[INFO] fetching crate mung-cnv 0.2.2...
[INFO] documenting mung-cnv-0.2.2 against 1.100.0-beta.1 for beta-rustdoc-1.100
[INFO] extracting crate mung-cnv 0.2.2 into /workspace/builds/worker-1-tc2/source
[INFO] started tweaking crates.io crate mung-cnv 0.2.2
[INFO] removed 0 missing tests
[INFO] finished tweaking crates.io crate mung-cnv 0.2.2
[INFO] tweaked toml for crates.io crate mung-cnv 0.2.2 written to /workspace/builds/worker-1-tc2/source/Cargo.toml
[INFO] validating manifest of crates.io crate mung-cnv 0.2.2 on toolchain 1.100.0-beta.1
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1.100.0-beta.1" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate crates.io crate mung-cnv 0.2.2 already has a lockfile, it will not be regenerated
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1.100.0-beta.1" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:68:12
[INFO] [stderr]    |
[INFO] [stderr] 68 | homepage = "https://github.com/causalpathlab/mung-cnv"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 73 | repository = "https://github.com/causalpathlab/mung-cnv"
[INFO] [stderr]    |              -------------------------------------------
[INFO] [stderr]    |
[INFO] [stderr]    = note: `cargo::redundant_homepage` is set to `warn` by default
[INFO] [stderr] help: consider removing `package.homepage`
[INFO] [stderr] warning: `mung-cnv` (manifest) generated 1 warning
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/var/lib/crater-agent-workspace/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-m" "1610612736" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:77db811e55d90add9212f6832c23229e3de5f1c1f9905e8cb07319ea15df73ac" "sleep" "infinity", kill_on_drop: false }`
[INFO] [stdout] 74829c129b54346b98beb4e7bd1d411113a1a9953fd75805b8d2472dc5cd6839
[INFO] running `Command { std: "docker" "start" "74829c129b54346b98beb4e7bd1d411113a1a9953fd75805b8d2472dc5cd6839", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "74829c129b54346b98beb4e7bd1d411113a1a9953fd75805b8d2472dc5cd6839", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-w" "/opt/rustwide/workdir" "--user" "0:0" "74829c129b54346b98beb4e7bd1d411113a1a9953fd75805b8d2472dc5cd6839" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "74829c129b54346b98beb4e7bd1d411113a1a9953fd75805b8d2472dc5cd6839", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "RUSTDOCFLAGS=--cap-lints=warn" "-w" "/opt/rustwide/workdir" "--user" "0:0" "74829c129b54346b98beb4e7bd1d411113a1a9953fd75805b8d2472dc5cd6839" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "doc" "--frozen" "--no-deps" "--document-private-items" "--message-format=json", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:68:12
[INFO] [stderr]    |
[INFO] [stderr] 68 | homepage = "https://github.com/causalpathlab/mung-cnv"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 73 | repository = "https://github.com/causalpathlab/mung-cnv"
[INFO] [stderr]    |              -------------------------------------------
[INFO] [stderr]    |
[INFO] [stderr]    = note: `cargo::redundant_homepage` is set to `warn` by default
[INFO] [stderr] help: consider removing `package.homepage`
[INFO] [stderr] warning: `mung-cnv` (manifest) generated 1 warning
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[INFO] [stderr]  Documenting mung-cnv v0.2.2 (/opt/rustwide/workdir)
[INFO] [stderr]     Checking mung-cnv v0.2.2 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unresolved link to `kmeans_init::select_kmeans_k`
[INFO] [stdout]  --> src/per_sample.rs:8:14
[INFO] [stdout]   |
[INFO] [stdout] 8 | //!    via [`kmeans_init::select_kmeans_k`] (BIC-selected K).
[INFO] [stdout]   |              ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ no item named `kmeans_init` in scope
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(rustdoc::broken_intra_doc_links)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `hmm::fit_em`
[INFO] [stdout]  --> src/per_sample.rs:9:14
[INFO] [stdout]   |
[INFO] [stdout] 9 | //! 2. Run [`hmm::fit_em`] to refine emission means, transitions and per-sample σ².
[INFO] [stdout]   |              ^^^^^^^^^^^ no item named `hmm` in scope
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `GenePosition`
[INFO] [stdout]    --> src/genome_order.rs:101:22
[INFO] [stdout]     |
[INFO] [stdout] 101 | /// rather than a Vec<GenePosition>.
[INFO] [stdout]     |                      ^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(rustdoc::invalid_html_tags)]` on by default
[INFO] [stdout] help: try marking as source code
[INFO] [stdout]     |
[INFO] [stdout] 101 | /// rather than a `Vec<GenePosition>`.
[INFO] [stdout]     |                   +                 +
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 1m 35s
[INFO] [stderr]    Generated /opt/rustwide/target/doc/cnv/index.html and 1 other file
[INFO] running `Command { std: "docker" "inspect" "74829c129b54346b98beb4e7bd1d411113a1a9953fd75805b8d2472dc5cd6839", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "RUSTDOCFLAGS=--cap-lints=warn" "-e" "DOCS_RS=1" "-e" "RUSTC_BOOTSTRAP=1" "-w" "/opt/rustwide/workdir" "--user" "0:0" "74829c129b54346b98beb4e7bd1d411113a1a9953fd75805b8d2472dc5cd6839" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "rustdoc" "--lib" "-Zrustdoc-map" "--config" "build.rustdocflags=[\"--cfg\", \"docsrs\", \"-Z\", \"unstable-options\", \"--document-private-items\"]" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stderr] warning: `package.homepage` is redundant with `package.repository`
[INFO] [stderr]   --> Cargo.toml:68:12
[INFO] [stderr]    |
[INFO] [stderr] 68 | homepage = "https://github.com/causalpathlab/mung-cnv"
[INFO] [stderr]    |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] ...
[INFO] [stderr] 73 | repository = "https://github.com/causalpathlab/mung-cnv"
[INFO] [stderr]    |              -------------------------------------------
[INFO] [stderr]    |
[INFO] [stderr]    = note: `cargo::redundant_homepage` is set to `warn` by default
[INFO] [stderr] help: consider removing `package.homepage`
[INFO] [stderr] warning: `mung-cnv` (manifest) generated 1 warning
[INFO] [stderr]    Compiling proc-macro2 v1.0.107
[INFO] [stderr]    Compiling thiserror v2.0.21
[INFO] [stderr]    Compiling anyhow v1.0.104
[INFO] [stderr]    Compiling quote v1.0.47
[INFO] [stderr]    Compiling syn v3.0.6
[INFO] [stderr]    Compiling syn v2.0.119
[INFO] [stderr]    Compiling syn v1.0.109
[INFO] [stderr]    Compiling numeric_literals v0.2.0
[INFO] [stderr]    Compiling synstructure v0.14.0
[INFO] [stderr]     Checking ellip v1.1.1
[INFO] [stderr]    Compiling darling_core v0.20.11
[INFO] [stderr]    Compiling darling_core v0.21.3
[INFO] [stderr]    Compiling pest_generator v2.9.2
[INFO] [stderr]    Compiling bytemuck_derive v1.12.1
[INFO] [stderr]    Compiling serde_derive v1.0.229
[INFO] [stderr]    Compiling thiserror-impl v2.0.21
[INFO] [stderr]    Compiling monostate-impl v1.0.3
[INFO] [stderr]    Compiling zerofrom-derive v0.1.8
[INFO] [stderr]    Compiling futures-macro v0.3.34
[INFO] [stderr]    Compiling yoke-derive v0.8.3
[INFO] [stderr]    Compiling clap_derive v4.6.7
[INFO] [stderr]    Compiling serde_repr v0.1.21
[INFO] [stderr]    Compiling async-trait v0.1.92
[INFO] [stderr]     Checking monostate v1.0.3
[INFO] [stderr]    Compiling zerocopy-derive v0.8.58
[INFO] [stderr]    Compiling derive_more-impl v2.1.1
[INFO] [stderr]    Compiling monostate-impl v0.1.18
[INFO] [stderr]    Compiling auto_impl v1.3.0
[INFO] [stderr]     Checking zerofrom v0.1.8
[INFO] [stderr]    Compiling nalgebra-macros v0.3.0
[INFO] [stderr]    Compiling multiversion-macros v0.8.0
[INFO] [stderr]    Compiling pest_derive v2.9.2
[INFO] [stderr]     Checking monostate v0.1.18
[INFO] [stderr]     Checking yoke v0.8.3
[INFO] [stderr]     Checking futures-util v0.3.34
[INFO] [stderr]     Checking bytemuck v1.25.2
[INFO] [stderr]    Compiling blanket v0.4.0
[INFO] [stderr]     Checking fastobo-syntax v0.8.1
[INFO] [stderr]     Checking num-complex v0.4.6
[INFO] [stderr]     Checking dyn-stack v0.13.2
[INFO] [stderr]     Checking safe_arch v0.7.4
[INFO] [stderr]     Checking pulp v0.22.3
[INFO] [stderr]     Checking num v0.4.3
[INFO] [stderr]     Checking lambert_w v2.0.5
[INFO] [stderr]     Checking special v0.13.2
[INFO] [stderr]     Checking wide v0.7.33
[INFO] [stderr]     Checking zarrs_plugin v0.4.1
[INFO] [stderr]     Checking clap v4.6.7
[INFO] [stderr]     Checking multiversion v0.8.0
[INFO] [stderr]    Compiling darling_macro v0.20.11
[INFO] [stderr]     Checking zerocopy v0.8.58
[INFO] [stderr]    Compiling darling v0.20.11
[INFO] [stderr]    Compiling derive_builder_core v0.20.2
[INFO] [stderr]     Checking derive_more v2.1.1
[INFO] [stderr]     Checking zarrs_storage v0.4.5
[INFO] [stderr]    Compiling darling_macro v0.21.3
[INFO] [stderr]     Checking serde v1.0.229
[INFO] [stderr]    Compiling darling v0.21.3
[INFO] [stderr]    Compiling ownable-macro v0.6.3
[INFO] [stderr]    Compiling fastobo-derive-internal v0.15.5
[INFO] [stderr]     Checking zarrs_filesystem v0.3.12
[INFO] [stderr]    Compiling derive_builder_macro v0.20.2
[INFO] [stderr]     Checking dary_heap v0.3.9
[INFO] [stderr]     Checking spm_precompiled v0.1.4
[INFO] [stderr]     Checking compact_str v0.9.1
[INFO] [stderr]     Checking ndarray v0.17.2
[INFO] [stderr]     Checking safetensors v0.7.0
[INFO] [stderr]     Checking ownable v0.6.2
[INFO] [stderr]     Checking derive_builder v0.20.2
[INFO] [stderr]     Checking futures-executor v0.3.34
[INFO] [stderr]     Checking fastobo v0.15.5
[INFO] [stderr]     Checking futures v0.3.34
[INFO] [stderr]     Checking simba v0.9.1
[INFO] [stderr]     Checking rc-zip v5.4.1
[INFO] [stderr]     Checking zarrs_zip v0.5.2
[INFO] [stderr]     Checking ppv-lite86 v0.2.21
[INFO] [stderr]     Checking ahash v0.8.12
[INFO] [stderr]     Checking rand_chacha v0.9.0
[INFO] [stderr]     Checking rand_chacha v0.3.1
[INFO] [stderr]     Checking rand v0.8.8
[INFO] [stderr]     Checking rand v0.9.5
[INFO] [stderr]     Checking nalgebra v0.34.2
[INFO] [stderr]     Checking rand_distr v0.5.1
[INFO] [stderr]     Checking tokenizers v0.22.2
[INFO] [stderr]     Checking clustering v0.2.2
[INFO] [stderr]     Checking instant-distance v0.6.1
[INFO] [stderr]     Checking half v2.7.1
[INFO] [stderr]     Checking ndarray-rand v0.16.0
[INFO] [stderr]     Checking gemm-common v0.19.0
[INFO] [stderr]     Checking arrow-buffer v59.3.0
[INFO] [stderr]     Checking zarrs_metadata v0.7.5
[INFO] [stderr]     Checking float8 v0.7.0
[INFO] [stderr]     Checking gemm-f32 v0.19.0
[INFO] [stderr]     Checking gemm-c32 v0.19.0
[INFO] [stderr]     Checking gemm-c64 v0.19.0
[INFO] [stderr]     Checking gemm-f64 v0.19.0
[INFO] [stderr]     Checking zarrs_data_type v0.9.0
[INFO] [stderr]     Checking zarrs_chunk_grid v0.5.1
[INFO] [stderr]     Checking zarrs_metadata_ext v0.4.4
[INFO] [stderr]     Checking zarrs_chunk_key_encoding v0.2.0
[INFO] [stderr]     Checking arrow-data v59.3.0
[INFO] [stderr]     Checking gemm-f16 v0.19.0
[INFO] [stderr]     Checking zarrs_codec v0.2.1
[INFO] [stderr]     Checking arrow-array v59.3.0
[INFO] [stderr]     Checking gemm v0.19.0
[INFO] [stderr]     Checking zarrs v0.23.14
[INFO] [stderr]     Checking candle-core v0.10.2
[INFO] [stderr]     Checking arrow-select v59.3.0
[INFO] [stderr]     Checking arrow-ipc v59.3.0
[INFO] [stderr]     Checking nalgebra-sparse v0.11.0
[INFO] [stderr]     Checking parquet v59.3.0
[INFO] [stderr]     Checking candle-nn v0.10.2
[INFO] [stderr]     Checking legume-numeric v0.8.10
[INFO] [stderr]     Checking legume-genomic-types v0.4.1
[INFO] [stderr]     Checking data-beans v0.6.10
[INFO] [stderr]  Documenting mung-cnv v0.2.2 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unresolved link to `kmeans_init::select_kmeans_k`
[INFO] [stdout]  --> src/per_sample.rs:8:14
[INFO] [stdout]   |
[INFO] [stdout] 8 | //!    via [`kmeans_init::select_kmeans_k`] (BIC-selected K).
[INFO] [stdout]   |              ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ no item named `kmeans_init` in scope
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(rustdoc::broken_intra_doc_links)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `hmm::fit_em`
[INFO] [stdout]  --> src/per_sample.rs:9:14
[INFO] [stdout]   |
[INFO] [stdout] 9 | //! 2. Run [`hmm::fit_em`] to refine emission means, transitions and per-sample σ².
[INFO] [stdout]   |              ^^^^^^^^^^^ no item named `hmm` in scope
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `GenePosition`
[INFO] [stdout]    --> src/genome_order.rs:101:22
[INFO] [stdout]     |
[INFO] [stdout] 101 | /// rather than a Vec<GenePosition>.
[INFO] [stdout]     |                      ^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(rustdoc::invalid_html_tags)]` on by default
[INFO] [stdout] help: try marking as source code
[INFO] [stdout]     |
[INFO] [stdout] 101 | /// rather than a `Vec<GenePosition>`.
[INFO] [stdout]     |                   +                 +
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 1m 02s
[INFO] [stderr]    Generated /opt/rustwide/target/doc/cnv/index.html
[INFO] running `Command { std: "docker" "inspect" "74829c129b54346b98beb4e7bd1d411113a1a9953fd75805b8d2472dc5cd6839", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "74829c129b54346b98beb4e7bd1d411113a1a9953fd75805b8d2472dc5cd6839", kill_on_drop: false }`
[INFO] [stdout] 74829c129b54346b98beb4e7bd1d411113a1a9953fd75805b8d2472dc5cd6839
