Initial changes and notes added

Mainly including notes in this one as a starting point
Added more notes.
Updated some notes
Updated some notes

Added some note to share before I, or anyone else, start diving into it.
Updated some changes and additions

Updating some initial work.
Updated some changes and additions for set_query()
Changes and additions to set_query & set_query_base_val
Changes & Additions to set_query

Just turning in final progress for the night, and will continue where I
left off. Setting the presetObjs as query arrays/str has required some
workarounds until the presetObj class can be reconfigured.
Changes & Additions to set_query

Most of the setting for Post Types, Taxonomies, and Page Parents are
configured. Created a partial/unfinished method to include the current
parent and terms, and the simular design in APLCore::APL_run needs to be
removed. Additions and testing to post_visibility and possibly some
other variable still need to be worked on.
Changes to set_query

Still fixing up some loose ends and debugging the strings before I move
on to injecting current page/post method, merging query_str matches
method, and/or the query method.
Additions to set_presetObj_page_vals

Added new support for the dynamic features of presets to include
current/global post values. Code from APLCore::APL_run needs some
similar code removed. This also include a quick fix to querying with
post parents
Additions to APL_Query

Cleaned up some of the notes for set_query and added the methods
query_str_consolidate, tax_query_match, and query_str_merge to minimize
querying, but there is a bug creating an additional unnecessary
post_type. Which is cleaned up with consolidating, but still needs to be
fixed. Bug could be in set_query.
Changes to set_query to fix double query_str

Last commit mentioned this bug with the set_query method creating
doubles. The problem was the set_query being called twice within an
instance by post_parents. Which already uses the method if more
arguments exist.
Additions to query

Some kinks still need to be worked out but the class's new code is
functional.
Changes to APLCore:run and Additions to APLQuery

Most of the final implementations have been added to switch over to the
new code.

In APLCore:run most of the lines of code were removed to be implemented
in APLQuery function for handling page dynamics. Also changed the loop
function according to WP's version of using WP_Query class.

In APLQuery, most of the old code was commented out for new code. The
constructor was changed to rely more on class functions rather than
nested code, and currently no longer queries posts on construct, but
will still set the 'multiple' query strings according to APL and WP.
Until inheritance becomes more of a possibility with class variables, it
now requires the APLQuery:query_wp function to be called after
constructing a new class to preserve the WP_Class format. Also added the
$_query_str_array class variable as a result to be used when querying
with WP_Query. Added APLQuery:post__not_in() to exclude posts after
querying posts since post__in conflicts.

Some new bugs fixed. Added post_type to Page Parents without
taxonomies/terms to fix child pages not being queried. Added an extra if
check for empty page_ids to fix adding a null value to _postParents.
Changes to APLQuery:query_wp

Changes made to query_wp to not include post__in inside query strings
since it wasn't working as intended, and used post__in for the final
query instead. It was originally intended to eliminate an extra final
query by merging post__in, but no results were returned when used.
Cleanup of APLQuery

Added final notes and PHPDocs. Removed any unused/old code.
Cleanup of APLCore:run

Added final notes and updated the PHPDoc to APLCore:run. Removed old and
unused code.
Changes to APLCore:run

Changed/Added fix for checking listExcludeDuplicates is set. Also trying
to fix a merge conflict.
Fixed merge conflict in APLCore:run

Deleted some lines of code that was coming into conflict with the new
changes in the Branch - apl_query_mod.