fix(lib): deprecation warnings and others

[jeertmans]

No description provided.

[github-actions]

Rust benchmark results:

group                                                       before                                 changes
-----                                                       ------                                 -------
complete_graph_all_paths/iter                               1.02     23.6±0.18ns 40.5 MElem/sec    1.00     23.2±0.45ns 41.1 MElem/sec
complete_graph_all_paths_array_chunks/1                     1.02     33.4±0.45ns 28.6 MElem/sec    1.00     32.6±0.42ns 29.3 MElem/sec
complete_graph_all_paths_array_chunks/10                    1.00    356.8±2.65ns 26.7 MElem/sec    1.00   357.5±20.30ns 26.7 MElem/sec
complete_graph_all_paths_array_chunks/100                   1.00      2.4±0.04µs 39.2 MElem/sec    1.01      2.5±0.02µs 38.8 MElem/sec
complete_graph_all_paths_array_chunks/1000                  1.00     22.4±0.39µs 42.5 MElem/sec    1.01     22.6±0.91µs 42.2 MElem/sec
di_graph_from_complete_graph_all_paths/iter                 1.00    236.0±3.80ns  4.0 MElem/sec    1.04    246.2±5.39ns  3.9 MElem/sec
di_graph_from_complete_graph_all_paths_array_chunks/1       1.01    247.4±4.43ns  3.9 MElem/sec    1.00    245.7±4.36ns  3.9 MElem/sec
di_graph_from_complete_graph_all_paths_array_chunks/10      1.00      2.7±0.02µs  3.6 MElem/sec    1.03      2.8±0.02µs  3.5 MElem/sec
di_graph_from_complete_graph_all_paths_array_chunks/100     1.00     24.2±0.29µs  3.9 MElem/sec    1.01     24.4±0.23µs  3.9 MElem/sec
di_graph_from_complete_graph_all_paths_array_chunks/1000    1.00    228.7±2.37µs  4.2 MElem/sec    1.02    232.2±1.84µs  4.1 MElem/sec

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 90.57%. Comparing base (8201591) to head (a4c95af).

Additional details and impacted files

@@            Coverage Diff             @@
##             main      #84      +/-   ##
==========================================
+ Coverage   88.81%   90.57%   +1.75%     
==========================================
  Files          35       35              
  Lines        1252     1252              
==========================================
+ Hits         1112     1134      +22     
+ Misses        140      118      -22     

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[github-actions]

Python benchmark results:

-------------------------------- benchmark 'complete_graph_all_paths': 3 tests --------------------------------
Name (time in ns)                                    Mean              StdDev            OPS (Mops/s)          
---------------------------------------------------------------------------------------------------------------
test_complete_graph_all_paths (0002_pgo)         327.1770 (1.0)       31.7776 (1.0)            3.0564 (1.0)    
test_complete_graph_all_paths (0001_changes)     344.1607 (1.05)     143.3435 (4.51)           2.9056 (0.95)   
test_complete_graph_all_paths (0003_before)      350.7254 (1.07)     254.5363 (8.01)           2.8512 (0.93)   
---------------------------------------------------------------------------------------------------------------

----------------------------------- benchmark 'complete_graph_all_paths_array_chunks': 12 tests ------------------------------------
Name (time in ns)                                                       Mean                StdDev            OPS (Mops/s)          
------------------------------------------------------------------------------------------------------------------------------------
test_complete_graph_all_paths_array_chunks[1000] (0002_pgo)          28.7023 (1.0)        204.1296 (1.72)          34.8404 (1.0)    
test_complete_graph_all_paths_array_chunks[1000] (0001_changes)      31.6652 (1.10)       182.3411 (1.53)          31.5805 (0.91)   
test_complete_graph_all_paths_array_chunks[1000] (0003_before)       30.5902 (1.07)       128.3117 (1.08)          32.6902 (0.94)   
test_complete_graph_all_paths_array_chunks[100] (0002_pgo)           36.3180 (1.27)       118.8055 (1.0)           27.5345 (0.79)   
test_complete_graph_all_paths_array_chunks[100] (0003_before)        40.2413 (1.40)       276.0253 (2.32)          24.8501 (0.71)   
test_complete_graph_all_paths_array_chunks[100] (0001_changes)       40.0734 (1.40)       231.3546 (1.95)          24.9542 (0.72)   
test_complete_graph_all_paths_array_chunks[10] (0002_pgo)            76.9059 (2.68)       164.2464 (1.38)          13.0029 (0.37)   
test_complete_graph_all_paths_array_chunks[10] (0001_changes)        76.9326 (2.68)       235.4463 (1.98)          12.9984 (0.37)   
test_complete_graph_all_paths_array_chunks[10] (0003_before)         77.9434 (2.72)       251.8006 (2.12)          12.8298 (0.37)   
test_complete_graph_all_paths_array_chunks[1] (0003_before)         360.6658 (12.57)    1,723.7684 (14.51)          2.7726 (0.08)   
test_complete_graph_all_paths_array_chunks[1] (0002_pgo)            350.9552 (12.23)      566.5606 (4.77)           2.8494 (0.08)   
test_complete_graph_all_paths_array_chunks[1] (0001_changes)        364.1712 (12.69)    1,033.7199 (8.70)           2.7460 (0.08)   
------------------------------------------------------------------------------------------------------------------------------------

------------------------------------- benchmark 'di_graph_complete_graph_all_paths_array_chunks': 12 tests -------------------------------------
Name (time in ns)                                                                     Mean              StdDev            OPS (Mops/s)          
------------------------------------------------------------------------------------------------------------------------------------------------
test_di_graph_from_complete_graph_all_paths_array_chunks[100] (0002_pgo)          256.3386 (1.07)      25.3058 (3.24)           3.9011 (0.94)   
test_di_graph_from_complete_graph_all_paths_array_chunks[1000] (0002_pgo)         240.1846 (1.0)        7.9647 (1.02)           4.1635 (1.0)    
test_di_graph_from_complete_graph_all_paths_array_chunks[100] (0001_changes)      264.0685 (1.10)      31.5337 (4.04)           3.7869 (0.91)   
test_di_graph_from_complete_graph_all_paths_array_chunks[1000] (0003_before)      258.3397 (1.08)       8.7827 (1.12)           3.8709 (0.93)   
test_di_graph_from_complete_graph_all_paths_array_chunks[100] (0003_before)       273.1611 (1.14)      25.5664 (3.27)           3.6608 (0.88)   
test_di_graph_from_complete_graph_all_paths_array_chunks[1000] (0001_changes)     254.2686 (1.06)       7.8126 (1.0)            3.9328 (0.94)   
test_di_graph_from_complete_graph_all_paths_array_chunks[10] (0002_pgo)           310.2211 (1.29)     154.2041 (19.74)          3.2235 (0.77)   
test_di_graph_from_complete_graph_all_paths_array_chunks[10] (0003_before)        336.3865 (1.40)     170.0045 (21.76)          2.9728 (0.71)   
test_di_graph_from_complete_graph_all_paths_array_chunks[10] (0001_changes)       335.6016 (1.40)     196.3435 (25.13)          2.9797 (0.72)   
test_di_graph_from_complete_graph_all_paths_array_chunks[1] (0002_pgo)            571.4481 (2.38)     577.6291 (73.94)          1.7499 (0.42)   
test_di_graph_from_complete_graph_all_paths_array_chunks[1] (0001_changes)        605.5349 (2.52)     930.1652 (119.06)         1.6514 (0.40)   
test_di_graph_from_complete_graph_all_paths_array_chunks[1] (0003_before)         614.2013 (2.56)     868.2942 (111.14)         1.6281 (0.39)   
------------------------------------------------------------------------------------------------------------------------------------------------

--------------------------------- benchmark 'di_graph_from_complete_graph_all_paths': 3 tests ---------------------------------
Name (time in ns)                                                  Mean                StdDev            OPS (Mops/s)          
-------------------------------------------------------------------------------------------------------------------------------
test_di_graph_from_complete_graph_all_paths (0001_changes)     587.2673 (1.0)        652.6322 (1.12)           1.7028 (1.0)    
test_di_graph_from_complete_graph_all_paths (0002_pgo)         593.9233 (1.01)       583.2149 (1.0)            1.6837 (0.99)   
test_di_graph_from_complete_graph_all_paths (0003_before)      597.2384 (1.02)     1,141.1522 (1.96)           1.6744 (0.98)   
-------------------------------------------------------------------------------------------------------------------------------

Legend:
  Outliers: 1 Standard Deviation from Mean; 1.5 IQR (InterQuartile Range) from 1st Quartile and 3rd Quartile.
  OPS: Operations Per Second, computed as 1 / Mean