gh-2552: Removed deprecated code

[t92549]

This branch is not yet complete, still todo:

• remove getTraits functions and replace with updated Operation: Make GetTraits Operation configurable per store #2560
• remove hasTrait function and replace with new Operation: Create HasTrait Operation #2559
• experiment with how includeMatchedVertex is added in AccumuloElementsRetriever

Related Issue

• Resolve Remove Deprecated code #2552

[codecov-commenter]

Codecov Report

Merging #2563 (c7fd1e3) into develop (4ccb03f) will decrease coverage by 1.42%.
The diff coverage is 92.85%.

@@              Coverage Diff              @@
##             develop    #2563      +/-   ##
=============================================
- Coverage      66.69%   65.27%   -1.43%     
+ Complexity      2522     2430      -92     
=============================================
  Files            995      870     -125     
  Lines          32457    27152    -5305     
  Branches        3936     3164     -772     
=============================================
- Hits           21647    17723    -3924     
+ Misses          9114     8032    -1082     
+ Partials        1696     1397     -299     

Impacted Files	Coverage Δ
...r/data/elementdefinition/view/NamedViewDetail.java	45.39% <ø> (+0.27%)	⬆️
.../elementdefinition/view/ViewElementDefinition.java	63.08% <ø> (+0.58%)	⬆️
.../src/main/java/uk/gov/gchq/gaffer/graph/Graph.java	68.73% <ø> (+3.72%)	⬆️
...ain/java/uk/gov/gchq/gaffer/graph/GraphConfig.java	55.26% <0.00%> (ø)
.../java/uk/gov/gchq/gaffer/jobtracker/JobDetail.java	32.62% <ø> (+3.32%)	⬆️
...n/java/uk/gov/gchq/gaffer/operation/Operation.java	75.00% <ø> (+1.41%)	⬆️
...va/uk/gov/gchq/gaffer/operation/impl/GetWalks.java	81.13% <ø> (-1.12%)	⬇️
...ov/gchq/gaffer/operation/impl/get/GetElements.java	69.23% <ø> (-0.27%)	⬇️
...ffer/operation/impl/join/methods/JoinFunction.java	100.00% <ø> (+4.00%)	⬆️
.../gchq/gaffer/jsonserialisation/JSONSerialiser.java	75.70% <ø> (+1.38%)	⬆️
... and 97 more

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[t92549]

This function, as well as ToBytesSerialiser.deserialise(byte[]), have been left in despite being deprecated. This is because they cannot be removed as they need to have implementations for the Serialiser interface. However, the deprecated tag has been left in to warn people to instead use the more efficient deserialise(byte[], int, int) method instead.

[t92549]

Closing as this was meant to merge into v2-alpha branch