[Segment Replication] Add PIT/Scroll compatibility with Segment Replication

[mch2]

Description

This change makes updates to make PIT/Scroll queries compatible with Segment Replication. It does this by refcounting files when a new reader is created, and discarding those files after a reader is closed.

Issues Resolved

#6519

Check List

• New functionality includes testing.
  • All tests pass
• New functionality has been documented.
  • New functionality has javadoc added
• Commits are signed per the DCO using --signoff
• Commit changes are listed out in CHANGELOG.md file (See: Changelog)

By submitting this pull request, I confirm that my contribution is made under the terms of the Apache 2.0 license.
For more information on following Developer Certificate of Origin and signing off your commits, please check here.

[github-actions]

Gradle Check (Jenkins) Run Completed with:

• RESULT: FAILURE ❌
• URL: https://build.ci.opensearch.org/job/gradle-check/12327/
• CommitID: ccd5694
  Please examine the workflow log, locate, and copy-paste the failure(s) below, then iterate to green.
  Is the failure a flaky test unrelated to your change?

[github-actions]

Gradle Check (Jenkins) Run Completed with:

• RESULT: SUCCESS ✅
• URL: https://build.ci.opensearch.org/job/gradle-check/12332/
• CommitID: b32f94d

[codecov-commenter]

Codecov Report

❗ No coverage uploaded for pull request base (main@ad823b6). Click here to learn what that means.
The diff coverage is 84.44%.

❗ Current head 7a60f4e differs from pull request most recent head 939ff3a. Consider uploading reports for the commit 939ff3a to get more accurate results

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@@           Coverage Diff           @@
##             main    #6644   +/-   ##
=======================================
  Coverage        ?   70.73%           
  Complexity      ?    59206           
=======================================
  Files           ?     4810           
  Lines           ?   283497           
  Branches        ?    40873           
=======================================
  Hits            ?   200545           
  Misses          ?    66459           
  Partials        ?    16493           

Impacted Files	Coverage Δ
...rc/main/java/org/opensearch/index/store/Store.java	80.05% <72.72%> (ø)
.../opensearch/index/engine/NRTReplicationEngine.java	76.25% <80.00%> (ø)
...org/opensearch/index/store/ReplicaFileDeleter.java	87.50% <87.50%> (ø)
...arch/index/engine/NRTReplicationReaderManager.java	90.90% <100.00%> (ø)

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[github-actions]

Gradle Check (Jenkins) Run Completed with:

• RESULT: UNSTABLE ❕
• TEST FAILURES:

      1 org.opensearch.indices.replication.SegmentReplicationIT.testPitCreatedOnReplica

• URL: https://build.ci.opensearch.org/job/gradle-check/12333/
• CommitID: 3742c1b
  Please review all flaky tests that succeeded after retry and create an issue if one does not already exist to track the flaky failure.

[github-actions]

Gradle Check (Jenkins) Run Completed with:

• RESULT: FAILURE ❌
• URL: https://build.ci.opensearch.org/job/gradle-check/12500/
• CommitID: eb32b8b
  Please examine the workflow log, locate, and copy-paste the failure(s) below, then iterate to green.
  Is the failure a flaky test unrelated to your change?

[github-actions]

Gradle Check (Jenkins) Run Completed with:

• RESULT: FAILURE ❌
• URL: https://build.ci.opensearch.org/job/gradle-check/12563/
• CommitID: 8822b81
  Please examine the workflow log, locate, and copy-paste the failure(s) below, then iterate to green.
  Is the failure a flaky test unrelated to your change?

[github-actions]

Gradle Check (Jenkins) Run Completed with:

• RESULT: SUCCESS ✅
• URL: https://build.ci.opensearch.org/job/gradle-check/12568/
• CommitID: 7a60f4e

[github-actions]

Gradle Check (Jenkins) Run Completed with:

• RESULT: SUCCESS ✅
• URL: https://build.ci.opensearch.org/job/gradle-check/12571/
• CommitID: 939ff3a

[dreamer-89]

Closing this PR in favour of #6765 (author is on leave)

CC @anasalkouz