[INFO] crate bio 0.25.0 is already in cache [INFO] extracting crate bio 0.25.0 into work/ex/pr-60039-1/sources/master#e305df1846a6d985315917ae0c81b74af8b4e641/reg/bio/0.25.0 [INFO] extracting crate bio 0.25.0 into work/ex/pr-60039-1/sources/try#99a7498759a22b5684caf798a98b7e90ad9d2443/reg/bio/0.25.0 [INFO] validating manifest of bio-0.25.0 on toolchain master#e305df1846a6d985315917ae0c81b74af8b4e641 [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+e305df1846a6d985315917ae0c81b74af8b4e641-alt" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] validating manifest of bio-0.25.0 on toolchain try#99a7498759a22b5684caf798a98b7e90ad9d2443 [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+99a7498759a22b5684caf798a98b7e90ad9d2443-alt" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] started frobbing bio-0.25.0 [INFO] finished frobbing bio-0.25.0 [INFO] frobbed toml for bio-0.25.0 written to work/ex/pr-60039-1/sources/master#e305df1846a6d985315917ae0c81b74af8b4e641/reg/bio/0.25.0/Cargo.toml [INFO] started frobbing bio-0.25.0 [INFO] finished frobbing bio-0.25.0 [INFO] frobbed toml for bio-0.25.0 written to work/ex/pr-60039-1/sources/try#99a7498759a22b5684caf798a98b7e90ad9d2443/reg/bio/0.25.0/Cargo.toml [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+e305df1846a6d985315917ae0c81b74af8b4e641-alt" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update"` [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+99a7498759a22b5684caf798a98b7e90ad9d2443-alt" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update"` [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+e305df1846a6d985315917ae0c81b74af8b4e641-alt" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+99a7498759a22b5684caf798a98b7e90ad9d2443-alt" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] checking bio-0.25.0 against master#e305df1846a6d985315917ae0c81b74af8b4e641 for pr-60039-1 [INFO] running `"docker" "create" "-v" "/mnt/big/crater/work/local/target-dirs/pr-60039-1/worker-7/master#e305df1846a6d985315917ae0c81b74af8b4e641:/opt/crater/target:rw,Z" "-v" "/mnt/big/crater/work/ex/pr-60039-1/sources/master#e305df1846a6d985315917ae0c81b74af8b4e641/reg/bio/0.25.0:/opt/crater/workdir:ro,Z" "-v" "/mnt/big/crater/work/local/cargo-home:/opt/crater/cargo-home:ro,Z" "-v" "/mnt/big/crater/work/local/rustup-home:/opt/crater/rustup-home:ro,Z" "-e" "USER_ID=1000" "-e" "SOURCE_DIR=/opt/crater/workdir" "-e" "MAP_USER_ID=1000" "-e" "CARGO_TARGET_DIR=/opt/crater/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-e" "CARGO_HOME=/opt/crater/cargo-home" "-e" "RUSTUP_HOME=/opt/crater/rustup-home" "-w" "/opt/crater/workdir" "-m" "1536M" "--network" "none" "rustops/crates-build-env" "/opt/crater/cargo-home/bin/cargo" "+e305df1846a6d985315917ae0c81b74af8b4e641-alt" "check" "--frozen" "--all" "--all-targets"` [INFO] [stdout] e6ca15ca8276cc302107152184ac1116f702c117bdb07a7deb4ddb1db0e5beda [INFO] running `"docker" "start" "-a" "e6ca15ca8276cc302107152184ac1116f702c117bdb07a7deb4ddb1db0e5beda"` [INFO] [stderr] Compiling bio v0.25.0 (/opt/crater/workdir) [INFO] [stderr] warning: unused doc comment [INFO] [stderr] --> src/pattern_matching/pssm/mod.rs:55:1 [INFO] [stderr] | [INFO] [stderr] 55 | /// Errors [INFO] [stderr] | ^^^^^^^^^^ [INFO] [stderr] 56 | / quick_error! { [INFO] [stderr] 57 | | #[derive(Debug, PartialEq)] [INFO] [stderr] 58 | | pub enum PSSMError { [INFO] [stderr] 59 | | QueryTooShort(motif_len: usize, query_len: usize) { [INFO] [stderr] ... | [INFO] [stderr] 83 | | } [INFO] [stderr] 84 | | } [INFO] [stderr] | |_- rustdoc does not generate documentation for macro expansions [INFO] [stderr] | [INFO] [stderr] = note: #[warn(unused_doc_comments)] on by default [INFO] [stderr] = help: to document an item produced by a macro, the macro must produce the documentation as part of its expansion [INFO] [stderr] [INFO] [stderr] warning: unused doc comment [INFO] [stderr] --> src/stats/hmm.rs:88:1 [INFO] [stderr] | [INFO] [stderr] 88 | /// Errors [INFO] [stderr] | ^^^^^^^^^^ [INFO] [stderr] 89 | / quick_error! { [INFO] [stderr] 90 | | #[derive(Debug, PartialEq)] [INFO] [stderr] 91 | | pub enum HMMError { [INFO] [stderr] 92 | | InvalidDimension(an0: usize, an1: usize, bn: usize, bm: usize, pin: usize) { [INFO] [stderr] ... | [INFO] [stderr] 98 | | } [INFO] [stderr] 99 | | } [INFO] [stderr] | |_- rustdoc does not generate documentation for macro expansions [INFO] [stderr] | [INFO] [stderr] = help: to document an item produced by a macro, the macro must produce the documentation as part of its expansion [INFO] [stderr] [INFO] [stderr] warning: unused doc comment [INFO] [stderr] --> src/pattern_matching/pssm/mod.rs:55:1 [INFO] [stderr] | [INFO] [stderr] 55 | /// Errors [INFO] [stderr] | ^^^^^^^^^^ [INFO] [stderr] 56 | / quick_error! { [INFO] [stderr] 57 | | #[derive(Debug, PartialEq)] [INFO] [stderr] 58 | | pub enum PSSMError { [INFO] [stderr] 59 | | QueryTooShort(motif_len: usize, query_len: usize) { [INFO] [stderr] ... | [INFO] [stderr] 83 | | } [INFO] [stderr] 84 | | } [INFO] [stderr] | |_- rustdoc does not generate documentation for macro expansions [INFO] [stderr] | [INFO] [stderr] = note: #[warn(unused_doc_comments)] on by default [INFO] [stderr] = help: to document an item produced by a macro, the macro must produce the documentation as part of its expansion [INFO] [stderr] [INFO] [stderr] warning: unused doc comment [INFO] [stderr] --> src/stats/hmm.rs:88:1 [INFO] [stderr] | [INFO] [stderr] 88 | /// Errors [INFO] [stderr] | ^^^^^^^^^^ [INFO] [stderr] 89 | / quick_error! { [INFO] [stderr] 90 | | #[derive(Debug, PartialEq)] [INFO] [stderr] 91 | | pub enum HMMError { [INFO] [stderr] 92 | | InvalidDimension(an0: usize, an1: usize, bn: usize, bm: usize, pin: usize) { [INFO] [stderr] ... | [INFO] [stderr] 98 | | } [INFO] [stderr] 99 | | } [INFO] [stderr] | |_- rustdoc does not generate documentation for macro expansions [INFO] [stderr] | [INFO] [stderr] = help: to document an item produced by a macro, the macro must produce the documentation as part of its expansion [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fasta.rs:139:14 [INFO] [stderr] | [INFO] [stderr] 139 | .trim_right() [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] | [INFO] [stderr] = note: #[warn(deprecated)] on by default [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fasta.rs:145:14 [INFO] [stderr] | [INFO] [stderr] 145 | .trim_right() [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fasta.rs:155:43 [INFO] [stderr] | [INFO] [stderr] 155 | record.seq.push_str(self.line.trim_right()); [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fastq.rs:80:18 [INFO] [stderr] | [INFO] [stderr] 80 | .trim_right() [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fastq.rs:86:18 [INFO] [stderr] | [INFO] [stderr] 86 | .trim_right() [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fastq.rs:179:18 [INFO] [stderr] | [INFO] [stderr] 179 | self.seq.trim_right().as_bytes() [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fastq.rs:184:19 [INFO] [stderr] | [INFO] [stderr] 184 | self.qual.trim_right().as_bytes() [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'ndarray::impl_methods::>::subview': renamed to `index_axis` [INFO] [stderr] --> src/stats/hmm.rs:266:22 [INFO] [stderr] | [INFO] [stderr] 266 | .subview(Axis(0), i - 1) [INFO] [stderr] | ^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fasta.rs:139:14 [INFO] [stderr] | [INFO] [stderr] 139 | .trim_right() [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] | [INFO] [stderr] = note: #[warn(deprecated)] on by default [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fasta.rs:145:14 [INFO] [stderr] | [INFO] [stderr] 145 | .trim_right() [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fasta.rs:155:43 [INFO] [stderr] | [INFO] [stderr] 155 | record.seq.push_str(self.line.trim_right()); [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fastq.rs:80:18 [INFO] [stderr] | [INFO] [stderr] 80 | .trim_right() [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fastq.rs:86:18 [INFO] [stderr] | [INFO] [stderr] 86 | .trim_right() [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fastq.rs:179:18 [INFO] [stderr] | [INFO] [stderr] 179 | self.seq.trim_right().as_bytes() [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'core::str::::trim_right': superseded by `trim_end` [INFO] [stderr] --> src/io/fastq.rs:184:19 [INFO] [stderr] | [INFO] [stderr] 184 | self.qual.trim_right().as_bytes() [INFO] [stderr] | ^^^^^^^^^^ help: replace the use of the deprecated item: `trim_end` [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'ndarray::impl_methods::>::subview': renamed to `index_axis` [INFO] [stderr] --> src/stats/hmm.rs:266:22 [INFO] [stderr] | [INFO] [stderr] 266 | .subview(Axis(0), i - 1) [INFO] [stderr] | ^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/pattern_matching/myers/traceback.rs:239:13 [INFO] [stderr] | [INFO] [stderr] 239 | for mut s in states.into_iter().cloned() { [INFO] [stderr] | ----^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] | [INFO] [stderr] = note: #[warn(unused_mut)] on by default [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around function argument [INFO] [stderr] --> benches/interval_tree.rs:17:64 [INFO] [stderr] | [INFO] [stderr] 17 | b.iter(|| test_insert_query(10, &(100_000..200_000), 1000, (105_000..106_000))); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] | [INFO] [stderr] = note: #[warn(unused_parens)] on by default [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around function argument [INFO] [stderr] --> benches/interval_tree.rs:24:62 [INFO] [stderr] | [INFO] [stderr] 24 | b.iter(|| test_insert_query(10, &(100_000..200_000), 10, (99_995..199_995))); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around method argument [INFO] [stderr] --> benches/interval_tree.rs:36:21 [INFO] [stderr] | [INFO] [stderr] 36 | tree.insert((i..i + insert_size), (i..i + insert_size)); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around method argument [INFO] [stderr] --> benches/interval_tree.rs:36:43 [INFO] [stderr] | [INFO] [stderr] 36 | tree.insert((i..i + insert_size), (i..i + insert_size)); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around function argument [INFO] [stderr] --> benches/interval_tree.rs:47:37 [INFO] [stderr] | [INFO] [stderr] 47 | assert_intersections(&tree, (lower_bound..upper_bound), &expected_intersections); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/pattern_matching/myers/traceback.rs:239:13 [INFO] [stderr] | [INFO] [stderr] 239 | for mut s in states.into_iter().cloned() { [INFO] [stderr] | ----^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] | [INFO] [stderr] = note: #[warn(unused_mut)] on by default [INFO] [stderr] [INFO] [stderr] warning: unused return value of `std::iter::Iterator::collect` that must be used [INFO] [stderr] --> benches/pattern_matching.rs:232:13 [INFO] [stderr] | [INFO] [stderr] 232 | shiftand.find_all(TEXT.iter()).collect::>(); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: #[warn(unused_must_use)] on by default [INFO] [stderr] = note: if you really need to exhaust the iterator, consider `.for_each(drop)` instead [INFO] [stderr] [INFO] [stderr] warning: unused return value of `std::iter::Iterator::collect` that must be used [INFO] [stderr] --> benches/pattern_matching.rs:242:13 [INFO] [stderr] | [INFO] [stderr] 242 | bndm.find_all(TEXT).collect::>(); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: if you really need to exhaust the iterator, consider `.for_each(drop)` instead [INFO] [stderr] [INFO] [stderr] warning: unused return value of `std::iter::Iterator::collect` that must be used [INFO] [stderr] --> benches/pattern_matching.rs:252:13 [INFO] [stderr] | [INFO] [stderr] 252 | bom.find_all(TEXT).collect::>(); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: if you really need to exhaust the iterator, consider `.for_each(drop)` instead [INFO] [stderr] [INFO] [stderr] warning: unused return value of `std::iter::Iterator::collect` that must be used [INFO] [stderr] --> benches/pattern_matching.rs:262:13 [INFO] [stderr] | [INFO] [stderr] 262 | horspool.find_all(TEXT).collect::>(); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: if you really need to exhaust the iterator, consider `.for_each(drop)` instead [INFO] [stderr] [INFO] [stderr] warning: unused return value of `std::iter::Iterator::collect` that must be used [INFO] [stderr] --> benches/pattern_matching.rs:272:13 [INFO] [stderr] | [INFO] [stderr] 272 | kmp.find_all(TEXT.iter()).collect::>(); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: if you really need to exhaust the iterator, consider `.for_each(drop)` instead [INFO] [stderr] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 18.13s [INFO] running `"docker" "inspect" "e6ca15ca8276cc302107152184ac1116f702c117bdb07a7deb4ddb1db0e5beda"` [INFO] running `"docker" "rm" "-f" "e6ca15ca8276cc302107152184ac1116f702c117bdb07a7deb4ddb1db0e5beda"` [INFO] [stdout] e6ca15ca8276cc302107152184ac1116f702c117bdb07a7deb4ddb1db0e5beda