Build:
- 0
2024-09-12 08:34.45: New job: Voodoo prep bio_io.0.5.1; 3b418dbce2772e3ae26a5be27ecd2b1e 2024-09-12 08:34.45: Connecting to build cluster… 2024-09-12 08:34.45: Waiting for resource in pool OCluster 2024-09-12 11:36.36: Waiting for worker… 2024-09-12 11:38.16: Got resource from pool OCluster 2024-09-12 11:38.16: 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@sha256:75bd1ae213986d8838505129c07e17fc5916ce86841a444e1bf5d1c9bcf5332b) (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@sha256:75bd1ae213986d8838505129c07e17fc5916ce86841a444e1bf5d1c9bcf5332b) (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")) (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 bio_io.0.5.1 stdlib-shims.0.3.0 stdio.v0.16.0 sexplib0.v0.16.0 ppxlib.0.33.0 ppx_sexp_conv.v0.16.0 ppx_fields_conv.v0.16.0 ppx_derivers.1.2.1 ppx_compare.v0.16.0 ocaml-compiler-libs.v0.12.4 fieldslib.v0.16.0 dune-configurator.3.16.0 dune.3.16.0 csexp.1.5.2 conf-bash.1 base.v0.16.3 2>&1 | tee ~/opam.err.log) || echo 'Failed to install all packages')")) (run (shell "opam exec -- ~/voodoo-prep -u bio_io:3b418dbce2772e3ae26a5be27ecd2b1e")) (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 '0.221287') && (for DATA in prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1,bio_io.0.5.1-3b418dbce2772e3ae26a5be27ecd2b1e,bio_io.0.5.1; 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/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1,bio_io.0.5.1-3b418dbce2772e3ae26a5be27ecd2b1e,bio_io.0.5.1; do IFS=\",\"; set -- $DATA; rsync -aR --no-p ./$1 docs.ci.ocaml.org:/data/.; done) && (for DATA in prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1,bio_io.0.5.1-3b418dbce2772e3ae26a5be27ecd2b1e,bio_io.0.5.1; 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 e02e5286a726df2d946d936f0a69edb933ddd988 --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 2024-09-12 11:38.16: RETRYING: 2024-09-12/083445-voodoo-prep-c36dfb Number of retries: 0 (retriable error condition) Building on doris.caelum.ci.dev All commits already cached Updating files: 69% (22308/32043) Updating files: 70% (22431/32043) Updating files: 71% (22751/32043) Updating files: 72% (23071/32043) Updating files: 73% (23392/32043) Updating files: 74% (23712/32043) Updating files: 75% (24033/32043) Updating files: 76% (24353/32043) Updating files: 77% (24674/32043) Updating files: 78% (24994/32043) Updating files: 79% (25314/32043) Updating files: 80% (25635/32043) Updating files: 81% (25955/32043) Updating files: 82% (26276/32043) Updating files: 83% (26596/32043) Updating files: 84% (26917/32043) Updating files: 85% (27237/32043) Updating files: 86% (27557/32043) Updating files: 87% (27878/32043) Updating files: 88% (28198/32043) Updating files: 89% (28519/32043) Updating files: 90% (28839/32043) Updating files: 91% (29160/32043) Updating files: 92% (29480/32043) Updating files: 93% (29800/32043) Updating files: 94% (30121/32043) Updating files: 95% (30441/32043) Updating files: 96% (30762/32043) Updating files: 97% (31082/32043) Updating files: 98% (31403/32043) Updating files: 99% (31723/32043) Updating files: 100% (32043/32043) Updating files: 100% (32043/32043), done. HEAD is now at e02e5286a7 Release ppxlib.0.33.0 (build "tools" …) (from ocaml/opam:debian-12-ocaml-5.1@sha256:75bd1ae213986d8838505129c07e17fc5916ce86841a444e1bf5d1c9bcf5332b) 2024-09-12 11:32.22 ---> using "4c7d809399bb207da0fd7e41f1744e0b774f33b83c9f971e29ee4e527ca6a31c" from cache /: (user (uid 1000) (gid 1000)) /: (workdir /home/opam) /home/opam: (run (shell "sudo chown opam:opam /home/opam")) 2024-09-12 11:32.22 ---> using "dfe5e4646be142d6fc9d6a77140d209b028acc1d77475a5901c4ed3a5b4fb944" from cache /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 bookworm-updates/main amd64 Packages.diff/Index [11.7 kB] Get:5 http://deb.debian.org/debian bookworm-updates/main amd64 Packages T-2024-09-10-2011.55-F-2024-09-10-2011.55.pdiff [1116 B] Get:5 http://deb.debian.org/debian bookworm-updates/main amd64 Packages T-2024-09-10-2011.55-F-2024-09-10-2011.55.pdiff [1116 B] Get:6 http://deb.debian.org/debian-security bookworm-security/main amd64 Packages [179 kB] Fetched 295 kB in 1s (406 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 (6833 kB/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 ... 18764 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) ... 2024-09-12 11:32.22 ---> using "00bd9b10ee4005c80d7af1faad8dfcb4e6ab122a52aeb43a33fdea8ec26bd562" from cache /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 jsonm.1.0.2 -> installed fpath.0.7.3 -> installed logs.0.7.0 -> installed dune.3.16.0 -> installed stdlib-shims.0.3.0 -> installed swhid_core.0.1 -> installed bos.0.2.1 -> 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 2024-09-12 11:32.22 ---> using "c0ffca0379d767eba96c496d9c3d5a7963b49f0084e5d4e2addf8acd8b75d3e3" from cache /home/opam: (run (shell "cp $(opam config var bin)/voodoo-prep /home/opam")) 2024-09-12 11:32.22 ---> using "b3e1bb4015a777b85e55a6a5ba3e4cb907c2d4ba79725c400a82b494d511dc59" from cache 2024-09-12 11:32.22 --> finished "tools" (from ocaml/opam:debian-12-ocaml-5.1@sha256:75bd1ae213986d8838505129c07e17fc5916ce86841a444e1bf5d1c9bcf5332b) 2024-09-12 11:32.22 ---> using "4c7d809399bb207da0fd7e41f1744e0b774f33b83c9f971e29ee4e527ca6a31c" from cache /: (user (uid 1000) (gid 1000)) /: (workdir /home/opam) /home/opam: (run (shell "sudo chown opam:opam /home/opam")) 2024-09-12 11:32.22 ---> using "dfe5e4646be142d6fc9d6a77140d209b028acc1d77475a5901c4ed3a5b4fb944" from cache /home/opam: (run (shell "sudo mkdir /src")) 2024-09-12 11:32.22 ---> using "2b0e5c6a092f9ca1bbda95f5b7a2ea41fa9d1fb5a59427c4d5a1765abb041698" from cache /home/opam: (copy (src packages) (dst /src/packages)) 2024-09-12 11:32.23 ---> using "602c1833abf02b2424c900cbd9f553a63bc8c0216d612772e472313c58a3d6b3" from cache /home/opam: (copy (src repo) (dst /src/repo)) 2024-09-12 11:32.23 ---> using "ecd4f5551b42e0d32987af52d7b9c80d953aa4ea18f29da13e04a579af4367e4" from cache /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 2024-09-12 11:32.23 ---> using "4d0e41930d9cebb136cf3aa2ebeb7ddacbcc57e89836ebdb87bbba009e35731c" from cache /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. 2024-09-12 11:32.23 ---> using "3ba5606cb18422c5ae45f7dce8734dfd0de6a5aef95f6cb47f96c0247074f5a4" from cache /home/opam: (copy (from (build tools)) (src /home/opam/voodoo-prep) (dst /home/opam/)) 2024-09-12 11:32.24 ---> using "e373aaa7af877ceca50df8863584583fa50747df9970f0a61ad5193e8027ef6c" from cache /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")) The following actions will be performed: - install dune 3.16.0 <><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><> -> retrieved dune.3.16.0 (cached) -> installed dune.3.16.0 Done. # Run eval $(opam env) to update the current shell environment 2024-09-12 11:32.24 ---> using "c56f2ee19665f3d1aeba63bc286be16b93c13c4998ff318b2d94506535719c1f" from cache /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 bio_io.0.5.1 stdlib-shims.0.3.0 stdio.v0.16.0 sexplib0.v0.16.0 ppxlib.0.33.0 ppx_sexp_conv.v0.16.0 ppx_fields_conv.v0.16.0 ppx_derivers.1.2.1 ppx_compare.v0.16.0 ocaml-compiler-libs.v0.12.4 fieldslib.v0.16.0 dune-configurator.3.16.0 dune.3.16.0 csexp.1.5.2 conf-bash.1 base.v0.16.3 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 bookworm-updates/main amd64 Packages.diff/Index [11.7 kB] Get:5 http://deb.debian.org/debian bookworm-updates/main amd64 Packages T-2024-09-10-2011.55-F-2024-09-10-2011.55.pdiff [1116 B] Get:5 http://deb.debian.org/debian bookworm-updates/main amd64 Packages T-2024-09-10-2011.55-F-2024-09-10-2011.55.pdiff [1116 B] Get:6 http://deb.debian.org/debian-security bookworm-security/main amd64 Packages [179 kB] Fetched 295 kB in 0s (871 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 bio_io.0.5.1 stdlib-shims.0.3.0 stdio.v0.16.0 sexplib0.v0.16.0 ppxlib.0.33.0 ppx_sexp_conv.v0.16.0 ppx_fields_conv.v0.16.0 ppx_derivers.1.2.1 ppx_compare.v0.16.0 ocaml-compiler-libs.v0.12.4 fieldslib.v0.16.0 dune-configurator.3.16.0 dune.3.16.0 csexp.1.5.2 conf-bash.1 base.v0.16.3" 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 # No extra OS packages requirements found. [NOTE] Package dune is already installed (current version is 3.16.0). The following actions will be performed: - install ppx_derivers 1.2.1 - install csexp 1.5.2 - install ocaml-compiler-libs v0.12.4 - install conf-bash 1 - install sexplib0 v0.16.0 - install stdlib-shims 0.3.0 - install dune-configurator 3.16.0 - install ppxlib 0.33.0 - install base v0.16.3 - install stdio v0.16.0 - install ppx_sexp_conv v0.16.0 - install ppx_compare v0.16.0 - install fieldslib v0.16.0 - install ppx_fields_conv v0.16.0 - install bio_io 0.5.1 ===== 15 to install ===== <><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><> Processing 1/45: Processing 2/45: Processing 3/45: Processing 4/45: Processing 5/45: [conf-bash: bash] -> retrieved base.v0.16.3 (cached) Processing 6/45: [conf-bash: bash] -> retrieved bio_io.0.5.1 (cached) Processing 7/45: [conf-bash: bash] -> retrieved csexp.1.5.2 (cached) Processing 8/45: [conf-bash: bash] Processing 9/45: [conf-bash: bash] [csexp: dune build] - GNU bash, version 5.2.15(1)-release (x86_64-pc-linux-gnu) - Copyright (C) 2022 Free Software Foundation, Inc. - License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html> - - This is free software; you are free to change and redistribute it. - There is NO WARRANTY, to the extent permitted by law. -> compiled conf-bash.1 Processing 9/45: [csexp: dune build] -> installed conf-bash.1 Processing 10/45: [csexp: dune build] -> retrieved fieldslib.v0.16.0 (cached) Processing 11/45: [csexp: dune build] -> retrieved ocaml-compiler-libs.v0.12.4 (cached) Processing 12/45: [csexp: dune build] Processing 13/45: [csexp: dune build] [ocaml-compiler-libs: dune build] -> retrieved ppx_compare.v0.16.0 (cached) Processing 14/45: [csexp: dune build] [ocaml-compiler-libs: dune build] -> retrieved ppx_derivers.1.2.1 (cached) Processing 15/45: [csexp: dune build] [ocaml-compiler-libs: dune build] Processing 16/45: [csexp: dune build] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] -> retrieved ppx_fields_conv.v0.16.0 (cached) Processing 17/45: [csexp: dune build] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] -> retrieved ppx_sexp_conv.v0.16.0 (cached) Processing 18/45: [csexp: dune build] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] -> retrieved sexplib0.v0.16.0 (cached) Processing 19/45: [csexp: dune build] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] Processing 20/45: [csexp: dune build] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] [sexplib0: dune build] -> retrieved stdio.v0.16.0 (cached) Processing 21/45: [csexp: dune build] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] [sexplib0: dune build] -> retrieved stdlib-shims.0.3.0 (cached) Processing 22/45: [csexp: dune build] [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] [sexplib0: dune build] [stdlib-shims: dune build] -> retrieved ppxlib.0.33.0 (cached) -> compiled csexp.1.5.2 Processing 22/45: [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] [sexplib0: dune build] [stdlib-shims: dune build] -> installed csexp.1.5.2 Processing 23/45: [ocaml-compiler-libs: dune build] [ppx_derivers: dune build] [sexplib0: dune build] [stdlib-shims: dune build] -> compiled ppx_derivers.1.2.1 Processing 23/45: [ocaml-compiler-libs: dune build] [sexplib0: dune build] [stdlib-shims: dune build] -> installed ppx_derivers.1.2.1 Processing 24/45: [ocaml-compiler-libs: dune build] [sexplib0: dune build] [stdlib-shims: dune build] -> compiled stdlib-shims.0.3.0 Processing 24/45: [ocaml-compiler-libs: dune build] [sexplib0: dune build] -> installed stdlib-shims.0.3.0 Processing 25/45: [ocaml-compiler-libs: dune build] [sexplib0: dune build] -> retrieved dune-configurator.3.16.0 (cached) Processing 26/45: [dune-configurator: rm] [ocaml-compiler-libs: dune build] [sexplib0: dune build] -> compiled ocaml-compiler-libs.v0.12.4 Processing 26/45: [dune-configurator: rm] [sexplib0: dune build] -> installed ocaml-compiler-libs.v0.12.4 Processing 27/45: [dune-configurator: rm] [sexplib0: dune build] -> compiled sexplib0.v0.16.0 Processing 27/45: [dune-configurator: rm] -> installed sexplib0.v0.16.0 Processing 28/45: [dune-configurator: rm] Processing 29/45: [dune-configurator: rm] [ppxlib: dune build] Processing 29/45: [dune-configurator: dune build] [ppxlib: dune build] -> compiled dune-configurator.3.16.0 Processing 29/45: [ppxlib: dune build] -> installed dune-configurator.3.16.0 Processing 30/45: [ppxlib: dune build] Processing 31/45: [base: dune build] [ppxlib: dune build] -> compiled base.v0.16.3 Processing 31/45: [ppxlib: dune build] -> installed base.v0.16.3 Processing 32/45: [ppxlib: dune build] Processing 33/45: [fieldslib: dune build] [ppxlib: dune build] Processing 34/45: [fieldslib: dune build] [ppxlib: dune build] [stdio: dune build] -> compiled fieldslib.v0.16.0 Processing 34/45: [ppxlib: dune build] [stdio: dune build] -> installed fieldslib.v0.16.0 Processing 35/45: [ppxlib: dune build] [stdio: dune build] -> compiled stdio.v0.16.0 Processing 35/45: [ppxlib: dune build] -> installed stdio.v0.16.0 Processing 36/45: [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.0.33.0) -> compiled ppxlib.0.33.0 -> installed ppxlib.0.33.0 Processing 38/45: [ppx_compare: dune build] Processing 39/45: [ppx_compare: dune build] [ppx_fields_conv: dune build] Processing 40/45: [ppx_compare: dune build] [ppx_fields_conv: dune build] [ppx_sexp_conv: dune build] -> compiled ppx_compare.v0.16.0 Processing 40/45: [ppx_fields_conv: dune build] [ppx_sexp_conv: dune build] -> installed ppx_compare.v0.16.0 Processing 41/45: [ppx_fields_conv: dune build] [ppx_sexp_conv: dune build] -> compiled ppx_fields_conv.v0.16.0 Processing 41/45: [ppx_sexp_conv: dune build] -> installed ppx_fields_conv.v0.16.0 Processing 42/45: [ppx_sexp_conv: dune build] + /home/opam/.opam/5.1/bin/dune "build" "-p" "ppx_sexp_conv" "-j" "39" (CWD=/home/opam/.opam/5.1/.opam-switch/build/ppx_sexp_conv.v0.16.0) -> compiled ppx_sexp_conv.v0.16.0 -> installed ppx_sexp_conv.v0.16.0 Processing 44/45: [bio_io: dune build] + /home/opam/.opam/5.1/bin/dune "build" "-p" "bio_io" "-j" "39" "@install" (CWD=/home/opam/.opam/5.1/.opam-switch/build/bio_io.0.5.1) - (cd _build/default && /home/opam/.opam/5.1/bin/ocamlc.opt -w -40 -g -bin-annot -I lib/.bio_io.objs/byte -I /home/opam/.opam/5.1/lib/base -I /home/opam/.opam/5.1/lib/base/base_internalhash_types -I /home/opam/.opam/5.1/lib/base/caml -I /home/opam/.opam/5.1/lib/base/shadow_stdlib -I /home/opam/.opam/5.1/lib/fieldslib -I /home/opam/.opam/5.1/lib/ppx_compare/runtime-lib -I /home/opam/.opam/5.1/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/5.1/lib/sexplib0 -I /home/opam/.opam/5.1/lib/stdio -no-alias-deps -open Bio_io -o lib/.bio_io.objs/byte/bio_io__Private.cmo -c -impl lib/private.pp.ml) - File "lib/private.ml", line 98, characters 6-29: - 98 | Caml.Buffer.add_channel buffer ic chunk_size; - ^^^^^^^^^^^^^^^^^^^^^^^ - Alert deprecated: module Caml - [since v0.16] use Stdlib instead of Caml - (cd _build/default && /home/opam/.opam/5.1/bin/ocamlopt.opt -w -40 -g -I lib/.bio_io.objs/byte -I lib/.bio_io.objs/native -I /home/opam/.opam/5.1/lib/base -I /home/opam/.opam/5.1/lib/base/base_internalhash_types -I /home/opam/.opam/5.1/lib/base/caml -I /home/opam/.opam/5.1/lib/base/shadow_stdlib -I /home/opam/.opam/5.1/lib/fieldslib -I /home/opam/.opam/5.1/lib/ppx_compare/runtime-lib -I /home/opam/.opam/5.1/lib/ppx_sexp_conv/runtime-lib -I /home/opam/.opam/5.1/lib/sexplib0 -I /home/opam/.opam/5.1/lib/stdio -intf-suffix .ml -no-alias-deps -open Bio_io -o lib/.bio_io.objs/native/bio_io__Private.cmx -c -impl lib/private.pp.ml) - File "lib/private.ml", line 98, characters 6-29: - 98 | Caml.Buffer.add_channel buffer ic chunk_size; - ^^^^^^^^^^^^^^^^^^^^^^^ - Alert deprecated: module Caml - [since v0.16] use Stdlib instead of Caml -> compiled bio_io.0.5.1 -> installed bio_io.0.5.1 Done. # Run eval $(opam env) to update the current shell environment 2024-09-12 11:33.58 ---> saved as "51840beb2bf771db8e41dbb89aadcffc6e6c7f14e8e501430110ab8d879c2316" /home/opam: (run (shell "opam exec -- ~/voodoo-prep -u bio_io:3b418dbce2772e3ae26a5be27ecd2b1e")) 2024-09-12 11:34.00 ---> saved as "a9727201d14d40ee5b67447c046aaae0e871788fdb129189191f545c3b5da820" /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 '0.221287') && (for DATA in prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1,bio_io.0.5.1-3b418dbce2772e3ae26a5be27ecd2b1e,bio_io.0.5.1; 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/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1,bio_io.0.5.1-3b418dbce2772e3ae26a5be27ecd2b1e,bio_io.0.5.1; do IFS=\",\"; set -- $DATA; rsync -aR --no-p ./$1 docs.ci.ocaml.org:/data/.; done) && (for DATA in prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1,bio_io.0.5.1-3b418dbce2772e3ae26a5be27ecd2b1e,bio_io.0.5.1; do IFS=\",\"; set -- $DATA; HASH=$((sha256sum $1/content.tar | cut -d \" \" -f 1) || echo -n 'empty'); printf \"HASHES:$2:$HASH\\n\"; done)")) 0.221287 prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/doc/ prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/doc/bio_io/ prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/doc/bio_io/CHANGELOG.md prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/doc/bio_io/LICENSE-APACHE.txt prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/doc/bio_io/LICENSE-MIT.txt prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/doc/bio_io/README.md prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/doc/bio_io/odoc-pages/ prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/doc/bio_io/odoc-pages/index.mld prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/ prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/ prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io.ocamlobjinfo prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/META prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io.cmi prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io.cmt prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Btab.cmi prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Btab.cmt prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Btab_queries.cmi prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Btab_queries.cmt prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Cigar.cmi prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Cigar.cmt prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Cigar.cmti prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Fasta.cmi prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Fasta.cmt prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Private.cmi prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Private.cmt prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Record_in_channel.cmi prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Record_in_channel.cmt prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Utils.cmi prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/bio_io__Utils.cmt prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/lib/bio_io/dune-package prep/universes/3b418dbce2772e3ae26a5be27ecd2b1e/bio_io/0.5.1/opam Warning: Permanently added '[docs.ci.ocaml.org]:2222' (ED25519) to the list of known hosts. HASHES:bio_io.0.5.1-3b418dbce2772e3ae26a5be27ecd2b1e:11643928d08746437d1fbc11f25eddf007893b47ab1fa6ddf95b7e67be96f7be 2024-09-12 11:34.01 ---> saved as "203ab0530fa5e78e36608d071f46797a278d1755aa8091ce48c65a2efc0b7446" Job succeeded 2024-09-12 11:43.30: bio_io.0.5.1-3b418dbce2772e3ae26a5be27ecd2b1e -> 11643928d08746437d1fbc11f25eddf007893b47ab1fa6ddf95b7e67be96f7be 2024-09-12 11:43.30: Job succeeded