data_2.74.6-2+deb12u3_all.deb ... - Unpacking libglib2.0-data (2.74.6-2+deb12u3) ... - Selecting previously unselected package libgts-bin. - Preparing to unpack .../46-libgts-bin_0.7.6+darcs121130-5+b1_amd64.deb ... - Unpacking libgts-bin (0.7.6+darcs121130-5+b1) ... - Selecting previously unselected package libicu72:amd64. - Preparing to unpack .../47-libicu72_72.1-3_amd64.deb ... - Unpacking libicu72:amd64 (72.1-3) ... - Selecting previously unselected package liblapack3:amd64. - Preparing to unpack .../48-liblapack3_3.11.0-2_amd64.deb ... - Unpacking liblapack3:amd64 (3.11.0-2) ... - Selecting previously unselected package libmaeparser1:amd64. - Preparing to unpack .../49-libmaeparser1_1.3.0-1_amd64.deb ... - Unpacking libmaeparser1:amd64 (1.3.0-1) ... - Selecting previously unselected package libpython3.11:amd64. - Preparing to unpack .../50-libpython3.11_3.11.2-6+deb12u3_amd64.deb ... - Unpacking libpython3.11:amd64 (3.11.2-6+deb12u3) ... - Selecting previously unselected package librdkit1. - Preparing to unpack .../51-librdkit1_202209.3-1_amd64.deb ... - Unpacking librdkit1 (202209.3-1) ... - Selecting previously unselected package librdkit-dev. - Preparing to unpack .../52-librdkit-dev_202209.3-1_amd64.deb ... - Unpacking librdkit-dev (202209.3-1) ... - Selecting previously unselected package libxml2:amd64. - Preparing to unpack .../53-libxml2_2.9.14+dfsg-1.3~deb12u1_amd64.deb ... - Unpacking libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... - Selecting previously unselected package python3-pkg-resources. - Preparing to unpack .../54-python3-pkg-resources_66.1.1-1_all.deb ... - Unpacking python3-pkg-resources (66.1.1-1) ... - Selecting previously unselected package python3-numpy. - Preparing to unpack .../55-python3-numpy_1%3a1.24.2-1+deb12u1_amd64.deb ... - Unpacking python3-numpy (1:1.24.2-1+deb12u1) ... - Selecting previously unselected package rdkit-data. - Preparing to unpack .../56-rdkit-data_202209.3-1_all.deb ... - Unpacking rdkit-data (202209.3-1) ... - Selecting previously unselected package python3-rdkit. - Preparing to unpack .../57-python3-rdkit_202209.3-1_amd64.deb ... - Unpacking python3-rdkit (202209.3-1) ... - Selecting previously unselected package shared-mime-info. - Preparing to unpack .../58-shared-mime-info_2.2-1_amd64.deb ... - Unpacking shared-mime-info (2.2-1) ... - Selecting previously unselected package xdg-user-dirs. - Preparing to unpack .../59-xdg-user-dirs_0.18-1_amd64.deb ... - Unpacking xdg-user-dirs (0.18-1) ... - Setting up media-types (10.0.0) ... - Setting up libgraphite2-3:amd64 (1.3.14-1) ... - Setting up libpixman-1-0:amd64 (0.42.2-1) ... - Setting up fontconfig (2.14.1-4) ... - Regenerating fonts cache... - done. - Setting up libicu72:amd64 (72.1-3) ... - Setting up libxrender1:amd64 (1:0.9.10-1.1) ... - Setting up libdatrie1:amd64 (0.2.13-2+b1) ... - Setting up xdg-user-dirs (0.18-1) ... - Setting up libxcb-render0:amd64 (1.15-1) ... - Setting up libglib2.0-0:amd64 (2.74.6-2+deb12u3) ... - No schema files found: doing nothing. - Setting up libboost-iostreams1.74.0:amd64 (1.74.0+ds1-21) ... - Setting up libpython3.11-stdlib:amd64 (3.11.2-6+deb12u3) ... - Setting up liblab-gamut1:amd64 (2.42.2-7+deb12u1) ... - Setting up x11-common (1:7.7+23) ... - invoke-rc.d: could not determine current runlevel - invoke-rc.d: policy-rc.d denied execution of restart. - Setting up fonts-freefont-ttf (20120503-10) ... - Setting up m4 (1.4.19-3) ... - Setting up libxcb-shm0:amd64 (1.15-1) ... - Setting up rdkit-data (202209.3-1) ... - Setting up libcairo2:amd64 (1.16.0-7) ... - Setting up libmaeparser1:amd64 (1.3.0-1) ... - Setting up libgts-0.7-5:amd64 (0.7.6+darcs121130-5+b1) ... - Setting up autotools-dev (20220109.1) ... - Setting up libblas3:amd64 (3.11.0-2) ... - 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 libglib2.0-data (2.74.6-2+deb12u3) ... - Setting up fonts-liberation2 (2.1.5-1) ... - Setting up libpathplan4:amd64 (2.42.2-7+deb12u1) ... - Setting up libann0 (1.1.2+doc-9+b1) ... - Setting up libfribidi0:amd64 (1.0.8-2.1) ... - Setting up libltdl7:amd64 (2.4.7-7~deb12u1) ... - Setting up libgfortran5:amd64 (12.2.0-14) ... - Setting up autoconf (2.71-3) ... - Setting up libboost-serialization1.74.0:amd64 (1.74.0+ds1-21) ... - Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... - Setting up libthai-data (0.1.29-1) ... - Setting up libcdt5:amd64 (2.42.2-7+deb12u1) ... - Setting up libcgraph6:amd64 (2.42.2-7+deb12u1) ... - Setting up libcoordgen3:amd64 (3.0.1-1) ... - Setting up libboost-python1.74.0 (1.74.0+ds1-21) ... - Setting up libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... - Setting up libpython3-stdlib:amd64 (3.11.2-1+b1) ... - Setting up automake (1:1.16.5-1.3) ... - update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode - Setting up libgts-bin (0.7.6+darcs121130-5+b1) ... - Setting up python3.11 (3.11.2-6+deb12u3) ... - Setting up libice6:amd64 (2:1.0.10-1) ... - Setting up liblapack3:amd64 (3.11.0-2) ... - 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 libpython3.11:amd64 (3.11.2-6+deb12u3) ... - Setting up librdkit1 (202209.3-1) ... - Setting up python3 (3.11.2-1+b1) ... - running python rtupdate hooks for python3.11... - running python post-rtupdate hooks for python3.11... - Setting up libthai0:amd64 (0.1.29-1) ... - Setting up shared-mime-info (2.2-1) ... - Setting up librdkit-dev (202209.3-1) ... - Setting up libgvpr2:amd64 (2.42.2-7+deb12u1) ... - Setting up libsm6:amd64 (2:1.2.3-1) ... - Setting up python3-pkg-resources (66.1.1-1) ... - Setting up libpango-1.0-0:amd64 (1.50.12+ds-1) ... - Setting up libxt6:amd64 (1:1.2.1-1.1) ... - Setting up python3-numpy (1:1.24.2-1+deb12u1) ... - Setting up libpangoft2-1.0-0:amd64 (1.50.12+ds-1) ... - Setting up libpangocairo-1.0-0:amd64 (1.50.12+ds-1) ... - Setting up libxmu6:amd64 (2:1.1.3-3) ... - Setting up libxaw7:amd64 (2:1.0.14-1) ... - Setting up python3-rdkit (202209.3-1) ... - Setting up libgvc6 (2.42.2-7+deb12u1) ... - Setting up graphviz (2.42.2-7+deb12u1) ... - Processing triggers for libc-bin (2.36-9+deb12u8) ... <><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><> Processing 2/90: Processing 3/90: [bst.7.1.0: http] Processing 4/90: [bst.7.1.0: http] Processing 5/90: [bst.7.1.0: http] -> installed base-bytes.base Processing 6/90: [bst.7.1.0: http] -> retrieved batteries.3.8.0 (cached) Processing 7/90: [bst.7.1.0: http] Processing 8/90: [bst.7.1.0: http] -> retrieved conf-python-3.9.0.0 (cached) Processing 9/90: [bst.7.1.0: http] Processing 10/90: [bst.7.1.0: http] [conf-rdkit.1/test.cpp: dl] Processing 11/90: [bst.7.1.0: http] [conf-rdkit.1/test.cpp: dl] [conf-autoconf: autoconf] Processing 12/90: [bst.7.1.0: http] [conf-rdkit.1/test.cpp: dl] [conf-autoconf: autoconf] [conf-python-3: python3 test.py] Processing 12/90: [conf-rdkit.1/test.cpp: dl] [conf-autoconf: autoconf] [conf-python-3: python3 test.py] -> retrieved camlp-streams.5.0.1 (cached) Processing 13/90: [conf-rdkit.1/test.cpp: dl] [conf-autoconf: autoconf] [conf-python-3: python3 test.py] Processing 14/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [conf-autoconf: autoconf] [conf-python-3: python3 test.py] Processing 15/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] [conf-autoconf: autoconf] [conf-python-3: python3 test.py] Processing 16/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] [conf-autoconf: autoconf] [conf-python-3: python3 test.py] [conf-which: which which] - autoconf (GNU Autoconf) 2.71 - Copyright (C) 2021 Free Software Foundation, Inc. - License GPLv3+/Autoconf: GNU GPL version 3 or later - <https://gnu.org/licenses/gpl.html>, <https://gnu.org/licenses/exceptions.html> - This is free software: you are free to change and redistribute it. - There is NO WARRANTY, to the extent permitted by law. - - Written by David J. MacKenzie and Akim Demaille. -> compiled conf-autoconf.0.2 Processing 16/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] [conf-python-3: python3 test.py] [conf-which: which which] -> installed conf-autoconf.0.2 Processing 17/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] [conf-python-3: python3 test.py] [conf-which: which which] - python-3 OK -> compiled conf-python-3.9.0.0 Processing 17/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] [conf-which: which which] -> installed conf-python-3.9.0.0 Processing 18/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] [conf-which: which which] -> retrieved bst.7.1.0 (https://github.com/UnixJunkie/bisec-tree/archive/v7.1.0.tar.gz) Processing 19/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] [conf-which: which which] - /usr/bin/which -> compiled conf-which.1 Processing 19/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] -> installed conf-which.1 Processing 20/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] Processing 21/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] [conf-graphviz: which dot] -> retrieved cpu.2.0.0 (cached) Processing 22/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] [conf-graphviz: which dot] Processing 23/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] [conf-graphviz: which dot] [cpu: autoconf] - /usr/bin/dot -> compiled conf-graphviz.0.1 Processing 23/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] [cpu: autoconf] -> installed conf-graphviz.0.1 Processing 24/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [camlp-streams: dune build] [cpu: autoconf] -> retrieved csexp.1.5.2 (cached) Processing 25/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [dokeysto.4.0.1: http] [camlp-streams: dune build] [cpu: autoconf] Processing 26/90: [conf-rdkit.1/test.cpp: dl] [cpm.12.2.0: http] [dokeysto.4.0.1: http] [camlp-streams: dune build] [cpu: autoconf] [csexp: dune build] -> retrieved conf-rdkit.1 (https://raw.githubusercontent.com/ocaml/opam-source-archives/main/patches/conf-rdkit/test.cpp) Processing 26/90: [cpm.12.2.0: http] [dokeysto.4.0.1: http] [camlp-streams: dune build] [cpu: autoconf] [csexp: dune build] Processing 27/90: [cpm.12.2.0: http] [dokeysto.4.0.1: http] [dolog.6.0.0: http] [camlp-streams: dune build] [cpu: autoconf] [csexp: dune build] Processing 28/90: [cpm.12.2.0: http] [dokeysto.4.0.1: http] [dolog.6.0.0: http] [camlp-streams: dune build] [conf-rdkit: sh] [cpu: autoconf] [csexp: dune build] Processing 28/90: [cpm.12.2.0: http] [dokeysto.4.0.1: http] [dolog.6.0.0: http] [camlp-streams: dune build] [conf-rdkit: ./test] [cpu: autoconf] [csexp: dune build] - 2022.09.3 -> compiled conf-rdkit.1 Processing 28/90: [cpm.12.2.0: http] [dokeysto.4.0.1: http] [dolog.6.0.0: http] [camlp-streams: dune build] [cpu: autoconf] [csexp: dune build] -> installed conf-rdkit.1 Processing 29/90: [cpm.12.2.0: http] [dokeysto.4.0.1: http] [dolog.6.0.0: http] [camlp-streams: dune build] [cpu: autoconf] [csexp: dune build] -> compiled csexp.1.5.2 Processing 29/90: [cpm.12.2.0: http] [dokeysto.4.0.1: http] [dolog.6.0.0: http] [camlp-streams: dune build] [cpu: autoconf] -> installed csexp.1.5.2 Processing 30/90: [cpm.12.2.0: http] [dokeysto.4.0.1: http] [dolog.6.0.0: http] [camlp-streams: dune build] [cpu: autoconf] - configure.ac:8: warning: The macro `AC_HEADER_STDC' is obsolete. - configure.ac:8: You should run autoupdate. - ./lib/autoconf/headers.m4:704: AC_HEADER_STDC is expanded from... - configure.ac:8: the top level Processing 30/90: [cpm.12.2.0: http] [dokeysto.4.0.1: http] [dolog.6.0.0: http] [camlp-streams: dune build] [cpu: autoheader] Processing 30/90: [dokeysto.4.0.1: http] [dolog.6.0.0: http] [camlp-streams: dune build] [cpu: autoheader] -> retrieved cpm.12.2.0 (https://github.com/UnixJunkie/cpmlib/archive/v12.2.0.tar.gz) Processing 31/90: [dokeysto.4.0.1: http] [dolog.6.0.0: http] [camlp-streams: dune build] [cpu: autoheader] Processing 31/90: [dolog.6.0.0: http] [camlp-streams: dune build] [cpu: autoheader] -> retrieved dokeysto.4.0.1 (https://github.com/UnixJunkie/dokeysto/archive/v4.0.1.tar.gz) Processing 32/90: [dolog.6.0.0: http] [camlp-streams: dune build] [cpu: autoheader] -> compiled camlp-streams.5.0.1 Processing 32/90: [dolog.6.0.0: http] [cpu: autoheader] -> installed camlp-streams.5.0.1 Processing 33/90: [dolog.6.0.0: http] [cpu: autoheader] -> retrieved extunix.0.4.2 (cached) Processing 34/90: [dolog.6.0.0: http] [line_oriented.1.3.0: http] [cpu: autoheader] Processing 34/90: [dolog.6.0.0: http] [line_oriented.1.3.0: http] [cpu: ./configure] Processing 34/90: [line_oriented.1.3.0: http] [cpu: ./configure] -> retrieved dolog.6.0.0 (https://github.com/UnixJunkie/dolog/archive/v6.0.0.tar.gz) Processing 35/90: [line_oriented.1.3.0: http] [minicli.5.0.2: http] [cpu: ./configure] Processing 36/90: [line_oriented.1.3.0: http] [minicli.5.0.2: http] [cpu: ./configure] [dolog: dune build] -> compiled dolog.6.0.0 Processing 36/90: [line_oriented.1.3.0: http] [minicli.5.0.2: http] [cpu: ./configure] -> installed dolog.6.0.0 Processing 37/90: [line_oriented.1.3.0: http] [minicli.5.0.2: http] [cpu: ./configure] -> retrieved dune-configurator.3.16.0 (cached) Processing 38/90: [line_oriented.1.3.0: http] [minicli.5.0.2: http] [molenc.17.0.1: http] [cpu: ./configure] Processing 39/90: [line_oriented.1.3.0: http] [minicli.5.0.2: http] [molenc.17.0.1: http] [cpu: ./configure] [dune-configurator: rm] Processing 39/90: [minicli.5.0.2: http] [molenc.17.0.1: http] [cpu: ./configure] [dune-configurator: rm] - checking for ocamlc... ocamlc - OCaml version is 5.1.1 - OCaml library path is /home/opam/.opam/5.1/lib/ocaml - checking for ocamlopt... ocamlopt - checking for ocamlc.opt... ocamlc.opt - checking for ocamlopt.opt... ocamlopt.opt - checking for dynlink.cmxa... no - checking for ocaml... ocaml - checking for ocamldep... ocamldep - checking for ocamlmktop... ocamlmktop - checking for ocamlmklib... ocamlmklib - checking for ocamldoc... ocamldoc - checking for ocamlbuild... no - checking for gcc... gcc - checking whether the C compiler works... yes - checking for C compiler default output file name... a.out - checking for suffix of executables... - checking whether we are cross compiling... no - checking for suffix of object files... o - checking whether the compiler supports GNU C... yes - checking whether gcc accepts -g... yes - checking for gcc option to enable C11 features... none needed - checking for stdio.h... yes - checking for stdlib.h... yes - checking for string.h... yes - checking for inttypes.h... yes - checking for stdint.h... yes - checking for strings.h... yes - checking for sys/stat.h... yes - checking for sys/types.h... yes - checking for unistd.h... yes - checking for grep that handles long lines and -e... /usr/bin/grep - checking for egrep... /usr/bin/grep -E - checking for sched.h... yes - checking for gcc options needed to detect all undeclared functions... none needed - checking whether sched_setaffinity is declared... yes - checking for mach/thread_policy.h... no - checking whether thread_policy_set is declared... no - configure: creating ./config.status - config.status: creating src/config.h Processing 39/90: [minicli.5.0.2: http] [molenc.17.0.1: http] [cpu: dune build] [dune-configurator: rm] Processing 39/90: [molenc.17.0.1: http] [cpu: dune build] [dune-configurator: rm] -> retrieved line_oriented.1.3.0 (https://github.com/UnixJunkie/line-oriented/archive/v1.3.0.tar.gz) Processing 40/90: [molenc.17.0.1: http] [cpu: dune build] [dune-configurator: rm] -> retrieved minicli.5.0.2 (https://github.com/UnixJunkie/minicli/archive/v5.0.2.tar.gz) Processing 41/90: [molenc.17.0.1: http] [cpu: dune build] [dune-configurator: rm] Processing 42/90: [molenc.17.0.1: http] [cpu: dune build] [dune-configurator: rm] [minicli: dune build] Processing 42/90: [molenc.17.0.1: http] [cpu: dune build] [dune-configurator: dune build] [minicli: dune build] -> retrieved num.1.5-1 (cached) Processing 43/90: [molenc.17.0.1: http] [cpu: dune build] [dune-configurator: dune build] [minicli: dune build] [num: patch] applying num-in-findlib-dir.patch Processing 44/90: [molenc.17.0.1: http] [cpu: dune build] [dune-configurator: dune build] [minicli: dune build] [num: patch] -> retrieved ocaml-compiler-libs.v0.12.4 (cached) Processing 45/90: [molenc.17.0.1: http] [parany.14.0.1: http] [cpu: dune build] [dune-configurator: dune build] [minicli: dune build] [num: patch] Processing 46/90: [molenc.17.0.1: http] [parany.14.0.1: http] [cpu: dune build] [dune-configurator: dune build] [minicli: dune build] [num: patch] [ocaml-compiler-libs: dune build] Processing 46/90: [molenc.17.0.1: http] [parany.14.0.1: http] [cpu: dune build] [dune-configurator: dune build] [minicli: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] -> retrieved ocamlgraph.2.1.0 (cached) Processing 47/90: [molenc.17.0.1: http] [parany.14.0.1: http] [cpu: dune build] [dune-configurator: dune build] [minicli: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] -> retrieved ppx_derivers.1.2.1 (cached) Processing 48/90: [molenc.17.0.1: http] [parany.14.0.1: http] [cpu: dune build] [dune-configurator: dune build] [minicli: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] Processing 49/90: [molenc.17.0.1: http] [parany.14.0.1: http] [cpu: dune build] [dune-configurator: dune build] [minicli: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] -> compiled cpu.2.0.0 Processing 49/90: [molenc.17.0.1: http] [parany.14.0.1: http] [dune-configurator: dune build] [minicli: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] -> installed cpu.2.0.0 Processing 50/90: [molenc.17.0.1: http] [parany.14.0.1: http] [dune-configurator: dune build] [minicli: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] -> compiled minicli.5.0.2 Processing 50/90: [molenc.17.0.1: http] [parany.14.0.1: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] -> installed minicli.5.0.2 Processing 51/90: [molenc.17.0.1: http] [parany.14.0.1: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] -> retrieved ppxlib.0.33.1~5.3preview (cached) Processing 52/90: [molenc.17.0.1: http] [parany.14.0.1: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] Processing 52/90: [parany.14.0.1: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] -> retrieved pyml.20231101 (cached) Processing 53/90: [parany.14.0.1: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] -> retrieved sexplib0.v0.17.0 (cached) Processing 54/90: [parany.14.0.1: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] Processing 55/90: [parany.14.0.1: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] [sexplib0: dune build] -> retrieved molenc.17.0.1 (https://github.com/UnixJunkie/molenc/archive/refs/tags/v17.0.1.tar.gz) Processing 56/90: [parany.14.0.1: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] [sexplib0: dune build] -> compiled ppx_derivers.1.2.1 Processing 56/90: [parany.14.0.1: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [sexplib0: dune build] -> installed ppx_derivers.1.2.1 Processing 57/90: [parany.14.0.1: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [sexplib0: dune build] -> retrieved stdcompat.19 (cached) Processing 58/90: [parany.14.0.1: http] [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [sexplib0: dune build] Processing 59/90: [parany.14.0.1: http] [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [sexplib0: dune build] [stdcompat: dune build] Processing 59/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [sexplib0: dune build] [stdcompat: dune build] -> retrieved stdlib-shims.0.3.0 (cached) Processing 60/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [sexplib0: dune build] [stdcompat: dune build] [stdlib-shims: dune build] -> retrieved parany.14.0.1 (https://github.com/UnixJunkie/parany/archive/v14.0.1.tar.gz) Processing 61/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [parany: dune build] [sexplib0: dune build] [stdcompat: dune build] [stdlib-shims: dune build] -> compiled parany.14.0.1 Processing 61/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [sexplib0: dune build] [stdcompat: dune build] [stdlib-shims: dune build] -> installed parany.14.0.1 Processing 62/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [sexplib0: dune build] [stdcompat: dune build] [stdlib-shims: dune build] -> compiled stdlib-shims.0.3.0 Processing 62/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [sexplib0: dune build] [stdcompat: dune build] -> installed stdlib-shims.0.3.0 Processing 63/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [sexplib0: dune build] [stdcompat: dune build] Processing 64/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ocamlgraph: dune build] [sexplib0: dune build] [stdcompat: dune build] -> compiled sexplib0.v0.17.0 Processing 64/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ocamlgraph: dune build] [stdcompat: dune build] -> installed sexplib0.v0.17.0 Processing 65/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocaml-compiler-libs: dune build] [ocamlgraph: dune build] [stdcompat: dune build] -> compiled ocaml-compiler-libs.v0.12.4 Processing 65/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocamlgraph: dune build] [stdcompat: dune build] -> installed ocaml-compiler-libs.v0.12.4 Processing 66/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocamlgraph: dune build] [stdcompat: dune build] Processing 67/90: [vector3.1.0.0: http] [dune-configurator: dune build] [num: make opam-modern] [ocamlgraph: dune build] [ppxlib: dune build] [stdcompat: dune build] Processing 67/90: [dune-configurator: dune build] [num: make opam-modern] [ocamlgraph: dune build] [ppxlib: dune build] [stdcompat: dune build] -> retrieved vector3.1.0.0 (https://github.com/HappyCrow/vector3/archive/v1.0.0.tar.gz) Processing 68/90: [dune-configurator: dune build] [num: make opam-modern] [ocamlgraph: dune build] [ppxlib: dune build] [stdcompat: dune build] [vector3: dune build] -> compiled vector3.1.0.0 Processing 68/90: [dune-configurator: dune build] [num: make opam-modern] [ocamlgraph: dune build] [ppxlib: dune build] [stdcompat: dune build] -> installed vector3.1.0.0 Processing 69/90: [dune-configurator: dune build] [num: make opam-modern] [ocamlgraph: dune build] [ppxlib: dune build] [stdcompat: dune build] -> compiled dune-configurator.3.16.0 Processing 69/90: [num: make opam-modern] [ocamlgraph: dune build] [ppxlib: dune build] [stdcompat: dune build] -> installed dune-configurator.3.16.0 Processing 70/90: [num: make opam-modern] [ocamlgraph: dune build] [ppxlib: dune build] [stdcompat: dune build] - /usr/bin/make -C src all - make[1]: Entering directory '/home/opam/.opam/5.1/.opam-switch/build/num.1.5-1/src' - ocamlc -ccopt -DBNG_ARCH_amd64 -c bng.c - ocamlc -ccopt -DBNG_ARCH_amd64 -c nat_stubs.c - ocamlmklib -oc nums bng.o nat_stubs.o - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c int_misc.mli - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c int_misc.ml - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c nat.mli - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c nat.ml - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c big_int.mli - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c big_int.ml - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c arith_flags.mli - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c arith_flags.ml - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c ratio.mli - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c ratio.ml - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c num.mli - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c num.ml - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c arith_status.mli - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c arith_status.ml - ocamlmklib -o nums -oc nums -linkall int_misc.cmo nat.cmo big_int.cmo arith_flags.cmo ratio.cmo num.cmo arith_status.cmo - cp ../toplevel/num_top_printers.mli ../toplevel/num_top.mli ../toplevel/num_top_printers.ml ../toplevel/num_top.ml . - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c num_top_printers.mli - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c num_top_printers.ml - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c num_top.mli - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c num_top.ml - ocamlc -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -a -o num_top.cma num_top_printers.cmo num_top.cmo - echo 'version = "1.6~dev"' > META.top - cat META.num-top.in >> META.top - ocamlopt -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c int_misc.ml - ocamlopt -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c nat.ml - ocamlopt -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c big_int.ml - ocamlopt -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c arith_flags.ml - ocamlopt -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c ratio.ml - ocamlopt -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c num.ml - ocamlopt -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -c arith_status.ml - ocamlmklib -o nums -oc nums -linkall int_misc.cmx nat.cmx big_int.cmx arith_flags.cmx ratio.cmx num.cmx arith_status.cmx - ocamlopt -w +a-4-9-41-42-44-45-48 -bin-annot -g -safe-string -strict-sequence -strict-formats -I +compiler-libs -I . -shared -o nums.cmxs nums.cmxa - make[1]: Leaving directory '/home/opam/.opam/5.1/.opam-switch/build/num.1.5-1/src' - cp src/num-modern.install num.install -> compiled num.1.5-1 Processing 70/90: [ocamlgraph: dune build] [ppxlib: dune build] [stdcompat: dune build] -> installed num.1.5-1 Processing 71/90: [ocamlgraph: dune build] [ppxlib: dune build] [stdcompat: dune build] Processing 72/90: [batteries: dune build] [ocamlgraph: dune build] [ppxlib: dune build] [stdcompat: dune build] -> compiled ocamlgraph.2.1.0 Processing 72/90: [batteries: dune build] [ppxlib: dune build] [stdcompat: dune build] -> installed ocamlgraph.2.1.0 Processing 73/90: [batteries: dune build] [ppxlib: dune build] [stdcompat: dune build] - (cd _build/default && ./configure) - checking for a BSD-compatible install... /usr/bin/install -c - checking whether build environment is sane... yes - checking for a race-free mkdir -p... /usr/bin/mkdir -p - checking for gawk... no - checking for mawk... mawk - checking whether make sets $(MAKE)... yes - checking whether make supports nested variables... yes - checking for ocaml... ocaml - checking for ocamlc.opt... ocamlc.opt - checking OCaml version... 5.1.1 - checking for ocamlfind... ocamlfind - checking for ocamlfind package result... no - checking for ocamlfind package seq... no - checking for ocamlfind package uchar... no - checking whether make supports the include directive... yes (GNU style) - checking for gcc... gcc - checking whether the C compiler works... yes - checking for C compiler default output file name... a.out - checking for suffix of executables... - checking whether we are cross compiling... no - checking for suffix of object files... o - checking whether the compiler supports GNU C... yes - checking whether gcc accepts -g... yes - checking for gcc option to enable C11 features... none needed - checking whether gcc understands -c and -o together... yes - checking dependency style of gcc... none - checking for stdio.h... yes - checking for stdlib.h... yes - checking for string.h... yes - checking for inttypes.h... yes - checking for stdint.h... yes - checking for strings.h... yes - checking for sys/stat.h... yes - checking for sys/types.h... yes - checking for unistd.h... yes - checking whether byte ordering is bigendian... no - checking OCaml target OS type... Unix - checking for flambda2... false - checking that generated files are newer than configure... done - configure: creating ./config.status - config.status: creating META - config.status: creating Makefile - config.status: creating stdcompat__hashtbl_ext.mli - config.status: creating stdcompat__hashtbl_ext.ml - config.status: creating stdcompat__init.mli - config.status: creating stdcompat__init.ml - config.status: creating stdcompat__root.mli - config.status: creating stdcompat__root.ml - config.status: creating stdcompat__tools.mli - config.status: creating stdcompat__tools.ml - config.status: creating stdcompat__native.ml_byte - config.status: creating stdcompat__native.ml_native - config.status: creating stdcompat_tests.ml - config.status: creating stdcompat.h - config.status: creating stdcompat__stubs.c - config.status: creating stdcompat__pervasives_s.mli - config.status: creating stdcompat__arg_s.mli - config.status: creating stdcompat__array_s.mli - config.status: creating stdcompat__arrayLabels_s.mli - config.status: creating stdcompat__atomic_s.mli - config.status: creating stdcompat__bool_s.mli - config.status: creating stdcompat__buffer_s.mli - config.status: creating stdcompat__bytes_s.mli - config.status: creating stdcompat__bytesLabels_s.mli - config.status: creating stdcompat__char_s.mli - config.status: creating stdcompat__digest_s.mli - config.status: creating stdcompat__either_s.mli - config.status: creating stdcompat__ephemeron_s.mli - config.status: creating stdcompat__filename_s.mli - config.status: creating stdcompat__float_s.mli - config.status: creating stdcompat__format_s.mli - config.status: creating stdcompat__fun_s.mli - config.status: creating stdcompat__hashtbl_s.mli - config.status: creating stdcompat__in_channel_s.mli - config.status: creating stdcompat__int_s.mli - config.status: creating stdcompat__int32_s.mli - config.status: creating stdcompat__int64_s.mli - config.status: creating stdcompat__lazy_s.mli - config.status: creating stdcompat__lexing_s.mli - config.status: creating stdcompat__list_s.mli - config.status: creating stdcompat__listLabels_s.mli - config.status: creating stdcompat__map_s.mli - config.status: creating stdcompat__moreLabels_s.mli - config.status: creating stdcompat__nativeint_s.mli - config.status: creating stdcompat__option_s.mli - config.status: creating stdcompat__out_channel_s.mli - config.status: creating stdcompat__printexc_s.mli - config.status: creating stdcompat__printf_s.mli - config.status: creating stdcompat__queue_s.mli - config.status: creating stdcompat__random_s.mli - config.status: creating stdcompat__result_s.mli - config.status: creating stdcompat__seq_s.mli - config.status: creating stdcompat__set_s.mli - config.status: creating stdcompat__stack_s.mli - config.status: creating stdcompat__string_s.mli - config.status: creating stdcompat__stringLabels_s.mli - config.status: creating stdcompat__sys_s.mli - config.status: creating stdcompat__uchar_s.mli - config.status: creating stdcompat__weak_s.mli - config.status: creating stdcompat__unit_s.mli - config.status: creating stdcompat__stdlib_s.mli - config.status: creating stdcompat__pervasives_s.ml - config.status: creating stdcompat__arg_s.ml - config.status: creating stdcompat__array_s.ml - config.status: creating stdcompat__arrayLabels_s.ml - config.status: creating stdcompat__atomic_s.ml - config.status: creating stdcompat__bool_s.ml - config.status: creating stdcompat__buffer_s.ml - config.status: creating stdcompat__bytes_s.ml - config.status: creating stdcompat__bytesLabels_s.ml - config.status: creating stdcompat__char_s.ml - config.status: creating stdcompat__digest_s.ml - config.status: creating stdcompat__either_s.ml - config.status: creating stdcompat__ephemeron_s.ml - config.status: creating stdcompat__filename_s.ml - config.status: creating stdcompat__float_s.ml - config.status: creating stdcompat__format_s.ml - config.status: creating stdcompat__fun_s.ml - config.status: creating stdcompat__hashtbl_s.ml - config.status: creating stdcompat__int_s.ml - config.status: creating stdcompat__int32_s.ml - config.status: creating stdcompat__int64_s.ml - config.status: creating stdcompat__lazy_s.ml - config.status: creating stdcompat__lexing_s.ml - config.status: creating stdcompat__list_s.ml - config.status: creating stdcompat__listLabels_s.ml - config.status: creating stdcompat__map_s.ml - config.status: creating stdcompat__moreLabels_s.ml - config.status: creating stdcompat__nativeint_s.ml - config.status: creating stdcompat__option_s.ml - config.status: creating stdcompat__printexc_s.ml - config.status: creating stdcompat__printf_s.ml - config.status: creating stdcompat__queue_s.ml - config.status: creating stdcompat__random_s.ml - config.status: creating stdcompat__result_s.ml - config.status: creating stdcompat__seq_s.ml - config.status: creating stdcompat__set_s.ml - config.status: creating stdcompat__stack_s.ml - config.status: creating stdcompat__stdlib_s.ml - config.status: creating stdcompat__string_s.ml - config.status: creating stdcompat__stringLabels_s.ml - config.status: creating stdcompat__sys_s.ml - config.status: creating stdcompat__uchar_s.ml - config.status: creating stdcompat__weak_s.ml - config.status: creating stdcompat__in_channel_s.ml - config.status: creating stdcompat__out_channel_s.ml - config.status: creating stdcompat__unit_s.ml - config.status: creating stdcompat__pervasives.ml - config.status: creating stdcompat__arg.ml - config.status: creating stdcompat__array.ml - config.status: creating stdcompat__arrayLabels.ml - config.status: creating stdcompat__atomic.ml - config.status: creating stdcompat__bool.ml - config.status: creating stdcompat__buffer.ml - config.status: creating stdcompat__bytes.ml - config.status: creating stdcompat__bytesLabels.ml - config.status: creating stdcompat__char.ml - config.status: creating stdcompat__digest.ml - config.status: creating stdcompat__either.ml - config.status: creating stdcompat__ephemeron.ml - config.status: creating stdcompat__filename.ml - config.status: creating stdcompat__float.ml - config.status: creating stdcompat__format.ml - config.status: creating stdcompat__fun.ml - config.status: creating stdcompat__hashtbl.ml - config.status: creating stdcompat__int.ml - config.status: creating stdcompat__int32.ml - config.status: creating stdcompat__int64.ml - config.status: creating stdcompat__lazy.ml - config.status: creating stdcompat__lexing.ml - config.status: creating stdcompat__list.ml - config.status: creating stdcompat__listLabels.ml - config.status: creating stdcompat__map.ml - config.status: creating stdcompat__moreLabels.ml - config.status: creating stdcompat__nativeint.ml - config.status: creating stdcompat__option.ml - config.status: creating stdcompat__printexc.ml - config.status: creating stdcompat__printf.ml - config.status: creating stdcompat__queue.ml - config.status: creating stdcompat__random.ml - config.status: creating stdcompat__result.ml - config.status: creating stdcompat__seq.ml - config.status: creating stdcompat__set.ml - config.status: creating stdcompat__stack.ml - config.status: creating stdcompat__stdlib.ml - config.status: creating stdcompat__string.ml - config.status: creating stdcompat__stringLabels.ml - config.status: creating stdcompat__sys.ml - config.status: creating stdcompat__uchar.ml - config.status: creating stdcompat__weak.ml - config.status: creating stdcompat__in_channel.ml - config.status: creating stdcompat__out_channel.ml - config.status: creating stdcompat__unit.ml - config.status: creating stdcompat__pervasives.mli - config.status: creating stdcompat__arg.mli - config.status: creating stdcompat__array.mli - config.status: creating stdcompat__arrayLabels.mli - config.status: creating stdcompat__atomic.mli - config.status: creating stdcompat__bool.mli - config.status: creating stdcompat__buffer.mli - config.status: creating stdcompat__bytes.mli - config.status: creating stdcompat__bytesLabels.mli - config.status: creating stdcompat__char.mli - config.status: creating stdcompat__digest.mli - config.status: creating stdcompat__either.mli - config.status: creating stdcompat__ephemeron.mli - config.status: creating stdcompat__filename.mli - config.status: creating stdcompat__float.mli - config.status: creating stdcompat__format.mli - config.status: creating stdcompat__fun.mli - config.status: creating stdcompat__hashtbl.mli - config.status: creating stdcompat__int.mli - config.status: creating stdcompat__int32.mli - config.status: creating stdcompat__int64.mli - config.status: creating stdcompat__lazy.mli - config.status: creating stdcompat__lexing.mli - config.status: creating stdcompat__list.mli - config.status: creating stdcompat__listLabels.mli - config.status: creating stdcompat__map.mli - config.status: creating stdcompat__moreLabels.mli - config.status: creating stdcompat__nativeint.mli - config.status: creating stdcompat__option.mli - config.status: creating stdcompat__printexc.mli - config.status: creating stdcompat__printf.mli - config.status: creating stdcompat__queue.mli - config.status: creating stdcompat__random.mli - config.status: creating stdcompat__result.mli - config.status: creating stdcompat__seq.mli - config.status: creating stdcompat__set.mli - config.status: creating stdcompat__stack.mli - config.status: creating stdcompat__stdlib.mli - config.status: creating stdcompat__string.mli - config.status: creating stdcompat__stringLabels.mli - config.status: creating stdcompat__sys.mli - config.status: creating stdcompat__uchar.mli - config.status: creating stdcompat__weak.mli - config.status: creating stdcompat__in_channel.mli - config.status: creating stdcompat__out_channel.mli - config.status: creating stdcompat__unit.mli - config.status: creating stdcompat.mli - config.status: creating stdcompat.ml - config.status: creating config.h - config.status: executing depfiles commands - configure: OCaml version is 5.1.1 - configure: Obj.magic will be used in redefinition when possible - (add --disable-magic for pure redefinitions). -> compiled stdcompat.19 Processing 73/90: [batteries: dune build] [ppxlib: dune build] -> installed stdcompat.19 Processing 74/90: [batteries: dune build] [ppxlib: dune build] Processing 75/90: [batteries: dune build] [ppxlib: dune build] [pyml: dune build] -> compiled batteries.3.8.0 Processing 75/90: [ppxlib: dune build] [pyml: dune build] -> installed batteries.3.8.0 Processing 76/90: [ppxlib: dune build] [pyml: dune build] Processing 77/90: [bst: dune build] [ppxlib: dune build] [pyml: dune build] Processing 78/90: [bst: dune build] [cpm: dune build] [ppxlib: dune build] [pyml: dune build] Processing 79/90: [bst: dune build] [cpm: dune build] [line_oriented: dune build] [ppxlib: dune build] [pyml: dune build] -> compiled line_oriented.1.3.0 Processing 79/90: [bst: dune build] [cpm: dune build] [ppxlib: dune build] [pyml: dune build] -> installed line_oriented.1.3.0 Processing 80/90: [bst: dune build] [cpm: dune build] [ppxlib: dune build] [pyml: dune build] -> compiled bst.7.1.0 Processing 80/90: [cpm: dune build] [ppxlib: dune build] [pyml: dune build] -> installed bst.7.1.0 Processing 81/90: [cpm: dune build] [ppxlib: dune build] [pyml: dune build] -> compiled cpm.12.2.0 Processing 81/90: [ppxlib: dune build] [pyml: dune build] -> installed cpm.12.2.0 Processing 82/90: [ppxlib: dune build] [pyml: dune build] -> compiled pyml.20231101 Processing 82/90: [ppxlib: dune build] -> installed pyml.20231101 Processing 83/90: [ppxlib: dune build] + /home/opam/.opam/5.1/bin/dune "build" "-p" "ppxlib" "-j" "39" "@install" (CWD=/home/opam/.opam/5.1/.opam-switch/build/ppxlib.0.33.1~5.3preview) -> compiled ppxlib.0.33.1~5.3preview -> installed ppxlib.0.33.1~5.3preview Processing 85/90: [extunix: dune build] + /home/opam/.opam/5.1/bin/dune "build" "-p" "extunix" "-j" "39" "@install" (CWD=/home/opam/.opam/5.1/.opam-switch/build/extunix.0.4.2) - (cd _build/default/src && ../discover/discover.exe) - checking EVENTFD.............ok - checking ATFILE..............ok - checking DIRFD...............ok - checking STATVFS.............ok - checking FSTATVFS............ok - checking SIOCGIFCONF.........ok - checking IFADDRS.............ok - checking INET_NTOA...........ok - checking INET_NTOP...........ok - checking UNAME...............ok - checking FADVISE.............ok - checking FALLOCATE...........ok - checking TTY_IOCTL...........ok - checking TTYNAME.............ok - checking CTERMID.............ok - checking GETTID..............ok - checking PGID................ok - checking SETREUID............ok - checking FSYNC...............ok - checking FDATASYNC...........ok - checking SYNC................ok - checking SYNCFS..............ok - checking REALPATH............ok - checking SIGNALFD............ok - checking PTRACE..............ok - checking RESOURCE............ok - checking MLOCKALL............ok - checking STRPTIME............ok - checking STRTIME.............ok - checking TIMEZONE............ok - checking TIMEGM..............ok - checking PTS.................ok - checking FCNTL...............ok - checking TCPGRP..............ok - checking EXECINFO............ok - checking SETENV..............ok - checking CLEARENV............ok - checking MKDTEMP.............ok - checking MALLOC_INFO.........ok - checking MALLOC_STATS........ok - checking MEMALIGN............ok - checking ENDIAN..............ok - checking READ_CREDENTIALS....ok - checking FEXECVE.............ok - checking SENDMSG.............ok - checking PREAD...............ok - checking PWRITE..............ok - checking READ................ok - checking WRITE...............ok - checking MKSTEMPS............ok - checking MKOSTEMPS...........ok - checking SETRESUID...........ok - checking SYSCONF.............ok - checking SPLICE..............ok - checking TEE.................ok - checking VMSPLICE............ok - checking SOCKOPT.............ok - checking TCP_KEEPIDLE........ok - checking TCP_KEEPCNT.........ok - checking TCP_KEEPINTVL.......ok - checking SO_REUSEPORT........ok - checking POLL................ok - checking SYSINFO.............ok - checking MCHECK..............ok - checking MOUNT...............ok - checking UNSHARE.............ok - checking CHROOT..............ok - checking SYSLOG..............ok -> compiled extunix.0.4.2 -> installed extunix.0.4.2 Processing 87/90: [dokeysto: dune build] + /home/opam/.opam/5.1/bin/dune "build" "-p" "dokeysto" "-j" "39" (CWD=/home/opam/.opam/5.1/.opam-switch/build/dokeysto.4.0.1) -> compiled dokeysto.4.0.1 -> installed dokeysto.4.0.1 Processing 89/90: [molenc: dune build] + /home/opam/.opam/5.1/bin/dune "build" "-p" "molenc" "-j" "39" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) -> compiled molenc.17.0.1 Processing 90/90: [molenc: cp] + /usr/bin/cp "bin/molenc_diam.py" "/home/opam/.opam/5.1/bin/molenc_diam.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_ph4.py" "/home/opam/.opam/5.1/bin/molenc_ph4.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc.sh" "/home/opam/.opam/5.1/bin/molenc.sh" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_ligprep.sh" "/home/opam/.opam/5.1/bin/molenc_ligprep.sh" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_common.py" "/home/opam/.opam/5.1/bin/molenc_common.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_lean.py" "/home/opam/.opam/5.1/bin/molenc_lean.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_lizard.py" "/home/opam/.opam/5.1/bin/molenc_lizard.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_scan.py" "/home/opam/.opam/5.1/bin/molenc_scan.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_scan.sh" "/home/opam/.opam/5.1/bin/molenc_scan.sh" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_type_atoms.py" "/home/opam/.opam/5.1/bin/molenc_type_atoms.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/smi2png.py" "/home/opam/.opam/5.1/bin/molenc_smi2png.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_smisur.py" "/home/opam/.opam/5.1/bin/molenc_smisur.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_panascan.py" "/home/opam/.opam/5.1/bin/molenc_panascan.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_scaffold.py" "/home/opam/.opam/5.1/bin/molenc_scaffold.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_deepsmi.py" "/home/opam/.opam/5.1/bin/molenc_deepsmi.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_lead.py" "/home/opam/.opam/5.1/bin/molenc_lead.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_drug.py" "/home/opam/.opam/5.1/bin/molenc_drug.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_smi2cansmi.py" "/home/opam/.opam/5.1/bin/molenc_smi2cansmi.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_std.py" "/home/opam/.opam/5.1/bin/molenc_std.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_padel.py" "/home/opam/.opam/5.1/bin/molenc_padel.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_rotbond.py" "/home/opam/.opam/5.1/bin/molenc_rotbond.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_mview.py" "/home/opam/.opam/5.1/bin/molenc_mview.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_HA.py" "/home/opam/.opam/5.1/bin/molenc_HA.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_sdf2smi.py" "/home/opam/.opam/5.1/bin/molenc_sdf2smi.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_atoms_filter.py" "/home/opam/.opam/5.1/bin/molenc_atoms_filter.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_gpr.py" "/home/opam/.opam/5.1/bin/molenc_gpr.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_stable.py" "/home/opam/.opam/5.1/bin/molenc_stable.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_thash.py" "/home/opam/.opam/5.1/bin/molenc_thash.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/molenc_SA.py" "/home/opam/.opam/5.1/bin/molenc_SA.py" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) + /usr/bin/cp "bin/fpscores.pkl.gz" "/home/opam/.opam/5.1/bin/fpscores.pkl.gz" (CWD=/home/opam/.opam/5.1/.opam-switch/build/molenc.17.0.1) -> installed molenc.17.0.1 Done. # Run eval $(opam env) to update the current shell environment 2024-10-02 21:20.18 ---> saved as "6167eba9e64e7b98d77ccac16a56223296f6bf52beb046c1e28da938e4fe1f90" /home/opam: (run (shell "opam exec -- ~/voodoo-prep -u molenc:5ba11bfa0c82b54cdcb54866db9ab932,extunix:04485a9d965075dadf4888db5f86822f,dokeysto:353a1cf5ef768c425126f92d2d38dd98")) 2024-10-02 21:20.19 ---> saved as "1bc3992c2b2ab9f8d4411b8c918c435f23c18c048a1e5695333d8233624f9b5c" /home/opam: (run (network host) (secrets (ssh_privkey (target /home/opam/.ssh/id_rsa)) (ssh_pubkey (target /home/opam/.ssh/id_rsa.pub)) (ssh_config (target /home/opam/.ssh/config))) (shell "(echo '0.181031') && (for DATA in prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1,dokeysto.4.0.1-353a1cf5ef768c425126f92d2d38dd98,dokeysto.4.0.1 prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2,extunix.0.4.2-04485a9d965075dadf4888db5f86822f,extunix.0.4.2 prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1,molenc.17.0.1-5ba11bfa0c82b54cdcb54866db9ab932,molenc.17.0.1; do IFS=\",\"; set -- $DATA; ([ -d $1 ] || (echo \"FAILED:$2\" && mkdir -p $1 && cp ~/opam.err.log $1 && opam show $3 --raw > $1/opam)) && (shopt -s nullglob && ((tar -cvf $1.tar $1/* && rm -R $1/* && mv $1.tar $1/content.tar) || (echo 'Empty directory'))) done) && (for DATA in prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1,dokeysto.4.0.1-353a1cf5ef768c425126f92d2d38dd98,dokeysto.4.0.1 prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2,extunix.0.4.2-04485a9d965075dadf4888db5f86822f,extunix.0.4.2 prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1,molenc.17.0.1-5ba11bfa0c82b54cdcb54866db9ab932,molenc.17.0.1; do IFS=\",\"; set -- $DATA; rsync -aR --no-p ./$1 docs.ci.ocaml.org:/data/.; done) && (for DATA in prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1,dokeysto.4.0.1-353a1cf5ef768c425126f92d2d38dd98,dokeysto.4.0.1 prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2,extunix.0.4.2-04485a9d965075dadf4888db5f86822f,extunix.0.4.2 prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1,molenc.17.0.1-5ba11bfa0c82b54cdcb54866db9ab932,molenc.17.0.1; do IFS=\",\"; set -- $DATA; HASH=$((sha256sum $1/content.tar | cut -d \" \" -f 1) || echo -n 'empty'); printf \"HASHES:$2:$HASH\\n\"; done)")) 0.181031 prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/doc/ prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/doc/dokeysto/ prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/doc/dokeysto/LICENSE prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/doc/dokeysto/README.md prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/ prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/ prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto.ocamlobjinfo prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/META prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto.cmi prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto.cmt prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Common.cmi prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Common.cmt prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Db.cmi prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Db.cmt prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Db.cmti prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Db_gen.cmi prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Db_gen.cmt prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Db_gen.cmti prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Gen_gen.cmi prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Gen_gen.cmt prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Internal.cmi prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Internal.cmt prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Utls.cmi prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dokeysto__Utls.cmt prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/lib/dokeysto/dune-package prep/universes/353a1cf5ef768c425126f92d2d38dd98/dokeysto/4.0.1/opam prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/doc/ prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/doc/extunix/ prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/doc/extunix/CHANGES.txt prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/doc/extunix/LICENSE.txt prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/doc/extunix/README.md prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/ prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/ prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/ExtUnix.ocamlobjinfo prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/META prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/dune-package prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/extUnix.cmi prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/extUnix.cmti prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/extUnix__.cmi prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/extUnix__.cmt prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/extUnix__All.cmi prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/extUnix__All.cmt prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/extUnix__Config.cmi prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/extUnix__Config.cmt prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/extUnix__Specific.cmi prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/lib/extunix/extUnix__Specific.cmt prep/universes/04485a9d965075dadf4888db5f86822f/extunix/0.4.2/opam prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/doc/ prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/doc/molenc/ prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/doc/molenc/LICENSE prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/doc/molenc/README.md prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/ prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/ prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc.ocamlobjinfo prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/META prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/dune-package prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Ap_types.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Ap_types.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Atom_env.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Atom_env.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Atom_pair.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Atom_pair.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Bloom.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Bloom.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Fingerprint.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Fingerprint.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__FpMol.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__FpMol.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Gram.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Gram.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Index.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Index.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__MSE_mol.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__MSE_mol.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Mini_mol.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Mini_mol.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__MyList.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__MyList.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Node.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Node.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Norm.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Norm.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__PiEltHA.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__PiEltHA.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Ptable.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Ptable.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Rdkit.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Rdkit.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Scale.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Scale.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Sdf_3D.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Sdf_3D.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Utls.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__Utls.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__WMH.cmi prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/lib/molenc/molenc__WMH.cmt prep/universes/5ba11bfa0c82b54cdcb54866db9ab932/molenc/17.0.1/opam Warning: Permanently added '[docs.ci.ocaml.org]:2222' (ED25519) to the list of known hosts. Warning: Permanently added '[docs.ci.ocaml.org]:2222' (ED25519) to the list of known hosts. Warning: Permanently added '[docs.ci.ocaml.org]:2222' (ED25519) to the list of known hosts. HASHES:dokeysto.4.0.1-353a1cf5ef768c425126f92d2d38dd98:73544afbbd85edadd15a0bb58d8138c10cd02b83b0dc2dbb31b153d9c1df8c75 HASHES:extunix.0.4.2-04485a9d965075dadf4888db5f86822f:a7557aad9aac4377b3031d2e08c4d75b88d8bd3d2b8b96e559b69e4245a457ef HASHES:molenc.17.0.1-5ba11bfa0c82b54cdcb54866db9ab932:8a8f7cb8b6f2c4cb14beddfdadc6b197f61f34fc33319793b1a9cddb0783b5a1 2024-10-02 21:20.22 ---> saved as "97e4453dcb64421b7b72b5f252577b9a3d649b56cb7eface82066ad6b52f3fa3" Job succeeded 2024-10-02 21:27.34: molenc.17.0.1-5ba11bfa0c82b54cdcb54866db9ab932 -> 8a8f7cb8b6f2c4cb14beddfdadc6b197f61f34fc33319793b1a9cddb0783b5a1 2024-10-02 21:27.34: extunix.0.4.2-04485a9d965075dadf4888db5f86822f -> a7557aad9aac4377b3031d2e08c4d75b88d8bd3d2b8b96e559b69e4245a457ef 2024-10-02 21:27.34: dokeysto.4.0.1-353a1cf5ef768c425126f92d2d38dd98 -> 73544afbbd85edadd15a0bb58d8138c10cd02b83b0dc2dbb31b153d9c1df8c75 2024-10-02 21:27.34: Job succeeded