Synchronize master branch with 2024-patches

Includes:

• Update References for: Allen!1615 (merged) based on lhcb-2024-patches-mr/460 (!3483 (merged))
• Update References for: !3196 (merged) based on lhcb-2024-patches-mr/448 (!3481 (merged))
• Replace doca by sdoca (!3196 (merged))
• Fix logic in sprucing_physicsstreams_config_check (!3467 (merged))
• Move SMOG2 calibration lines to TurCal stream (!3441 (merged))
• Remove raw banks from 1kHz lumi line. (!3442 (merged))
• Fix the Moore CI docs pipeline (!3449 (merged))
• Prepare Moore v55r8 (!3440 (merged))
• Update References for: Allen!1618 (merged) based on lhcb-2024-patches-mr/395 (!3434 (merged))
• Ignore too many composite warnings in QM tests (!3420 (merged))
• SLB: Add MVA-based isolation (!2981 (merged))
• Update refs for new 2024 ProbNNs (!3419 (merged))
• ProbNN evaluation for ProtoParticle makers (!2768 (merged))
• SL: Adding in track monitoring for Hlt2 and sprucing lines (!3306 (merged))
• Add function to run only 2and3bodytopo in hlt2 + only test spruce lines during sprucing for FSR integrationtest (!3199 (merged))
• B2OC: add 2 very low rate Spruce lines to read back the Calib lines going to tape/full (shifters please ignore) (!3405 (merged))
• Fix Moore references for x86_64_v3 (!3412 (merged))
• Fix directories of mass histograms (follow up on !3119 (merged)) (!3375 (merged))
• Fix miscellaneous tests (!3408 (merged))
• Update References for: Allen!1597 (merged) based on lhcb-2024-patches-mr/331 (!3404 (merged))
• Don't set DetectorList in HLT1 HLT2 vertex comparison test (!3367 (merged))
• Remove ProbNN calls in line selections (!3379 (merged))
• Update inclusive radiative lines (!3372 (merged))
• Update References for: !3309 (merged) based on lhcb-2024-patches-mr/317 (!3397 (merged))
• Topological Trigger Update 2024 April (!3309 (merged))
• Add documentation on running HLT2 and sprucing over 2024 data (!3360 (merged))
• Documentation: For now, recommend producing .dst files for HLT1 and HLT2 when running over MC (!3357 (merged))
• SL: Tuning of charm builder (!3304 (merged))
• BdsToJpsiX_JpsiTopp tunning (!3291 (merged))
• RD developments towards April (!3157 (merged))
• BnoC HLT2 lines (!3170 (merged))
• Update References for: Rec!3858 (merged), !3302 (merged), MooreOnline!390 (merged) based on lhcb-2024-patches-mr/298 (!3391 (merged))
• RecoMon monitoring for including UT hits in correlation hists if available (!3302 (merged))
• [RTA/DPA BW Tests]: Save persistency info -> json in Moore options files (!3329 (merged))
• Add make_pvs argument in particle maker (!3208 (merged))
• Optimized control flow (!2757 (merged))
• Do not save raw data for all events in NOBIAS (!3368 (merged))
• Hotfix: Avoid touching the combination limits in RD builder for vertex isolation (!3015 (merged))
• Update HLT2 VDM configuration (cherry-pick !2799 (merged)) (!2800 (merged))
• Update References for: Rec!3845 (merged), !3245 (merged), Alignment!495 (merged) based on lhcb-2024-patches-mr/265 (!3374 (merged))
• update track monitoring with UT (!3245 (merged))
• Muon detector showers lines. Requires Rec!3756 (merged) (!2975 (merged))
• Increase hlt2_reco_calo_efficiency timeout to 1200 (!3365 (merged))
• Reduce Hlt2Charm_LcpToL0PimPipPip_LLDecision rate (!3172 (merged))
• Add MVA-based lines for some b2xll modes (!3308 (merged))
• Fix wrong daughter_index in lb0_to_pkpipiee_ll, Hlt2RD_LbToPpKS0PimEE_LL line (!3340 (merged))
• Update References for: Rec!3840 (merged), !3251 (merged), MooreOnline!358 (merged) based on lhcb-2024-patches-mr/243 (!3364 (merged))
• Update test script to follow changes to BeamSpotMonitor (!3251 (merged))
• SLB: update electronic line selections (!3284 (merged))
• Update References for: Allen!1587 (merged) based on lhcb-2024-patches-mr/223 (!3356 (merged))

Goes with: Detector!552 (merged) LHCb!4546 (merged) Lbcom!725 (merged) Rec!3896 (merged) Allen!1601 (merged) !3378 (merged) DaVinci!1083 (merged) MooreOnline!416 (merged) Alignment!502 (merged) Panoptes!338 (merged) LHCbIntegrationTests!68 (merged)