[package - 122i386-default][biology/minimap2] Failed for minimap2-2.23 in build
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Date: Thu, 02 Dec 2021 01:19:04 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: http://beefy5.nyi.freebsd.org/data/122i386-default/b8c4bfe660b3/logs/minimap2-2.23.log
Build URL: http://beefy5.nyi.freebsd.org/build.html?mastername=122i386-default&build=b8c4bfe660b3
Log:
=>> Building biology/minimap2
build started at Thu Dec 2 01:18:52 UTC 2021
port directory: /usr/ports/biology/minimap2
package name: minimap2-2.23
building for: FreeBSD 122i386-default-job-06 12.2-RELEASE-p11 FreeBSD 12.2-RELEASE-p11 i386
maintained by: jwb@FreeBSD.org
Makefile ident:
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jwb@FreeBSD.org
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=======================<phase: check-sanity >============================
===> License MIT accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> minimap2-2.23 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.17.5.pkg
[122i386-default-job-06] Installing pkg-1.17.5...
[122i386-default-job-06] Extracting pkg-1.17.5: .......... done
===> minimap2-2.23 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of minimap2-2.23
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License MIT accepted by the user
=> lh3-minimap2-v2.23_GH0.tar.gz doesn't seem to exist in /portdistfiles/.
=> Attempting to fetch https://codeload.github.com/lh3/minimap2/tar.gz/v2.23?dummy=/lh3-minimap2-v2.23_GH0.tar.gz
lh3-minimap2-v2.23_GH0.tar.gz 246 kB 6786 kBps 00s
===> Fetching all distfiles required by minimap2-2.23 for building
===========================================================================
=======================<phase: checksum >============================
===> License MIT accepted by the user
===> Fetching all distfiles required by minimap2-2.23 for building
=> SHA256 Checksum OK for lh3-minimap2-v2.23_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License MIT accepted by the user
===> Fetching all distfiles required by minimap2-2.23 for building
===> Extracting for minimap2-2.23
=> SHA256 Checksum OK for lh3-minimap2-v2.23_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for minimap2-2.23
===> Applying FreeBSD patches for minimap2-2.23 from /usr/ports/biology/minimap2/files
===========================================================================
=======================<phase: build-depends >============================
===> minimap2-2.23 depends on package: simde>0 - not found
===> Installing existing package /packages/All/simde-0.7.2.pkg
[122i386-default-job-06] Installing simde-0.7.2...
[122i386-default-job-06] Extracting simde-0.7.2: .......... done
===> minimap2-2.23 depends on package: simde>0 - found
===> Returning to build of minimap2-2.23
===> minimap2-2.23 depends on package: gmake>=4.3 - not found
===> Installing existing package /packages/All/gmake-4.3_2.pkg
[122i386-default-job-06] Installing gmake-4.3_2...
[122i386-default-job-06] `-- Installing gettext-runtime-0.21...
[122i386-default-job-06] | `-- Installing indexinfo-0.3.1...
[122i386-default-job-06] | `-- Extracting indexinfo-0.3.1: .... done
[122i386-default-job-06] `-- Extracting gettext-runtime-0.21: .......... done
[122i386-default-job-06] Extracting gmake-4.3_2: .......... done
===> minimap2-2.23 depends on package: gmake>=4.3 - found
===> Returning to build of minimap2-2.23
===========================================================================
=======================<phase: lib-depends >============================
===========================================================================
=======================<phase: configure >============================
===> Configuring for minimap2-2.23
===========================================================================
=======================<phase: build >============================
===> Building for minimap2-2.23
gmake[1]: Entering directory '/wrkdirs/usr/ports/biology/minimap2/work/minimap2-2.23'
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
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
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:370:84: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat]
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:370:99: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat]
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:370:113: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat]
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
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 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
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
ksw2_extz2_sse.c:67:12: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
zero_ = _mm_set1_epi8(0);
^
ksw2_extz2_sse.c:68:12: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
q_ = _mm_set1_epi8(q);
^
ksw2_extz2_sse.c:69:12: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
qe2_ = _mm_set1_epi8((q + e) * 2);
^
ksw2_extz2_sse.c:70:12: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
flag1_ = _mm_set1_epi8(1);
^
ksw2_extz2_sse.c:71:12: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
flag2_ = _mm_set1_epi8(2);
^
ksw2_extz2_sse.c:72:12: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
flag8_ = _mm_set1_epi8(0x08);
^
ksw2_extz2_sse.c:73:12: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
flag16_ = _mm_set1_epi8(0x10);
^
ksw2_extz2_sse.c:74:12: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
sc_mch_ = _mm_set1_epi8(mat[0]);
^
ksw2_extz2_sse.c:75:12: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
sc_mis_ = _mm_set1_epi8(mat[1]);
^
ksw2_extz2_sse.c:76:29: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
sc_N_ = mat[m*m-1] == 0? _mm_set1_epi8(-e) : _mm_set1_epi8(mat[m*m-1]);
^
ksw2_extz2_sse.c:76:49: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
sc_N_ = mat[m*m-1] == 0? _mm_set1_epi8(-e) : _mm_set1_epi8(mat[m*m-1]);
^
ksw2_extz2_sse.c:77:12: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
m1_ = _mm_set1_epi8(m - 1); // wildcard
^
ksw2_extz2_sse.c:78:12: error: always_inline function '_mm_set1_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
max_sc_ = _mm_set1_epi8(mat[0] + (q + e) * 2);
^
ksw2_extz2_sse.c:136:10: error: always_inline function '_mm_loadu_si128' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
sq = _mm_loadu_si128((__m128i*)&sf[t]);
^
ksw2_extz2_sse.c:137:10: error: always_inline function '_mm_loadu_si128' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
st = _mm_loadu_si128((__m128i*)&qrr[t]);
^
ksw2_extz2_sse.c:138:25: error: always_inline function '_mm_cmpeq_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
mask = _mm_or_si128(_mm_cmpeq_epi8(sq, m1_), _mm_cmpeq_epi8(st, m1_));
^
ksw2_extz2_sse.c:138:50: error: always_inline function '_mm_cmpeq_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
mask = _mm_or_si128(_mm_cmpeq_epi8(sq, m1_), _mm_cmpeq_epi8(st, m1_));
^
ksw2_extz2_sse.c:138:12: error: always_inline function '_mm_or_si128' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
mask = _mm_or_si128(_mm_cmpeq_epi8(sq, m1_), _mm_cmpeq_epi8(st, m1_));
^
ksw2_extz2_sse.c:139:11: error: always_inline function '_mm_cmpeq_epi8' requires target feature 'sse2', but would be inlined into function 'ksw_extz2_sse' that is compiled without support for 'sse2'
tmp = _mm_cmpeq_epi8(sq, st);
^
fatal error: too many errors emitted, stopping now [-ferror-limit=]
20 errors generated.
gmake[1]: *** [Makefile.simde:68: ksw2_extz2_simde.o] Error 1
gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/minimap2/work/minimap2-2.23'
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/minimap2