[INFO] cloning repository https://github.com/zqfang/velocyto-rs
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/zqfang/velocyto-rs" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fzqfang%2Fvelocyto-rs", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fzqfang%2Fvelocyto-rs'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] e6b6ee98e73ac4dea912017fab64aa22c2b7f14b
[INFO] documenting zqfang/velocyto-rs/e6b6ee98e73ac4dea912017fab64aa22c2b7f14b against 824336ad4127ce295849937a24c08a4aeff6ada7 for pr-162169
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fzqfang%2Fvelocyto-rs" "/workspace/builds/worker-0-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-0-tc1/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/zqfang/velocyto-rs
[INFO] finished tweaking git repo https://github.com/zqfang/velocyto-rs
[INFO] tweaked toml for git repo https://github.com/zqfang/velocyto-rs written to /workspace/builds/worker-0-tc1/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/zqfang/velocyto-rs on toolchain 824336ad4127ce295849937a24c08a4aeff6ada7
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+824336ad4127ce295849937a24c08a4aeff6ada7" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/zqfang/velocyto-rs 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" "+824336ad4127ce295849937a24c08a4aeff6ada7" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded nalgebra-macros v0.2.2
[INFO] [stderr]   Downloaded linfa-kernel v0.7.1
[INFO] [stderr]   Downloaded noodles-core v0.20.0
[INFO] [stderr]   Downloaded kdtree v0.7.0
[INFO] [stderr]   Downloaded hdf5-pure-rust-derive v0.3.6
[INFO] [stderr]   Downloaded order-stat v0.1.3
[INFO] [stderr]   Downloaded noodles-csi v0.56.0
[INFO] [stderr]   Downloaded linfa-nn v0.7.2
[INFO] [stderr]   Downloaded linfa-reduction v0.7.1
[INFO] [stderr]   Downloaded noodles-bgzf v0.47.0
[INFO] [stderr]   Downloaded linfa-linalg v0.1.0
[INFO] [stderr]   Downloaded argmin-math v0.4.0
[INFO] [stderr]   Downloaded sprs v0.11.1
[INFO] [stderr]   Downloaded ndarray-stats v0.5.1
[INFO] [stderr]   Downloaded noodles-bam v0.90.0
[INFO] [stderr]   Downloaded jiff-static v0.2.27
[INFO] [stderr]   Downloaded noodles-sam v0.85.0
[INFO] [stderr]   Downloaded linfa v0.7.1
[INFO] [stderr]   Downloaded statrs v0.17.1
[INFO] [stderr]   Downloaded argmin v0.10.0
[INFO] [stderr]   Downloaded jiff v0.2.27
[INFO] [stderr]   Downloaded hdf5-pure-rust v0.3.6
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc1/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc1/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] 22b663e3933ad23af552e4a3e702e8e3c2782a8ccbe25a8e8dd1695fc583714f
[INFO] running `Command { std: "docker" "start" "22b663e3933ad23af552e4a3e702e8e3c2782a8ccbe25a8e8dd1695fc583714f", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "22b663e3933ad23af552e4a3e702e8e3c2782a8ccbe25a8e8dd1695fc583714f", 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" "22b663e3933ad23af552e4a3e702e8e3c2782a8ccbe25a8e8dd1695fc583714f" "/opt/rustwide/cargo-home/bin/cargo" "+824336ad4127ce295849937a24c08a4aeff6ada7" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "22b663e3933ad23af552e4a3e702e8e3c2782a8ccbe25a8e8dd1695fc583714f", 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" "22b663e3933ad23af552e4a3e702e8e3c2782a8ccbe25a8e8dd1695fc583714f" "/opt/rustwide/cargo-home/bin/cargo" "+824336ad4127ce295849937a24c08a4aeff6ada7" "doc" "--frozen" "--no-deps" "--document-private-items" "--message-format=json", kill_on_drop: false }`
[INFO] [stderr]    Compiling zerocopy v0.8.48
[INFO] [stderr]    Compiling matrixmultiply v0.3.10
[INFO] [stderr]     Checking either v1.16.0
[INFO] [stderr]    Compiling num-complex v0.2.4
[INFO] [stderr]     Checking lexical-util v1.0.7
[INFO] [stderr]    Compiling indexmap v1.9.3
[INFO] [stderr]     Checking zlib-rs v0.6.3
[INFO] [stderr]    Compiling linfa v0.7.1
[INFO] [stderr]     Checking bytemuck v1.25.0
[INFO] [stderr]     Checking getrandom v0.2.17
[INFO] [stderr]     Checking num_cpus v1.17.0
[INFO] [stderr]     Checking bitflags v2.11.1
[INFO] [stderr]    Compiling syn v2.0.117
[INFO] [stderr]     Checking num-integer v0.1.46
[INFO] [stderr]     Checking num-complex v0.4.6
[INFO] [stderr]     Checking approx v0.4.0
[INFO] [stderr]     Checking approx v0.3.2
[INFO] [stderr]     Checking rand_core v0.6.4
[INFO] [stderr]     Checking noisy_float v0.2.1
[INFO] [stderr]     Checking safe_arch v0.7.4
[INFO] [stderr]     Checking crossbeam-channel v0.5.15
[INFO] [stderr]     Checking bstr v1.12.1
[INFO] [stderr]    Compiling phf_shared v0.11.3
[INFO] [stderr]     Checking rayon v1.12.0
[INFO] [stderr]     Checking itertools v0.10.5
[INFO] [stderr]    Compiling rand v0.8.6
[INFO] [stderr]     Checking lexical-parse-integer v1.0.6
[INFO] [stderr]     Checking lexical-write-integer v1.0.6
[INFO] [stderr]     Checking wide v0.7.33
[INFO] [stderr]     Checking bit-vec v0.9.1
[INFO] [stderr]    Compiling getrandom v0.4.2
[INFO] [stderr]     Checking noodles-core v0.20.0
[INFO] [stderr]     Checking lexical-parse-float v1.0.6
[INFO] [stderr]     Checking order-stat v0.1.3
[INFO] [stderr]     Checking lexical-write-float v1.0.6
[INFO] [stderr]    Compiling rustix v1.1.4
[INFO] [stderr]     Checking alga v0.9.3
[INFO] [stderr]     Checking rand_xoshiro v0.6.0
[INFO] [stderr]     Checking parking_lot_core v0.9.12
[INFO] [stderr]     Checking num-rational v0.4.2
[INFO] [stderr]     Checking log v0.4.30
[INFO] [stderr]     Checking typenum v1.20.0
[INFO] [stderr]     Checking env_filter v1.0.1
[INFO] [stderr]     Checking instant v0.1.13
[INFO] [stderr]     Checking once_cell v1.21.4
[INFO] [stderr]     Checking fastrand v2.4.1
[INFO] [stderr]     Checking parking_lot v0.12.5
[INFO] [stderr]     Checking lexical-core v1.0.6
[INFO] [stderr]     Checking jiff v0.2.27
[INFO] [stderr]    Compiling phf_generator v0.11.3
[INFO] [stderr]     Checking noodles-bgzf v0.47.0
[INFO] [stderr]     Checking flate2 v1.1.9
[INFO] [stderr]     Checking noodles-csi v0.56.0
[INFO] [stderr]     Checking noodles-sam v0.85.0
[INFO] [stderr]     Checking simba v0.8.1
[INFO] [stderr]     Checking tempfile v3.27.0
[INFO] [stderr]     Checking noodles-bam v0.90.0
[INFO] [stderr]     Checking ndarray v0.15.6
[INFO] [stderr]    Compiling thiserror-impl v1.0.69
[INFO] [stderr]    Compiling nalgebra-macros v0.2.2
[INFO] [stderr]    Compiling clap_derive v4.6.1
[INFO] [stderr]    Compiling thiserror-impl v2.0.18
[INFO] [stderr]    Compiling phf_macros v0.11.3
[INFO] [stderr]    Compiling hdf5-pure-rust-derive v0.3.6
[INFO] [stderr]     Checking phf v0.11.3
[INFO] [stderr]     Checking env_logger v0.11.10
[INFO] [stderr]     Checking thiserror v2.0.18
[INFO] [stderr]     Checking thiserror v1.0.69
[INFO] [stderr]     Checking kdtree v0.7.0
[INFO] [stderr]     Checking clap v4.6.1
[INFO] [stderr]     Checking ppv-lite86 v0.2.21
[INFO] [stderr]     Checking rand_chacha v0.3.1
[INFO] [stderr]     Checking sprs v0.11.1
[INFO] [stderr]     Checking hdf5-pure-rust v0.3.6
[INFO] [stderr]     Checking rand_distr v0.4.3
[INFO] [stderr]     Checking ndarray-stats v0.5.1
[INFO] [stderr]     Checking linfa-linalg v0.1.0
[INFO] [stderr]     Checking argmin-math v0.4.0
[INFO] [stderr]     Checking ndarray-rand v0.14.0
[INFO] [stderr]     Checking nalgebra v0.32.6
[INFO] [stderr]     Checking linfa-nn v0.7.2
[INFO] [stderr]     Checking linfa-kernel v0.7.1
[INFO] [stderr]     Checking linfa-reduction v0.7.1
[INFO] [stderr]     Checking argmin v0.10.0
[INFO] [stderr]     Checking statrs v0.17.1
[INFO] [stderr]  Documenting velocyto-rs v0.1.0 (/opt/rustwide/workdir)
[INFO] [stderr]     Checking velocyto-rs v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: public documentation for `load_mapping_tsv_pub` links to private item `load_mapping_tsv`
[INFO] [stdout]   --> src/commands/dropest_bc_correct.rs:86:27
[INFO] [stdout]    |
[INFO] [stdout] 86 | /// Public re-export of [`load_mapping_tsv`] for use in integration tests.
[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: unresolved link to `v1`
[INFO] [stdout]   --> src/diffusion.rs:70:19
[INFO] [stdout]    |
[INFO] [stdout] 70 |     ///   uv = (x[v1] - x[v0]) / norm        (unit edge vectors)
[INFO] [stdout]    |                   ^^ no item named `v1` in scope
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout]    = note: `#[warn(rustdoc::broken_intra_doc_links)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `v0`
[INFO] [stdout]   --> src/diffusion.rs:70:27
[INFO] [stdout]    |
[INFO] [stdout] 70 |     ///   uv = (x[v1] - x[v0]) / norm        (unit edge vectors)
[INFO] [stdout]    |                           ^^ no item named `v0` in scope
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `v0`
[INFO] [stdout]   --> src/diffusion.rs:71:27
[INFO] [stdout]    |
[INFO] [stdout] 71 |     ///   scalar_proj = v[v0] · uv            (dot product per edge)
[INFO] [stdout]    |                           ^^ no item named `v0` in scope
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `j`
[INFO] [stdout]    --> src/diffusion.rs:292:56
[INFO] [stdout]     |
[INFO] [stdout] 292 | /// Left-multiply a row vector by a CSR matrix: result[j] = sum_i x[i] * tr[i,j]
[INFO] [stdout]     |                                                        ^ no item named `j` in scope
[INFO] [stdout]     |
[INFO] [stdout]     = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `i`
[INFO] [stdout]    --> src/diffusion.rs:292:69
[INFO] [stdout]     |
[INFO] [stdout] 292 | /// Left-multiply a row vector by a CSR matrix: result[j] = sum_i x[i] * tr[i,j]
[INFO] [stdout]     |                                                                     ^ no item named `i` in scope
[INFO] [stdout]     |
[INFO] [stdout]     = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `i,j`
[INFO] [stdout]    --> src/diffusion.rs:292:77
[INFO] [stdout]     |
[INFO] [stdout] 292 | /// Left-multiply a row vector by a CSR matrix: result[j] = sum_i x[i] * tr[i,j]
[INFO] [stdout]     |                                                                             ^^^ no item named `i,j` in scope
[INFO] [stdout]     |
[INFO] [stdout]     = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `:,i`
[INFO] [stdout]   --> src/estimation.rs:18:79
[INFO] [stdout]    |
[INFO] [stdout] 18 | /// Computes column-delta Pearson correlations. For each cell i, correlates d[:,i]
[INFO] [stdout]    |                                                                               ^^^ invalid path separator
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `:,i`
[INFO] [stdout]   --> src/estimation.rs:19:17
[INFO] [stdout]    |
[INFO] [stdout] 19 | /// with (e - e[:,i]) across genes. Args: emat (ngenes×ncells), dmat (ngenes×ncells).
[INFO] [stdout]    |                 ^^^ invalid path separator
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `:,i`
[INFO] [stdout]   --> src/estimation.rs:48:24
[INFO] [stdout]    |
[INFO] [stdout] 48 | /// correlates log10(d[:,i]+psc) with log10(e - e[:,i]+psc) across genes.
[INFO] [stdout]    |                        ^^^ invalid path separator
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `:,i`
[INFO] [stdout]   --> src/estimation.rs:48:51
[INFO] [stdout]    |
[INFO] [stdout] 48 | /// correlates log10(d[:,i]+psc) with log10(e - e[:,i]+psc) across genes.
[INFO] [stdout]    |                                                   ^^^ invalid path separator
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `:,i`
[INFO] [stdout]   --> src/estimation.rs:79:23
[INFO] [stdout]    |
[INFO] [stdout] 79 | /// correlates sqrt(d[:,i]+psc) with sqrt(e - e[:,i]+psc) across genes.
[INFO] [stdout]    |                       ^^^ invalid path separator
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `:,i`
[INFO] [stdout]   --> src/estimation.rs:79:49
[INFO] [stdout]    |
[INFO] [stdout] 79 | /// correlates sqrt(d[:,i]+psc) with sqrt(e - e[:,i]+psc) across genes.
[INFO] [stdout]    |                                                 ^^^ invalid path separator
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `0,20`
[INFO] [stdout]    --> src/estimation.rs:209:50
[INFO] [stdout]     |
[INFO] [stdout] 209 | /// then m = sum((y-q)*x) / sum(x*x) clamped to [0,20].
[INFO] [stdout]     |                                                  ^^^^ no item named `0,20` in scope
[INFO] [stdout]     |
[INFO] [stdout]     = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `j,i`
[INFO] [stdout]   --> src/speedboosted.rs:13:25
[INFO] [stdout]    |
[INFO] [stdout] 13 | /// Plain difference: A[j,i] = e[j,i] - e[j,c]
[INFO] [stdout]    |                         ^^^ no item named `j,i` in scope
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `j,i`
[INFO] [stdout]   --> src/speedboosted.rs:13:34
[INFO] [stdout]    |
[INFO] [stdout] 13 | /// Plain difference: A[j,i] = e[j,i] - e[j,c]
[INFO] [stdout]    |                                  ^^^ no item named `j,i` in scope
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `j,c`
[INFO] [stdout]   --> src/speedboosted.rs:13:43
[INFO] [stdout]    |
[INFO] [stdout] 13 | /// Plain difference: A[j,i] = e[j,i] - e[j,c]
[INFO] [stdout]    |                                           ^^^ no item named `j,c` in scope
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `j,i`
[INFO] [stdout]   --> src/speedboosted.rs:93:36
[INFO] [stdout]    |
[INFO] [stdout] 93 | /// Sqrt-transformed difference: A[j,i] = sign(diff)*sqrt(|diff|+psc)
[INFO] [stdout]    |                                    ^^^ no item named `j,i` in scope
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `j,i`
[INFO] [stdout]    --> src/speedboosted.rs:173:37
[INFO] [stdout]     |
[INFO] [stdout] 173 | /// Log10-transformed difference: A[j,i] = sign(diff)*log10(|diff|+psc)
[INFO] [stdout]     |                                     ^^^ no item named `j,i` in scope
[INFO] [stdout]     |
[INFO] [stdout]     = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `usize`
[INFO] [stdout]    --> src/diffusion.rs:137:63
[INFO] [stdout]     |
[INFO] [stdout] 137 |     /// - `"map_trajectory"` → argmax at each step, return Vec<usize>
[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] 137 |     /// - `"map_trajectory"` → argmax at each step, return `Vec<usize>`
[INFO] [stdout]     |                                                            +          +
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `usize`
[INFO] [stdout]    --> src/diffusion.rs:138:63
[INFO] [stdout]     |
[INFO] [stdout] 138 |     /// - `"frontier"` → argmax of relative growth, return Vec<usize>
[INFO] [stdout]     |                                                               ^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout] help: try marking as source code
[INFO] [stdout]     |
[INFO] [stdout] 138 |     /// - `"frontier"` → argmax of relative growth, return `Vec<usize>`
[INFO] [stdout]     |                                                            +          +
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `usize`
[INFO] [stdout]    --> src/diffusion.rs:139:62
[INFO] [stdout]     |
[INFO] [stdout] 139 |     /// - `"trajectory"` → random-walk trajectory, return Vec<usize>
[INFO] [stdout]     |                                                              ^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout] help: try marking as source code
[INFO] [stdout]     |
[INFO] [stdout] 139 |     /// - `"trajectory"` → random-walk trajectory, return `Vec<usize>`
[INFO] [stdout]     |                                                           +          +
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `SegmentMatch`
[INFO] [stdout]   --> src/molitem.rs:39:40
[INFO] [stdout]    |
[INFO] [stdout] 39 | /// Set union (|) on HashMap<usize, Vec<SegmentMatch>>:
[INFO] [stdout]    |                                        ^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `SegmentMatch`
[INFO] [stdout]   --> src/molitem.rs:51:47
[INFO] [stdout]    |
[INFO] [stdout] 51 | /// Set intersection (&) on HashMap<usize, Vec<SegmentMatch>>:
[INFO] [stdout]    |                                               ^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 49.52s
[INFO] [stderr]    Generated /opt/rustwide/target/doc/velocyto/index.html and 1 other file
[INFO] running `Command { std: "docker" "inspect" "22b663e3933ad23af552e4a3e702e8e3c2782a8ccbe25a8e8dd1695fc583714f", 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" "22b663e3933ad23af552e4a3e702e8e3c2782a8ccbe25a8e8dd1695fc583714f" "/opt/rustwide/cargo-home/bin/cargo" "+824336ad4127ce295849937a24c08a4aeff6ada7" "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]  Documenting velocyto-rs v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: public documentation for `load_mapping_tsv_pub` links to private item `load_mapping_tsv`
[INFO] [stdout]   --> src/commands/dropest_bc_correct.rs:86:27
[INFO] [stdout]    |
[INFO] [stdout] 86 | /// Public re-export of [`load_mapping_tsv`] for use in integration tests.
[INFO] [stdout]    |                           ^^^^^^^^^^^^^^^^ this item is private
[INFO] [stdout]    |
[INFO] [stdout]    = note: this link will resolve properly if you pass `--document-private-items`
[INFO] [stdout]    = note: `#[warn(rustdoc::private_intra_doc_links)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `v1`
[INFO] [stdout]   --> src/diffusion.rs:70:19
[INFO] [stdout]    |
[INFO] [stdout] 70 |     ///   uv = (x[v1] - x[v0]) / norm        (unit edge vectors)
[INFO] [stdout]    |                   ^^ no item named `v1` in scope
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout]    = note: `#[warn(rustdoc::broken_intra_doc_links)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `v0`
[INFO] [stdout]   --> src/diffusion.rs:70:27
[INFO] [stdout]    |
[INFO] [stdout] 70 |     ///   uv = (x[v1] - x[v0]) / norm        (unit edge vectors)
[INFO] [stdout]    |                           ^^ no item named `v0` in scope
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `v0`
[INFO] [stdout]   --> src/diffusion.rs:71:27
[INFO] [stdout]    |
[INFO] [stdout] 71 |     ///   scalar_proj = v[v0] · uv            (dot product per edge)
[INFO] [stdout]    |                           ^^ no item named `v0` in scope
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `:,i`
[INFO] [stdout]   --> src/estimation.rs:18:79
[INFO] [stdout]    |
[INFO] [stdout] 18 | /// Computes column-delta Pearson correlations. For each cell i, correlates d[:,i]
[INFO] [stdout]    |                                                                               ^^^ invalid path separator
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `:,i`
[INFO] [stdout]   --> src/estimation.rs:19:17
[INFO] [stdout]    |
[INFO] [stdout] 19 | /// with (e - e[:,i]) across genes. Args: emat (ngenes×ncells), dmat (ngenes×ncells).
[INFO] [stdout]    |                 ^^^ invalid path separator
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `:,i`
[INFO] [stdout]   --> src/estimation.rs:48:24
[INFO] [stdout]    |
[INFO] [stdout] 48 | /// correlates log10(d[:,i]+psc) with log10(e - e[:,i]+psc) across genes.
[INFO] [stdout]    |                        ^^^ invalid path separator
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `:,i`
[INFO] [stdout]   --> src/estimation.rs:48:51
[INFO] [stdout]    |
[INFO] [stdout] 48 | /// correlates log10(d[:,i]+psc) with log10(e - e[:,i]+psc) across genes.
[INFO] [stdout]    |                                                   ^^^ invalid path separator
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `:,i`
[INFO] [stdout]   --> src/estimation.rs:79:23
[INFO] [stdout]    |
[INFO] [stdout] 79 | /// correlates sqrt(d[:,i]+psc) with sqrt(e - e[:,i]+psc) across genes.
[INFO] [stdout]    |                       ^^^ invalid path separator
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `:,i`
[INFO] [stdout]   --> src/estimation.rs:79:49
[INFO] [stdout]    |
[INFO] [stdout] 79 | /// correlates sqrt(d[:,i]+psc) with sqrt(e - e[:,i]+psc) across genes.
[INFO] [stdout]    |                                                 ^^^ invalid path separator
[INFO] [stdout]    |
[INFO] [stdout]    = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unresolved link to `0,20`
[INFO] [stdout]    --> src/estimation.rs:209:50
[INFO] [stdout]     |
[INFO] [stdout] 209 | /// then m = sum((y-q)*x) / sum(x*x) clamped to [0,20].
[INFO] [stdout]     |                                                  ^^^^ no item named `0,20` in scope
[INFO] [stdout]     |
[INFO] [stdout]     = help: to escape `[` and `]` characters, add '\' before them like `\[` or `\]`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `usize`
[INFO] [stdout]    --> src/diffusion.rs:137:63
[INFO] [stdout]     |
[INFO] [stdout] 137 |     /// - `"map_trajectory"` → argmax at each step, return Vec<usize>
[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] 137 |     /// - `"map_trajectory"` → argmax at each step, return `Vec<usize>`
[INFO] [stdout]     |                                                            +          +
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `usize`
[INFO] [stdout]    --> src/diffusion.rs:138:63
[INFO] [stdout]     |
[INFO] [stdout] 138 |     /// - `"frontier"` → argmax of relative growth, return Vec<usize>
[INFO] [stdout]     |                                                               ^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout] help: try marking as source code
[INFO] [stdout]     |
[INFO] [stdout] 138 |     /// - `"frontier"` → argmax of relative growth, return `Vec<usize>`
[INFO] [stdout]     |                                                            +          +
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `usize`
[INFO] [stdout]    --> src/diffusion.rs:139:62
[INFO] [stdout]     |
[INFO] [stdout] 139 |     /// - `"trajectory"` → random-walk trajectory, return Vec<usize>
[INFO] [stdout]     |                                                              ^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout] help: try marking as source code
[INFO] [stdout]     |
[INFO] [stdout] 139 |     /// - `"trajectory"` → random-walk trajectory, return `Vec<usize>`
[INFO] [stdout]     |                                                           +          +
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `SegmentMatch`
[INFO] [stdout]   --> src/molitem.rs:39:40
[INFO] [stdout]    |
[INFO] [stdout] 39 | /// Set union (|) on HashMap<usize, Vec<SegmentMatch>>:
[INFO] [stdout]    |                                        ^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unclosed HTML tag `SegmentMatch`
[INFO] [stdout]   --> src/molitem.rs:51:47
[INFO] [stdout]    |
[INFO] [stdout] 51 | /// Set intersection (&) on HashMap<usize, Vec<SegmentMatch>>:
[INFO] [stdout]    |                                               ^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 1.09s
[INFO] [stderr]    Generated /opt/rustwide/target/doc/velocyto/index.html
[INFO] running `Command { std: "docker" "inspect" "22b663e3933ad23af552e4a3e702e8e3c2782a8ccbe25a8e8dd1695fc583714f", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "22b663e3933ad23af552e4a3e702e8e3c2782a8ccbe25a8e8dd1695fc583714f", kill_on_drop: false }`
[INFO] [stdout] 22b663e3933ad23af552e4a3e702e8e3c2782a8ccbe25a8e8dd1695fc583714f
