+ case "${usergroup_phase}" in + local run_cmd + run_cmd=run_su + shift + run_su /usr/pkg/bin/bmake all BATCH=1 DEPENDS_TARGET=/nonexistent WRKLOG=/tmp/bulklog/minimap2-2.27/work.log + su pbulk -c '"$@"' make /usr/pkg/bin/bmake all BATCH=1 DEPENDS_TARGET=/nonexistent WRKLOG=/tmp/bulklog/minimap2-2.27/work.log => Bootstrap dependency digest>=20211023: found digest-20220214 ===> Building for minimap2-2.27 cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include main.c -o main.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include kthread.c -o kthread.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include kalloc.c -o kalloc.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include misc.c -o misc.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include bseq.c -o bseq.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include sketch.c -o sketch.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include sdust.c -o sdust.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include options.c -o options.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include index.c -o index.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include lchain.c -o lchain.o index.c: In function 'mm_idx_load': index.c:520:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 520 | fread(&l, 1, 1, fp); | ^~~~~~~~~~~~~~~~~~~ index.c:523:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 523 | fread(s->name, 1, l, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ index.c:526:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 526 | fread(&s->len, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ index.c:536:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 536 | fread(&b->n, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~ index.c:538:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 538 | fread(b->p, 8, b->n, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ index.c:539:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 539 | fread(&size, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~ index.c:546:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 546 | fread(x, 8, 2, fp); | ^~~~~~~~~~~~~~~~~~ index.c:554:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(mi->S, 4, (sum_len + 7) / 8, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include align.c -o align.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include hit.c -o hit.o hit.c: In function 'mm_gen_regs': hit.c:74:25: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 74 | r = (mm_reg1_t*)calloc(n_u, sizeof(mm_reg1_t)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from hit.c:2: /usr/include/stdlib.h:542:14: note: in a call to allocation function 'calloc' declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include map.c -o map.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include format.c -o format.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include pe.c -o pe.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include seed.c -o seed.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include esterr.c -o esterr.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -I/usr/pkg/include splitidx.c -o splitidx.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -msse4.1 -I/usr/pkg/include ksw2_extz2_sse.c -o ksw2_extz2_simde.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -msse4.1 -I/usr/pkg/include ksw2_extd2_sse.c -o ksw2_extd2_simde.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -msse4.1 -I/usr/pkg/include ksw2_exts2_sse.c -o ksw2_exts2_simde.o cc -c -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -msse2 -I/usr/pkg/include ksw2_ll_sse.c -o ksw2_ll_simde.o ar -csru libminimap2.a kthread.o kalloc.o misc.o bseq.o sketch.o sdust.o options.o index.o lchain.o align.o hit.o map.o format.o pe.o seed.o esterr.o splitidx.o ksw2_extz2_simde.o ksw2_extd2_simde.o ksw2_exts2_simde.o ksw2_ll_simde.o cc -pipe -O2 -I/usr/pkg/include -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ main.o -o minimap2 -L. -lminimap2 -lm -lz -lpthread /bin/ld: cannot find -lz collect2: error: ld returned 1 exit status make: *** [Makefile.simde:53: minimap2] Error 1 *** Error code 2 Stop. bmake[1]: stopped in /data/jenkins/workspace/pkgsrc-el9-trunk-x86_64/biology/minimap2 *** Error code 1 Stop. bmake: stopped in /data/jenkins/workspace/pkgsrc-el9-trunk-x86_64/biology/minimap2