Build:
- 0
2024-08-27 15:46.22: New job: Voodoo prep oplsr.8.0.1; b6221ccc0e253399a4362b2906f74ad6 2024-08-27 15:46.22: Waiting for resource in pool OCluster 2024-08-27 18:21.06: Waiting for worker… 2024-08-27 18:35.44: Got resource from pool OCluster 2024-08-27 18:35.44: Using cache hint "docs-universe-prep-5.1.0" To reproduce locally: cat > prep.spec <<'END-OF-SPEC' ((build tools ((from ocaml/opam:debian-12-ocaml-5.1@sha256:77150679cb3c9870c76e77cb76ec1ad0fc2e3e3cf93b98fb6255d07eb938ea0a) (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@sha256:77150679cb3c9870c76e77cb76ec1ad0fc2e3e3cf93b98fb6255d07eb938ea0a) (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.3.15.3 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 oplsr.8.0.1 parany.14.0.1 ocamlfind.1.9.6 num.1.5 minicli.5.0.2 dune.3.15.3 dolog.6.0.0 cpu.2.0.0 cpm.12.2.0 conf-which.1 conf-r.1.0.0 conf-gnuplot.0.1 conf-autoconf.0.1 camlp-streams.5.0.1 batteries.3.8.0 2>&1 | tee ~/opam.err.log) || echo 'Failed to install all packages')")) (run (shell "opam exec -- ~/voodoo-prep -u oplsr:b6221ccc0e253399a4362b2906f74ad6")) (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 '0.753367') && (for DATA in prep/universes/b6221ccc0e253399a4362b2906f74ad6/oplsr/8.0.1,oplsr.8.0.1-b6221ccc0e253399a4362b2906f74ad6,oplsr.8.0.1; 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/b6221ccc0e253399a4362b2906f74ad6/oplsr/8.0.1,oplsr.8.0.1-b6221ccc0e253399a4362b2906f74ad6,oplsr.8.0.1; do IFS=\",\"; set -- $DATA; rsync -aR --no-p ./$1 staging.docs.ci.ocamllabs.io:/data/.; done) && (for DATA in prep/universes/b6221ccc0e253399a4362b2906f74ad6/oplsr/8.0.1,oplsr.8.0.1-b6221ccc0e253399a4362b2906f74ad6,oplsr.8.0.1; 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 ea87c49e51ff29a459422419e1688938fd77a46f --local-file prep.spec \ --pool linux-x86_64 --connect ocluster-submission.cap --cache-hint docs-universe-prep-5.1.0 \ --secret ssh_privkey:id_rsa --secret ssh_pubkey:id_rsa.pub--secret ssh_config:ssh_config 2024-08-27 18:35.44: RETRYING: 2024-08-27/154622-voodoo-prep-262d65 Number of retries: 0 (retriable error condition) Building on x86-bm-c10.sw.ocaml.org All commits already cached Updating files: 79% (24855/31368) Updating files: 80% (25095/31368) Updating files: 81% (25409/31368) Updating files: 82% (25722/31368) Updating files: 83% (26036/31368) Updating files: 84% (26350/31368) Updating files: 85% (26663/31368) Updating files: 86% (26977/31368) Updating files: 87% (27291/31368) Updating files: 88% (27604/31368) Updating files: 89% (27918/31368) Updating files: 90% (28232/31368) Updating files: 91% (28545/31368) Updating files: 92% (28859/31368) Updating files: 93% (29173/31368) Updating files: 94% (29486/31368) Updating files: 95% (29800/31368) Updating files: 96% (30114/31368) Updating files: 97% (30427/31368) Updating files: 98% (30741/31368) Updating files: 99% (31055/31368) Updating files: 100% (31368/31368) Updating files: 100% (31368/31368), done. HEAD is now at ea87c49e51 opam admin add-hashes sha256 (build "tools" …) (from ocaml/opam:debian-12-ocaml-5.1@sha256:77150679cb3c9870c76e77cb76ec1ad0fc2e3e3cf93b98fb6255d07eb938ea0a) Unable to find image 'ocaml/opam:debian-12-ocaml-5.1@sha256:77150679cb3c9870c76e77cb76ec1ad0fc2e3e3cf93b98fb6255d07eb938ea0a' locally docker.io/ocaml/opam@sha256:77150679cb3c9870c76e77cb76ec1ad0fc2e3e3cf93b98fb6255d07eb938ea0a: Pulling from ocaml/opam f063fe254241: Pulling fs layer f063fe254241: Verifying Checksum f063fe254241: Download complete f063fe254241: Pull complete Digest: sha256:77150679cb3c9870c76e77cb76ec1ad0fc2e3e3cf93b98fb6255d07eb938ea0a Status: Downloaded newer image for ocaml/opam@sha256:77150679cb3c9870c76e77cb76ec1ad0fc2e3e3cf93b98fb6255d07eb938ea0a 2024-08-27 18:35.47 ---> using "7f1fc91569c4944f2a42384167d6a5257d51f4f823a2dc27fc5cd059b17040d7" from cache /: (user (uid 1000) (gid 1000)) /: (workdir /home/opam) /home/opam: (run (shell "sudo chown opam:opam /home/opam")) 2024-08-27 18:35.47 ---> using "bc3f29ea438c9e2614414d51ac62e10cee52d78977c2addbef0ed4c0d41b35c5" 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-security bookworm-security/main amd64 Packages [179 kB] Fetched 282 kB in 0s (890 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 (7325 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 ... 18765 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+deb12u7) ... 2024-08-27 18:35.47 ---> using "614ec7772af9d76ed354c2eb70b7b3876f563f1ef6a7a4feb859ebe05e327dc0" 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 1.11.0 [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.1.11.0] 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.1.11.0 -> 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 2024-08-27 18:35.47 ---> using "ceca5acc4e202d7b9cfcea94f9c2adea7ed720e26117286981a925f91c4d2338" from cache /home/opam: (run (shell "cp $(opam config var bin)/voodoo-prep /home/opam")) 2024-08-27 18:35.47 ---> using "9a45712bf2660a9bc4b6657d5bcd781f9f0cae0573fdd83f035b20b3cbb42f72" from cache 2024-08-27 18:35.47 --> finished "tools" (from ocaml/opam:debian-12-ocaml-5.1@sha256:77150679cb3c9870c76e77cb76ec1ad0fc2e3e3cf93b98fb6255d07eb938ea0a) Unable to find image 'ocaml/opam:debian-12-ocaml-5.1@sha256:77150679cb3c9870c76e77cb76ec1ad0fc2e3e3cf93b98fb6255d07eb938ea0a' locally docker.io/ocaml/opam@sha256:77150679cb3c9870c76e77cb76ec1ad0fc2e3e3cf93b98fb6255d07eb938ea0a: Pulling from ocaml/opam f063fe254241: Pulling fs layer f063fe254241: Verifying Checksum f063fe254241: Download complete f063fe254241: Pull complete Digest: sha256:77150679cb3c9870c76e77cb76ec1ad0fc2e3e3cf93b98fb6255d07eb938ea0a Status: Downloaded newer image for ocaml/opam@sha256:77150679cb3c9870c76e77cb76ec1ad0fc2e3e3cf93b98fb6255d07eb938ea0a 2024-08-27 18:35.47 ---> using "7f1fc91569c4944f2a42384167d6a5257d51f4f823a2dc27fc5cd059b17040d7" from cache /: (user (uid 1000) (gid 1000)) /: (workdir /home/opam) /home/opam: (run (shell "sudo chown opam:opam /home/opam")) 2024-08-27 18:35.47 ---> using "bc3f29ea438c9e2614414d51ac62e10cee52d78977c2addbef0ed4c0d41b35c5" from cache /home/opam: (run (shell "sudo mkdir /src")) 2024-08-27 18:35.47 ---> using "e3f5da4bc36aaf6b25c398ac7eec585bac7e6c1717598971e405e46f7521bd10" from cache /home/opam: (copy (src packages) (dst /src/packages)) 2024-08-27 18:35.48 ---> using "76445690704b2bf586c0ed1f678c2348c9afd155776c96fef45f1125d6cc781f" from cache /home/opam: (copy (src repo) (dst /src/repo)) 2024-08-27 18:35.48 ---> using "28b0dfb2621794d58e9e8e1f5e3170405569e61ba1bcb074568ba7edf0cf6b28" 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 2024-08-27 18:35.48 ---> using "827031e055bd9f48112ff5eefdf127865f52e0bfb01e4c251088f8c2ec689154" 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. 2024-08-27 18:35.48 ---> using "fb1a3abec452cf6374ce9d624124bddf426b80006cf36b87c1c0b1519b56e323" from cache /home/opam: (copy (from (build tools)) (src /home/opam/voodoo-prep) (dst /home/opam/)) 2024-08-27 18:35.48 ---> using "060d6a304d9580bc9ea42fbae54103e3292d55f210f96811b5beacf6aef2d66d" 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.3.15.3 ocamlfind.1.9.6")) The following actions will be performed: - recompile ocaml-options-vanilla 1 [upstream or system changes] - recompile ocaml-base-compiler 5.1.1* [upstream or system changes] - recompile ocaml-config 3 [uses ocaml-base-compiler] - recompile ocaml 5.1.1 [uses ocaml-base-compiler] - install ocamlfind 1.9.6 - install dune 3.15.3 - recompile opam-depext 1.2.3 [uses ocaml] - recompile base-domains base [uses ocaml] - recompile base-nnp base [uses base-domains] ===== 2 to install | 7 to recompile ===== <><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><> -> retrieved ocaml-config.3 (cached) -> removed ocaml-options-vanilla.1 -> installed ocaml-options-vanilla.1 -> retrieved dune.3.15.3 (cached) -> retrieved ocaml-base-compiler.5.1.1 (cached) -> retrieved ocamlfind.1.9.6 (cached) -> retrieved opam-depext.1.2.3 (cached) -> removed base-nnp.base -> removed base-domains.base -> removed opam-depext.1.2.3 -> removed ocaml.5.1.1 -> removed ocaml-config.3 -> removed ocaml-base-compiler.5.1.1 -> installed ocaml-base-compiler.5.1.1 -> installed ocaml-config.3 -> installed ocaml.5.1.1 -> installed base-domains.base -> installed base-nnp.base -> installed opam-depext.1.2.3 -> installed ocamlfind.1.9.6 -> installed dune.3.15.3 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 2024-08-27 18:35.48 ---> using "88854e94dd3c382d09b86aa3daa48ea19a4bc10333966bb24a7a6c0a4cfc92b7" 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 oplsr.8.0.1 parany.14.0.1 ocamlfind.1.9.6 num.1.5 minicli.5.0.2 dune.3.15.3 dolog.6.0.0 cpu.2.0.0 cpm.12.2.0 conf-which.1 conf-r.1.0.0 conf-gnuplot.0.1 conf-autoconf.0.1 camlp-streams.5.0.1 batteries.3.8.0 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 [179 kB] Fetched 282 kB in 0s (1022 kB/s) Reading package lists... Building dependency tree... Reading state information... All packages are up to date. 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 gnuplot-x11 r-base-core [NOTE] Package dune is already installed (current version is 3.15.3). [NOTE] Package ocamlfind is already installed (current version is 1.9.6). The following actions will be performed: - install conf-r 1.0.0 - install minicli 5.0.2 - install conf-which 1 - install conf-gnuplot 0.1 - install num 1.5 - install camlp-streams 5.0.1 - install dolog 6.0.0 - install conf-autoconf 0.1 - install batteries 3.8.0 - install cpu 2.0.0 - install cpm 12.2.0 - install parany 14.0.1 - install oplsr 8.0.1 ===== 13 to install ===== The following system packages will first need to be installed: autoconf gnuplot-x11 r-base-core <><> 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" "gnuplot-x11" "r-base-core" - debconf: delaying package configuration, since apt-utils is not installed - Selecting previously unselected package libargon2-1:amd64. - (Reading database ... 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Created symlink /etc/systemd/system/sysinit.target.wants/systemd-timesyncd.service → /lib/systemd/system/systemd-timesyncd.service. - Setting up libio-html-perl (1.004-3) ... - Setting up libxrandr2:amd64 (2:1.5.2-2+b1) ... - Setting up libtcl8.6:amd64 (8.6.13+dfsg-2) ... - Setting up icu-devtools (72.1-3) ... - Setting up pkgconf-bin (1.8.1-1) ... - Setting up libsensors5:amd64 (1:3.6.0-7.1) ... - Setting up libglapi-mesa:amd64 (22.3.6-1+deb12u1) ... - Setting up libgfortran5:amd64 (12.2.0-14) ... - Setting up autoconf (2.71-3) ... - Setting up libtimedate-perl (2.3300-2) ... - Setting up libregexp-ipv6-perl (0.03-3) ... - Setting up liblzma-dev:amd64 (5.4.1-0.2) ... - Setting up libxcb-dri2-0:amd64 (1.15-1) ... - Setting up zlib1g-dev:amd64 (1:1.2.13.dfsg-1) ... - Setting up libpcre2-posix3:amd64 (10.42-1) ... - Setting up sensible-utils (0.0.17+nmu1) ... - Setting up libxshmfence1:amd64 (1.3-1) ... - Setting up at-spi2-common (2.46.0-5) ... - Setting up libxcb-randr0:amd64 (1.15-1) ... - Setting up dbus-session-bus-common (1.14.10-1~deb12u1) ... - Setting up liblua5.4-0:amd64 (5.4.4-3+deb12u1) ... - Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... - Setting up libthai-data (0.1.29-1) ... - Setting up libcairo-gobject2:amd64 (1.16.0-7) ... - Setting up libatk1.0-0:amd64 (2.46.0-5) ... - Setting up libwayland-egl1:amd64 (1.21.0-1) ... - Setting up libxss1:amd64 (1:1.2.3-1) ... - Setting up libxkbfile1:amd64 (1:1.1.0-1) ... - Setting up dbus-system-bus-common (1.14.10-1~deb12u1) ... - Setting up libdrm-common (2.4.114-1) ... - Setting up libelf1:amd64 (0.188-2.1) ... - Setting up libxcomposite1:amd64 (1:0.4.5-1) ... - Setting up libicu-dev:amd64 (72.1-3) ... - Setting up libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... - Setting up xdg-utils (1.1.3-4.1) ... - update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode - Setting up liburi-perl (5.17-1) ... - Setting up dbus-bin (1.14.10-1~deb12u1) ... - Setting up libx11-protocol-perl (0.56-9) ... - Setting up libblas-dev:amd64 (3.11.0-2) ... - update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode - Setting up libbz2-dev:amd64 (1.0.8-5+b1) ... - Setting up libxkbcommon0:amd64 (1.5.0-1) ... - Setting up libwayland-client0:amd64 (1.21.0-1) ... - Setting up libnet-ssleay-perl:amd64 (1.92-2+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 libpcrecpp0v5:amd64 (2:8.39-15) ... - Setting up gnuplot-data (5.4.4+dfsg1-2) ... - Setting up libice6:amd64 (2:1.0.10-1) ... - Setting up libhttp-date-perl (6.05-2) ... - 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 libxft2:amd64 (2.3.6-1) ... - Setting up libncurses-dev:amd64 (6.4-4) ... - Setting up libfile-basedir-perl (0.09-2) ... - Setting up libfile-listing-perl (6.15-1) ... - Setting up libpcre2-dev:amd64 (10.42-1) ... - Setting up libpcre3-dev:amd64 (2:8.39-15) ... - Setting up libxtst6:amd64 (2:1.2.3-1.1) ... - Setting up libtk8.6:amd64 (8.6.13-2) ... - Setting up libxcursor1:amd64 (1:1.2.1-1) ... - Setting up libpng-dev:amd64 (1.6.39-2) ... - Setting up libavahi-common3:amd64 (0.8-10) ... - Setting up libjpeg-dev:amd64 (1:2.1.5-2) ... - Setting up libnet-http-perl (6.22-1) ... - Setting up libgfortran-12-dev:amd64 (12.2.0-14) ... - Setting up dbus-daemon (1.14.10-1~deb12u1) ... - Setting up libatspi2.0-0:amd64 (2.46.0-5) ... - Setting up libreadline-dev:amd64 (8.2-1.3) ... - Setting up libwxbase3.2-1:amd64 (3.2.2+dfsg-2) ... - Setting up pkgconf:amd64 (1.8.1-1) ... - Setting up libatk-bridge2.0-0:amd64 (2.46.0-5) ... - Setting up libthai0:amd64 (0.1.29-1) ... - Setting up gfortran-12 (12.2.0-14) ... - Setting up dbus (1.14.10-1~deb12u1) ... - invoke-rc.d: could not determine current runlevel - invoke-rc.d: policy-rc.d denied execution of start. - Setting up shared-mime-info (2.2-1) ... - Setting up liblapack-dev:amd64 (3.11.0-2) ... - update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode - Setting up pkg-config:amd64 (1.8.1-1) ... - Setting up ucf (3.0043+nmu1) ... - Setting up libfile-desktopentry-perl (0.22-3) ... - Setting up libwww-robotrules-perl (6.02-1) ... - Setting up libdrm2:amd64 (2.4.114-1+b1) ... - Setting up libwayland-cursor0:amd64 (1.21.0-1) ... - Setting up libhtml-parser-perl:amd64 (3.81-1) ... - Setting up libllvm15:amd64 (1:15.0.6-4+b1) ... - Setting up libncurses5-dev:amd64 (6.4-4) ... - Setting up libpam-systemd:amd64 (252.26-1~deb12u2) ... - Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1+deb12u1) ... - Setting up libsm6:amd64 (2:1.2.3-1) ... - Setting up libavahi-client3:amd64 (0.8-10) ... - Setting up libio-socket-ssl-perl (2.081-2) ... - Setting up libhttp-message-perl (6.44-1) ... - Setting up libdrm-amdgpu1:amd64 (2.4.114-1+b1) ... - Setting up libhtml-form-perl (6.11-1) ... - Setting up libfile-mimeinfo-perl (0.33-1) ... - Setting up libpaper1:amd64 (1.1.29) ... - - Creating config file /etc/papersize with new version - Setting up gtk-update-icon-cache (3.24.38-2~deb12u1) ... - Setting up libhttp-negotiate-perl (6.01-2) ... - Setting up libdrm-nouveau2:amd64 (2.4.114-1+b1) ... - Setting up libgbm1:amd64 (22.3.6-1+deb12u1) ... - Setting up libhttp-cookies-perl (6.10-1) ... - Setting up libdrm-radeon1:amd64 (2.4.114-1+b1) ... - Setting up libhtml-tree-perl (5.07-3) ... - Setting up libpango-1.0-0:amd64 (1.50.12+ds-1) ... - Setting up libdrm-intel1:amd64 (2.4.114-1+b1) ... - Setting up libgl1-mesa-dri:amd64 (22.3.6-1+deb12u1) ... - Setting up libhtml-format-perl (2.16-2) ... - Setting up libpaper-utils (1.1.29) ... - Setting up gfortran (4:12.2.0-3) ... - update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode - update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode - Setting up dbus-user-session (1.14.10-1~deb12u1) ... - Setting up libegl-mesa0:amd64 (22.3.6-1+deb12u1) ... - Setting up libnet-smtp-ssl-perl (1.04-2) ... - Setting up adwaita-icon-theme (43-1) ... - update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode - Setting up libmailtools-perl (2.21-2) ... - Setting up libnotify4:amd64 (0.8.1-1) ... - Setting up libxt6:amd64 (1:1.2.1-1.1) ... - Setting up libcups2:amd64 (2.4.2-3+deb12u5) ... - Setting up libhttp-daemon-perl (6.16-1) ... - Setting up libgdk-pixbuf2.0-bin (2.42.10+dfsg-1+deb12u1) ... - Setting up libegl1:amd64 (1.6.0-1) ... - 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 libglx-mesa0:amd64 (22.3.6-1+deb12u1) ... - Setting up libglx0:amd64 (1.6.0-1) ... - Setting up dconf-service (0.40.0-4) ... - Setting up libxaw7:amd64 (2:1.0.14-1) ... - Setting up x11-xserver-utils (7.7+9+b1) ... - Setting up librsvg2-2:amd64 (2.54.7+dfsg-1~deb12u1) ... - Setting up libgl1:amd64 (1.6.0-1) ... - Setting up r-base-core (4.2.2.20221110-2) ... - - Creating config file /etc/R/Renviron with new version - Setting up librsvg2-common:amd64 (2.54.7+dfsg-1~deb12u1) ... - Setting up r-cran-lattice (0.20-45-3) ... - Setting up r-cran-nlme (3.1.162-1) ... - Setting up zutty (0.14.0.20230218+dfsg1-1) ... - update-alternatives: using /usr/bin/zutty to provide /usr/bin/x-terminal-emulator (x-terminal-emulator) in auto mode - Setting up r-cran-cluster (2.1.4-1) ... - Setting up x11-utils (7.7+5) ... - Setting up r-cran-nnet (7.3-18-1) ... - Setting up r-cran-codetools (0.2-19-1) ... - Setting up r-cran-boot (1.3-28.1-1) ... - Setting up r-base-dev (4.2.2.20221110-2) ... - Setting up dconf-gsettings-backend:amd64 (0.40.0-4) ... - Setting up r-cran-spatial (7.3-16-1) ... - Setting up r-cran-mass (7.3-58.2-1) ... - Setting up r-cran-foreign (0.8.84-1) ... - Setting up r-cran-matrix (1.5-3-1) ... - Setting up r-cran-kernsmooth (2.23-20-1) ... - Setting up r-cran-mgcv (1.8-41-1) ... - Setting up libgtk-3-common (3.24.38-2~deb12u1) ... - Setting up gsettings-desktop-schemas (43.0-1) ... - Setting up r-cran-class (7.3-21-1) ... - Setting up libgtk-3-0:amd64 (3.24.38-2~deb12u1) ... - Setting up r-cran-survival (3.5-3-1) ... - Setting up libgtk-3-bin (3.24.38-2~deb12u1) ... - Setting up at-spi2-core (2.46.0-5) ... - Setting up libwxgtk3.2-1:amd64 (3.2.2+dfsg-2) ... - Setting up r-cran-rpart (4.1.19-1) ... - Setting up r-recommended (4.2.2.20221110-2) ... - Setting up gnuplot-x11 (5.4.4+dfsg1-2+b2) ... - update-alternatives: using /usr/bin/gnuplot-x11 to provide /usr/bin/gnuplot (gnuplot) in auto mode - Setting up liblwp-protocol-https-perl (6.10-1) ... - Setting up libwww-perl (6.68-1) ... - Setting up libxml-parser-perl (2.46-4) ... - Setting up libxml-twig-perl (1:3.52-2) ... - Setting up libnet-dbus-perl (1.2.0-2) ... - Processing triggers for libc-bin (2.36-9+deb12u7) ... - Processing triggers for libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1+deb12u1) ... <><> Processing actions <><><><><><><><><><><><><><><><><><><><><><><><><><><><> Processing 1/39: Processing 2/39: Processing 3/39: Processing 4/39: -> retrieved conf-r.1.0.0 (cached) Processing 5/39: Processing 6/39: Processing 7/39: Processing 8/39: [conf-gnuplot: gnuplot] Processing 9/39: [conf-gnuplot: gnuplot] [conf-r: R CMD] Processing 10/39: [conf-gnuplot: gnuplot] [conf-r: R CMD] [conf-which: which which] -> retrieved batteries.3.8.0 (cached) Processing 11/39: [conf-gnuplot: gnuplot] [conf-r: R CMD] [conf-which: which which] -> retrieved camlp-streams.5.0.1 (cached) Processing 12/39: [conf-gnuplot: gnuplot] [conf-r: R CMD] [conf-which: which which] Processing 13/39: [camlp-streams: dune build] [conf-gnuplot: gnuplot] [conf-r: R CMD] [conf-which: which which] -> retrieved cpm.12.2.0 (cached) Processing 14/39: [camlp-streams: dune build] [conf-gnuplot: gnuplot] [conf-r: R CMD] [conf-which: which which] - gnuplot 5.4 patchlevel 4 -> compiled conf-gnuplot.0.1 Processing 14/39: [camlp-streams: dune build] [conf-r: R CMD] [conf-which: which which] -> installed conf-gnuplot.0.1 Processing 15/39: [camlp-streams: dune build] [conf-r: R CMD] [conf-which: which which] - /usr/bin/which -> compiled conf-which.1 Processing 15/39: [camlp-streams: dune build] [conf-r: R CMD] -> installed conf-which.1 Processing 16/39: [camlp-streams: dune build] [conf-r: R CMD] Processing 17/39: [camlp-streams: dune build] [conf-autoconf: which autoconf] [conf-r: R CMD] -> retrieved cpu.2.0.0 (cached) Processing 18/39: [camlp-streams: dune build] [conf-autoconf: which autoconf] [conf-r: R CMD] -> retrieved dolog.6.0.0 (cached) Processing 19/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [conf-autoconf: which autoconf] [conf-r: R CMD] Processing 20/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [conf-autoconf: which autoconf] [conf-r: R CMD] [dolog: dune build] -> retrieved minicli.5.0.2 (cached) Processing 21/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [conf-autoconf: which autoconf] [conf-r: R CMD] [dolog: dune build] Processing 22/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [conf-autoconf: which autoconf] [conf-r: R CMD] [dolog: dune build] [minicli: dune build] - /usr/bin/autoconf -> compiled conf-autoconf.0.1 Processing 22/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [conf-r: R CMD] [dolog: dune build] [minicli: dune build] -> installed conf-autoconf.0.1 Processing 23/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [conf-r: R CMD] [dolog: dune build] [minicli: dune build] Processing 24/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [conf-r: R CMD] [cpu: autoconf] [dolog: dune build] [minicli: dune build] -> retrieved num.1.5 (cached) Processing 25/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [conf-r: R CMD] [cpu: autoconf] [dolog: dune build] [minicli: dune build] [num: make opam-modern] -> retrieved parany.14.0.1 (cached) -> compiled conf-r.1.0.0 Processing 25/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [cpu: autoconf] [dolog: dune build] [minicli: dune build] [num: make opam-modern] -> installed conf-r.1.0.0 Processing 26/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [cpu: autoconf] [dolog: dune build] [minicli: dune build] [num: make opam-modern] -> compiled dolog.6.0.0 Processing 26/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [cpu: autoconf] [minicli: dune build] [num: make opam-modern] -> installed dolog.6.0.0 Processing 27/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [cpu: autoconf] [minicli: dune build] [num: make opam-modern] -> compiled minicli.5.0.2 Processing 27/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [cpu: autoconf] [num: make opam-modern] -> installed minicli.5.0.2 Processing 28/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [cpu: autoconf] [num: make opam-modern] - 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 28/39: [oplsr.8.0.1: http] [camlp-streams: dune build] [cpu: autoheader] [num: make opam-modern] -> compiled camlp-streams.5.0.1 Processing 28/39: [oplsr.8.0.1: http] [cpu: autoheader] [num: make opam-modern] -> installed camlp-streams.5.0.1 Processing 29/39: [oplsr.8.0.1: http] [cpu: autoheader] [num: make opam-modern] Processing 29/39: [cpu: autoheader] [num: make opam-modern] Processing 29/39: [oplsr.8.0.1/install_pls.r: dl] [cpu: autoheader] [num: make opam-modern] Processing 29/39: [oplsr.8.0.1/install_pls.r: dl] [cpu: ./configure] [num: make opam-modern] -> retrieved oplsr.8.0.1 (https://github.com/UnixJunkie/oplsr/archive/v8.0.1.tar.gz) Processing 29/39: [cpu: ./configure] [num: make opam-modern] - 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 29/39: [cpu: dune build] [num: make opam-modern] - /usr/bin/make -C src all - make[1]: Entering directory '/home/opam/.opam/5.1/.opam-switch/build/num.1.5/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/src' - cp src/num-modern.install num.install -> compiled num.1.5 Processing 29/39: [cpu: dune build] -> installed num.1.5 Processing 30/39: [cpu: dune build] Processing 31/39: [batteries: dune build] [cpu: dune build] -> compiled cpu.2.0.0 Processing 31/39: [batteries: dune build] -> installed cpu.2.0.0 Processing 32/39: [batteries: dune build] Processing 33/39: [batteries: dune build] [parany: dune build] -> compiled parany.14.0.1 Processing 33/39: [batteries: dune build] -> installed parany.14.0.1 Processing 34/39: [batteries: dune build] + /home/opam/.opam/5.1/bin/dune "build" "-p" "batteries" "-j" "39" "@install" (CWD=/home/opam/.opam/5.1/.opam-switch/build/batteries.3.8.0) -> compiled batteries.3.8.0 -> installed batteries.3.8.0 Processing 36/39: [cpm: dune build] + /home/opam/.opam/5.1/bin/dune "build" "-p" "cpm" "-j" "39" (CWD=/home/opam/.opam/5.1/.opam-switch/build/cpm.12.2.0) -> compiled cpm.12.2.0 -> installed cpm.12.2.0 Processing 38/39: [oplsr: dune build] + /home/opam/.opam/5.1/bin/dune "build" "-p" "oplsr" "-j" "39" (CWD=/home/opam/.opam/5.1/.opam-switch/build/oplsr.8.0.1) -> compiled oplsr.8.0.1 Processing 39/39: [oplsr: R CMD] + /usr/bin/R "CMD" "BATCH" "install_pls.r" (CWD=/home/opam/.opam/5.1/.opam-switch/build/oplsr.8.0.1) [ERROR] The installation of oplsr failed at "R CMD BATCH install_pls.r". #=== ERROR while installing oplsr.8.0.1 =======================================# # context 2.1.6 | linux/x86_64 | ocaml-base-compiler.5.1.1 | file:///src # path ~/.opam/5.1/.opam-switch/build/oplsr.8.0.1 # command /usr/bin/R CMD BATCH install_pls.r # exit-code 1 # env-file ~/.opam/log/oplsr-113-ed7e51.env # output-file ~/.opam/log/oplsr-113-ed7e51.out <><> Error report <><><><><><><><><><><><><><><><><><><><><><><><><><><><><><><> +- The following actions failed | - install oplsr 8.0.1 +- +- The following changes have been performed | - install batteries 3.8.0 | - install camlp-streams 5.0.1 | - install conf-autoconf 0.1 | - install conf-gnuplot 0.1 | - install conf-r 1.0.0 | - install conf-which 1 | - install cpm 12.2.0 | - install cpu 2.0.0 | - install dolog 6.0.0 | - install minicli 5.0.2 | - install num 1.5 | - install parany 14.0.1 +- <><> oplsr.8.0.1 troubleshooting ><><><><><><><><><><><><><><><><><><><><><><><> => Please interact with R to install needed things in user-space: R install.packages('pls', repos='http://cran.r-project.org') # Run eval $(opam env) to update the current shell environment The former state can be restored with: /usr/bin/opam switch import "/home/opam/.opam/5.1/.opam-switch/backup/state-20240827183704.export" 'opam --cli=2.1 install oplsr.8.0.1 parany.14.0.1 ocamlfind.1.9.6 num.1.5 minicli.5.0.2 dune.3.15.3 dolog.6.0.0 cpu.2.0.0 cpm.12.2.0 conf-which.1 conf-r.1.0.0 conf-gnuplot.0.1 conf-autoconf.0.1 camlp-streams.5.0.1 batteries.3.8.0 --verbose --yes --confirm-level=unsafe-yes' failed. 2024-08-27 18:38.05 ---> saved as "08388847a40fb956f0c6863a64cba2b12689eb97e1465b6f8d99baaf4f6c2f57" /home/opam: (run (shell "opam exec -- ~/voodoo-prep -u oplsr:b6221ccc0e253399a4362b2906f74ad6")) 2024-08-27 18:38.07 ---> saved as "6caf5a3c6b7394dc74c2395ab50e1436b870470ffb8e9b55a92d824aba3c7d9e" /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 '0.753367') && (for DATA in prep/universes/b6221ccc0e253399a4362b2906f74ad6/oplsr/8.0.1,oplsr.8.0.1-b6221ccc0e253399a4362b2906f74ad6,oplsr.8.0.1; 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/b6221ccc0e253399a4362b2906f74ad6/oplsr/8.0.1,oplsr.8.0.1-b6221ccc0e253399a4362b2906f74ad6,oplsr.8.0.1; do IFS=\",\"; set -- $DATA; rsync -aR --no-p ./$1 staging.docs.ci.ocamllabs.io:/data/.; done) && (for DATA in prep/universes/b6221ccc0e253399a4362b2906f74ad6/oplsr/8.0.1,oplsr.8.0.1-b6221ccc0e253399a4362b2906f74ad6,oplsr.8.0.1; do IFS=\",\"; set -- $DATA; HASH=$((sha256sum $1/content.tar | cut -d \" \" -f 1) || echo -n 'empty'); printf \"HASHES:$2:$HASH\\n\"; done)")) 0.753367 FAILED:oplsr.8.0.1-b6221ccc0e253399a4362b2906f74ad6 prep/universes/b6221ccc0e253399a4362b2906f74ad6/oplsr/8.0.1/opam prep/universes/b6221ccc0e253399a4362b2906f74ad6/oplsr/8.0.1/opam.err.log Warning: Permanently added '[staging.docs.ci.ocamllabs.io]:2222' (ED25519) to the list of known hosts. HASHES:oplsr.8.0.1-b6221ccc0e253399a4362b2906f74ad6:89041e4e084850627f0c61916bb55326810a41db6a3862fefc16a5b66bdef8fd 2024-08-27 18:38.09 ---> saved as "cbcd080f968f683e722d6dd83d31006f96297e4c9cf2cccd0d1c3069309606bf" Job succeeded 2024-08-27 18:38.17: Failed: oplsr.8.0.1-b6221ccc0e253399a4362b2906f74ad6 2024-08-27 18:38.17: oplsr.8.0.1-b6221ccc0e253399a4362b2906f74ad6 -> 89041e4e084850627f0c61916bb55326810a41db6a3862fefc16a5b66bdef8fd 2024-08-27 18:38.17: Job succeeded