[INFO] cloning repository https://github.com/ncsa/rusty-neat
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/ncsa/rusty-neat" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fncsa%2Frusty-neat", kill_on_drop: false }`
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[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] e7485e03da067a332a745a194f3fa1cab076411c
[INFO] documenting ncsa/rusty-neat against da3f5c31e5535b3dc210067de660a45784ae1e9c for pr-162169
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fncsa%2Frusty-neat" "/workspace/builds/worker-3-tc2/source", kill_on_drop: false }`
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[INFO] [stderr] done.
[INFO] removed /workspace/builds/worker-3-tc2/source/rust-toolchain.toml
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[INFO] validating manifest of git repo https://github.com/ncsa/rusty-neat on toolchain da3f5c31e5535b3dc210067de660a45784ae1e9c
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+da3f5c31e5535b3dc210067de660a45784ae1e9c" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/ncsa/rusty-neat 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" "+da3f5c31e5535b3dc210067de660a45784ae1e9c" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
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[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc2/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-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@sha256:8683fc1fc2eb5c9ac98e0d076ab094b2ffac7f99da555d2b6a2e27f346de2ec7" "sleep" "infinity", kill_on_drop: false }`
[INFO] [stdout] 7709dcbadeedc5a17fef32beb27cf18cc821ed74593f162a797996cf9eba34d8
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[INFO] running `Command { std: "docker" "inspect" "7709dcbadeedc5a17fef32beb27cf18cc821ed74593f162a797996cf9eba34d8", 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=forbid" "-e" "RUSTDOCFLAGS=--cap-lints=forbid" "-w" "/opt/rustwide/workdir" "--user" "0:0" "7709dcbadeedc5a17fef32beb27cf18cc821ed74593f162a797996cf9eba34d8" "/opt/rustwide/cargo-home/bin/cargo" "+da3f5c31e5535b3dc210067de660a45784ae1e9c" "doc" "--frozen" "--no-deps" "--document-private-items" "--message-format=json", kill_on_drop: false }`
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[INFO] [stderr]  Documenting realism-panel v3.3.0 (/opt/rustwide/workdir/scripts/delta/realism)
[INFO] [stderr]     Checking eidolon-core v3.3.0 (/opt/rustwide/workdir/eidolon-core)
[INFO] [stderr]  Documenting eidolon-core v3.3.0 (/opt/rustwide/workdir/eidolon-core)
[INFO] [stdout] warning: public documentation for `type_probabilities` links to private item `MIN_OBS_FOR_LENGTH_FIT`
[INFO] [stdout]    --> eidolon-core/src/structs/sv_model.rs:216:22
[INFO] [stdout]     |
[INFO] [stdout] 216 |     /// fewer than [`MIN_OBS_FOR_LENGTH_FIT`] observations is dropped
[INFO] [stdout]     |                      ^^^^^^^^^^^^^^^^^^^^^^ this item is private
[INFO] [stdout]     |
[INFO] [stdout]     = note: this link resolves only because you passed `--document-private-items`, but will break without
[INFO] [stdout]     = note: `#[warn(rustdoc::private_intra_doc_links)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: public documentation for `fit_from_observations` links to private item `MIN_OBS_FOR_LENGTH_FIT`
[INFO] [stdout]    --> eidolon-core/src/structs/sv_model.rs:292:27
[INFO] [stdout]     |
[INFO] [stdout] 292 |     /// type fell below [`MIN_OBS_FOR_LENGTH_FIT`]. Callers should treat
[INFO] [stdout]     |                           ^^^^^^^^^^^^^^^^^^^^^^ this item is private
[INFO] [stdout]     |
[INFO] [stdout]     = note: this link resolves only because you passed `--document-private-items`, but will break without
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: public documentation for `fit_from_observations` links to private item `MIN_OBS_FOR_LENGTH_FIT`
[INFO] [stdout]    --> eidolon-core/src/structs/sv_model.rs:305:37
[INFO] [stdout]     |
[INFO] [stdout] 305 |     ///   - types with fewer than [`MIN_OBS_FOR_LENGTH_FIT`] surviving
[INFO] [stdout]     |                                     ^^^^^^^^^^^^^^^^^^^^^^ this item is private
[INFO] [stdout]     |
[INFO] [stdout]     = note: this link resolves only because you passed `--document-private-items`, but will break without
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: public documentation for `ParsedAlt` links to private item `parse_alternate`
[INFO] [stdout]    --> eidolon-core/src/structs/variants.rs:652:19
[INFO] [stdout]     |
[INFO] [stdout] 652 | /// Returned by [`parse_alternate`] so callers can branch on whether the
[INFO] [stdout]     |                   ^^^^^^^^^^^^^^^ this item is private
[INFO] [stdout]     |
[INFO] [stdout]     = note: this link resolves only because you passed `--document-private-items`, but will break without
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this URL is not a hyperlink
[INFO] [stdout]  --> eidolon-core/src/rng/mod.rs:1:32
[INFO] [stdout]   |
[INFO] [stdout] 1 | //! This RNG is based on Alea (https://github.com/nquinlan/better-random-numbers-for-javascript-mirror/
[INFO] [stdout]   |                                ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: bare URLs are not automatically turned into clickable links
[INFO] [stdout]   = note: `#[warn(rustdoc::bare_urls)]` on by default
[INFO] [stdout] help: use an automatic link instead
[INFO] [stdout]   |
[INFO] [stdout] 1 | //! This RNG is based on Alea (<https://github.com/nquinlan/better-random-numbers-for-javascript-mirror/>
[INFO] [stdout]   |                                +                                                                        +
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this URL is not a hyperlink
[INFO] [stdout]  --> eidolon-core/src/rng/mod.rs:5:6
[INFO] [stdout]   |
[INFO] [stdout] 5 | //! (https://rampantmonkey.com/writing/ts-prng/) to help me figure out some of the typing. Because
[INFO] [stdout]   |      ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: bare URLs are not automatically turned into clickable links
[INFO] [stdout] help: use an automatic link instead
[INFO] [stdout]   |
[INFO] [stdout] 5 | //! (<https://rampantmonkey.com/writing/ts-prng/>) to help me figure out some of the typing. Because
[INFO] [stdout]   |      +                                          +
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]  Documenting eidolon v3.3.0 (/opt/rustwide/workdir/eidolon)
[INFO] [stdout] warning: unclosed HTML tag `usize`
[INFO] [stdout]   --> eidolon/src/gen_frag_length_model/utils/runner.rs:76:17
[INFO] [stdout]    |
[INFO] [stdout] 76 | /// per-read Vec<usize>, built a second full-size Vec of absolute deviations, sorted that
[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] 76 | /// per-read `Vec<usize>`, built a second full-size Vec of absolute deviations, sorted that
[INFO] [stdout]    |              +          +
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `DEL`
[INFO] [stdout]     --> eidolon/src/gen_reads/utils/runner.rs:2510:59
[INFO] [stdout]      |
[INFO] [stdout] 2510 | /// Generate a chimeric junction read-pair for a symbolic <DEL>. The
[INFO] [stdout]      |                                                           ^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `DUP`
[INFO] [stdout]     --> eidolon/src/gen_reads/utils/runner.rs:2648:59
[INFO] [stdout]      |
[INFO] [stdout] 2648 | /// Generate a chimeric junction read-pair for a symbolic <DUP> (tandem).
[INFO] [stdout]      |                                                           ^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused content after last table cell
[INFO] [stdout]   --> eidolon/src/validate/utils/bam.rs:14:59
[INFO] [stdout]    |
[INFO] [stdout] 14 | //! | POS beyond contig   | accept     | accept | accept |  <-- NOTHING catches this
[INFO] [stdout]    |                                                           ^^^^^^^^^^^^^^^^^^^^^^^^^^ this content is discarded
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(rustdoc::invalid_markdown_table)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 41.81s
[INFO] [stderr]    Generated /opt/rustwide/target/doc/eidolon/index.html and 3 other files
[INFO] running `Command { std: "docker" "inspect" "7709dcbadeedc5a17fef32beb27cf18cc821ed74593f162a797996cf9eba34d8", 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=forbid" "-e" "RUSTDOCFLAGS=--cap-lints=forbid" "-e" "DOCS_RS=1" "-e" "RUSTC_BOOTSTRAP=1" "-w" "/opt/rustwide/workdir" "--user" "0:0" "7709dcbadeedc5a17fef32beb27cf18cc821ed74593f162a797996cf9eba34d8" "/opt/rustwide/cargo-home/bin/cargo" "+da3f5c31e5535b3dc210067de660a45784ae1e9c" "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] error: manifest path `/opt/rustwide/workdir/Cargo.toml` is a virtual manifest, but this command requires running against an actual package in this workspace
[INFO] running `Command { std: "docker" "inspect" "7709dcbadeedc5a17fef32beb27cf18cc821ed74593f162a797996cf9eba34d8", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "7709dcbadeedc5a17fef32beb27cf18cc821ed74593f162a797996cf9eba34d8", kill_on_drop: false }`
[INFO] [stdout] 7709dcbadeedc5a17fef32beb27cf18cc821ed74593f162a797996cf9eba34d8
