25.8.16 Stable: disable write_marks_for_substreams_in_compact_parts by default

[zvonand]

Changelog category (leave one):

• Bug Fix (user-visible misbehavior in an official stable release)

Changelog entry (a user-readable short description of the changes that goes to CHANGELOG.md):

disable write_marks_for_substreams_in_compact_parts by default

CI/CD Options

Exclude tests:

• Fast test
• Integration Tests
• Stateless tests
• Stateful tests
• Performance tests
• All with ASAN
• All with TSAN
• All with MSAN
• All with UBSAN
• All with Coverage
• All with Aarch64
• All Regression
• Disable CI Cache

Regression jobs to run:

• Fast suites (mostly <1h)
• Aggregate Functions (2h)
• Alter (1.5h)
• Benchmark (30m)
• ClickHouse Keeper (1h)
• Iceberg (2h)
• LDAP (1h)
• Parquet (1.5h)
• RBAC (1.5h)
• SSL Server (1h)
• S3 (2h)
• Tiered Storage (2h)

[github-actions]

Workflow [PR], commit [98b1107]

[mkmkme]

LGTM

[besteffects]

Verified that this fixed downgrade to 25.3.8.10041.altinitystable

[CarlosFelipeOR]

CI Failures Analysis

Regression Test - Iceberg Suite

Already fixed in PR #1411. Tests will pass after merge.

Integration tests (RabbitMQ)

Intermittent CI infrastructure issue (unrelated to this PR). Tests passed on rerun.

Stateless tests (amd_debug builds)

Root cause: Changing write_marks_for_substreams_in_compact_parts default to false breaks reading nested JSON arrays from compact MergeTree parts.

Failing tests:

• 01825_type_json_in_array
• 01825_type_json_17
• 03208_array_of_json_read_subcolumns_1

All other stateless failures (Fatal messages, Killed by signal, Exception in test runner, etc.) are cascade failures caused by server crash (SIGABRT) during these JSON tests.

Stateless tests (amd_binary builds)

Pre-existing flaky tests (unrelated to this PR):

• 02813_starting_in_text_log - flaky since July 2025
• 03207_json_read_subcolumns_2_wide_merge_tree - flaky since May 2025
• 03251_insert_sparse_all_formats - flaky since August 2025

Issue created: #1412
Adding verified-with-issue label.