[Debichem-devel] Bug#904825: aces3 ftbfs in unstable

Matthias Klose doko at debian.org
Sat Jul 28 12:01:04 BST 2018 

Package: src:aces3
Version: 3.0.8-5.1
Tags: sid buster
Severity: serious

aces3 ftbfs in unstable:

[...]
mpif77 -DMPIF2C -DMPI2 -DC_SUFFIX -DCB_SUFFIX -D__fortran -D__fortran77 -g -O2
-Wall -fno-aggressive-loop-optimizations  -o xaces3 \
       find_seg.o reorder_coefficients.o reorder_rohf.o joda_exit.o
clear_static_data_requests.o init_data.o nuclear_nuclear_repulsion_energy.o
worker_termination.o check_jodadone.o find_jobflow.o
write_default_sial_programs.o int_send_common.o int_gen_sizer.o geometry.o
reset_internal_system_data.o write_zmat_auto.o get_sial_config_params.o
aces_com_parallel_aces.o nuclear_nuclear_gradient.o beta.o scf_init.o
set_ecp_charges.o worker_work.o decode_fmo_params.o timer_data.o
descramble_coefficients.o int_gen_init.o handle_gradient.o molread.o
det_segsizes.o handle_hessian.o worker_init.o joda_prep.o verify_aces2_params.o
c_exit.o sumz.o  ../sia/manager/check_consistency.o
../sia/manager/check_for_server_array.o ../sia/manager/check_preparesum_work.o
../sia/manager/check_work_stack_for_delay.o ../sia/manager/claim_memory_block.o
../sia/manager/clear_server_stats.o ../sia/manager/diskcall.o
../sia/manager/distribute_server_info.o ../sia/manager/do_backup.o
../sia/manager/find_clean_block.o ../sia/manager/find_free_diskloc.o
../sia/manager/find_oldest_dirty_block.o ../sia/manager/find_server_table_ptr.o
../sia/manager/insert_work_node.o ../sia/manager/make_free_block.o
../sia/manager/mark_block_clean.o ../sia/manager/mark_block_dirty.o
../sia/manager/pop_clean_block.o ../sia/manager/pop_work_node.o
../sia/manager/prequest_copy_slice.o ../sia/manager/print_server_data.o
../sia/manager/process_prepare_message.o
../sia/manager/process_preparesum_message.o
../sia/manager/process_prequest_message.o
../sia/manager/process_request_message.o
../sia/manager/process_server_blocks_to_list_msg.o
../sia/manager/process_server_blocks_to_list_no_mpi_io.o
../sia/manager/process_server_checkpoint_msg.o
../sia/manager/process_server_commit_msg.o
../sia/manager/process_server_copy_message.o
../sia/manager/process_server_delete_message.o
../sia/manager/process_server_list_to_blocks_msg.o
../sia/manager/process_server_restart_msg.o
../sia/manager/process_work_queue_entry.o ../sia/manager/ptr_check.o
../sia/manager/push_clean_block.o ../sia/manager/push_work_node.o
../sia/manager/remove_from_dirty_list.o ../sia/manager/remove_work_head.o
../sia/manager/server_abort_job.o ../sia/manager/sip_server_init.o
../sia/manager/sip_server_work.o ../sia/manager/syscopy.o
../sia/manager/translate_key.o ../sia/worker/block_map_table_setup.o
../sia/worker/build_segment_table.o ../sia/worker/built_cmp2zmat.o
../sia/worker/determine_stack_blocksizes.o ../sia/worker/fragment_orbitals.o
../sia/worker/fshells_to_segments.o ../sia/worker/get_subrange_segments.o
../sia/worker/get_symbolic_constant.o ../sia/worker/init_c.o
../sia/worker/init_eps.o ../sia/worker/init_fock.o ../sia/worker/init_fockrohf.o
../sia/worker/init_oed_integrals.o ../sia/worker/print_symbolic_constants.o
../sia/worker/refill_block_map_table.o ../sia/worker/remap.o
../sia/worker/send_static_data.o ../sia/worker/shells_to_segments.o
../sia/worker/sial_compile_and_send_tables.o
../sia/worker/sial_compile_and_send_tables1.o ../sia/worker/sip_fmain.o
../sia/worker/stack_distribution.o ../sia/worker/vmlgen.o
../sia/worker/vtdemo_init.o ../sia/worker/write_eig_data.o
../aces/aces_library/special_directory/direct_integral/aces_to_erd.o
../aces/aces_library/special_directory/direct_integral/binpack.o
../aces/aces_library/special_directory/direct_integral/comp_dipole_moment.o
../aces/aces_library/special_directory/direct_integral/comp_first_moment.o
../aces/aces_library/special_directory/direct_integral/comp_fock_der.o
../aces/aces_library/special_directory/direct_integral/comp_overlap_der.o
../aces/aces_library/special_directory/direct_integral/comp_return_derv_xyz.o
../aces/aces_library/special_directory/direct_integral/comp_return_h1.o
../aces/aces_library/special_directory/direct_integral/comp_return_h1_nodiag.o
../aces/aces_library/special_directory/direct_integral/comp_return_ovl.o
../aces/aces_library/special_directory/direct_integral/comp_return_x.o
../aces/aces_library/special_directory/direct_integral/comp_return_xx.o
../aces/aces_library/special_directory/direct_integral/comp_return_xy.o
../aces/aces_library/special_directory/direct_integral/comp_return_xz.o
../aces/aces_library/special_directory/direct_integral/comp_return_y.o
../aces/aces_library/special_directory/direct_integral/comp_return_yy.o
../aces/aces_library/special_directory/direct_integral/comp_return_yz.o
../aces/aces_library/special_directory/direct_integral/comp_return_z.o
../aces/aces_library/special_directory/direct_integral/comp_return_zz.o
../aces/aces_library/special_directory/direct_integral/comp_second_moment.o
../aces/aces_library/special_directory/direct_integral/compute_der2_batch.o
../aces/aces_library/special_directory/direct_integral/compute_der_batch.o
../aces/aces_library/special_directory/direct_integral/compute_erd3.o
../aces/aces_library/special_directory/direct_integral/compute_erd_2e_Sderv_integrals.o
../aces/aces_library/special_directory/direct_integral/compute_erd_2e_derv_integrals.o
../aces/aces_library/special_directory/direct_integral/compute_integrals.o
../aces/aces_library/special_directory/direct_integral/compute_integrals_wrapper.o
../aces/aces_library/special_directory/direct_integral/compute_oed_integrals.o
../aces/aces_library/special_directory/direct_integral/compute_return_1soix.o
../aces/aces_library/special_directory/direct_integral/compute_return_1soiy.o
../aces/aces_library/special_directory/direct_integral/compute_return_1soiz.o
../aces/aces_library/special_directory/direct_integral/compute_return_2soix.o
../aces/aces_library/special_directory/direct_integral/compute_return_2soiy.o
../aces/aces_library/special_directory/direct_integral/compute_return_2soiz.o
../aces/aces_library/special_directory/direct_integral/contract_ecp_derv_integrals.o
../aces/aces_library/special_directory/direct_integral/contract_erd_2der.o
../aces/aces_library/special_directory/direct_integral/contract_oed_2derv_integrals.o
../aces/aces_library/special_directory/direct_integral/contract_oed_2derv_num.o
../aces/aces_library/special_directory/direct_integral/contract_oed_2derv_type1.o
../aces/aces_library/special_directory/direct_integral/contract_oed_2derv_type1_numint.o
../aces/aces_library/special_directory/direct_integral/contract_oed_2derv_type1a.o
../aces/aces_library/special_directory/direct_integral/contract_oed_2derv_type1b.o
../aces/aces_library/special_directory/direct_integral/contract_oed_derv_integrals.o
../aces/aces_library/special_directory/direct_integral/ecp_renorm.o
../aces/aces_library/special_directory/direct_integral/ecp_to_erd.o
../aces/aces_library/special_directory/direct_integral/erd_scratch_mem_calc.o
../aces/aces_library/special_directory/direct_integral/fast_erd_scratch_mem_calc.o
../aces/aces_library/special_directory/direct_integral/get1e.o
../aces/aces_library/special_directory/direct_integral/lookup_shell.o
../aces/aces_library/special_directory/direct_integral/move_integrals.o
../aces/aces_library/special_directory/direct_integral/nn_repulsion_energy.o
../aces/aces_library/special_directory/direct_integral/pack_coeffs.o
../aces/aces_library/special_directory/direct_integral/pack_coeffs_oed.o
../aces/aces_library/special_directory/direct_integral/pack_coeffs_ovl3c.o
../aces/aces_library/special_directory/direct_integral/segment_mol.o
../aces/aces_library/special_directory/direct_integral/setup_ccbeg.o
../aces/aces_library/special_directory/direct_integral/sip_integral_init.o
../aces/aces_library/special_directory/direct_integral/test2d_numint.o
../aces/aces_library/special_directory/direct_integral/tester_MRT1.o
../aces/aces_library/special_directory/direct_integral/tester_MRT2.o
../aces/aces_library/special_directory/direct_integral/tester_MRT3.o
../aces/aces_library/special_directory/direct_integral/tester_MRT4.o \
      -L../../lib -L/usr/lib -lstdc++ -lsip1 -lsip2 -lsialinst -lsip_shared
-lframelib -laces2 -lgeopt -lsymcor -laces2 -lprop_ints -lerd -loed -lecp -ldup
-lsip1 -lsip2 -lsialinst -lerd_F12 -lF12grid -loed_F12 -lsip1 -lsip2 -lblas
-llapack && test -x xaces3  || rm -f xaces3
/usr/bin/ld: ../../lib/libsip2.a(generate_scratch_filename.o): in function
`generate_scratch_filename_':
/<<PKGBUILDDIR>>/src/sia/sip/sip_instructions/generate_scratch_filename.c:31:
warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp'
cp xaces3 ../../bin/xaces3
rm -f make.out make.err
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src/main'
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Entering directory '/<<PKGBUILDDIR>>/src/aces/aces_sial'
rm -f make.out make.err
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src/aces/aces_sial'
make[2]: Entering directory '/<<PKGBUILDDIR>>/test_compare'
rm -f make.out make.err
mpif77 -c -DMPIF2C -DMPI2 -DC_SUFFIX -DCB_SUFFIX -D__fortran -D__fortran77 -g
-O2 -Wall -fno-aggressive-loop-optimizations -I$MPIHOME/include  test_compare.f
1>>make.out 2>>make.err
mpif77 -DMPIF2C -DMPI2 -DC_SUFFIX -DCB_SUFFIX -D__fortran -D__fortran77 -g -O2
-Wall -fno-aggressive-loop-optimizations  -o xtest_compare \
        test_compare.o   \
       -L../lib -L/usr/lib -lstdc++ -lsip1 -lsip2 -lsip_shared -lframelib
-laces2 -lgeopt -lsymcor -laces2 -lerd -loed -ldup -lsip1 -lsip2 -lblas -llapack
&& test -x xtest_compare  || rm -f xtest_compare
cp xtest_compare ../bin/xtest_compare
rm -f make.out make.err
make[2]: Leaving directory '/<<PKGBUILDDIR>>/test_compare'
make[2]: Entering directory '/<<PKGBUILDDIR>>/tests'
make[2]: Leaving directory '/<<PKGBUILDDIR>>/tests'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
   debian/rules override_dh_auto_test
make[1]: Entering directory '/<<PKGBUILDDIR>>'
(cd tests; OMPI_MCA_orte_rsh_agent=/bin/false csh ./runscript-quick)
Running 1.1.1.1
--------------------------------------------------------------------------
MPI_ABORT was invoked on rank 1 in communicator MPI_COMM_WORLD
with errorcode 1.

NOTE: invoking MPI_ABORT causes Open MPI to kill all MPI processes.
You may or may not see output from other processes, depending on
exactly when Open MPI kills them.
--------------------------------------------------------------------------
E: Build killed with signal TERM after 150 minutes of inactivity
--------------------------------------------------------------------------------

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