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[Muhammad Irfan <muhammad.irfan@xxxxxxxxxxx>]

I'm unable to replicate this problem on Percona Server 5.7.19 setup.

1) Setup Percona Server 5.6 master/slave.
2) In-place upgrade to Percona Server 5.7 for master/slave.

No replication discrepancies found.

[root@master ~]# pt-table-checksum --no-check-binlog-format --function
murmur_hash  --user checksum_user --password checksum_password --host
master-ip --recursion-method=dsn=D=percona,t=dsns

# A software update is available:
            TS ERRORS  DIFFS     ROWS  CHUNKS SKIPPED    TIME TABLE
11-17T16:37:16      0      0        0       1       0   0.015 mysql.columns_priv
11-17T16:37:16      0      0        6       1       0   0.017 mysql.db
11-17T16:37:16      0      0        2       1       0   0.013 mysql.engine_cost
11-17T16:37:16      0      0        0       1       0   0.013 mysql.event
11-17T16:37:16      0      0        0       1       0   0.011 mysql.func
11-17T16:37:17      0      0       40       1       0   0.024 mysql.help_category
11-17T16:37:17      0      0      615       1       0   0.012 mysql.help_keyword
11-17T16:37:17      0      0     1253       1       0   0.012 mysql.help_relation
11-17T16:37:17      0      0      585       1       0   0.015 mysql.help_topic
11-17T16:37:17      0      0        0       1       0   0.009 mysql.ndb_binlog_index
11-17T16:37:17      0      0        0       1       0   0.010 mysql.plugin
11-17T16:37:17      0      0       48       1       0   0.014 mysql.proc
11-17T16:37:17      0      0        0       1       0   0.011 mysql.procs_priv
11-17T16:37:17      0      0        2       1       0   0.010 mysql.proxies_priv
11-17T16:37:17      0      0        6       1       0   0.010 mysql.server_cost
11-17T16:37:17      0      0        0       1       0   0.011 mysql.servers
11-17T16:37:17      0      0        2       1       0   0.010 mysql.tables_priv
11-17T16:37:17      0      0        0       1       0   0.010 mysql.time_zone
11-17T16:37:17      0      0        0       1       0   0.010 mysql.time_zone_leap_second
11-17T16:37:17      0      0        0       1       0   0.012 mysql.time_zone_name
11-17T16:37:17      0      0        0       1       0   0.010 mysql.time_zone_transition
11-17T16:37:17      0      0        0       1       0   0.010 mysql.time_zone_transition_type
11-17T16:37:17      0      0        9       1       0   0.011 mysql.user
11-17T16:37:17      0      0        1       1       0   0.008 percona.dsns
11-17T16:37:17      0      0        6       1       0   0.012 sys.sys_config
11-17T16:37:17      0      0        5       1       0   0.008 test.test

** Changed in: percona-server
       Status: New => Invalid

** Changed in: percona-server
     Assignee: Muhammad Irfan (muhammad-irfan) => (unassigned)

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https://bugs.launchpad.net/bugs/1575479

Title:
  In-place upgrade upgrade creates replication discrepancies

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