[INFO] cloning repository hillst/bamreadfilt [INFO] running `"git" "clone" "--bare" "git://github.com/hillst/bamreadfilt.git" "work/cache/sources/gh/hillst/bamreadfilt"` [INFO] [stderr] Cloning into bare repository 'work/cache/sources/gh/hillst/bamreadfilt'... [INFO] running `"git" "clone" "work/cache/sources/gh/hillst/bamreadfilt" "work/ex/pr-61629/sources/master#c8865d8e195813ade6b84434ac9f8850e7112d1a/gh/hillst/bamreadfilt"` [INFO] [stderr] Cloning into 'work/ex/pr-61629/sources/master#c8865d8e195813ade6b84434ac9f8850e7112d1a/gh/hillst/bamreadfilt'... [INFO] [stderr] done. [INFO] running `"git" "clone" "work/cache/sources/gh/hillst/bamreadfilt" "work/ex/pr-61629/sources/try#e212b7d492c96d3837691ba29d32d5f468933fb8/gh/hillst/bamreadfilt"` [INFO] [stderr] Cloning into 'work/ex/pr-61629/sources/try#e212b7d492c96d3837691ba29d32d5f468933fb8/gh/hillst/bamreadfilt'... [INFO] [stderr] done. [INFO] running `"git" "rev-parse" "HEAD"` [INFO] [stdout] fbcf1d13b49dd648b7e51756c9b66987d9176b0c [INFO] sha for GitHub repo hillst/bamreadfilt: fbcf1d13b49dd648b7e51756c9b66987d9176b0c [INFO] validating manifest of hillst/bamreadfilt on toolchain master#c8865d8e195813ade6b84434ac9f8850e7112d1a [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+c8865d8e195813ade6b84434ac9f8850e7112d1a-alt" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] validating manifest of hillst/bamreadfilt on toolchain try#e212b7d492c96d3837691ba29d32d5f468933fb8 [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+e212b7d492c96d3837691ba29d32d5f468933fb8-alt" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] started frobbing hillst/bamreadfilt [INFO] finished frobbing hillst/bamreadfilt [INFO] frobbed toml for hillst/bamreadfilt written to work/ex/pr-61629/sources/master#c8865d8e195813ade6b84434ac9f8850e7112d1a/gh/hillst/bamreadfilt/Cargo.toml [INFO] started frobbing hillst/bamreadfilt [INFO] finished frobbing hillst/bamreadfilt [INFO] frobbed toml for hillst/bamreadfilt written to work/ex/pr-61629/sources/try#e212b7d492c96d3837691ba29d32d5f468933fb8/gh/hillst/bamreadfilt/Cargo.toml [INFO] crate hillst/bamreadfilt already has a lockfile, it will not be regenerated [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+c8865d8e195813ade6b84434ac9f8850e7112d1a-alt" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] [stderr] Updating crates.io index [INFO] [stderr] error: the lock file /mnt/big/crater/work/ex/pr-61629/sources/master#c8865d8e195813ade6b84434ac9f8850e7112d1a/gh/hillst/bamreadfilt/Cargo.lock needs to be updated but --locked was passed to prevent this [INFO] the lockfile is outdated, regenerating it [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+c8865d8e195813ade6b84434ac9f8850e7112d1a-alt" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update"` [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+e212b7d492c96d3837691ba29d32d5f468933fb8-alt" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update"` [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+c8865d8e195813ade6b84434ac9f8850e7112d1a-alt" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded rust-htslib v0.16.0 [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+e212b7d492c96d3837691ba29d32d5f468933fb8-alt" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] [stderr] Blocking waiting for file lock on package cache lock [INFO] testing hillst/bamreadfilt against try#e212b7d492c96d3837691ba29d32d5f468933fb8 for pr-61629 [INFO] running `"docker" "create" "-v" "/mnt/big/crater/work/local/target-dirs/pr-61629/worker-6/try#e212b7d492c96d3837691ba29d32d5f468933fb8:/opt/crater/target:rw,Z" "-v" "/mnt/big/crater/work/ex/pr-61629/sources/try#e212b7d492c96d3837691ba29d32d5f468933fb8/gh/hillst/bamreadfilt:/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" "+e212b7d492c96d3837691ba29d32d5f468933fb8-alt" "build" "--frozen"` [INFO] [stdout] 8c5a3cdc1c7e378d55b973fd6bf94948a8d313c6d25f33e96a4105b2ff5bb6a1 [INFO] running `"docker" "start" "-a" "8c5a3cdc1c7e378d55b973fd6bf94948a8d313c6d25f33e96a4105b2ff5bb6a1"` [INFO] [stderr] Compiling libloading v0.4.3 [INFO] [stderr] Compiling bindgen v0.32.3 [INFO] [stderr] Compiling peeking_take_while v0.1.2 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling ieee754 v0.2.6 [INFO] [stderr] Compiling argparse v0.2.2 [INFO] [stderr] Compiling clang-sys v0.21.2 [INFO] [stderr] Compiling fs-utils v1.1.1 [INFO] [stderr] Compiling itertools v0.6.5 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling memchr v1.0.2 [INFO] [stderr] Compiling which v1.0.5 [INFO] [stderr] Compiling rand v0.4.6 [INFO] [stderr] Compiling nom v3.2.1 [INFO] [stderr] Compiling env_logger v0.4.3 [INFO] [stderr] Compiling cexpr v0.2.3 [INFO] [stderr] Compiling rust-htslib v0.16.0 [INFO] [stderr] Compiling bamreadfilt v0.1.1 (/opt/crater/workdir) [INFO] [stderr] warning: unused imports: `StoreFalse`, `StoreOption` [INFO] [stderr] --> src/lib.rs:10:50 [INFO] [stderr] | [INFO] [stderr] 10 | use argparse::{ArgumentParser, StoreTrue, Store, StoreFalse, StoreOption}; [INFO] [stderr] | ^^^^^^^^^^ ^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: #[warn(unused_imports)] on by default [INFO] [stderr] [INFO] [stderr] warning: unused import: `std::collections::HashSet` [INFO] [stderr] --> src/lib.rs:11:5 [INFO] [stderr] | [INFO] [stderr] 11 | use std::collections::HashSet; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `std::fs::File` [INFO] [stderr] --> src/lib.rs:15:5 [INFO] [stderr] | [INFO] [stderr] 15 | use std::fs::File; [INFO] [stderr] | ^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused variable: `fetched` [INFO] [stderr] --> src/lib.rs:218:13 [INFO] [stderr] | [INFO] [stderr] 218 | let fetched = match bam_reader.fetch(vcf_head.chrm, vcf_head.pos, vcf_head.pos + 1){ [INFO] [stderr] | ^^^^^^^ help: consider prefixing with an underscore: `_fetched` [INFO] [stderr] | [INFO] [stderr] = note: #[warn(unused_variables)] on by default [INFO] [stderr] [INFO] [stderr] warning: unused variable: `fetched` [INFO] [stderr] --> src/lib.rs:242:21 [INFO] [stderr] | [INFO] [stderr] 242 | let fetched = match self._bam.fetch(rid, entry.pos(), entry.pos() + 1){ [INFO] [stderr] | ^^^^^^^ help: consider prefixing with an underscore: `_fetched` [INFO] [stderr] [INFO] [stderr] warning: unused variable: `vcf` [INFO] [stderr] --> src/lib.rs:357:64 [INFO] [stderr] | [INFO] [stderr] 357 | pub fn collect_stats_stream(&mut self, item: &bam::Record, vcf: &VCFRecord, pir: usize) { [INFO] [stderr] | ^^^ help: consider prefixing with an underscore: `_vcf` [INFO] [stderr] [INFO] [stderr] warning: variant is never constructed: `BamRecord` [INFO] [stderr] --> src/lib.rs:437:5 [INFO] [stderr] | [INFO] [stderr] 437 | BamRecord(bam::Record), [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: #[warn(dead_code)] on by default [INFO] [stderr] [INFO] [stderr] warning: method is never used: `iter` [INFO] [stderr] --> src/lib.rs:485:5 [INFO] [stderr] | [INFO] [stderr] 485 | fn iter(&self) -> std::collections::hash_set::Iter { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: method is never used: `len` [INFO] [stderr] --> src/lib.rs:489:5 [INFO] [stderr] | [INFO] [stderr] 489 | fn len(&self) -> usize { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: method is never used: `max` [INFO] [stderr] --> src/lib.rs:493:5 [INFO] [stderr] | [INFO] [stderr] 493 | fn max(&self) -> Option<&UniqueRead> { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: method is never used: `min` [INFO] [stderr] --> src/lib.rs:497:5 [INFO] [stderr] | [INFO] [stderr] 497 | fn min(&self) -> Option<&UniqueRead> { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] error[E0635]: unknown feature `rand` [INFO] [stderr] --> src/lib.rs:2:12 [INFO] [stderr] | [INFO] [stderr] 2 | #![feature(rand)] [INFO] [stderr] | ^^^^ [INFO] [stderr] [INFO] [stderr] error: aborting due to previous error [INFO] [stderr] [INFO] [stderr] For more information about this error, try `rustc --explain E0635`. [INFO] [stderr] error: Could not compile `bamreadfilt`. [INFO] [stderr] [INFO] [stderr] To learn more, run the command again with --verbose. [INFO] running `"docker" "inspect" "8c5a3cdc1c7e378d55b973fd6bf94948a8d313c6d25f33e96a4105b2ff5bb6a1"` [INFO] running `"docker" "rm" "-f" "8c5a3cdc1c7e378d55b973fd6bf94948a8d313c6d25f33e96a4105b2ff5bb6a1"` [INFO] [stdout] 8c5a3cdc1c7e378d55b973fd6bf94948a8d313c6d25f33e96a4105b2ff5bb6a1