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Optimize ASCI workflow#464

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v-boqinzhang wants to merge 38 commits into
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feature/omp_asci_search_opt
Open

Optimize ASCI workflow#464
v-boqinzhang wants to merge 38 commits into
mainfrom
feature/omp_asci_search_opt

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Copilot AI review requested due to automatic review settings May 1, 2026 19:43
@v-boqinzhang v-boqinzhang marked this pull request as draft May 1, 2026 19:43

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Pull request overview

This PR optimizes the MACIS ASCI workflow (and its QDK integration) by reducing integral precompute/memory, improving determinant search/build performance, and adding incremental Hamiltonian-build and warm-start capabilities to speed iterative ASCI growth/refinement.

Changes:

  • Remove storage of full antisymmetrized two-electron integrals (G_pqrs) and compute antisymmetrized terms on-the-fly from V_pqrs.
  • Add incremental (patched) Hamiltonian build support, plus ASCI warm-start heuristics and oscillation stabilization during refinement.
  • Introduce/enable additional Hamiltonian build algorithms (Residue Arrays / Dynamic Bit Masking), parallel pair processing/sort improvements, and build-system support for ips4o.

Reviewed changes

Copilot reviewed 31 out of 32 changed files in this pull request and generated 8 comments.

Show a summary per file
File Description
external/macis/tests/asci.cxx Update test calls for new asci_iter signature (cache arg).
external/macis/src/macis/hamiltonian_generator/base.ipp Stop building full G_pqrs; compute reduced intermediates from V (but adds stdout logging).
external/macis/src/macis/CMakeLists.txt Fetch/use ips4o include path; add atomic link on non-Apple platforms.
external/macis/include/macis/solvers/selected_ci_diag.hpp Add incremental-cache API and patched-operator path; adjust MPI reporting and caching.
external/macis/include/macis/solvers/incremental_h_build.hpp New incremental (patched) operator + cache state implementation.
external/macis/include/macis/mcscf/cas.hpp Update selected_ci_diag call signature.
external/macis/include/macis/hamiltonian_generator/sorted_double_loop.hpp Add build/RDM/entropy timing logs.
external/macis/include/macis/hamiltonian_generator/residue_arrays.hpp New diagonal-block Hamiltonian build via residue arrays; pair-based RDM override.
external/macis/include/macis/hamiltonian_generator/dynamic_bit_masking.hpp New diagonal-block Hamiltonian build via dynamic bit masking.
external/macis/include/macis/hamiltonian_generator/connection_build_utils.hpp New shared utilities for pair enumeration and CSR construction.
external/macis/include/macis/hamiltonian_generator/matrix_elements.hpp Compute same-spin antisymmetrized values from V_pqrs on the fly.
external/macis/include/macis/hamiltonian_generator/base.hpp Remove G_pqrs storage/getter.
external/macis/include/macis/bitset_operations.hpp Faster ffs/fls via word scanning for word-aligned bitsets.
external/macis/include/macis/asci/iteration.hpp Add warm-start projection; plumb incremental cache into diagonalization.
external/macis/include/macis/asci/grow.hpp Add grow-phase CI tolerance override; taper grow factor; carry/clear incremental H cache.
external/macis/include/macis/asci/refine.hpp Add oscillation stabilization via union rediagonalization; carry incremental H cache.
external/macis/include/macis/asci/pt2.hpp Remove G_pqrs parameter; adjust worker/thread logging.
external/macis/include/macis/asci/mask_constraints.hpp Add buffer-reuse overloads; compute same-spin antisym from V; add constraint-gen debug logs.
external/macis/include/macis/asci/determinant_sort.hpp Add parallel sort+accumulate for ASCI contribution arrays (ips4o/OpenMP).
external/macis/include/macis/asci/determinant_search.hpp Remove G_pqrs usage; improve constraint search threading and logging; use parallel S&A.
external/macis/include/macis/asci/determinant_contributions.hpp Switch same-spin doubles contributions to on-the-fly antisym from V.
external/macis/examples/src/standalone_driver.cxx Update PT2 call signature (remove G()/G_pqrs).
external/macis/cmake/macis-ips4o.cmake Avoid linking atomic on Apple.
docs/source/_static/examples/python/example_circuit.circuit.json Add serialized circuit example JSON.
docs/source/_static/examples/python/example_circuit.circuit.h5 Add serialized circuit example HDF5 artifact.
cpp/tests/test_macis.cpp Adjust ASCI test settings (larger determinant cap; enable refine; tighter tolerances).
cpp/src/qdk/chemistry/data/basis_set.cpp Avoid repeated tar extraction when JSON already exists (parallel-run race mitigation).
cpp/src/qdk/chemistry/algorithms/microsoft/macis_base.hpp Add timing/info logs around wavefunction/RDM/entropy construction; update orbitals support note.
cpp/src/qdk/chemistry/algorithms/microsoft/macis_base.cpp Plumb new ASCI settings (warm-start, patch overlap, taper factor, etc.).
cpp/src/qdk/chemistry/algorithms/microsoft/macis_asci.hpp Add new settings defaults and documentation strings.
cpp/src/qdk/chemistry/algorithms/microsoft/macis_asci.cpp Select Hamiltonian generator implementation via h_build_algo; expand info logging.
cpp/src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp Batch shell-pair processing and orthogonalization to reduce overhead.

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Comment thread cpp/tests/test_macis.cpp
Comment thread external/macis/src/macis/hamiltonian_generator/base.ipp Outdated
Comment thread external/macis/include/macis/bitset_operations.hpp
Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/macis_base.hpp Outdated
Comment thread external/macis/include/macis/solvers/selected_ci_diag.hpp
Comment thread external/macis/include/macis/solvers/selected_ci_diag.hpp
Comment thread external/macis/include/macis/solvers/incremental_h_build.hpp
Comment thread external/macis/src/macis/CMakeLists.txt
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📊 Coverage Summary

Component Coverage
C++ Library 78%
Python Package 73%
Pybind11 Bindings 88%

Detailed Coverage Reports

C++ Coverage Details
------------------------------------------------------------------------------
                           GCC Code Coverage Report
Directory: cpp
------------------------------------------------------------------------------
File                                       Lines    Exec  Cover   Missing
------------------------------------------------------------------------------
include/qdk/chemistry/algorithms/active_space.hpp
                                               5       5   100%
include/qdk/chemistry/algorithms/algorithm.hpp
                                              70      55    78%   117,119-121,124,126-128,130-131,219,241,243-244,302
include/qdk/chemistry/algorithms/dynamical_correlation_calculator.hpp
                                               7       6    85%   115
include/qdk/chemistry/algorithms/hamiltonian.hpp
                                               5       5   100%
include/qdk/chemistry/algorithms/localization.hpp
                                               5       5   100%
include/qdk/chemistry/algorithms/mc.hpp       22      22   100%
include/qdk/chemistry/algorithms/mcscf.hpp
                                              13      13   100%
include/qdk/chemistry/algorithms/pmc.hpp       8       6    75%   41,186
include/qdk/chemistry/algorithms/scf.hpp      13      12    92%   23
include/qdk/chemistry/algorithms/stability.hpp
                                               5       4    80%   131
include/qdk/chemistry/data/ansatz.hpp          3       3   100%
include/qdk/chemistry/data/basis_set.hpp      35      30    85%   108-109,112,114,319
include/qdk/chemistry/data/configuration.hpp
                                              32      30    93%   71,119
include/qdk/chemistry/data/configuration_set.hpp
                                               3       2    66%   35
include/qdk/chemistry/data/data_class.hpp
                                               4       4   100%
include/qdk/chemistry/data/element_data.hpp
                                              18      18   100%
include/qdk/chemistry/data/hamiltonian.hpp
                                              12      12   100%
include/qdk/chemistry/data/hamiltonian_containers/canonical_four_center.hpp
                                               1       1   100%
include/qdk/chemistry/data/hamiltonian_containers/cholesky.hpp
                                               1       1   100%
include/qdk/chemistry/data/hamiltonian_containers/sparse.hpp
                                               1       1   100%
include/qdk/chemistry/data/lattice_graph.hpp
                                               3       1    33%   413-414
include/qdk/chemistry/data/orbitals.hpp        6       6   100%
include/qdk/chemistry/data/pauli_operator.hpp
                                              88      83    94%   1203,1227,1262,1274,1288
include/qdk/chemistry/data/settings.hpp       99      72    72%   76,79,82,305-306,441,483,541-543,618,987,994,996,1011-1012,1016-1018,1022-1023,1025-1027,1029-1030,1123
include/qdk/chemistry/data/stability_result.hpp
                                              38      38   100%
include/qdk/chemistry/data/structure.hpp       8       8   100%
include/qdk/chemistry/data/wavefunction.hpp
                                              25      19    76%   496,502,510-512,673
include/qdk/chemistry/data/wavefunction_containers/cas.hpp
                                               1       1   100%
include/qdk/chemistry/data/wavefunction_containers/cc.hpp
                                               1       1   100%
include/qdk/chemistry/data/wavefunction_containers/mp2.hpp
                                               1       1   100%
include/qdk/chemistry/data/wavefunction_containers/sci.hpp
                                               1       1   100%
include/qdk/chemistry/data/wavefunction_containers/sd.hpp
                                               1       1   100%
include/qdk/chemistry/utils/hash.hpp           4       4   100%
include/qdk/chemistry/utils/logger.hpp        41      35    85%   223-224,226,233-234,236
include/qdk/chemistry/utils/model_hamiltonians.hpp
                                             128     122    95%   59-60,89-90,137,141
include/qdk/chemistry/utils/string_utils.hpp
                                              11      10    90%   41
src/qdk/chemistry/algorithms/active_space.cpp
                                             232     142    61%   35-36,40-41,45-46,116-118,143-145,147,151-154,156-159,162-163,165-168,173-174,176-179,182-184,187-189,191,194-196,218,220,224,226-229,231-232,236-239,241,243,246-249,251,253,255-256,277-278,307,310,342,347-348,350-353,355-357,359-360,363,367,369-371,413,415,417
src/qdk/chemistry/algorithms/algorithm_defaults.cpp
                                              15       9    60%   41-45,49
src/qdk/chemistry/algorithms/dynamical_correlation_calculator.cpp
                                               8       8   100%
src/qdk/chemistry/algorithms/hamiltonian.cpp
                                              14      14   100%
src/qdk/chemistry/algorithms/localization.cpp
                                              15      15   100%
src/qdk/chemistry/algorithms/mc.cpp           11      11   100%
src/qdk/chemistry/algorithms/microsoft/active_space/autocas_active_space.cpp
                                              80      78    97%   103,133
src/qdk/chemistry/algorithms/microsoft/active_space/autocas_active_space.hpp
                                              16      16   100%
src/qdk/chemistry/algorithms/microsoft/active_space/entropy_active_space.cpp
                                              45      45   100%
src/qdk/chemistry/algorithms/microsoft/active_space/entropy_active_space.hpp
                                              10      10   100%
src/qdk/chemistry/algorithms/microsoft/active_space/occupation_active_space.cpp
                                              60      54    90%   46,48,81,83,101-102
src/qdk/chemistry/algorithms/microsoft/active_space/occupation_active_space.hpp
                                               6       6   100%
src/qdk/chemistry/algorithms/microsoft/active_space/valence_active_space.cpp
                                              75      63    84%   34,36,68-69,76-77,104-105,120-121,124-125
src/qdk/chemistry/algorithms/microsoft/active_space/valence_active_space.hpp
                                               9       9   100%
src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp
                                             501     449    89%   110,114,260-261,484,503,506-507,526,537,540-541,571-572,621-622,628-630,637-638,645-646,677,680-681,696,704,706-708,743-747,839,841,853,859,872,878,940-941,943-944,947,1052-1053,1055-1056,1059
src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.hpp
                                              14      14   100%
src/qdk/chemistry/algorithms/microsoft/hamiltonian.cpp
                                             252     230    91%   46-47,53-55,62-63,105-106,164-165,182-186,300,302,313,325,387,495
src/qdk/chemistry/algorithms/microsoft/hamiltonian.hpp
                                              10      10   100%
src/qdk/chemistry/algorithms/microsoft/localization/iterative_localizer_base.cpp
                                               5       5   100%
src/qdk/chemistry/algorithms/microsoft/localization/iterative_localizer_base.hpp
                                               8       8   100%
src/qdk/chemistry/algorithms/microsoft/localization/mp2_natural_orbitals.cpp
                                              79      74    93%   44,81,83,104,106
src/qdk/chemistry/algorithms/microsoft/localization/mp2_natural_orbitals.hpp
                                               3       3   100%
src/qdk/chemistry/algorithms/microsoft/localization/pipek_mezey.cpp
                                             169     160    94%   26,34,41,43,47,49,246,329,332
src/qdk/chemistry/algorithms/microsoft/localization/pipek_mezey.hpp
                                               6       6   100%
src/qdk/chemistry/algorithms/microsoft/localization/vvhv.cpp
                                             646     575    89%   336,338-339,452-453,476,534,695,739,741,746,762-765,768,778-781,784,819-821,827-831,859-862,865,887,889-891,968-972,1018-1022,1040-1043,1047-1050,1052-1054,1057,1131,1194-1196,1267,1286,1289,1293,1295,1300-1301
src/qdk/chemistry/algorithms/microsoft/localization/vvhv.hpp
                                               6       6   100%
src/qdk/chemistry/algorithms/microsoft/macis_asci.cpp
                                              94      73    77%   55,91-93,97,99,102,104-107,131-134,136-139,210,212
src/qdk/chemistry/algorithms/microsoft/macis_asci.hpp
                                              82      82   100%
src/qdk/chemistry/algorithms/microsoft/macis_base.cpp
                                              83      67    80%   29-31,97,99,107-108,111,115-116,119-121,128-130
src/qdk/chemistry/algorithms/microsoft/macis_base.hpp
                                             113      85    75%   86,88,90,92,94,96,219,222-226,228,231,233,235-237,239-241,243-245,247-249,251
src/qdk/chemistry/algorithms/microsoft/macis_cas.cpp
                                              59      56    94%   48,132,134
src/qdk/chemistry/algorithms/microsoft/macis_cas.hpp
                                               5       5   100%
src/qdk/chemistry/algorithms/microsoft/macis_pmc.cpp
                                              78      76    97%   110,149
src/qdk/chemistry/algorithms/microsoft/macis_pmc.hpp
                                               5       5   100%
src/qdk/chemistry/algorithms/microsoft/mp2.cpp
                                             202     184    91%   33,78,82-83,93-94,97,101-102,149-150,153-154,164-165,168,172-173
src/qdk/chemistry/algorithms/microsoft/mp2.hpp
                                               2       2   100%
src/qdk/chemistry/algorithms/microsoft/scf.cpp
                                             286     263    92%   62-63,75-76,91-92,118-119,149-150,158,160,214,261,332,364,369,371,397-399,418,489
src/qdk/chemistry/algorithms/microsoft/scf.hpp
                                              19      19   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/core/basis_set.h
                                               9       8    88%   134
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/core/enums.h
                                              16       0     0%   38-39,48-49,54-59,70-75
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/core/eri.h
                                              15      12    80%   46-47,49
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/core/exc.h
                                               3       3   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/core/moeri.h
                                               3       3   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/core/molecule.h
                                               1       1   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/eri/eri_multiplexer.h
                                               6       3    50%   126-127,135
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/util/cache.h
                                              27      26    96%   44
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/util/class_registry.h
                                              13      13   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/util/gauxc_registry.h
                                               6       5    83%   39
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/util/gauxc_util.h
                                              21      21   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/util/int1e.h
                                               2       2   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/util/singleton.h
                                              13      13   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/core/basis_set.cpp
                                             361     279    77%   33-34,92-93,97-98,146,150-154,157-161,172,183-184,188,190-191,197-198,201-206,210,212-215,217,219,223,225-226,228-229,231,248,257,265-266,313-314,335,337,342-343,345-346,348,401,406-407,415,436,458,460-461,463-465,478,480,482-485,487,490,493-494,542,544,548-549
src/qdk/chemistry/algorithms/microsoft/scf/src/core/scf.cpp
                                               7       7   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/eri.cpp
                                              36      29    80%   58-60,65-66,89-90
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/eri_df_base.cpp
                                              34      32    94%   29-30
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/eri_df_base.h
                                               2       2   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/eri_multiplexer.cpp
                                              61      37    60%   16-17,26-29,40,46-49,52-55,79,81,83-85,87-88,91,93
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/INCORE/incore.cpp
                                              42      29    69%   40,42,44,66,68,70-72,74-75,77-79
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/INCORE/incore_impl.cpp
                                              96      88    91%   44,136,138,235,237,239,287,289
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/INCORE/incore_impl_df.cpp
                                             102      60    58%   86-87,89,203,205,207-214,216-221,224,227-233,236,253,256,263-264,286,291,305-306,309,320-321,323-324,326
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/LIBINT2_DIRECT/libint2_direct.cpp
                                             182     169    92%   268,606,608,610,908,910-913,916,918-920
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/moeri.cpp
                                              36      34    94%   32-33
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/schwarz.cpp
                                              33      13    39%   80-81,83-88,90-93,95-98,101-102,104,106
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/SNK/snk.cpp
                                              66       0     0%   36,58-60,62-65,67,69-70,72,98,100,102-104,107-110,114-116,119-121,124-127,146,148,150,167-168,170,187,191,193-194,200-201,203,205-207,209,212,214,216-218,221,223,225-227,230,232,234-235,239-240,242-243
src/qdk/chemistry/algorithms/microsoft/scf/src/exc/exc.cpp
                                              16      14    87%   42-43
src/qdk/chemistry/algorithms/microsoft/scf/src/exc/GauXC/gauxc.cpp
                                              34      25    73%   42,46-47,50-52,54,56,67
src/qdk/chemistry/algorithms/microsoft/scf/src/exc/GauXC/gauxc_impl.cpp
                                             229     163    71%   79,119,160-161,249-258,260,262-270,352-353,360-364,366,368-377,380-381,383-384,387-389,396,398-399,405-409,411,413-417,419-420,426
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/cpscf.cpp
                                             234     232    99%   232,237
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/guess.cpp
                                              63      63   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/ks_impl.cpp
                                              81      63    77%   73,75-82,140,155-158,160-161,171-172
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/scf_impl.cpp
                                             547     414    75%   73,101,116,122,168-169,185-186,329-330,339-342,467,471,551,588,607-609,676,715-716,720-721,730-735,745,749-752,754-761,774-778,780-783,785-786,793-794,796-801,803-808,810,818-821,831-832,843-845,859-864,867-870,873,876,878,977-979,982,984,988-989,991-995,997-1000,1002-1003,1007,1009,1011-1019,1022-1025,1028-1030,1032,1034,1053,1055
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/scf_impl.h
                                              21      16    76%   98-100,113,161
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/scf_solver.cpp
                                              82      54    65%   35,37,51,55-59,66,68,90,92-93,101-103,111-113,126-128,131-133,141-143
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/soad.cpp
                                              15       0     0%   189,192-204,208
src/qdk/chemistry/algorithms/microsoft/scf/src/scf_algorithm/asahf.cpp
                                             286     275    96%   49,51,68-69,101,271,464-465,506,530-531
src/qdk/chemistry/algorithms/microsoft/scf/src/scf_algorithm/diis.cpp
                                             278     259    93%   147,149,158-159,228,234,241,246,268-269,286,486-489,511,520,528,536
src/qdk/chemistry/algorithms/microsoft/scf/src/scf_algorithm/diis_gdm.cpp
                                              36      36   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/scf_algorithm/gdm.cpp
                                             401     366    91%   226,249,272,443-446,449-452,478-482,487,518-522,664,667-673,805,809,899,903,905
src/qdk/chemistry/algorithms/microsoft/scf/src/scf_algorithm/line_search.h
                                              63      62    98%   60
src/qdk/chemistry/algorithms/microsoft/scf/src/scf_algorithm/scf_algorithm.cpp
                                             143     130    90%   63,71-73,75,85-88,175-176,205,264
src/qdk/chemistry/algorithms/microsoft/scf/src/util/gauxc_util.cpp
                                              85      20    23%   26-31,34-43,48-49,52-59,63-66,68,70,72-74,81-88,92-99,106-111,115-118,122-123,134-135
src/qdk/chemistry/algorithms/microsoft/scf/src/util/int1e.cpp
                                             336     226    67%   206-209,211,243,288,290-296,298-303,305-311,314-315,326,328-329,569,592,622,699,702-703,705,713,755,757-758,762-771,780,782-783,787-796,805,807-808,812-824,826-829,838,941-942,946-954,956-962,964-967,976
src/qdk/chemistry/algorithms/microsoft/scf/src/util/libint2_util.cpp
                                             181      91    50%   39,42-45,47,49-51,53-54,58-60,64-66,72,74,76-79,81-82,85-91,94-95,97-102,104-107,109-119,125-126,477,483-490,492-495,497,499,503-504,506,560,562,566-569,571-573,576,580-582,584,627
src/qdk/chemistry/algorithms/microsoft/scf/src/util/matrix_exp.cpp
                                              53      53   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/util/mpi_vars.h
                                               2       2   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/util/opt/gmresxx/arnoldi/arnoldi.h
                                              12      12   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/util/opt/gmresxx/arnoldi/arnoldi_gmres.h
                                             202     168    83%   53-55,176,183,185-188,190-194,196,198,202,205,209,212,217-218,221,223,290,293-294,298,481-482,493,522-523,589
src/qdk/chemistry/algorithms/microsoft/scf/src/util/opt/gmresxx/linalg.h
                                              40      40   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/util/timer.h
                                              29      29   100%
src/qdk/chemistry/algorithms/microsoft/stability.cpp
                                             317     294    92%   191-192,321-323,411,413,430,433-442,446,448,452,454,493
src/qdk/chemistry/algorithms/microsoft/stability.hpp
                                              13      13   100%
src/qdk/chemistry/algorithms/microsoft/utils.cpp
                                             248     171    69%   45-46,52,54,111-112,123-124,126-127,133,135,138-139,141,143-147,150-151,182,184,186,190-191,195,198-205,207-209,211,214-218,220-225,227-229,231,234-235,237,240-245,251,253-255,258-262,387-388,427,429
src/qdk/chemistry/algorithms/pmc.cpp           8       8   100%
src/qdk/chemistry/algorithms/scf.cpp           7       7   100%
src/qdk/chemistry/algorithms/stability.cpp
                                               6       6   100%
src/qdk/chemistry/data/ansatz.cpp            553     380    68%   26,36,39,46-48,50-51,53,55-56,58-60,62,69,84,99,104-105,107-108,115,120,122,148,150,207,209,280,295,297,302-303,336-340,345,347,357,359,362,364,374,376,379,381,394,396,401,403-404,410,412,417,419-420,434,436,441,443-444,449,451,456,458-459,461-462,464,468-469,471-472,474-475,477-478,480-484,486-487,489,492,495-500,502-503,506-508,510,513,515-516,549,559,569,579,601,608,612,626,630-631,641,651-652,659,668,684-687,690-691,694-696,698-699,701-703,719,727,744-747,782-783,792-793,804,812-813,824,835-836,843,852,869-872,875-876,879-881,883-884,886-888,894-895,906-907,931-934
src/qdk/chemistry/data/basis_set.cpp        1441    1253    87%   31,38,77,98-99,228,232,266-267,283-284,333-334,348,368,394,409,440,467,500,513-514,520-521,536-537,552-553,572,575-576,622,625-627,655,658-660,726,768,792,821,852,888,921,943,973,1013,1030,1039,1057,1074,1086,1097,1187-1188,1242,1256,1269,1283,1298,1305,1315,1317,1324,1338-1339,1472,1529-1530,1544-1546,1548-1549,1555-1558,1567-1568,1734,1798-1799,1812-1813,1913,1921,1933,1969-1973,1975-1977,1980-1984,2017,2031-2035,2038-2047,2049-2052,2054-2058,2060-2062,2065-2068,2072-2073,2075,2077-2081,2084-2085,2089-2093,2097-2099,2105-2108,2110-2112,2115,2117,2119,2139-2140,2149-2150,2158-2160,2167-2168,2188-2189,2191,2208-2210,2275-2276,2278-2283,2289,2397
src/qdk/chemistry/data/configuration.cpp     279     171    61%   67,167,170,172-173,176-177,179-180,183-184,186,190,194-195,204,210,236-238,266-268,271-272,274-283,285,287,289-292,294-295,297,299-300,302-304,307-308,310-311,313,315-316,318-325,327,329,331-334,336-337,341-342,344-348,351-352,354-355,358-359,361-368,370-371,373-381,421-422,432,434
src/qdk/chemistry/data/configuration_set.cpp
                                             328     209    63%   33-34,85-87,90-92,234,247,272-277,287-288,331-333,350-354,356,376-377,400-402,421,425,427,429,431-434,436-437,439,441-442,444-447,450-451,453-455,458-463,465-466,468-478,480,482,484-487,489-490,494-495,497-501,503,506-508,510-514,517-524,526-527,529-540
src/qdk/chemistry/data/filename_utils.hpp
                                              44      26    59%   30-33,35-36,51-53,72-75,77-78,93-95
src/qdk/chemistry/data/hamiltonian.cpp       554     400    72%   41,46-47,68,73-74,82,95,97-99,102-104,108-115,132,140,160-162,194-195,213-217,232-236,241,243,249,251,269,271-274,311,322,324,328,331,409-422,424,427-428,431-434,436-439,442-445,447-450,454-457,459-462,465-469,471-474,476-479,481-484,487-488,494,508,517-518,536,539-540,572,585,597,610,623,636,643,662,680,687,694,701-703,709,720-721,741-742,758-759,767-768,793-797,826,828-829,892-894
src/qdk/chemistry/data/hamiltonian_containers/canonical_four_center.cpp
                                             420     360    85%   38-39,67-68,98,110,128-129,156,163,169-171,204-205,213,276,309,349,353,361,373,385,391-392,423,432,437-438,443-444,462,470,477-484,487-494,514-516,597-598,607-608,634,656,721-722
src/qdk/chemistry/data/hamiltonian_containers/cholesky.cpp
                                             474     303    63%   44-45,72-73,86-90,103,162-165,167-168,172-174,177,179,181-182,185-187,190-191,194-195,198-207,209-210,227,234,240-242,265-270,279-280,328-331,333,335-338,340,364-367,369,371-374,377,382,384-387,389,391-393,396-400,402,404-408,417,432,440,452,468-469,487-488,490,499,504,506,510-511,516-517,519,521,530-531,534-537,543,550-557,560-567,585,588,592-594,642-643,651-652,658-662,673,677-678,687-688,714,736,753,764-766,772-773,779-780,786-787,798,801,805-806
src/qdk/chemistry/data/hamiltonian_containers/sparse.cpp
                                             396     347    87%   89,103,153-155,212,232-235,260-263,364-366,398,435-441,443,471-479,481,484,487-488,494-497,506-507,512,600,609,625
src/qdk/chemistry/data/hdf5_error_handling.hpp
                                              10       3    30%   20-21,23,25-26,28-29
src/qdk/chemistry/data/hdf5_serialization.cpp
                                             240     119    49%   13,15-22,24,26-32,34,36-44,46,48-56,65-67,69-71,73-74,77-79,82-85,95,98,106-109,111-113,115-116,119-121,124-127,138,141,143-150,153-160,238-240,249-251,253-255,258-260,277-280,282-286,288-289,308-310,312-316,318-319
src/qdk/chemistry/data/json_serialization.cpp
                                             177      86    48%   29,38,45-47,57,64-68,70-71,83,90-92,94-98,100,102-103,105,114,120-121,128-129,131,133-134,136-139,141,143-146,148-149,152-153,155,163-164,173,178-179,188-189,196,201,210,212,214,216-217,219-222,225-229,231-236,246-249,252-256,260-264
src/qdk/chemistry/data/lattice_graph.cpp     590     320    54%   39-42,53-56,102,104-105,107-110,112,114-115,117-120,169,196,199,202,245,248,251,306,309,312,359,362,365,445,456,524,612,626,639-640,642-649,651,653,655-658,660-661,663,665-666,669-673,677-680,682-685,687-688,690-691,693-694,696-698,700-702,704,706-707,709-710,713-715,718-721,724-726,728-736,740-742,745-755,757-765,767-768,770-777,779,781,783-786,788-789,793-794,796-800,802-805,807-808,810-811,813-814,816-817,820-821,823-832,834,836-839,841-848,850-851,853-854,856-857,859-864,866-867,869-877,879-881,884-886,888-890,892-895,897-898,900,902-913,915,918-921,923-937,939-940,942-943
src/qdk/chemistry/data/orbitals.cpp         1177     913    77%   106-107,128,144-145,151-152,156-157,178,180,220-221,237,251,292,307,321,363,373,377,400,403,405-406,409-413,416-417,421-424,426-427,429,431,433-434,437-440,443,447,449,453,455,457-458,461-467,470-471,474-475,477-478,480,482,484-485,488-492,495,498,500,563-567,570-571,573-574,576-577,580-581,584,586,589-590,592-593,595-596,599-601,604,606,609-610,612-613,615-616,619-620,623,625,665,668,691,759,770,776,781,808,818,862-866,904,917,929,942,962,980,989,1065-1068,1083-1084,1109-1113,1121-1122,1157,1181-1182,1191-1192,1198-1199,1205-1206,1208-1209,1212-1213,1215-1216,1229,1231-1232,1236-1237,1243,1285-1286,1314,1320,1364-1368,1396-1397,1399-1403,1406,1409,1411,1414,1416,1419,1421-1423,1425-1427,1430-1432,1434-1436,1438-1441,1460-1462,1465-1467,1470-1472,1534-1535,1564-1566,1581-1583,1617-1618,1630-1631,1789-1793,1806-1807,1810,1813-1814,1817-1819,1821,1860,1897,1912-1914,1963-1964,1999-2000,2006-2007,2013-2014,2016-2017,2020-2021,2023-2024,2031,2047-2048
src/qdk/chemistry/data/pauli_operator.cpp
                                             756     683    90%   60,63,87-88,190,202-203,224,397,407,421-423,517,555-557,559-561,577-579,581-583,606,609,721,806,818,820-821,855,860-862,877,882-884,912,938-942,944,946,951,956,996,1014-1016,1029,1036-1037,1039-1044,1062,1073-1076,1202,1222,1300,1343
src/qdk/chemistry/data/settings.cpp         1236     598    48%   40-43,68-70,81,85,95-101,126-134,136-140,158-163,166-169,171-175,177-181,183,185-188,190-195,197-201,203-213,217-226,239,243,280,292-295,297-299,302-306,308-309,311-313,315-316,318-319,362-363,366,381,412-413,416-418,420-425,427,429-434,437,457-461,464-465,468,470,476,478,480,484,486,488,492,536-537,539,541,543-544,546-549,553-554,556-558,561-562,566-568,571-573,577,579,582-587,592-596,598-608,610-613,615-619,621-625,628,632-635,639-643,647-650,653-657,659-660,662,664-667,669-671,673-674,676-678,680,682-684,686-690,693-697,699,701-703,705-707,709-713,716-720,722,724-726,729-731,733,736-738,741-742,745-752,754-755,757-758,761-762,764-770,773-779,783,786-787,790-791,794-795,798-799,802-806,808,810,812-813,815-818,820-821,823-824,826-829,831-832,834,836-839,842,844-847,851-856,860-861,863,865-868,872,875-876,889,895,898,905,908,916,920,937,941-942,959-962,971,974,982-983,999-1004,1006,1008-1009,1052-1055,1057-1059,1071-1072,1084,1086,1231,1235-1238,1240-1241,1244,1246-1248,1250-1253,1255-1259,1264,1266-1269,1272,1274-1275,1281-1282,1285-1290,1292,1296,1298,1301,1308,1312-1314,1320,1324,1327-1328,1333,1335-1337,1341,1386,1393,1411,1462-1464,1494,1500-1503,1525-1526,1561-1562,1564,1593-1595,1614-1619,1645-1647,1649,1651-1652,1655-1657,1659-1661,1667,1688-1695,1698-1701,1757,1785,1800-1802,1808-1816,1818,1821-1824,1826-1835,1837-1846,1849-1856,1858-1860,1863-1873,1875-1880,1882-1884,1886-1892,1894-1896,1898,1900,1902-1906,1908-1912,1914-1916,1918-1919,1921-1928,1930-1939,1941-1943,1945-1947,1963
src/qdk/chemistry/data/stability_result.cpp
                                             317     292    92%   25,32,42,176,213,218,271,281,299,315,344,346,350,356,379,419,421,425,451,458,503-507
src/qdk/chemistry/data/structure.cpp         761     703    92%   86,101,115-116,127,140,159,176-177,204,245-246,295,479,492,512,530,649,665,802,816,964-966,974-975,985,995-996,1018-1019,1027,1055-1057,1063,1076,1122-1123,1126,1132-1135,1138-1147,1151-1153,1156
src/qdk/chemistry/data/wavefunction.cpp     1319    1137    86%   45,65,175,178,186-188,269-270,286,307-310,312-315,318,336-341,344,386,417,454,467,488,493,509-510,531,548,551,574,577,580-589,620-626,628-630,732-741,838-842,937-939,984,998,1011,1013,1018,1020,1042-1043,1102,1104-1105,1119,1121,1124-1125,1146-1149,1151,1186,1188-1189,1214,1231,1357,1456-1459,1487,1494,1500,1507,1523,1529-1531,1537,1548,1578-1579,1594-1595,1602-1603,1623,1628-1629,1635,1646,1682,1792-1793,1803-1804,1831,1857-1858,1888-1889,1961,1963,1966-1967,1975-1977,1995-1997,1999-2000,2006-2009,2012-2022,2024-2025,2027-2030,2033-2036,2038-2040,2042-2043,2045-2046
src/qdk/chemistry/data/wavefunction_containers/cas.cpp
                                             252     199    79%   76-77,79-82,84-85,87-88,90,92-93,95-96,98-99,101,116,161-162,166,168,172,174,178-179,191-193,199,201-204,207-210,227-228,231-232,337-339,359,377-378,387,398,421-422
src/qdk/chemistry/data/wavefunction_containers/cc.cpp
                                             878     525    59%   48,52,57,59,62,66,71-72,74-77,79,87-88,122-127,153-160,169-175,203-204,206-220,222-224,226-228,231,233-234,250,258-259,261,267,277,287,299,319,324,326-328,331-334,337,339-340,343,345-349,351-352,354-355,358-359,381-383,385-387,389-391,393-395,397-399,425,432,463-466,528-529,595-596,599,601,603,606-607,609-610,612,615,617-620,622-624,627-628,630,633,637,639-640,643,687,696-697,699,705-706,708-709,716,728,737-738,747-748,754,790,800,810,820,830,841,940-950,952-956,969-979,981,983-985,1058-1069,1071-1083,1085-1091,1093-1100,1115-1126,1128-1140,1142-1148,1150-1156,1171-1181,1183-1195,1197-1200,1202,1204-1207,1223-1232,1234-1246,1248-1251,1253-1257,1322-1324,1326-1327,1330,1332-1333,1335,1337-1338,1342-1344
src/qdk/chemistry/data/wavefunction_containers/mp2.cpp
                                             626     433    69%   32,36,40-41,45-47,60-62,78,85,110,139,150-151,178-179,227-228,243,313,318,320-322,325-327,330-333,336-341,343-349,351-353,374,437-438,468-469,477,490-492,494,498-500,502,535,544-545,547,553-554,556-557,564,576,585-586,606,623-624,627-628,631,633-639,641-644,646,648,650,652-658,660-663,665,667,669,671-677,679-682,684,688-697,703-712,718-727,734-736,738-739,743,745-746,748-750,754-757,759,925,931,933,964-965,968-969,973,975,1006,1023,1057,1081,1083,1088,1092-1102
src/qdk/chemistry/data/wavefunction_containers/sci.cpp
                                             213     176    82%   78-79,81-84,86-87,89-90,92,94-95,97-98,100-101,103,117,151,153,155-156,166-167,170-171,260-262,282,300-301,310,321,344-345
src/qdk/chemistry/data/wavefunction_containers/sd.cpp
                                             399     336    84%   17,42-46,54,56-60,111,113,118,120,136-137,140,143-144,156,158,161-162,200,202,205-206,275,277,280-282,309,311,314,316,369,371,467,497-498,501,511-512,515,562,571,577,591,599-602,646-647,664-665,683-684,694-695
src/qdk/chemistry/utils/logger.cpp           120     115    95%   201-203,237,281
src/qdk/chemistry/utils/orbital_rotation.cpp
                                              93      56    60%   60-62,140-142,145,149-150,152,154-155,176,178,180,182,185-186,188,192-193,196-197,200,202-203,205,208-211,214,218-219,221,223-224
src/qdk/chemistry/utils/valence_space.cpp
                                              57      54    94%   73,102,106
------------------------------------------------------------------------------
TOTAL                                      23013   17973    78%
------------------------------------------------------------------------------
Python Coverage Details
SKIPPED [1] tests/test_interop_qiskit_noise_model.py:30: Qiskit Aer not available
SKIPPED [1] tests/test_interop_qiskit_noise_model.py:44: Qiskit Aer not available
SKIPPED [1] tests/test_interop_qiskit_noise_model.py:66: Qiskit Aer not available
SKIPPED [1] tests/test_interop_qiskit_noise_model.py:93: Qiskit Aer not available
SKIPPED [1] tests/test_interop_qiskit_noise_model.py:103: Qiskit Aer not available
SKIPPED [1] tests/test_interop_qiskit_noise_model.py:109: Qiskit Aer not available
SKIPPED [1] tests/test_interop_qiskit_noise_model.py:126: Qiskit Aer not available
SKIPPED [1] tests/test_interop_qiskit_phase_estimation_standard.py:132: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_phase_estimation_standard.py:167: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_phase_estimation_standard.py:202: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_qir.py:22: Qiskit not available
SKIPPED [3] tests/test_interop_qiskit_qubit_mapper.py:26: Qiskit Nature not available
SKIPPED [1] tests/test_interop_qiskit_state_prep_energy_validation.py:34: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_state_prep_energy_validation.py:74: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_state_prep_energy_validation.py:125: Qiskit not available
SKIPPED [6] tests/test_interop_qiskit_state_prep_energy_validation.py:188: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:48: Qiskit not available
SKIPPED [4] tests/test_interop_qiskit_transpiler.py:68: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:88: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:105: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:118: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:131: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:144: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:159: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:170: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:187: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:209: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:220: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:233: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:241: Qiskit not available
SKIPPED [1] tests/test_interop_qiskit_transpiler.py:252: Qiskit not available
SKIPPED [1] tests/test_phase_estimation_iterative.py:296: Qiskit not available
SKIPPED [1] tests/test_phase_estimation_iterative.py:362: Qiskit not available
SKIPPED [1] tests/test_phase_estimation_iterative.py:635: Qiskit not available
SKIPPED [1] tests/test_qdk_qubit_mapper.py:575: Qiskit Nature not available
SKIPPED [1] tests/test_qdk_qubit_mapper.py:794: Qiskit Nature not available
SKIPPED [1] tests/test_sample_workflow.py:238: Skipping slow test. Set QDK_CHEMISTRY_RUN_SLOW_TESTS=1 to enable.
SKIPPED [1] tests/test_sample_workflow.py:262: Skipping slow test. Set QDK_CHEMISTRY_RUN_SLOW_TESTS=1 to enable.
SKIPPED [1] tests/test_sample_workflow_openfermion.py:35: OpenFermion not available
SKIPPED [1] tests/test_sample_workflow_qiskit.py:43: Qiskit dependencies not available
SKIPPED [1] tests/test_sample_workflow_qiskit.py:65: Qiskit dependencies not available
SKIPPED [1] tests/test_sample_workflow_qiskit.py:107: Qiskit dependencies not available
SKIPPED [1] tests/test_sample_workflow_rdkit.py:30: Skipping: RDKit not installed
SKIPPED [1] tests/test_state_preparation.py:43: Qiskit dependencies not available
SKIPPED [1] tests/test_state_preparation.py:81: Qiskit not available
========== 1408 passed, 118 skipped, 3 warnings in 633.46s (0:10:33) ===========
<sys>:0: ResourceWarning: unclosed database in <sqlite3.Connection object at 0x74f7af17c9a0>
<sys>:0: ResourceWarning: unclosed database in <sqlite3.Connection object at 0x74f7aeb7d030>
<sys>:0: ResourceWarning: unclosed database in <sqlite3.Connection object at 0x74f7af08ee30>
<sys>:0: ResourceWarning: unclosed database in <sqlite3.Connection object at 0x74f5b089f880>
Pybind11 Coverage Details
------------------------------------------------------------------------------
                           GCC Code Coverage Report
Directory: .
------------------------------------------------------------------------------
File                                       Lines     Exec  Cover   Missing
------------------------------------------------------------------------------
src/pybind11/algorithms/active_space.cpp      38       38   100%
src/pybind11/algorithms/davidson_solver.cpp
                                              35       34    97%   28
src/pybind11/algorithms/dynamical_correlation_calculator.cpp
                                              31       31   100%
src/pybind11/algorithms/factory_bindings.hpp
                                             288      239    83%   32,32,32,32,32,32,32,32-33,33,33,33,33,33,33,33-34,34,34,34,34,34,34,34-35,35,35,35,35,35,35,35-36,36,36,36,36,36,36,36,249,249,249,249,249,249,249,249,249
src/pybind11/algorithms/hamiltonian.cpp       36       36   100%
src/pybind11/algorithms/localizer.cpp         38       38   100%
src/pybind11/algorithms/mc.cpp                37       37   100%
src/pybind11/algorithms/mcscf.cpp             34       34   100%
src/pybind11/algorithms/pmc.cpp               36       35    97%   178
src/pybind11/algorithms/scf.cpp               35       35   100%
src/pybind11/algorithms/stability.cpp         34       34   100%
src/pybind11/algorithms/syev_solver.cpp       19       18    94%   43
src/pybind11/constants.cpp                    89       89   100%
src/pybind11/data/ansatz.cpp                  69       69   100%
src/pybind11/data/basis_set.cpp              204      204   100%
src/pybind11/data/configuration.cpp           30       29    96%   200
src/pybind11/data/configuration_set.cpp       84       84   100%
src/pybind11/data/data_class.cpp             109       27    24%   19-20,23-24,27,29,32,34-37,39-44,46,48-49,52,54,57-59,64,67,71-72,75,78-79,81-82,90,92,94-96,98,101,104-105,107,110,113-115,117-120,124,126,128-129,131,133,135-137,139,141,143-145,150-151,153,156-157,159,162-163,165,168-169,171,174,176,178,249
src/pybind11/data/element_data.cpp           123      123   100%
src/pybind11/data/hamiltonian.cpp            247      238    96%   62,65,67,458,477,650,670,855,876
src/pybind11/data/lattice_graph.cpp          122       96    78%   20,23,25,27,29-30,51,53-54,66-69,71-72,249,476-478,482,501,512,615,617,619,621
src/pybind11/data/orbitals.cpp               138      137    99%   940
src/pybind11/data/path_utils.hpp              19       11    57%   37,39,42-47
src/pybind11/data/pauli_operator.cpp         274      254    92%   146,257,322,398,403,409,415,427,467,473,505,511,517,529,604,636,641,655,659,667
src/pybind11/data/property_binding_helpers.hpp
                                             312      312   100%
src/pybind11/data/serialization.cpp            5        5   100%
src/pybind11/data/settings.cpp               840      577    68%   40-41,57-58,110-111,117-118,123-124,129,131,136,138,164-168,177-179,182-185,190-194,198-200,210-213,217-221,230-233,237-242,246-249,259-262,266-270,273-277,281-291,293-311,313-327,333,335,337-338,342,345-347,400,450,452-453,536,544-546,548,552,571-577,633-636,643-649,651,654,656,658-661,668,670,713,784,1444,1452,1458,1461,1580,1614,1692,1755,1780,1805,1831,1895,1983-1984,1986-1990,2024-2028,2030-2035,2086,2140,2166-2167,2169,2172-2175,2201,2243-2244,2246-2247,2278-2279,2281,2284-2287,2314-2316,2337-2339,2341-2342,2361-2367,2387-2389,2391-2392,2414-2418,2420-2425,2456-2457,2475-2481,2503-2504,2522-2528
src/pybind11/data/stability_result.cpp       112      112   100%
src/pybind11/data/structure.cpp              199      184    92%   69,72,75-78,82-84,87,90-91,969,977,999
src/pybind11/data/wavefunction.cpp           365      347    95%   39,98,100,264-265,268,272,278,473-477,479,1016,1018,1064,1067
src/pybind11/module.cpp                       46       46   100%
src/pybind11/qdk_scf_config.cpp               12       12   100%
src/pybind11/utils/logger.cpp                191      177    92%   27,54,68-69,92,97-99,105-106,262-263,476,480
src/pybind11/utils/model_hamiltonians.cpp
                                              62       62   100%
src/pybind11/utils/orbital_rotation.cpp        7        7   100%
src/pybind11/utils/valence_space.cpp           6        6   100%
------------------------------------------------------------------------------
TOTAL                                       4326     3817    88%
------------------------------------------------------------------------------

Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp Outdated
Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp Outdated
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Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp Outdated
Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp Outdated
Comment thread external/macis/include/macis/asci/iteration.hpp Outdated
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Comment thread external/macis/include/macis/hamiltonian_generator/connection_build_utils.hpp Outdated
Comment thread external/macis/src/macis/CMakeLists.txt
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@wavefunction91 wavefunction91 marked this pull request as ready for review May 20, 2026 22:20
Copilot AI review requested due to automatic review settings May 20, 2026 22:20
Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp
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Pull request overview

Copilot reviewed 31 out of 31 changed files in this pull request and generated 12 comments.

Comment thread external/macis/include/macis/solvers/selected_ci_diag.hpp
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📊 Coverage Summary

Component Coverage
C++ Library 77%
Python Package 89%
Pybind11 Bindings 87%

Detailed Coverage Reports

C++ Coverage Details
------------------------------------------------------------------------------
                           GCC Code Coverage Report
Directory: cpp
------------------------------------------------------------------------------
File                                       Lines    Exec  Cover   Missing
------------------------------------------------------------------------------
include/qdk/chemistry/algorithms/active_space.hpp
                                               5       5   100%
include/qdk/chemistry/algorithms/algorithm.hpp
                                              70      55    78%   117,119-121,124,126-128,130-131,219,241,243-244,302
include/qdk/chemistry/algorithms/dynamical_correlation_calculator.hpp
                                               7       6    85%   115
include/qdk/chemistry/algorithms/hamiltonian.hpp
                                               5       5   100%
include/qdk/chemistry/algorithms/localization.hpp
                                               5       5   100%
include/qdk/chemistry/algorithms/mc.hpp       22      22   100%
include/qdk/chemistry/algorithms/mcscf.hpp
                                              13      13   100%
include/qdk/chemistry/algorithms/pmc.hpp       8       6    75%   41,186
include/qdk/chemistry/algorithms/scf.hpp      15      14    93%   23
include/qdk/chemistry/algorithms/stability.hpp
                                               5       4    80%   131
include/qdk/chemistry/data/ansatz.hpp          3       3   100%
include/qdk/chemistry/data/basis_set.hpp      35      30    85%   108-109,112,114,319
include/qdk/chemistry/data/configuration.hpp
                                              32      30    93%   71,119
include/qdk/chemistry/data/configuration_set.hpp
                                               3       2    66%   35
include/qdk/chemistry/data/data_class.hpp
                                               4       4   100%
include/qdk/chemistry/data/element_data.hpp
                                              18      18   100%
include/qdk/chemistry/data/hamiltonian.hpp
                                              12      12   100%
include/qdk/chemistry/data/hamiltonian_containers/canonical_four_center.hpp
                                               1       1   100%
include/qdk/chemistry/data/hamiltonian_containers/cholesky.hpp
                                               1       1   100%
include/qdk/chemistry/data/hamiltonian_containers/sparse.hpp
                                               1       1   100%
include/qdk/chemistry/data/lattice_graph.hpp
                                               3       1    33%   413-414
include/qdk/chemistry/data/majorana_mapping.hpp
                                               6       5    83%   117
include/qdk/chemistry/data/orbitals.hpp        6       6   100%
include/qdk/chemistry/data/pauli_operator.hpp
                                              88      83    94%   1224,1248,1283,1295,1309
include/qdk/chemistry/data/settings.hpp       99      73    73%   76,79,82,305-306,441,483,541-543,618,987,996,1011-1012,1016-1018,1022-1023,1025-1027,1029-1030,1123
include/qdk/chemistry/data/stability_result.hpp
                                              38      38   100%
include/qdk/chemistry/data/structure.hpp       8       8   100%
include/qdk/chemistry/data/tapering.hpp        3       0     0%   46,80-81
include/qdk/chemistry/data/wavefunction.hpp
                                              25      19    76%   496,502,510-512,673
include/qdk/chemistry/data/wavefunction_containers/cas.hpp
                                               1       1   100%
include/qdk/chemistry/data/wavefunction_containers/cc.hpp
                                               1       1   100%
include/qdk/chemistry/data/wavefunction_containers/mp2.hpp
                                               1       1   100%
include/qdk/chemistry/data/wavefunction_containers/sci.hpp
                                               1       1   100%
include/qdk/chemistry/data/wavefunction_containers/sd.hpp
                                               1       1   100%
include/qdk/chemistry/utils/hash.hpp           4       4   100%
include/qdk/chemistry/utils/logger.hpp        41      35    85%   223-224,226,233-234,236
include/qdk/chemistry/utils/model_hamiltonians.hpp
                                             128     122    95%   59-60,89-90,137,141
include/qdk/chemistry/utils/string_utils.hpp
                                              11      10    90%   41
src/qdk/chemistry/algorithms/active_space.cpp
                                             232     142    61%   35-36,40-41,45-46,116-118,143-145,147,151-154,156-159,162-163,165-168,173-174,176-179,182-184,187-189,191,194-196,218,220,224,226-229,231-232,236-239,241,243,246-249,251,253,255-256,277-278,307,310,342,347-348,350-353,355-357,359-360,363,367,369-371,413,415,417
src/qdk/chemistry/algorithms/algorithm_defaults.cpp
                                              15       9    60%   41-45,49
src/qdk/chemistry/algorithms/dynamical_correlation_calculator.cpp
                                               8       8   100%
src/qdk/chemistry/algorithms/hamiltonian.cpp
                                              14      14   100%
src/qdk/chemistry/algorithms/localization.cpp
                                              15      15   100%
src/qdk/chemistry/algorithms/mc.cpp           11      11   100%
src/qdk/chemistry/algorithms/microsoft/active_space/autocas_active_space.cpp
                                              80      78    97%   103,133
src/qdk/chemistry/algorithms/microsoft/active_space/autocas_active_space.hpp
                                              16      16   100%
src/qdk/chemistry/algorithms/microsoft/active_space/entropy_active_space.cpp
                                              45      45   100%
src/qdk/chemistry/algorithms/microsoft/active_space/entropy_active_space.hpp
                                              10      10   100%
src/qdk/chemistry/algorithms/microsoft/active_space/occupation_active_space.cpp
                                              60      54    90%   46,48,81,83,101-102
src/qdk/chemistry/algorithms/microsoft/active_space/occupation_active_space.hpp
                                               6       6   100%
src/qdk/chemistry/algorithms/microsoft/active_space/valence_active_space.cpp
                                              75      63    84%   34,36,68-69,76-77,104-105,120-121,124-125
src/qdk/chemistry/algorithms/microsoft/active_space/valence_active_space.hpp
                                               9       9   100%
src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp
                                             493     439    89%   99,103,216,218,251-252,472,491,494-495,514,525,528-529,559-560,609-610,616-618,625-626,633-634,665,668-669,684,692,694-696,731-735,818,820,832,838,851,857,919-920,922-923,926,1031-1032,1034-1035,1038
src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.hpp
                                              13      13   100%
src/qdk/chemistry/algorithms/microsoft/hamiltonian.cpp
                                             248     228    91%   46-47,53-55,62-63,164-165,182-186,291,293,304,316,378,486
src/qdk/chemistry/algorithms/microsoft/hamiltonian.hpp
                                              11      11   100%
src/qdk/chemistry/algorithms/microsoft/localization/iterative_localizer_base.cpp
                                               5       5   100%
src/qdk/chemistry/algorithms/microsoft/localization/iterative_localizer_base.hpp
                                               8       8   100%
src/qdk/chemistry/algorithms/microsoft/localization/mp2_natural_orbitals.cpp
                                              79      74    93%   44,81,83,104,106
src/qdk/chemistry/algorithms/microsoft/localization/mp2_natural_orbitals.hpp
                                               3       3   100%
src/qdk/chemistry/algorithms/microsoft/localization/pipek_mezey.cpp
                                             169     160    94%   26,34,41,43,47,49,246,329,332
src/qdk/chemistry/algorithms/microsoft/localization/pipek_mezey.hpp
                                               6       6   100%
src/qdk/chemistry/algorithms/microsoft/localization/vvhv.cpp
                                             646     575    89%   336,338-339,452-453,476,534,695,739,741,746,762-765,768,778-781,784,819-821,827-831,859-862,865,887,889-891,968-972,1018-1022,1040-1043,1047-1050,1052-1054,1057,1131,1194-1196,1267,1286,1289,1293,1295,1300-1301
src/qdk/chemistry/algorithms/microsoft/localization/vvhv.hpp
                                               8       8   100%
src/qdk/chemistry/algorithms/microsoft/macis_asci.cpp
                                              95      73    76%   59,95-97,101,103,106,108-111,135-139,141-144,215,217
src/qdk/chemistry/algorithms/microsoft/macis_asci.hpp
                                              84      84   100%
src/qdk/chemistry/algorithms/microsoft/macis_base.cpp
                                              83      67    80%   29-31,97,99,107-108,111,115-116,119-121,128-130
src/qdk/chemistry/algorithms/microsoft/macis_base.hpp
                                             113      85    75%   86,88,90,92,94,96,219,222-226,228,231,233,235-237,239-241,243-245,247-249,251
src/qdk/chemistry/algorithms/microsoft/macis_cas.cpp
                                              59      56    94%   48,132,134
src/qdk/chemistry/algorithms/microsoft/macis_cas.hpp
                                               5       5   100%
src/qdk/chemistry/algorithms/microsoft/macis_pmc.cpp
                                              78      76    97%   110,149
src/qdk/chemistry/algorithms/microsoft/macis_pmc.hpp
                                               5       5   100%
src/qdk/chemistry/algorithms/microsoft/mp2.cpp
                                             202     184    91%   33,78,82-83,93-94,97,101-102,149-150,153-154,164-165,168,172-173
src/qdk/chemistry/algorithms/microsoft/mp2.hpp
                                               2       2   100%
src/qdk/chemistry/algorithms/microsoft/scf.cpp
                                             286     263    92%   62-63,75-76,91-92,118-119,149-150,158,160,214,261,332,364,369,371,397-399,418,489
src/qdk/chemistry/algorithms/microsoft/scf.hpp
                                              19      19   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/core/basis_set.h
                                               9       8    88%   134
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/core/enums.h
                                              16       0     0%   38-39,48-49,54-59,70-75
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/core/eri.h
                                              15      12    80%   46-47,49
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/core/exc.h
                                               3       3   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/core/moeri.h
                                               3       3   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/core/molecule.h
                                               1       1   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/eri/eri_multiplexer.h
                                               6       3    50%   126-127,135
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/util/cache.h
                                              27      26    96%   44
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/util/class_registry.h
                                              13      13   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/util/gauxc_registry.h
                                               6       5    83%   39
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/util/gauxc_util.h
                                              21      21   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/util/int1e.h
                                               2       2   100%
src/qdk/chemistry/algorithms/microsoft/scf/include/qdk/chemistry/scf/util/singleton.h
                                              13      13   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/core/basis_set.cpp
                                             361     279    77%   33-34,92-93,97-98,146,150-154,157-161,172,183-184,188,190-191,197-198,201-206,210,212-215,217,219,223,225-226,228-229,231,248,257,265-266,313-314,335,337,342-343,345-346,348,401,406-407,415,436,458,460-461,463-465,478,480,482-485,487,490,493-494,542,544,548-549
src/qdk/chemistry/algorithms/microsoft/scf/src/core/scf.cpp
                                               7       7   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/eri.cpp
                                              36      29    80%   58-60,65-66,89-90
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/eri_df_base.cpp
                                              34      32    94%   29-30
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/eri_df_base.h
                                               2       2   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/eri_multiplexer.cpp
                                              61      37    60%   16-17,26-29,40,46-49,52-55,79,81,83-85,87-88,91,93
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/INCORE/incore.cpp
                                              42      29    69%   40,42,44,66,68,70-72,74-75,77-79
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/INCORE/incore_impl.cpp
                                              96      88    91%   44,136,138,235,237,239,287,289
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/INCORE/incore_impl_df.cpp
                                             102      60    58%   86-87,89,203,205,207-214,216-221,224,227-233,236,253,256,263-264,286,291,305-306,309,320-321,323-324,326
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/LIBINT2_DIRECT/libint2_direct.cpp
                                             182     169    92%   268,606,608,610,908,910-913,916,918-920
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/moeri.cpp
                                              36      34    94%   32-33
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/schwarz.cpp
                                              33      13    39%   80-81,83-88,90-93,95-98,101-102,104,106
src/qdk/chemistry/algorithms/microsoft/scf/src/eri/SNK/snk.cpp
                                              66       0     0%   36,58-60,62-65,67,69-70,72,98,100,102-104,107-110,114-116,119-121,124-127,146,148,150,167-168,170,187,191,193-194,200-201,203,205-207,209,212,214,216-218,221,223,225-227,230,232,234-235,239-240,242-243
src/qdk/chemistry/algorithms/microsoft/scf/src/exc/exc.cpp
                                              16      14    87%   42-43
src/qdk/chemistry/algorithms/microsoft/scf/src/exc/GauXC/gauxc.cpp
                                              34      25    73%   42,46-47,50-52,54,56,67
src/qdk/chemistry/algorithms/microsoft/scf/src/exc/GauXC/gauxc_impl.cpp
                                             229     163    71%   79,119,160-161,249-258,260,262-270,352-353,360-364,366,368-377,380-381,383-384,387-389,396,398-399,405-409,411,413-417,419-420,426
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/cpscf.cpp
                                             234     232    99%   232,237
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/guess.cpp
                                              63      63   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/ks_impl.cpp
                                              81      63    77%   73,75-82,140,155-158,160-161,171-172
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/scf_impl.cpp
                                             547     414    75%   73,101,116,122,168-169,185-186,329-330,339-342,467,471,551,588,607-609,676,715-716,720-721,730-735,745,749-752,754-761,774-778,780-783,785-786,793-794,796-801,803-808,810,818-821,831-832,843-845,859-864,867-870,873,876,878,977-979,982,984,988-989,991-995,997-1000,1002-1003,1007,1009,1011-1019,1022-1025,1028-1030,1032,1034,1053,1055
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/scf_impl.h
                                              21      16    76%   98-100,113,161
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/scf_solver.cpp
                                              82      54    65%   35,37,51,55-59,66,68,90,92-93,101-103,111-113,126-128,131-133,141-143
src/qdk/chemistry/algorithms/microsoft/scf/src/scf/soad.cpp
                                              15       0     0%   189,192-204,208
src/qdk/chemistry/algorithms/microsoft/scf/src/scf_algorithm/asahf.cpp
                                             286     275    96%   49,51,68-69,101,271,464-465,506,530-531
src/qdk/chemistry/algorithms/microsoft/scf/src/scf_algorithm/diis.cpp
                                             278     259    93%   147,149,158-159,228,234,241,246,268-269,286,486-489,511,520,528,536
src/qdk/chemistry/algorithms/microsoft/scf/src/scf_algorithm/diis_gdm.cpp
                                              36      36   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/scf_algorithm/gdm.cpp
                                             401     366    91%   226,249,272,443-446,449-452,478-482,487,518-522,664,667-673,805,809,899,903,905
src/qdk/chemistry/algorithms/microsoft/scf/src/scf_algorithm/line_search.h
                                              63      62    98%   60
src/qdk/chemistry/algorithms/microsoft/scf/src/scf_algorithm/scf_algorithm.cpp
                                             143     130    90%   63,71-73,75,85-88,175-176,205,264
src/qdk/chemistry/algorithms/microsoft/scf/src/util/gauxc_util.cpp
                                              85      20    23%   26-31,34-43,48-49,52-59,63-66,68,70,72-74,81-88,92-99,106-111,115-118,122-123,134-135
src/qdk/chemistry/algorithms/microsoft/scf/src/util/int1e.cpp
                                             336     226    67%   206-209,211,243,288,290-296,298-303,305-311,314-315,326,328-329,569,592,622,699,702-703,705,713,755,757-758,762-771,780,782-783,787-796,805,807-808,812-824,826-829,838,941-942,946-954,956-962,964-967,976
src/qdk/chemistry/algorithms/microsoft/scf/src/util/libint2_util.cpp
                                             181      91    50%   39,42-45,47,49-51,53-54,58-60,64-66,72,74,76-79,81-82,85-91,94-95,97-102,104-107,109-119,125-126,477,483-490,492-495,497,499,503-504,506,560,562,566-569,571-573,576,580-582,584,627
src/qdk/chemistry/algorithms/microsoft/scf/src/util/matrix_exp.cpp
                                              53      53   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/util/mpi_vars.h
                                               2       2   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/util/opt/gmresxx/arnoldi/arnoldi.h
                                              12      12   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/util/opt/gmresxx/arnoldi/arnoldi_gmres.h
                                             202     168    83%   53-55,176,183,185-188,190-194,196,198,202,205,209,212,217-218,221,223,290,293-294,298,481-482,493,522-523,589
src/qdk/chemistry/algorithms/microsoft/scf/src/util/opt/gmresxx/linalg.h
                                              40      40   100%
src/qdk/chemistry/algorithms/microsoft/scf/src/util/timer.h
                                              29      29   100%
src/qdk/chemistry/algorithms/microsoft/stability.cpp
                                             310     287    92%   192-193,322-324,389,391,408,411-420,424,426,430,432,471
src/qdk/chemistry/algorithms/microsoft/stability.hpp
                                              13      13   100%
src/qdk/chemistry/algorithms/microsoft/utils.cpp
                                             248     171    69%   45-46,52,54,111-112,123-124,126-127,133,135,138-139,141,143-147,150-151,182,184,186,190-191,195,198-205,207-209,211,214-218,220-225,227-229,231,234-235,237,240-245,251,253-255,258-262,387-388,427,429
src/qdk/chemistry/algorithms/pmc.cpp           8       8   100%
src/qdk/chemistry/algorithms/scf.cpp           7       7   100%
src/qdk/chemistry/algorithms/stability.cpp
                                               6       6   100%
src/qdk/chemistry/data/ansatz.cpp            553     380    68%   26,36,39,46-48,50-51,53,55-56,58-60,62,69,84,99,104-105,107-108,115,120,122,148,150,207,209,280,295,297,302-303,336-340,345,347,357,359,362,364,374,376,379,381,394,396,401,403-404,410,412,417,419-420,434,436,441,443-444,449,451,456,458-459,461-462,464,468-469,471-472,474-475,477-478,480-484,486-487,489,492,495-500,502-503,506-508,510,513,515-516,549,559,569,579,601,608,612,626,630-631,641,651-652,659,668,684-687,690-691,694-696,698-699,701-703,719,727,744-747,782-783,792-793,804,812-813,824,835-836,843,852,869-872,875-876,879-881,883-884,886-888,894-895,906-907,931-934
src/qdk/chemistry/data/basis_set.cpp        1452    1261    86%   34,41,76,79-80,97,118-119,248,252,286-287,303-304,353-354,368,388,414,429,460,487,520,533-534,540-541,556-557,572-573,592,595-596,642,645-647,675,678-680,746,788,812,841,872,908,941,963,993,1033,1050,1059,1077,1094,1106,1117,1207-1208,1262,1276,1289,1303,1318,1325,1335,1337,1344,1358-1359,1492,1549-1550,1564-1566,1568-1569,1575-1578,1587-1588,1754,1818-1819,1832-1833,1933,1941,1953,1989-1993,1995-1997,2000-2004,2037,2051-2055,2058-2067,2069-2072,2074-2078,2080-2082,2085-2088,2092-2093,2095,2097-2101,2104-2105,2109-2113,2117-2119,2125-2128,2130-2132,2135,2137,2139,2159-2160,2169-2170,2178-2180,2187-2188,2208-2209,2211,2228-2230,2295-2296,2298-2303,2309,2417
src/qdk/chemistry/data/configuration.cpp     279     171    61%   67,167,170,172-173,176-177,179-180,183-184,186,190,194-195,204,210,236-238,266-268,271-272,274-283,285,287,289-292,294-295,297,299-300,302-304,307-308,310-311,313,315-316,318-325,327,329,331-334,336-337,341-342,344-348,351-352,354-355,358-359,361-368,370-371,373-381,421-422,432,434
src/qdk/chemistry/data/configuration_set.cpp
                                             328     209    63%   33-34,85-87,90-92,234,247,272-277,287-288,331-333,350-354,356,376-377,400-402,421,425,427,429,431-434,436-437,439,441-442,444-447,450-451,453-455,458-463,465-466,468-478,480,482,484-487,489-490,494-495,497-501,503,506-508,510-514,517-524,526-527,529-540
src/qdk/chemistry/data/filename_utils.hpp
                                              44      26    59%   30-33,35-36,51-53,72-75,77-78,93-95
src/qdk/chemistry/data/hamiltonian.cpp       554     400    72%   41,46-47,68,73-74,82,95,97-99,102-104,108-115,132,140,160-162,194-195,213-217,232-236,241,243,249,251,269,271-274,311,322,324,328,331,409-422,424,427-428,431-434,436-439,442-445,447-450,454-457,459-462,465-469,471-474,476-479,481-484,487-488,494,508,517-518,536,539-540,572,585,597,610,623,636,643,662,680,687,694,701-703,709,720-721,741-742,758-759,767-768,793-797,826,828-829,892-894
src/qdk/chemistry/data/hamiltonian_containers/canonical_four_center.cpp
                                             420     360    85%   38-39,67-68,98,110,128-129,156,163,169-171,204-205,213,276,309,349,353,361,373,385,391-392,423,432,437-438,443-444,462,470,477-484,487-494,514-516,597-598,607-608,634,656,721-722
src/qdk/chemistry/data/hamiltonian_containers/cholesky.cpp
                                             474     303    63%   44-45,72-73,86-90,103,162-165,167-168,172-174,177,179,181-182,185-187,190-191,194-195,198-207,209-210,227,234,240-242,265-270,279-280,328-331,333,335-338,340,364-367,369,371-374,377,382,384-387,389,391-393,396-400,402,404-408,417,432,440,452,468-469,487-488,490,499,504,506,510-511,516-517,519,521,530-531,534-537,543,550-557,560-567,585,588,592-594,642-643,651-652,658-662,673,677-678,687-688,714,736,753,764-766,772-773,779-780,786-787,798,801,805-806
src/qdk/chemistry/data/hamiltonian_containers/sparse.cpp
                                             396     347    87%   89,103,153-155,212,232-235,260-263,364-366,398,435-441,443,471-479,481,484,487-488,494-497,506-507,512,600,609,625
src/qdk/chemistry/data/hdf5_error_handling.hpp
                                              10       3    30%   20-21,23,25-26,28-29
src/qdk/chemistry/data/hdf5_serialization.cpp
                                             240     119    49%   13,15-22,24,26-32,34,36-44,46,48-56,65-67,69-71,73-74,77-79,82-85,95,98,106-109,111-113,115-116,119-121,124-127,138,141,143-150,153-160,238-240,249-251,253-255,258-260,277-280,282-286,288-289,308-310,312-316,318-319
src/qdk/chemistry/data/json_serialization.cpp
                                             177      86    48%   29,38,45-47,57,64-68,70-71,83,90-92,94-98,100,102-103,105,114,120-121,128-129,131,133-134,136-139,141,143-146,148-149,152-153,155,163-164,173,178-179,188-189,196,201,210,212,214,216-217,219-222,225-229,231-236,246-249,252-256,260-264
src/qdk/chemistry/data/lattice_graph.cpp     590     320    54%   39-42,53-56,102,104-105,107-110,112,114-115,117-120,169,196,199,202,245,248,251,306,309,312,359,362,365,445,456,524,612,626,639-640,642-649,651,653,655-658,660-661,663,665-666,669-673,677-680,682-685,687-688,690-691,693-694,696-698,700-702,704,706-707,709-710,713-715,718-721,724-726,728-736,740-742,745-755,757-765,767-768,770-777,779,781,783-786,788-789,793-794,796-800,802-805,807-808,810-811,813-814,816-817,820-821,823-832,834,836-839,841-848,850-851,853-854,856-857,859-864,866-867,869-877,879-881,884-886,888-890,892-895,897-898,900,902-913,915,918-921,923-937,939-940,942-943
src/qdk/chemistry/data/majorana_map_engine.cpp
                                             268     254    94%   95,126-131,137,160,231,532-535
src/qdk/chemistry/data/majorana_mapping.cpp
                                             202      62    30%   39,41,48,51,53-54,84-85,90-94,100-103,113-115,117,119-122,124,131-134,137-140,150-152,155-159,161-163,165-166,168-174,178-183,185-188,190,192-195,197,199,201-207,211-223,225,227-228,230-232,234,236-237,239-242,244-245,247-250,252-255,257-261,263-267,269-273,275-279,281,283-284,286-287,289
src/qdk/chemistry/data/majorana_mapping_factories.cpp
                                             220     147    66%   68,117,147,200-203,206-207,209,211-217,219-220,223-224,226-230,233-235,237-242,247-248,250-254,256-257,259-260,262-266,268-269,271-273,275-276,283,314,317-320,322-323,325,327-330,333-334
src/qdk/chemistry/data/orbitals.cpp         1198     926    77%   106-107,128,144-145,151-152,156-157,178,180,220-221,237,251,292,307,321,363,373,377,400,403,405-406,409-413,416-417,421-424,426-427,429,431,433-434,437-440,443,447,449,453,455,457-458,461-467,470-471,474-475,477-478,480,482,484-485,488-492,495,498,500,563-567,570-571,573-574,576-577,580-581,584,586,589-590,592-593,595-596,599-601,604,606,609-610,612-613,615-616,619-620,623,625,665,667,673,675,679,681,690,758,769,775,780,807,817,861-865,903,916,928,941,961,979,988,1064-1067,1082-1083,1108-1112,1120-1121,1152-1154,1167-1169,1194-1195,1204-1205,1211-1212,1218-1219,1221-1222,1225-1226,1228-1229,1249-1250,1256,1298-1299,1327,1333,1337-1338,1381-1385,1413-1414,1416-1420,1423,1426,1428,1431,1433,1436,1438-1440,1442-1444,1447-1449,1451-1453,1455-1458,1477-1479,1482-1484,1487-1489,1551-1552,1581-1583,1598-1600,1634-1635,1647-1648,1806-1810,1823-1824,1827,1830-1831,1834-1836,1838,1877,1914,1929-1931,1980-1981,2016-2017,2023-2024,2030-2031,2033-2034,2037-2038,2040-2041,2048,2064-2065
src/qdk/chemistry/data/pauli_operator.cpp
                                             792     683    86%   17,19-24,26,28-29,31-52,54,56-58,103,106,130-131,233,245-246,267,440,450,464-466,560,598-600,602-604,620-622,624-626,649,652,764,849,861,863-864,898,903-905,920,925-927,955,981-985,987,989,994,999,1039,1057-1059,1072,1079-1080,1082-1087,1105,1116-1119,1245,1265,1343,1386
src/qdk/chemistry/data/settings.cpp         1236     599    48%   40-43,68-70,81,85,95-101,126-134,136-140,158-163,166-169,171-175,177-181,183,185-188,190-195,197-201,203-213,217-226,239,243,280,292-295,297-299,302-306,308-309,311-313,315-316,318-319,362-363,366,381,412-413,416-418,420-425,427,429-434,437,457-461,464-465,468,470,476,478,480,484,486,488,492,536-537,539,541,543-544,546-549,553-554,556-558,561-562,566-568,571-573,577,579,582-587,592-596,598-608,610-613,615-619,621-625,628,632-635,639-643,647-650,653-657,659-660,662,664-667,669-671,673-674,676-678,680,682-684,686-690,693-697,699,701-703,705-707,709-713,716-720,722,724-726,729-731,733,736-738,741-742,745-752,754-755,757-758,761-762,764-770,773-779,783,786-787,790-791,794-795,798-799,802-806,808,810,812-813,815-818,820-821,823-824,826-829,831-832,834,836-839,842,844-847,851-856,860-861,863,865-868,872,875-876,889,895,898,905,908,916,920,941-942,959-962,971,974,982-983,999-1004,1006,1008-1009,1052-1055,1057-1059,1071-1072,1084,1086,1231,1235-1238,1240-1241,1244,1246-1248,1250-1253,1255-1259,1264,1266-1269,1272,1274-1275,1281-1282,1285-1290,1292,1296,1298,1301,1308,1312-1314,1320,1324,1327-1328,1333,1335-1337,1341,1386,1393,1411,1462-1464,1494,1500-1503,1525-1526,1561-1562,1564,1593-1595,1614-1619,1645-1647,1649,1651-1652,1655-1657,1659-1661,1667,1688-1695,1698-1701,1757,1785,1800-1802,1808-1816,1818,1821-1824,1826-1835,1837-1846,1849-1856,1858-1860,1863-1873,1875-1880,1882-1884,1886-1892,1894-1896,1898,1900,1902-1906,1908-1912,1914-1916,1918-1919,1921-1928,1930-1939,1941-1943,1945-1947,1963
src/qdk/chemistry/data/stability_result.cpp
                                             317     292    92%   25,32,42,176,213,218,271,281,299,315,344,346,350,356,379,419,421,425,451,458,503-507
src/qdk/chemistry/data/structure.cpp         761     703    92%   86,101,115-116,127,140,159,176-177,204,245-246,295,479,492,512,530,649,665,802,816,964-966,974-975,985,995-996,1018-1019,1027,1055-1057,1063,1076,1122-1123,1126,1132-1135,1138-1147,1151-1153,1156
src/qdk/chemistry/data/tapering.cpp          126       0     0%   20-26,29-32,35-38,41,43,45-46,48-49,51-54,56-59,62-63,65-66,69,71,74-79,81,83-84,87-91,93,95-97,99-101,104-107,109-110,112,114-116,118-121,123-129,131-134,136-139,141-149,151-156,158-160,162-166,168,170-173,175,177-180,182,184,186,188-189,191-192,194
src/qdk/chemistry/data/wavefunction.cpp     1319    1137    86%   45,65,175,178,186-188,269-270,286,307-310,312-315,318,336-341,344,386,417,454,467,488,493,509-510,531,548,551,574,577,580-589,620-626,628-630,732-741,838-842,937-939,984,998,1011,1013,1018,1020,1042-1043,1102,1104-1105,1119,1121,1124-1125,1146-1149,1151,1186,1188-1189,1214,1231,1357,1456-1459,1487,1494,1500,1507,1523,1529-1531,1537,1548,1578-1579,1594-1595,1602-1603,1623,1628-1629,1635,1646,1682,1792-1793,1803-1804,1831,1857-1858,1888-1889,1961,1963,1966-1967,1975-1977,1995-1997,1999-2000,2006-2009,2012-2022,2024-2025,2027-2030,2033-2036,2038-2040,2042-2043,2045-2046
src/qdk/chemistry/data/wavefunction_containers/cas.cpp
                                             252     199    79%   76-77,79-82,84-85,87-88,90,92-93,95-96,98-99,101,116,161-162,166,168,172,174,178-179,191-193,199,201-204,207-210,227-228,231-232,337-339,359,377-378,387,398,421-422
src/qdk/chemistry/data/wavefunction_containers/cc.cpp
                                             878     525    59%   48,52,57,59,62,66,71-72,74-77,79,87-88,122-127,153-160,169-175,203-204,206-220,222-224,226-228,231,233-234,250,258-259,261,267,277,287,299,319,324,326-328,331-334,337,339-340,343,345-349,351-352,354-355,358-359,381-383,385-387,389-391,393-395,397-399,425,432,463-466,528-529,595-596,599,601,603,606-607,609-610,612,615,617-620,622-624,627-628,630,633,637,639-640,643,687,696-697,699,705-706,708-709,716,728,737-738,747-748,754,790,800,810,820,830,841,940-950,952-956,969-979,981,983-985,1058-1069,1071-1083,1085-1091,1093-1100,1115-1126,1128-1140,1142-1148,1150-1156,1171-1181,1183-1195,1197-1200,1202,1204-1207,1223-1232,1234-1246,1248-1251,1253-1257,1322-1324,1326-1327,1330,1332-1333,1335,1337-1338,1342-1344
src/qdk/chemistry/data/wavefunction_containers/mp2.cpp
                                             626     433    69%   32,36,40-41,45-47,60-62,78,85,110,139,150-151,178-179,227-228,243,313,318,320-322,325-327,330-333,336-341,343-349,351-353,374,437-438,468-469,477,490-492,494,498-500,502,535,544-545,547,553-554,556-557,564,576,585-586,606,623-624,627-628,631,633-639,641-644,646,648,650,652-658,660-663,665,667,669,671-677,679-682,684,688-697,703-712,718-727,734-736,738-739,743,745-746,748-750,754-757,759,925,931,933,964-965,968-969,973,975,1006,1023,1057,1081,1083,1088,1092-1102
src/qdk/chemistry/data/wavefunction_containers/sci.cpp
                                             213     176    82%   78-79,81-84,86-87,89-90,92,94-95,97-98,100-101,103,117,151,153,155-156,166-167,170-171,260-262,282,300-301,310,321,344-345
src/qdk/chemistry/data/wavefunction_containers/sd.cpp
                                             399     336    84%   17,42-46,54,56-60,111,113,118,120,136-137,140,143-144,156,158,161-162,200,202,205-206,275,277,280-282,309,311,314,316,369,371,467,497-498,501,511-512,515,562,571,577,591,599-602,646-647,664-665,683-684,694-695
src/qdk/chemistry/utils/logger.cpp           120     115    95%   201-203,237,281
src/qdk/chemistry/utils/orbital_rotation.cpp
                                              93      56    60%   60-62,140-142,145,149-150,152,154-155,176,178,180,182,185-186,188,192-193,196-197,200,202-203,205,208-211,214,218-219,221,223-224
src/qdk/chemistry/utils/valence_space.cpp
                                              57      54    94%   73,102,106
------------------------------------------------------------------------------
TOTAL                                      23894   18451    77%
------------------------------------------------------------------------------
Python Coverage Details
src/qdk_chemistry/data/unitary_representation/containers/__init__.py                                  0      0   100%
src/qdk_chemistry/data/unitary_representation/containers/base.py                                     28      0   100%
src/qdk_chemistry/data/unitary_representation/containers/pauli_product_formula.py                   107      5    95%
src/qdk_chemistry/definitions.py                                                                      8      0   100%
src/qdk_chemistry/plugins/__init__.py                                                                 0      0   100%
src/qdk_chemistry/plugins/networkx/__init__.py                                                       19      0   100%
src/qdk_chemistry/plugins/networkx/term_grouper.py                                                   36      1    97%
src/qdk_chemistry/plugins/openfermion/__init__.py                                                    19      0   100%
src/qdk_chemistry/plugins/openfermion/conversion.py                                                  78      0   100%
src/qdk_chemistry/plugins/openfermion/qubit_mapper.py                                                49      0   100%
src/qdk_chemistry/plugins/pyscf/__init__.py                                                          18      0   100%
src/qdk_chemistry/plugins/pyscf/active_space_avas.py                                                 80      7    91%
src/qdk_chemistry/plugins/pyscf/conversion.py                                                       264     16    94%
src/qdk_chemistry/plugins/pyscf/coupled_cluster.py                                                  101     27    73%
src/qdk_chemistry/plugins/pyscf/localization.py                                                      72      8    89%
src/qdk_chemistry/plugins/pyscf/mcscf.py                                                            125     15    88%
src/qdk_chemistry/plugins/pyscf/scf_solver.py                                                       102      5    95%
src/qdk_chemistry/plugins/pyscf/stability.py                                                        154      2    99%
src/qdk_chemistry/plugins/qiskit/__init__.py                                                         56      0   100%
src/qdk_chemistry/plugins/qiskit/_interop/__init__.py                                                 0      0   100%
src/qdk_chemistry/plugins/qiskit/_interop/circuit.py                                                130      0   100%
src/qdk_chemistry/plugins/qiskit/_interop/noise_model.py                                             26      4    85%
src/qdk_chemistry/plugins/qiskit/_interop/qir.py                                                     87     23    74%
src/qdk_chemistry/plugins/qiskit/_interop/transpiler.py                                             194     11    94%
src/qdk_chemistry/plugins/qiskit/circuit_executor.py                                                 77     10    87%
src/qdk_chemistry/plugins/qiskit/conversion.py                                                       31      0   100%
src/qdk_chemistry/plugins/qiskit/phase_estimation_circuit_builder.py                                117      6    95%
src/qdk_chemistry/plugins/qiskit/qubit_mapper.py                                                     40      0   100%
src/qdk_chemistry/plugins/qiskit/regular_isometry.py                                                 40      0   100%
src/qdk_chemistry/utils/__init__.py                                                                   4      0   100%
src/qdk_chemistry/utils/cubegen.py                                                                   54     54     0%
src/qdk_chemistry/utils/enum.py                                                                      23      3    87%
src/qdk_chemistry/utils/model_hamiltonians.py                                                        95     10    89%
src/qdk_chemistry/utils/pauli_commutation.py                                                        115      3    97%
src/qdk_chemistry/utils/pauli_matrix.py                                                              74      0   100%
src/qdk_chemistry/utils/phase.py                                                                     39      1    97%
src/qdk_chemistry/utils/qsharp/__init__.py                                                           17      0   100%
src/qdk_chemistry/utils/telemetry.py                                                                142     87    39%
src/qdk_chemistry/utils/telemetry_events.py                                                          59     48    19%
src/qdk_chemistry/utils/wavefunction.py                                                              57     57     0%
---------------------------------------------------------------------------------------------------------------------
TOTAL                                                                                              6301    702    89%
Coverage HTML written to dir ../coverage-reports/python_coverage_html
Coverage XML written to file ../coverage-reports/python_coverage.xml
=========================== short test summary info ============================
SKIPPED [2] tests/test_docs_examples.py:195: Skipping slow test. Set QDK_CHEMISTRY_RUN_SLOW_TESTS=1 to enable.
SKIPPED [1] tests/test_docs_examples.py:195: release_notes example requires v1.1.x (installed: 2.0.0+local)
SKIPPED [1] tests/test_sample_workflow.py:240: Skipping slow test. Set QDK_CHEMISTRY_RUN_SLOW_TESTS=1 to enable.
SKIPPED [1] tests/test_sample_workflow.py:268: Skipping slow test. Set QDK_CHEMISTRY_RUN_SLOW_TESTS=1 to enable.
========== 1797 passed, 5 skipped, 35 warnings in 1114.15s (0:18:34) ===========
Pybind11 Coverage Details
------------------------------------------------------------------------------
                           GCC Code Coverage Report
Directory: .
------------------------------------------------------------------------------
File                                       Lines     Exec  Cover   Missing
------------------------------------------------------------------------------
src/pybind11/algorithms/active_space.cpp      38       38   100%
src/pybind11/algorithms/davidson_solver.cpp
                                              35       34    97%   28
src/pybind11/algorithms/dynamical_correlation_calculator.cpp
                                              31       31   100%
src/pybind11/algorithms/factory_bindings.hpp
                                             288      239    83%   32,32,32,32,32,32,32,32-33,33,33,33,33,33,33,33-34,34,34,34,34,34,34,34-35,35,35,35,35,35,35,35-36,36,36,36,36,36,36,36,249,249,249,249,249,249,249,249,249
src/pybind11/algorithms/hamiltonian.cpp       36       36   100%
src/pybind11/algorithms/localizer.cpp         38       38   100%
src/pybind11/algorithms/mc.cpp                37       37   100%
src/pybind11/algorithms/mcscf.cpp             34       34   100%
src/pybind11/algorithms/pmc.cpp               36       35    97%   178
src/pybind11/algorithms/scf.cpp               35       35   100%
src/pybind11/algorithms/stability.cpp         34       34   100%
src/pybind11/algorithms/syev_solver.cpp       19       18    94%   43
src/pybind11/constants.cpp                    89       89   100%
src/pybind11/data/ansatz.cpp                  69       69   100%
src/pybind11/data/basis_set.cpp              204      204   100%
src/pybind11/data/configuration.cpp           30       29    96%   200
src/pybind11/data/configuration_set.cpp       84       84   100%
src/pybind11/data/data_class.cpp             109       27    24%   19-20,23-24,27,29,32,34-37,39-44,46,48-49,52,54,57-59,64,67,71-72,75,78-79,81-82,90,92,94-96,98,101,104-105,107,110,113-115,117-120,124,126,128-129,131,133,135-137,139,141,143-145,150-151,153,156-157,159,162-163,165,168-169,171,174,176,178,249
src/pybind11/data/element_data.cpp           123      123   100%
src/pybind11/data/hamiltonian.cpp            247      238    96%   62,65,67,458,477,650,670,855,876
src/pybind11/data/lattice_graph.cpp          122       96    78%   20,23,25,27,29-30,51,53-54,66-69,71-72,249,476-478,482,501,512,615,617,619,621
src/pybind11/data/majorana_mapping.cpp       217      181    83%   50-53,99-101,106-107,120-121,123,160-166,191-193,195-198,269-271,276-277,283-285,290-291
src/pybind11/data/orbitals.cpp               138      137    99%   940
src/pybind11/data/path_utils.hpp              19       11    57%   37,39,42-47
src/pybind11/data/pauli_operator.cpp         278      233    83%   154,265,330,406,411,417,423,435,475,481,513,519,525,537,577,612,644,649,663,667,675,712-713,716-721,723-726,752-753,755-760,762-765
src/pybind11/data/property_binding_helpers.hpp
                                             312      312   100%
src/pybind11/data/serialization.cpp            5        5   100%
src/pybind11/data/settings.cpp               834      568    68%   40-41,57-58,110-111,117-118,123-124,129,131,136,138,164-168,177-179,182-185,190-194,198-200,210-213,217-221,230-233,237-242,246-249,259-262,266-270,273-277,281-291,293-311,313-327,333,335,337-338,342,345-347,381,383,400,450,452-453,536,544-546,548,552,571-577,633-636,643-649,651,654,656,658-661,668,670,713,784,1444,1452,1458,1461,1580,1614,1692,1755,1780,1805,1831,1895,1983-1984,1986-1990,2024-2028,2030-2035,2086,2140,2166-2167,2169,2172-2175,2201,2243-2244,2246-2247,2278-2279,2281,2284-2287,2314-2316,2337-2339,2341-2342,2361-2367,2387-2389,2391-2392,2414-2418,2420-2425,2456-2457,2475-2481,2503-2504,2522-2528,2658
src/pybind11/data/stability_result.cpp       112      112   100%
src/pybind11/data/structure.cpp              199      184    92%   69,72,75-78,82-84,87,90-91,969,977,999
src/pybind11/data/wavefunction.cpp           365      347    95%   39,98,100,264-265,268,272,278,473-477,479,1016,1018,1064,1067
src/pybind11/module.cpp                       47       47   100%
src/pybind11/qdk_scf_config.cpp               12       12   100%
src/pybind11/utils/logger.cpp                191      177    92%   27,54,68-69,92,97-99,105-106,262-263,476,480
src/pybind11/utils/model_hamiltonians.cpp
                                              62       62   100%
src/pybind11/utils/orbital_rotation.cpp        7        7   100%
src/pybind11/utils/valence_space.cpp           6        6   100%
------------------------------------------------------------------------------
TOTAL                                       4542     3969    87%
------------------------------------------------------------------------------

Copilot AI review requested due to automatic review settings May 28, 2026 22:01
@v-boqinzhang v-boqinzhang requested a review from RushiGong as a code owner May 28, 2026 22:01

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Pull request overview

Copilot reviewed 31 out of 31 changed files in this pull request and generated 6 comments.

Comment thread external/macis/include/macis/hamiltonian_generator/dynamic_bit_masking.hpp Outdated
Comment thread external/macis/include/macis/solvers/selected_ci_diag.hpp
Comment thread external/macis/include/macis/solvers/selected_ci_diag.hpp
Comment thread cpp/src/qdk/chemistry/data/basis_set.cpp Outdated
Comment thread external/macis/include/macis/asci/determinant_search.hpp
Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp
#include <fcntl.h>
#include <qdk/chemistry/scf/config.h>
#include <sys/file.h>
#include <unistd.h>

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This is needed for flock, but not all OSs have this file

Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/macis_asci.cpp
Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp Outdated
Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp
break;
}

// Detect oscillation: sign change in energy delta with similar magnitude

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Is there a test that goes through this oscillation detection?

Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp
Copilot AI review requested due to automatic review settings June 5, 2026 20:42

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Pull request overview

Copilot reviewed 31 out of 31 changed files in this pull request and generated 9 comments.

Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp Outdated
Comment thread cpp/src/qdk/chemistry/algorithms/microsoft/cholesky_hamiltonian.cpp Outdated
Comment on lines +188 to +190
const size_t ndets = std::distance(dets_begin, dets_end);
const bool incremental = cache != nullptr;

Comment thread external/macis/src/macis/hamiltonian_generator/base.ipp Outdated
Comment thread external/macis/src/macis/CMakeLists.txt
Comment on lines +10 to +15
#pragma once
#include <array>
#include <cassert>
#include <macis/hamiltonian_generator/connection_build_utils.hpp>
#include <macis/hamiltonian_generator/sorted_double_loop.hpp>

Comment on lines +93 to +98
const size_t ndets = std::distance(dets_begin, dets_end);
const WfnType* dets = &*dets_begin;

detail::SpinCache<WfnType> cache;
cache.build({dets, ndets});

Comment on lines +155 to +160
const size_t ndets = std::distance(dets_begin, dets_end);
detail::SpinCache<WfnType> cache;
cache.build({&*dets_begin, ndets});

const size_t n_elec = dets_begin->count();
const size_t residues_per_det = n_elec * (n_elec - 1) / 2;
Comment on lines +533 to +542
} else if constexpr (N % 64 == 0) {
// FNV-1a inspired hash over 64-bit words
size_t h = 14695981039346656037ULL;
auto words = reinterpret_cast<const uint64_t*>(&bs);
constexpr auto nwords = N / 64;
for (size_t i = 0; i < nwords; ++i) {
h ^= words[i];
h *= 1099511628211ULL;
}
return h;
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4 participants