[package - 142releng-armv7-default][biology/coverm] Failed for coverm-0.7.0_7 in build
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Date: Thu, 31 Jul 2025 08:33:50 UTC
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: yuri@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/ampere3/data/142releng-armv7-default/b3423aefe7f1/logs/coverm-0.7.0_7.log
Build URL: https://pkg-status.freebsd.org/ampere3/build.html?mastername=142releng-armv7-default&build=b3423aefe7f1
Log:
=>> Building biology/coverm
build started at Thu Jul 31 08:26:16 UTC 2025
port directory: /usr/ports/biology/coverm
package name: coverm-0.7.0_7
building for: FreeBSD 142releng-armv7-default-job-11 14.2-RELEASE-p4 FreeBSD 14.2-RELEASE-p4 1402000 arm
maintained by: yuri@FreeBSD.org
Makefile datestamp: -rw-r--r-- 1 root wheel 5806 Jul 8 01:02 /usr/ports/biology/coverm/Makefile
Ports top last git commit: b3423aefe7f
Ports top unclean checkout: no
Port dir last git commit: f3f7e555b06
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.4.2-12-g74a54a88
Host OSVERSION: 1500035
Jail OSVERSION: 1402000
Job Id: 11
---Begin Environment---
SHELL=/bin/sh
OSVERSION=1402000
UNAME_v=FreeBSD 14.2-RELEASE-p4 1402000
UNAME_r=14.2-RELEASE-p4
BLOCKSIZE=K
MAIL=/var/mail/root
MM_CHARSET=UTF-8
LANG=C.UTF-8
STATUS=1
HOME=/root
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
MAKE_OBJDIR_CHECK_WRITABLE=0
LOCALBASE=/usr/local
USER=root
POUDRIERE_NAME=poudriere-git
LIBEXECPREFIX=/usr/local/libexec/poudriere
POUDRIERE_VERSION=3.4.2-12-g74a54a88
MASTERMNT=/usr/local/poudriere/data/.m/142releng-armv7-default/ref
LC_COLLATE=C
POUDRIERE_BUILD_TYPE=bulk
PACKAGE_BUILDING=yes
SAVED_TERM=
OUTPUT_REDIRECTED_STDERR=4
OUTPUT_REDIRECTED=1
PWD=/usr/local/poudriere/data/.m/142releng-armv7-default/11/.p
OUTPUT_REDIRECTED_STDOUT=3
P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS
MASTERNAME=142releng-armv7-default
SCRIPTPREFIX=/usr/local/share/poudriere
SCRIPTNAME=bulk.sh
OLDPWD=/usr/local/poudriere/data/.m/142releng-armv7-default/ref/.p/pool
POUDRIERE_PKGNAME=poudriere-git-3.4.2-12-g74a54a88
SCRIPTPATH=/usr/local/share/poudriere/bulk.sh
POUDRIEREPATH=/usr/local/bin/poudriere
---End Environment---
---Begin Poudriere Port Flags/Env---
PORT_FLAGS=
PKGENV=
FLAVOR=
MAKE_ARGS=
---End Poudriere Port Flags/Env---
---Begin OPTIONS List---
---End OPTIONS List---
--MAINTAINER--
yuri@FreeBSD.org
--End MAINTAINER--
--CONFIGURE_ARGS--
--End CONFIGURE_ARGS--
--CONFIGURE_ENV--
PKG_CONFIG=pkgconf XDG_DATA_HOME=/wrkdirs/usr/ports/biology/coverm/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/coverm/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/coverm/work/.cache HOME=/wrkdirs/usr/ports/biology/coverm/work TMPDIR="/wrkdirs/usr/ports/biology/coverm/work" PATH=/wrkdirs/usr/ports/biology/coverm/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/coverm/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh
--End CONFIGURE_ENV--
--MAKE_ENV--
XDG_DATA_HOME=/wrkdirs/usr/ports/biology/coverm/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/coverm/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/coverm/work/.cache HOME=/wrkdirs/usr/ports/biology/coverm/work TMPDIR="/wrkdirs/usr/ports/biology/coverm/work" PATH=/wrkdirs/usr/ports/biology/coverm/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/coverm/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644
" BSD_INSTALL_MAN="install -m 444"
--End MAKE_ENV--
--PLIST_SUB--
OSREL=14.2 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/coverm" EXAMPLESDIR="share/examples/coverm" DATADIR="share/coverm" WWWDIR="www/coverm" ETCDIR="etc/coverm"
--End PLIST_SUB--
--SUB_LIST--
PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/coverm DOCSDIR=/usr/local/share/doc/coverm EXAMPLESDIR=/usr/local/share/examples/coverm WWWDIR=/usr/local/www/coverm ETCDIR=/usr/local/etc/coverm
--End SUB_LIST--
---Begin make.conf---
# XXX: We really need this but cannot use it while 'make checksum' does not
# try the next mirror on checksum failure. It currently retries the same
# failed mirror and then fails rather then trying another. It *does*
# try the next if the size is mismatched though.
#MASTER_SITE_FREEBSD=yes
# Build ALLOW_MAKE_JOBS_PACKAGES with 3 jobs
MAKE_JOBS_NUMBER=3
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
PACKAGE_BUILDING=yes
PACKAGE_BUILDING_FLAVORS=yes
#### ####
# XXX: We really need this but cannot use it while 'make checksum' does not
# try the next mirror on checksum failure. It currently retries the same
# failed mirror and then fails rather then trying another. It *does*
# try the next if the size is mismatched though.
#MASTER_SITE_FREEBSD=yes
# Build ALLOW_MAKE_JOBS_PACKAGES with 3 jobs
MAKE_JOBS_NUMBER=3
#### Misc Poudriere ####
.include "/etc/make.conf.ports_env"
GID=0
UID=0
---End make.conf---
--Resource limits--
cpu time (seconds, -t) unlimited
file size (512-blocks, -f) unlimited
data seg size (kbytes, -d) 524288
stack size (kbytes, -s) 65536
core file size (512-blocks, -c) unlimited
max memory size (kbytes, -m) unlimited
locked memory (kbytes, -l) unlimited
max user processes (-u) 89999
open files (-n) 8192
virtual mem size (kbytes, -v) unlimited
swap limit (kbytes, -w) unlimited
socket buffer size (bytes, -b) unlimited
pseudo-terminals (-p) unlimited
kqueues (-k) unlimited
umtx shared locks (-o) unlimited
pipebuf (-y) unlimited
--End resource limits--
=======================<phase: check-sanity >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License AGPLv3 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> coverm-0.7.0_7 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-2.2.1.pkg
[142releng-armv7-default-job-11] Installing pkg-2.2.1...
[142releng-armv7-default-job-11] Extracting pkg-2.2.1: .......... done
===> coverm-0.7.0_7 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of coverm-0.7.0_7
===========================================================================
=======================<phase: fetch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: fetch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License AGPLv3 accepted by the user
===> Fetching all distfiles required by coverm-0.7.0_7 for building
===========================================================================
=======================<phase: checksum >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License AGPLv3 accepted by the user
===> Fetching all distfiles required by coverm-0.7.0_7 for building
=> SHA256 Checksum OK for rust/crates/addr2line-0.24.2.crate.
=> SHA256 Checksum OK for rust/crates/adler2-2.0.0.crate.
=> SHA256 Checksum OK for rust/crates/aho-corasick-1.1.3.crate.
=> SHA256 Checksum OK for rust/crates/ansi_term-0.12.1.crate.
=> SHA256 Checksum OK for rust/crates/anstream-0.6.15.crate.
=> SHA256 Checksum OK for rust/crates/anstyle-1.0.8.crate.
=> SHA256 Checksum OK for rust/crates/anstyle-parse-0.2.5.crate.
=> SHA256 Checksum OK for rust/crates/anstyle-query-1.1.1.crate.
=> SHA256 Checksum OK for rust/crates/anstyle-wincon-3.0.4.crate.
=> SHA256 Checksum OK for rust/crates/anyhow-1.0.89.crate.
=> SHA256 Checksum OK for rust/crates/approx-0.5.1.crate.
=> SHA256 Checksum OK for rust/crates/assert_cli-0.6.3.crate.
=> SHA256 Checksum OK for rust/crates/atty-0.2.14.crate.
=> SHA256 Checksum OK for rust/crates/autocfg-1.4.0.crate.
=> SHA256 Checksum OK for rust/crates/backtrace-0.3.74.crate.
=> SHA256 Checksum OK for rust/crates/bincode-1.3.3.crate.
=> SHA256 Checksum OK for rust/crates/bio-1.6.0.crate.
=> SHA256 Checksum OK for rust/crates/bio-types-1.0.4.crate.
=> SHA256 Checksum OK for rust/crates/bird_tool_utils-0.5.1.crate.
=> SHA256 Checksum OK for rust/crates/bird_tool_utils-man-0.4.0.crate.
=> SHA256 Checksum OK for rust/crates/bit-set-0.5.3.crate.
=> SHA256 Checksum OK for rust/crates/bit-vec-0.5.1.crate.
=> SHA256 Checksum OK for rust/crates/bit-vec-0.6.3.crate.
=> SHA256 Checksum OK for rust/crates/bitflags-1.3.2.crate.
=> SHA256 Checksum OK for rust/crates/bitflags-2.6.0.crate.
=> SHA256 Checksum OK for rust/crates/buf_redux-0.8.4.crate.
=> SHA256 Checksum OK for rust/crates/buffer-redux-1.0.2.crate.
=> SHA256 Checksum OK for rust/crates/bv-0.11.1.crate.
=> SHA256 Checksum OK for rust/crates/bytecount-0.6.8.crate.
=> SHA256 Checksum OK for rust/crates/bytemuck-1.18.0.crate.
=> SHA256 Checksum OK for rust/crates/byteorder-1.5.0.crate.
=> SHA256 Checksum OK for rust/crates/bzip2-0.4.4.crate.
=> SHA256 Checksum OK for rust/crates/bzip2-sys-0.1.11+1.0.8.crate.
=> SHA256 Checksum OK for rust/crates/capnp-0.14.11.crate.
=> SHA256 Checksum OK for rust/crates/cargo-husky-1.5.0.crate.
=> SHA256 Checksum OK for rust/crates/cc-1.1.24.crate.
=> SHA256 Checksum OK for rust/crates/cfg-if-1.0.0.crate.
=> SHA256 Checksum OK for rust/crates/checkm-0.2.0.crate.
=> SHA256 Checksum OK for rust/crates/clap-3.2.25.crate.
=> SHA256 Checksum OK for rust/crates/clap-4.5.19.crate.
<snip>
= help: consider using a Cargo feature instead
= help: or consider adding in `Cargo.toml` the `check-cfg` lint config for the lint:
[lints.rust]
unexpected_cfgs = { level = "warn", check-cfg = ['cfg(fbsd14)'] }
= help: or consider adding `println!("cargo::rustc-check-cfg=cfg(fbsd14)");` to the top of the `build.rs`
= note: see <https://doc.rust-lang.org/nightly/rustc/check-cfg/cargo-specifics.html> for more information about checking conditional configuration
warning: unexpected `cfg` condition name: `fbsd14`
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/fcntl.rs:784:12
|
784 | #[cfg_attr(fbsd14, doc = " ```")]
| ^^^^^^
|
= help: consider using a Cargo feature instead
= help: or consider adding in `Cargo.toml` the `check-cfg` lint config for the lint:
[lints.rust]
unexpected_cfgs = { level = "warn", check-cfg = ['cfg(fbsd14)'] }
= help: or consider adding `println!("cargo::rustc-check-cfg=cfg(fbsd14)");` to the top of the `build.rs`
= note: see <https://doc.rust-lang.org/nightly/rustc/check-cfg/cargo-specifics.html> for more information about checking conditional configuration
warning: unexpected `cfg` condition name: `fbsd14`
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/fcntl.rs:785:16
|
785 | #[cfg_attr(not(fbsd14), doc = " ```no_run")]
| ^^^^^^
|
= help: consider using a Cargo feature instead
= help: or consider adding in `Cargo.toml` the `check-cfg` lint config for the lint:
[lints.rust]
unexpected_cfgs = { level = "warn", check-cfg = ['cfg(fbsd14)'] }
= help: or consider adding `println!("cargo::rustc-check-cfg=cfg(fbsd14)");` to the top of the `build.rs`
= note: see <https://doc.rust-lang.org/nightly/rustc/check-cfg/cargo-specifics.html> for more information about checking conditional configuration
warning: unexpected `cfg` condition name: `fbsd14`
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/aio.rs:627:12
|
627 | #[cfg_attr(fbsd14, doc = " ```")]
| ^^^^^^
|
= help: consider using a Cargo feature instead
= help: or consider adding in `Cargo.toml` the `check-cfg` lint config for the lint:
[lints.rust]
unexpected_cfgs = { level = "warn", check-cfg = ['cfg(fbsd14)'] }
= help: or consider adding `println!("cargo::rustc-check-cfg=cfg(fbsd14)");` to the top of the `build.rs`
= note: see <https://doc.rust-lang.org/nightly/rustc/check-cfg/cargo-specifics.html> for more information about checking conditional configuration
warning: unexpected `cfg` condition name: `fbsd14`
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/aio.rs:628:16
|
628 | #[cfg_attr(not(fbsd14), doc = " ```no_run")]
| ^^^^^^
|
= help: consider using a Cargo feature instead
= help: or consider adding in `Cargo.toml` the `check-cfg` lint config for the lint:
[lints.rust]
unexpected_cfgs = { level = "warn", check-cfg = ['cfg(fbsd14)'] }
= help: or consider adding `println!("cargo::rustc-check-cfg=cfg(fbsd14)");` to the top of the `build.rs`
= note: see <https://doc.rust-lang.org/nightly/rustc/check-cfg/cargo-specifics.html> for more information about checking conditional configuration
warning: unexpected `cfg` condition name: `fbsd14`
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/aio.rs:862:12
|
862 | #[cfg_attr(fbsd14, doc = " ```")]
| ^^^^^^
|
= help: consider using a Cargo feature instead
= help: or consider adding in `Cargo.toml` the `check-cfg` lint config for the lint:
[lints.rust]
unexpected_cfgs = { level = "warn", check-cfg = ['cfg(fbsd14)'] }
= help: or consider adding `println!("cargo::rustc-check-cfg=cfg(fbsd14)");` to the top of the `build.rs`
= note: see <https://doc.rust-lang.org/nightly/rustc/check-cfg/cargo-specifics.html> for more information about checking conditional configuration
warning: unexpected `cfg` condition name: `fbsd14`
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/aio.rs:863:16
|
863 | #[cfg_attr(not(fbsd14), doc = " ```no_run")]
| ^^^^^^
|
= help: consider using a Cargo feature instead
= help: or consider adding in `Cargo.toml` the `check-cfg` lint config for the lint:
[lints.rust]
unexpected_cfgs = { level = "warn", check-cfg = ['cfg(fbsd14)'] }
= help: or consider adding `println!("cargo::rustc-check-cfg=cfg(fbsd14)");` to the top of the `build.rs`
= note: see <https://doc.rust-lang.org/nightly/rustc/check-cfg/cargo-specifics.html> for more information about checking conditional configuration
warning: `extern` declarations without an explicit ABI are deprecated
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/signal.rs:652:13
|
652 | Handler(extern fn(libc::c_int)),
| ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`
|
= note: `#[warn(missing_abi)]` on by default
warning: `extern` declarations without an explicit ABI are deprecated
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/signal.rs:657:15
|
657 | SigAction(extern fn(libc::c_int, *mut libc::siginfo_t, *mut libc::c_void))
| ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`
warning: `extern` declarations without an explicit ABI are deprecated
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/signal.rs:677:55
|
677 | SigHandler::Handler(f) => f as *const extern fn(libc::c_int) as usize,
| ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`
warning: `extern` declarations without an explicit ABI are deprecated
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/signal.rs:679:57
|
679 | SigHandler::SigAction(f) => f as *const extern fn(libc::c_int, *mut libc::siginfo_t, *mut libc::c_void) as usize,
| ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`
warning: `extern` declarations without an explicit ABI are deprecated
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/signal.rs:725:36
|
725 | as *const extern fn(_, _, _))
| ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`
warning: `extern` declarations without an explicit ABI are deprecated
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/signal.rs:727:20
|
727 | as extern fn(_, _, _)),
| ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`
warning: `extern` declarations without an explicit ABI are deprecated
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/signal.rs:737:36
|
737 | as *const extern fn(libc::c_int))
| ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`
warning: `extern` declarations without an explicit ABI are deprecated
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/signal.rs:739:20
|
739 | as extern fn(libc::c_int)),
| ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`
warning: `extern` declarations without an explicit ABI are deprecated
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/signal.rs:841:32
|
841 | as *const extern fn(libc::c_int))
| ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`
warning: `extern` declarations without an explicit ABI are deprecated
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/signal.rs:842:20
|
842 | as extern fn(libc::c_int)),
| ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`
warning: elided lifetime has a name
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/socket/sockopt.rs:1332:34
|
1331 | impl<'a> Set<'a, OsString> for SetOsString<'a> {
| -- lifetime `'a` declared here
1332 | fn new(val: &'a OsString) -> SetOsString {
| ^^^^^^^^^^^ this elided lifetime gets resolved as `'a`
|
= note: `#[warn(elided_named_lifetimes)]` on by default
warning: `extern` declarations without an explicit ABI are deprecated
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/statfs.rs:47:36
|
47 | const LIBC_FSTATFS: unsafe extern fn
| ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`
warning: `extern` declarations without an explicit ABI are deprecated
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/statfs.rs:50:35
|
50 | const LIBC_STATFS: unsafe extern fn
| ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`
For more information about this error, try `rustc --explain E0308`.
error: could not compile `rust-htslib` (lib) due to 9 previous errors
Caused by:
process didn't exit successfully: `CARGO=/usr/local/bin/cargo CARGO_CRATE_NAME=rust_htslib CARGO_MANIFEST_DIR=/wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/rust-htslib-0.44.1 CARGO_MANIFEST_PATH=/wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/rust-htslib-0.44.1/Cargo.toml CARGO_PKG_AUTHORS='Christopher Schröder <christopher.schroeder@tu-dortmund.de>:Johannes Köster <johannes.koester@tu-dortmund.de>' CARGO_PKG_DESCRIPTION='This library provides HTSlib bindings and a high level Rust API for reading and writing BAM files.' CARGO_PKG_HOMEPAGE='' CARGO_PKG_LICENSE=MIT CARGO_PKG_LICENSE_FILE='' CARGO_PKG_NAME=rust-htslib CARGO_PKG_README=README.md CARGO_PKG_REPOSITORY='https://github.com/rust-bio/rust-htslib.git' CARGO_PKG_RUST_VERSION='' CARGO_PKG_VERSION=0.44.1 CARGO_PKG_VERSION_MAJOR=0 CARGO_PKG_VERSION_MINOR=44 CARGO_PKG_VERSION_PATCH=1 CARGO_PKG_VERSION_PRE='' LD_LIBRARY_PATH=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps /u
sr/local/bin/rustc --crate-name rust_htslib --edition=2018 /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/rust-htslib-0.44.1/src/lib.rs --error-format=json --json=diagnostic-rendered-ansi,artifacts,future-incompat --crate-type lib --emit=dep-info,metadata,link -C opt-level=3 -C panic=abort -C linker-plugin-lto -C codegen-units=1 --check-cfg 'cfg(docsrs,test)' --check-cfg 'cfg(feature, values("bindgen", "bzip2", "curl", "default", "gcs", "libdeflate", "lzma", "s3", "serde", "serde_bytes", "serde_feature", "static"))' -C metadata=4f76b85ccc0f311d -C extra-filename=-c66c9e8616a92bc2 --out-dir /wrkdirs/usr/ports/biology/coverm/work/target/release/deps -C strip=symbols -L dependency=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps --extern bio_types=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps/libbio_types-43e822fa0dad2cfa.rmeta --extern byteorder=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps/libbyteorder-b80956c97f283fcf.rme
ta --extern custom_derive=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps/libcustom_derive-42ab22c6fd92b282.rmeta --extern derive_new=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps/libderive_new-06696b8a7093e8c9.so --extern hts_sys=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps/libhts_sys-c26ba8ec75b3dd26.rmeta --extern ieee754=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps/libieee754-37ec808844007e98.rmeta --extern lazy_static=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps/liblazy_static-94dbea200700be9c.rmeta --extern libc=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps/liblibc-a6a7e02893365e9c.rmeta --extern linear_map=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps/liblinear_map-2095da7606a15fa5.rmeta --extern newtype_derive=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps/libnewtype_derive-d84c86f39cc705d8.rmeta --extern regex=/wrkdirs/usr/ports/biology/coverm/work/target/release/
deps/libregex-d0de2b51101d4bfd.rmeta --extern thiserror=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps/libthiserror-ef7e45e6d240e6fa.rmeta --extern url=/wrkdirs/usr/ports/biology/coverm/work/target/release/deps/liburl-0cb3b73d39b7d724.rmeta --cap-lints warn -C target-cpu= -L native=/wrkdirs/usr/ports/biology/coverm/work/target/release/build/hts-sys-01897a4c42ff0bbf/out -L native=/wrkdirs/usr/ports/biology/coverm/work/target/release/build/libz-sys-8d49e24b54d2f48e/out/lib -L native=/wrkdirs/usr/ports/biology/coverm/work/target/release/build/libz-sys-8d49e24b54d2f48e/out/lib64` (exit status: 1)
warning: build failed, waiting for other jobs to finish...
warning: fields `1` and `2` are never read
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/sys/sendfile.rs:76:13
|
74 | struct SendfileHeaderTrailer<'a>(
| --------------------- fields in this struct
75 | libc::sf_hdtr,
76 | Option<Vec<IoSlice<'a>>>,
| ^^^^^^^^^^^^^^^^^^^^^^^^
77 | Option<Vec<IoSlice<'a>>>,
| ^^^^^^^^^^^^^^^^^^^^^^^^
|
= help: consider removing these fields
= note: `SendfileHeaderTrailer` has derived impls for the traits `Debug` and `Clone`, but these are intentionally ignored during dead code analysis
note: the lint level is defined here
--> /wrkdirs/usr/ports/biology/coverm/work/CoverM-0.7.0/cargo-crates/nix-0.26.4/src/lib.rs:48:9
|
48 | #![deny(unused)]
| ^^^^^^
= note: `#[warn(dead_code)]` implied by `#[warn(unused)]`
warning: `nix` (lib) generated 22 warnings
*** Error code 101
Stop.
make: stopped in /usr/ports/biology/coverm