[package - 133i386-default][biology/minimap2] Failed for minimap2-2.28_1 in build

From: <pkg-fallout_at_FreeBSD.org>
Date: Sat, 13 Jul 2024 23:51:06 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:     jwb@FreeBSD.org
Log URL:        https://pkg-status.freebsd.org/beefy15/data/133i386-default/a71eaeb3e54e/logs/minimap2-2.28_1.log
Build URL:      https://pkg-status.freebsd.org/beefy15/build.html?mastername=133i386-default&build=a71eaeb3e54e
Log:

=>> Building biology/minimap2
build started at Sat Jul 13 23:50:55 UTC 2024
port directory: /usr/ports/biology/minimap2
package name: minimap2-2.28_1
building for: FreeBSD 133i386-default-job-10 13.3-RELEASE-p4 FreeBSD 13.3-RELEASE-p4 i386
maintained by: jwb@FreeBSD.org
Makefile datestamp: -rw-r--r--  1 root  wheel  613 May 30 01:01 /usr/ports/biology/minimap2/Makefile
Ports top last git commit: a71eaeb3e54
Ports top unclean checkout: no
Port dir last git commit: 859980f9d8c
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.4.1-30-g79e3edcd
Host OSVERSION: 1500019
Jail OSVERSION: 1303001
Job Id: 10

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MAKE=gmake XDG_DATA_HOME=/wrkdirs/usr/ports/biology/minimap2/work  XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/minimap2/work  XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/minimap2/work/.cache  HOME=/wrkdirs/usr/ports/biology/minimap2/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/minimap2/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/minimap2/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CMAKE_PREFIX_PATH="/usr/local"
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=======================<phase: check-sanity   >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===>  License MIT accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===>   minimap2-2.28_1 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.21.3.pkg
[133i386-default-job-10] Installing pkg-1.21.3...
[133i386-default-job-10] Extracting pkg-1.21.3: .......... done
===>   minimap2-2.28_1 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of minimap2-2.28_1
===========================================================================
=======================<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 MIT accepted by the user
===> Fetching all distfiles required by minimap2-2.28_1 for building
===========================================================================
=======================<phase: checksum       >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===>  License MIT accepted by the user
===> Fetching all distfiles required by minimap2-2.28_1 for building
=> SHA256 Checksum OK for lh3-minimap2-v2.28_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: extract        >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===>  License MIT accepted by the user
===> Fetching all distfiles required by minimap2-2.28_1 for building
===>  Extracting for minimap2-2.28_1
=> SHA256 Checksum OK for lh3-minimap2-v2.28_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends  >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: patch          >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===>  Patching for minimap2-2.28_1
===>  Applying FreeBSD patches for minimap2-2.28_1 from /usr/ports/biology/minimap2/files
===========================================================================
=======================<phase: build-depends  >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===>   minimap2-2.28_1 depends on package: simde>0 - not found
===>   Installing existing package /packages/All/simde-0.8.2.pkg
[133i386-default-job-10] Installing simde-0.8.2...
[133i386-default-job-10] Extracting simde-0.8.2: .......... done
===>   minimap2-2.28_1 depends on package: simde>0 - found
===>   Returning to build of minimap2-2.28_1
===>   minimap2-2.28_1 depends on package: gmake>=4.4.1 - not found
===>   Installing existing package /packages/All/gmake-4.4.1.pkg
[133i386-default-job-10] Installing gmake-4.4.1...
[133i386-default-job-10] `-- Installing gettext-runtime-0.22.5...
[133i386-default-job-10] |   `-- Installing indexinfo-0.3.1...
[133i386-default-job-10] |   `-- Extracting indexinfo-0.3.1: .... done
[133i386-default-job-10] `-- Extracting gettext-runtime-0.22.5: .......... done
[133i386-default-job-10] Extracting gmake-4.4.1: .......... done
===>   minimap2-2.28_1 depends on package: gmake>=4.4.1 - found
===>   Returning to build of minimap2-2.28_1
===========================================================================
=======================<phase: lib-depends    >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: configure      >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===>  Configuring for minimap2-2.28_1
===========================================================================
=======================<phase: build          >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===>  Building for minimap2-2.28_1
/usr/bin/sed -i.bak -e 's|-msse4.1||g' -e 's|-msse2||g' /wrkdirs/usr/ports/biology/minimap2/work/minimap2-2.28/Makefile.simde
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  main.c -o main.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  kthread.c -o kthread.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  kalloc.c -o kalloc.o
kalloc.c:223:4: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat]
  222 |         fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n",
      |                                        ~~~
      |                                        %zu
  223 |                         st.capacity, st.available, st.largest, st.n_blocks, st.n_cores);
      |                         ^~~~~~~~~~~
kalloc.c:223:17: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat]
  222 |         fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n",
      |                                                   ~~~
      |                                                   %zu
  223 |                         st.capacity, st.available, st.largest, st.n_blocks, st.n_cores);
      |                                      ^~~~~~~~~~~~
kalloc.c:223:31: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat]
  222 |         fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n",
      |                                                                ~~~
      |                                                                %zu
  223 |                         st.capacity, st.available, st.largest, st.n_blocks, st.n_cores);
      |                                                    ^~~~~~~~~~
kalloc.c:223:43: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat]
  222 |         fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n",
      |                                                                            ~~~
      |                                                                            %zu
  223 |                         st.capacity, st.available, st.largest, st.n_blocks, st.n_cores);
      |                                                                ^~~~~~~~~~~
kalloc.c:223:56: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat]
  222 |         fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n",
      |                                                                                         ~~~
      |                                                                                         %zu
  223 |                         st.capacity, st.available, st.largest, st.n_blocks, st.n_cores);
      |                                                                             ^~~~~~~~~~
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  misc.c -o misc.o
5 warnings generated.
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  bseq.c -o bseq.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  sketch.c -o sketch.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  sdust.c -o sdust.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  options.c -o options.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  index.c -o index.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  lchain.c -o lchain.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  align.c -o align.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  hit.c -o hit.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  map.c -o map.o
map.c:365:84: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat]
  365 |                         fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest);
      |                                                          ~~~                                            ^~~~~~~~~~~~~
      |                                                          %zu
map.c:365:99: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat]
  365 |                         fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest);
      |                                                                    ~~~                                                 ^~~~~~~~~~~~
      |                                                                    %zu
map.c:365:113: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat]
  365 |                         fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest);
      |                                                                                ~~~                                                   ^~~~~~~~~~~~
      |                                                                                %zu
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  format.c -o format.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  pe.c -o pe.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  seed.c -o seed.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  esterr.c -o esterr.o
3 warnings generated.
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include  splitidx.c -o splitidx.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__  -isystem /usr/local/include  ksw2_extz2_sse.c -o ksw2_extz2_simde.o
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__  -isystem /usr/local/include  ksw2_extd2_sse.c -o ksw2_extd2_simde.o
In file included from ksw2_extz2_sse.c:7:
In file included from /usr/local/include/simde/x86/sse2.h:35:
In file included from /usr/local/include/simde/x86/sse.h:33:
In file included from /usr/local/include/simde/x86/mmx.h:30:
In file included from /usr/local/include/simde/x86/../simde-common.h:45:
In file included from /usr/local/include/simde/x86/../simde-features.h:319:
/usr/lib/clang/17/include/emmintrin.h:43:9: error: _Float16 is not supported on this target
   43 | typedef _Float16 __v8hf __attribute__((__vector_size__(16), __aligned__(16)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:44:9: error: _Float16 is not supported on this target
   44 | typedef _Float16 __m128h __attribute__((__vector_size__(16), __aligned__(16)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:45:9: error: _Float16 is not supported on this target
   45 | typedef _Float16 __m128h_u __attribute__((__vector_size__(16), __aligned__(1)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:47:9: error: __bf16 is not supported on this target
   47 | typedef __bf16 __v8bf __attribute__((__vector_size__(16), __aligned__(16)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:47:38: error: vector size not an integral multiple of component size
   47 | typedef __bf16 __v8bf __attribute__((__vector_size__(16), __aligned__(16)));
      |                                      ^               ~~
/usr/lib/clang/17/include/emmintrin.h:48:9: error: __bf16 is not supported on this target
   48 | typedef __bf16 __m128bh __attribute__((__vector_size__(16), __aligned__(16)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:48:40: error: vector size not an integral multiple of component size
   48 | typedef __bf16 __m128bh __attribute__((__vector_size__(16), __aligned__(16)));
      |                                        ^               ~~
cc -c -O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__  -isystem /usr/local/include  ksw2_exts2_sse.c -o ksw2_exts2_simde.o
In file included from ksw2_extd2_sse.c:8:
In file included from /usr/local/include/simde/x86/sse2.h:35:
In file included from /usr/local/include/simde/x86/sse.h:33:
In file included from /usr/local/include/simde/x86/mmx.h:30:
In file included from /usr/local/include/simde/x86/../simde-common.h:45:
In file included from /usr/local/include/simde/x86/../simde-features.h:319:
/usr/lib/clang/17/include/emmintrin.h:43:9: error: _Float16 is not supported on this target
   43 | typedef _Float16 __v8hf __attribute__((__vector_size__(16), __aligned__(16)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:44:9: error: _Float16 is not supported on this target
   44 | typedef _Float16 __m128h __attribute__((__vector_size__(16), __aligned__(16)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:45:9: error: _Float16 is not supported on this target
   45 | typedef _Float16 __m128h_u __attribute__((__vector_size__(16), __aligned__(1)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:47:9: error: __bf16 is not supported on this target
   47 | typedef __bf16 __v8bf __attribute__((__vector_size__(16), __aligned__(16)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:47:38: error: vector size not an integral multiple of component size
   47 | typedef __bf16 __v8bf __attribute__((__vector_size__(16), __aligned__(16)));
      |                                      ^               ~~
/usr/lib/clang/17/include/emmintrin.h:48:9: error: __bf16 is not supported on this target
   48 | typedef __bf16 __m128bh __attribute__((__vector_size__(16), __aligned__(16)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:48:40: error: vector size not an integral multiple of component size
   48 | typedef __bf16 __m128bh __attribute__((__vector_size__(16), __aligned__(16)));
      |                                        ^               ~~
In file included from ksw2_extz2_sse.c:7:
In file included from /usr/local/include/simde/x86/sse2.h:35:
In file included from /usr/local/include/simde/x86/sse.h:34:
/usr/local/include/simde/x86/../simde-f16.h:98:11: error: _Float16 is not supported on this target
   98 |   typedef _Float16 simde_float16;
      |           ^
In file included from ksw2_exts2_sse.c:8:
In file included from /usr/local/include/simde/x86/sse2.h:35:
In file included from /usr/local/include/simde/x86/sse.h:33:
In file included from /usr/local/include/simde/x86/mmx.h:30:
In file included from /usr/local/include/simde/x86/../simde-common.h:45:
In file included from /usr/local/include/simde/x86/../simde-features.h:319:
/usr/lib/clang/17/include/emmintrin.h:43:9: error: _Float16 is not supported on this target
   43 | typedef _Float16 __v8hf __attribute__((__vector_size__(16), __aligned__(16)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:44:9: error: _Float16 is not supported on this target
   44 | typedef _Float16 __m128h __attribute__((__vector_size__(16), __aligned__(16)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:45:9: error: _Float16 is not supported on this target
   45 | typedef _Float16 __m128h_u __attribute__((__vector_size__(16), __aligned__(1)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:47:9: error: __bf16 is not supported on this target
   47 | typedef __bf16 __v8bf __attribute__((__vector_size__(16), __aligned__(16)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:47:38: error: vector size not an integral multiple of component size
   47 | typedef __bf16 __v8bf __attribute__((__vector_size__(16), __aligned__(16)));
      |                                      ^               ~~
/usr/lib/clang/17/include/emmintrin.h:48:9: error: __bf16 is not supported on this target
   48 | typedef __bf16 __m128bh __attribute__((__vector_size__(16), __aligned__(16)));
      |         ^
/usr/lib/clang/17/include/emmintrin.h:48:40: error: vector size not an integral multiple of component size
   48 | typedef __bf16 __m128bh __attribute__((__vector_size__(16), __aligned__(16)));
      |                                        ^               ~~
In file included from ksw2_extd2_sse.c:8:
In file included from /usr/local/include/simde/x86/sse2.h:35:
In file included from /usr/local/include/simde/x86/sse.h:34:
/usr/local/include/simde/x86/../simde-f16.h:98:11: error: _Float16 is not supported on this target
   98 |   typedef _Float16 simde_float16;
      |           ^
8 errors generated.
gmake: *** [Makefile.simde:68: ksw2_extz2_simde.o] Error 1
gmake: *** Waiting for unfinished jobs....
In file included from ksw2_exts2_sse.c:8:
In file included from /usr/local/include/simde/x86/sse2.h:35:
In file included from /usr/local/include/simde/x86/sse.h:34:
/usr/local/include/simde/x86/../simde-f16.h:98:11: error: _Float16 is not supported on this target
   98 |   typedef _Float16 simde_float16;
      |           ^
8 errors generated.
gmake: *** [Makefile.simde:71: ksw2_extd2_simde.o] Error 1
8 errors generated.
gmake: *** [Makefile.simde:74: ksw2_exts2_simde.o] Error 1
===> Compilation failed unexpectedly.
Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to
the maintainer.
*** Error code 1

Stop.
make: stopped in /usr/ports/biology/minimap2