Initial geometry restructure

[nolanbrown01]

📝 Description

Moved calculate_distances to a new folder, transport. Renamed dependencies.

Type: 🎢 infrastructure

🚦 Testing

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☑️ Checklist

• I requested two reviewers for this pull request
• I updated the documentation according to my changes
• I built the documentation by applying the build_docs label

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[codecov]

Codecov Report

Merging #2063 (967aef9) into master (d20659e) will increase coverage by 0.00%.
The diff coverage is 60.00%.

❗ Current head 967aef9 differs from pull request most recent head c712c24. Consider uploading reports for the commit c712c24 to get more accurate results

@@           Coverage Diff           @@
##           master    #2063   +/-   ##
=======================================
  Coverage   58.34%   58.34%           
=======================================
  Files          76       76           
  Lines        8599     8593    -6     
=======================================
- Hits         5017     5014    -3     
+ Misses       3582     3579    -3     

Impacted Files	Coverage Δ
tardis/montecarlo/base.py	87.60% <ø> (-0.06%)	⬇️
tardis/montecarlo/montecarlo_configuration.py	100.00% <ø> (ø)
tardis/montecarlo/montecarlo_numba/base.py	30.50% <0.00%> (+0.75%)	⬆️
...dis/montecarlo/montecarlo_numba/numba_interface.py	34.64% <ø> (-0.26%)	⬇️
tardis/transport/calculate_distances.py	34.88% <ø> (ø)
...lo_numba/continuum/r_packet_transport_continuum.py	15.15% <100.00%> (ø)
.../montecarlo/montecarlo_numba/r_packet_transport.py	20.00% <100.00%> (ø)
tardis/montecarlo/montecarlo_numba/vpacket.py	21.78% <100.00%> (ø)

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