Merge lp://staging/~percona-toolkit-dev/percona-toolkit/fix-dupe-key-bug-894140 into lp://staging/percona-toolkit/2.0

Changelog (+21/-0)
MANIFEST (+2/-0)
Makefile.PL (+1/-1)
bin/pt-align (+1/-1)
bin/pt-archiver (+11/-11)
bin/pt-config-diff (+1/-1)
bin/pt-deadlock-logger (+1/-1)
bin/pt-diskstats (+1/-1)
bin/pt-duplicate-key-checker (+171/-92)
bin/pt-fifo-split (+1/-1)
bin/pt-find (+1/-1)
bin/pt-fingerprint (+2143/-0)
bin/pt-fk-error-logger (+1/-1)
bin/pt-heartbeat (+1/-1)
bin/pt-index-usage (+170/-92)
bin/pt-ioprofile (+1/-1)
bin/pt-kill (+1/-1)
bin/pt-log-player (+1/-1)
bin/pt-mext (+1/-1)
bin/pt-mysql-summary (+2080/-683)
bin/pt-online-schema-change (+4640/-1243)
bin/pt-pmp (+1/-1)
bin/pt-query-advisor (+248/-372)
bin/pt-query-digest (+9/-9)
bin/pt-show-grants (+1/-1)
bin/pt-sift (+1/-1)
bin/pt-slave-delay (+1/-1)
bin/pt-slave-find (+1/-1)
bin/pt-slave-restart (+1/-1)
bin/pt-stalk (+1/-1)
bin/pt-summary (+2022/-842)
bin/pt-table-checksum (+234/-95)
bin/pt-table-sync (+554/-405)
bin/pt-table-usage (+7223/-0)
bin/pt-tcp-model (+1/-1)
bin/pt-trend (+1/-1)
bin/pt-upgrade (+1/-1)
bin/pt-variable-advisor (+1/-1)
bin/pt-visual-explain (+1/-1)
config/deb/changelog (+23/-0)
config/sphinx-build/conf.py (+2/-2)
docs/percona-toolkit.pod (+12/-4)
docs/release_notes.rst (+48/-0)
lib/CleanupTask.pm (+7/-2)
lib/Cxn.pm (+1/-1)
lib/MySQLStatusWaiter.pm (+34/-12)
lib/NibbleIterator.pm (+200/-30)
lib/OSCCaptureSync.pm (+0/-142)
lib/OobNibbleIterator.pm (+1/-1)
lib/QueryAdvisorRules.pm (+2/-2)
lib/QueryRewriter.pm (+24/-4)
lib/SQLParser.pm (+103/-8)
lib/Schema.pm (+5/-5)
lib/SchemaIterator.pm (+26/-44)
lib/SlowLogWriter.pm (+2/-2)
lib/TableUsage.pm (+1060/-0)
lib/bash/alt_cmds.sh (+25/-1)
lib/bash/collect_mysql_info.sh (+263/-0)
lib/bash/collect_system_info.sh (+574/-0)
lib/bash/log_warn_die.sh (+6/-0)
lib/bash/report_formatting.sh (+122/-0)
lib/bash/report_mysql_info.sh (+1391/-0)
lib/bash/report_system_info.sh (+1050/-0)
lib/bash/summary_common.sh (+155/-0)
t/lib/CleanupTask.t (+18/-1)
t/lib/MySQLStatusWaiter.t (+38/-4)
t/lib/NibbleIterator.t (+74/-3)
t/lib/OSCCaptureSync.t (+0/-131)
t/lib/OobNibbleIterator.t (+8/-3)
t/lib/QueryRewriter.t (+59/-1)
t/lib/SQLParser.t (+1/-1)
t/lib/SchemaIterator.t (+9/-50)
t/lib/SlowLogParser.t (+63/-63)
t/lib/TableUsage.t (+816/-0)
t/lib/bash/collect_mysql_info.sh (+197/-0)
t/lib/bash/collect_system_info.sh (+307/-0)
t/lib/bash/report_formatting.sh (+113/-0)
t/lib/bash/report_mysql_info.sh (+734/-0)
t/lib/bash/report_system_info.sh (+1580/-0)
t/lib/bash/summary_common.sh (+79/-0)
t/lib/samples/SchemaIterator/all-dbs-tbls-5.0.txt (+421/-0)
t/lib/samples/SchemaIterator/all-dbs-tbls.txt (+486/-0)
t/lib/samples/SchemaIterator/resume-from-ignored-sakila-payment-5.0.txt (+52/-0)
t/lib/samples/SchemaIterator/resume-from-ignored-sakila-payment.txt (+49/-0)
t/lib/samples/SchemaIterator/resume-from-sakila-payment-5.0.txt (+70/-0)
t/lib/samples/SchemaIterator/resume-from-sakila-payment.txt (+66/-0)
t/lib/samples/slowlogs/slow002.txt (+16/-16)
t/lib/samples/slowlogs/slow003.txt (+2/-2)
t/lib/samples/slowlogs/slow005.txt (+2/-2)
t/lib/samples/slowlogs/slow006.txt (+12/-12)
t/lib/samples/slowlogs/slow007.txt (+2/-2)
t/lib/samples/slowlogs/slow022.txt (+12/-12)
t/lib/samples/slowlogs/slow030.txt (+899/-899)
t/lib/samples/slowlogs/slow032-rewritten.txt (+2/-2)
t/lib/samples/slowlogs/slow032.txt (+2/-2)
t/lib/samples/slowlogs/slow034.txt (+18/-18)
t/lib/samples/slowlogs/slow035.txt (+2/-2)
t/pt-archiver/basics.t (+43/-1)
t/pt-deadlock-logger/basics.t (+1/-1)
t/pt-fingerprint/basics.t (+101/-0)
t/pt-fingerprint/samples/query001 (+2/-0)
t/pt-fingerprint/samples/query001.fingerprint (+1/-0)
t/pt-fingerprint/samples/query002 (+2/-0)
t/pt-fingerprint/samples/query002.fingerprint (+1/-0)
t/pt-log-player/samples/log001.txt (+16/-16)
t/pt-mysql-summary/find_my_cnf_file.sh (+0/-20)
t/pt-mysql-summary/format_binlog_filters.sh (+0/-12)
t/pt-mysql-summary/format_innodb_status.sh (+0/-147)
t/pt-mysql-summary/format_overall_db_stats.sh (+0/-61)
t/pt-mysql-summary/format_status_variables.sh (+0/-97)
t/pt-mysql-summary/fuzz.sh (+0/-7)
t/pt-mysql-summary/get_mysql_info.sh (+0/-26)
t/pt-mysql-summary/parse_mysqld_instances.sh (+0/-47)
t/pt-mysql-summary/pretty_print_cnf_file.sh (+0/-40)
t/pt-mysql-summary/pt-mysql-summary.t (+54/-2)
t/pt-mysql-summary/samples/expected_output_temp002.txt (+276/-0)
t/pt-mysql-summary/samples/expected_output_temp003.txt (+219/-0)
t/pt-mysql-summary/samples/expected_output_temp004.txt (+218/-0)
t/pt-mysql-summary/samples/expected_output_temp005.txt (+291/-0)
t/pt-mysql-summary/samples/expected_result_report_summary.txt (+257/-0)
t/pt-mysql-summary/samples/mysql-variables-with-semisync.txt (+326/-0)
t/pt-mysql-summary/samples/temp001/mysql-status (+304/-0)
t/pt-mysql-summary/samples/temp001/mysql-variables (+356/-0)
t/pt-mysql-summary/samples/temp002/innodb-status (+118/-0)
t/pt-mysql-summary/samples/temp002/mysql-config-file (+26/-0)
t/pt-mysql-summary/samples/temp002/mysql-databases (+6/-0)
t/pt-mysql-summary/samples/temp002/mysql-plugins (+35/-0)
t/pt-mysql-summary/samples/temp002/mysql-processlist (+12/-0)
t/pt-mysql-summary/samples/temp002/mysql-status (+370/-0)
t/pt-mysql-summary/samples/temp002/mysql-status-defer (+370/-0)
t/pt-mysql-summary/samples/temp002/mysql-users (+1/-0)
t/pt-mysql-summary/samples/temp002/mysql-variables (+372/-0)
t/pt-mysql-summary/samples/temp002/mysqld-instances (+4/-0)
t/pt-mysql-summary/samples/temp002/mysqldump (+396/-0)
t/pt-mysql-summary/samples/temp003/innodb-status (+77/-0)
t/pt-mysql-summary/samples/temp003/mysql-config-file (+26/-0)
t/pt-mysql-summary/samples/temp003/mysql-databases (+2/-0)
t/pt-mysql-summary/samples/temp003/mysql-master-logs (+1/-0)
t/pt-mysql-summary/samples/temp003/mysql-master-status (+1/-0)
t/pt-mysql-summary/samples/temp003/mysql-plugins (+10/-0)
t/pt-mysql-summary/samples/temp003/mysql-processlist (+9/-0)
t/pt-mysql-summary/samples/temp003/mysql-status (+291/-0)
t/pt-mysql-summary/samples/temp003/mysql-status-defer (+291/-0)
t/pt-mysql-summary/samples/temp003/mysql-users (+1/-0)
t/pt-mysql-summary/samples/temp003/mysql-variables (+285/-0)
t/pt-mysql-summary/samples/temp003/mysqld-instances (+2/-0)
t/pt-mysql-summary/samples/temp004/innodb-status (+77/-0)
t/pt-mysql-summary/samples/temp004/mysql-config-file (+26/-0)
t/pt-mysql-summary/samples/temp004/mysql-databases (+3/-0)
t/pt-mysql-summary/samples/temp004/mysql-master-logs (+2/-0)
t/pt-mysql-summary/samples/temp004/mysql-master-status (+1/-0)
t/pt-mysql-summary/samples/temp004/mysql-plugins (+10/-0)
t/pt-mysql-summary/samples/temp004/mysql-processlist (+9/-0)
t/pt-mysql-summary/samples/temp004/mysql-status (+291/-0)
t/pt-mysql-summary/samples/temp004/mysql-status-defer (+291/-0)
t/pt-mysql-summary/samples/temp004/mysql-users (+1/-0)
t/pt-mysql-summary/samples/temp004/mysql-variables (+285/-0)
t/pt-mysql-summary/samples/temp004/mysqld-instances (+2/-0)
t/pt-mysql-summary/samples/temp005/innodb-status (+108/-0)
t/pt-mysql-summary/samples/temp005/mysql-config-file (+26/-0)
t/pt-mysql-summary/samples/temp005/mysql-databases (+3/-0)
t/pt-mysql-summary/samples/temp005/mysql-master-logs (+1/-0)
t/pt-mysql-summary/samples/temp005/mysql-master-status (+1/-0)
t/pt-mysql-summary/samples/temp005/mysql-plugins (+28/-0)
t/pt-mysql-summary/samples/temp005/mysql-processlist (+18/-0)
t/pt-mysql-summary/samples/temp005/mysql-status (+304/-0)
t/pt-mysql-summary/samples/temp005/mysql-status-defer (+304/-0)
t/pt-mysql-summary/samples/temp005/mysql-users (+1/-0)
t/pt-mysql-summary/samples/temp005/mysql-variables (+363/-0)
t/pt-mysql-summary/samples/temp005/mysqld-executables (+1/-0)
t/pt-mysql-summary/samples/temp005/mysqld-instances (+4/-0)
t/pt-mysql-summary/samples/temp005/mysqldump (+1084/-0)
t/pt-mysql-summary/samples/tempdir/innodb-status (+77/-0)
t/pt-mysql-summary/samples/tempdir/mysql-config-file (+26/-0)
t/pt-mysql-summary/samples/tempdir/mysql-databases (+3/-0)
t/pt-mysql-summary/samples/tempdir/mysql-master-logs (+3/-0)
t/pt-mysql-summary/samples/tempdir/mysql-master-status (+1/-0)
t/pt-mysql-summary/samples/tempdir/mysql-plugins (+10/-0)
t/pt-mysql-summary/samples/tempdir/mysql-processlist (+9/-0)
t/pt-mysql-summary/samples/tempdir/mysql-status (+291/-0)
t/pt-mysql-summary/samples/tempdir/mysql-status-defer (+291/-0)
t/pt-mysql-summary/samples/tempdir/mysql-users (+5/-0)
t/pt-mysql-summary/samples/tempdir/mysql-variables (+283/-0)
t/pt-mysql-summary/samples/tempdir/mysqld-instances (+4/-0)
t/pt-mysql-summary/samples/tempdir/mysqldump (+328/-0)
t/pt-mysql-summary/samples/tempdir/tempfile (+130/-0)
t/pt-mysql-summary/summarize_binlogs.sh (+0/-13)
t/pt-mysql-summary/summarize_processlist.sh (+0/-64)
t/pt-online-schema-change/alter_active_table.t (+56/-46)
t/pt-online-schema-change/basics.t (+541/-218)
t/pt-online-schema-change/check_tables.t (+0/-126)
t/pt-online-schema-change/option_sanity.t (+12/-12)
t/pt-online-schema-change/samples/basic_no_fks.data (+500/-500)
t/pt-online-schema-change/samples/basic_no_fks.sql (+30/-0)
t/pt-online-schema-change/samples/basic_with_fks.sql (+56/-0)
t/pt-online-schema-change/samples/fk_tables_schema.sql (+0/-31)
t/pt-online-schema-change/samples/query_table.pl (+8/-5)
t/pt-online-schema-change/samples/small_table.sql (+0/-27)
t/pt-online-schema-change/sanity_checks.t (+113/-0)
t/pt-query-digest/read_timeout.t (+1/-1)
t/pt-query-digest/review.t (+4/-4)
t/pt-query-digest/samples/save-results/slow002-limit-3.txt (+4/-4)
t/pt-query-digest/samples/save-results/slow002.txt (+2/-2)
t/pt-query-digest/samples/save-results/slow006.txt (+1/-1)
t/pt-query-digest/samples/slow-issue-611.txt (+2/-2)
t/pt-query-digest/samples/slow002-orderbynonexistent.txt (+6/-6)
t/pt-query-digest/samples/slow002_iters_2.txt (+1/-1)
t/pt-query-digest/samples/slow002_orderbyreport.txt (+2/-2)
t/pt-query-digest/samples/slow002_report.txt (+6/-6)
t/pt-query-digest/samples/slow002_report_filtered.txt (+1/-1)
t/pt-query-digest/samples/slow006-first2.txt (+8/-8)
t/pt-query-digest/samples/slow006-order-by-re.txt (+2/-2)
t/pt-query-digest/samples/slow006_AR_1.txt (+2/-2)
t/pt-query-digest/samples/slow006_AR_2.txt (+1/-1)
t/pt-query-digest/samples/slow006_AR_4.txt (+2/-2)
t/pt-query-digest/samples/slow006_AR_5.txt (+1/-1)
t/pt-query-digest/samples/slow006_report.txt (+2/-2)
t/pt-query-digest/samples/slow034-inheritance.txt (+18/-18)
t/pt-query-digest/samples/slow034-no-ts-inheritance.txt (+18/-18)
t/pt-query-digest/samples/slow034-order-by-Locktime-sum-with-Locktime-distro.txt (+8/-8)
t/pt-query-digest/samples/slow034-order-by-Locktime-sum.txt (+8/-8)
t/pt-query-digest/samples/slow035.txt (+1/-1)
t/pt-stalk/pt-stalk.t (+1/-1)
t/pt-summary/format_vmstat.sh (+0/-37)
t/pt-summary/parse_arcconf.sh (+0/-176)
t/pt-summary/parse_dmidecode_mem_devices.sh (+0/-104)
t/pt-summary/parse_ethernet_controller_lspci.sh (+0/-11)
t/pt-summary/parse_fdisk.sh (+0/-16)
t/pt-summary/parse_filesystems.sh (+0/-52)
t/pt-summary/parse_free_minus_b.sh (+0/-67)
t/pt-summary/parse_fusionmpt_lsiutil.sh (+0/-50)
t/pt-summary/parse_hpacucli.sh (+0/-26)
t/pt-summary/parse_ip_s_link.sh (+0/-28)
t/pt-summary/parse_lsi_megaraid.sh (+0/-696)
t/pt-summary/parse_netstat.sh (+0/-49)
t/pt-summary/parse_proc_cpuinfo.sh (+0/-74)
t/pt-summary/parse_raid_controller_dmesg.sh (+0/-32)
t/pt-summary/parse_raid_controller_lspci.sh (+0/-39)
t/pt-summary/parse_virtualization_dmesg.sh (+0/-10)
t/pt-summary/pt-summary.t (+12/-2)
t/pt-summary/samples/BSD/freebsd_001/mounted_fs (+7/-0)
t/pt-summary/samples/BSD/freebsd_001/notable_procs (+2/-0)
t/pt-summary/samples/BSD/freebsd_001/processes (+10/-0)
t/pt-summary/samples/BSD/freebsd_001/summary (+10/-0)
t/pt-summary/samples/BSD/freebsd_001/sysctl (+1481/-0)
t/pt-summary/samples/BSD/freebsd_001/uptime (+1/-0)
t/pt-summary/samples/BSD/freebsd_001/vmstat (+7/-0)
t/pt-summary/samples/BSD/netbsd_001/mounted_fs (+5/-0)
t/pt-summary/samples/BSD/netbsd_001/notable_procs (+2/-0)
t/pt-summary/samples/BSD/netbsd_001/proc_cpuinfo_copy (+14/-0)
t/pt-summary/samples/BSD/netbsd_001/processes (+10/-0)
t/pt-summary/samples/BSD/netbsd_001/summary (+10/-0)
t/pt-summary/samples/BSD/netbsd_001/swapctl (+1/-0)
t/pt-summary/samples/BSD/netbsd_001/sysctl (+511/-0)
t/pt-summary/samples/BSD/netbsd_001/uptime (+1/-0)
t/pt-summary/samples/BSD/netbsd_001/vmstat (+7/-0)
t/pt-summary/samples/BSD/openbsd_001/mounted_fs (+4/-0)
t/pt-summary/samples/BSD/openbsd_001/notable_procs (+2/-0)
t/pt-summary/samples/BSD/openbsd_001/processes (+10/-0)
t/pt-summary/samples/BSD/openbsd_001/summary (+10/-0)
t/pt-summary/samples/BSD/openbsd_001/swapctl (+1/-0)
t/pt-summary/samples/BSD/openbsd_001/sysctl (+423/-0)
t/pt-summary/samples/BSD/openbsd_001/uptime (+1/-0)
t/pt-summary/samples/BSD/openbsd_001/vmstat (+7/-0)
t/pt-summary/samples/Linux/001/dmesg_file (+786/-0)
t/pt-summary/samples/Linux/001/dmidecode (+412/-0)
t/pt-summary/samples/Linux/001/ip (+24/-0)
t/pt-summary/samples/Linux/001/lspci_file (+17/-0)
t/pt-summary/samples/Linux/001/lvs (+1/-0)
t/pt-summary/samples/Linux/001/memory (+50/-0)
t/pt-summary/samples/Linux/001/mounted_fs (+12/-0)
t/pt-summary/samples/Linux/001/netstat (+6/-0)
t/pt-summary/samples/Linux/001/notable_procs (+5/-0)
t/pt-summary/samples/Linux/001/partitioning (+30/-0)
t/pt-summary/samples/Linux/001/proc_cpuinfo_copy (+58/-0)
t/pt-summary/samples/Linux/001/proc_cpuinfo_copy.unq (+1/-0)
t/pt-summary/samples/Linux/001/processes (+10/-0)
t/pt-summary/samples/Linux/001/summary (+23/-0)
t/pt-summary/samples/Linux/001/sysctl (+905/-0)
t/pt-summary/samples/Linux/001/uptime (+1/-0)
t/pt-summary/samples/Linux/001/vmstat (+7/-0)
t/pt-summary/samples/Linux/002/dmesg_file (+283/-0)
t/pt-summary/samples/Linux/002/memory (+34/-0)
t/pt-summary/samples/Linux/002/mounted_fs (+3/-0)
t/pt-summary/samples/Linux/002/netstat (+6/-0)
t/pt-summary/samples/Linux/002/notable_procs (+2/-0)
t/pt-summary/samples/Linux/002/partitioning (+9/-0)
t/pt-summary/samples/Linux/002/proc_cpuinfo_copy (+19/-0)
t/pt-summary/samples/Linux/002/processes (+10/-0)
t/pt-summary/samples/Linux/002/summary (+19/-0)
t/pt-summary/samples/Linux/002/uptime (+1/-0)
t/pt-summary/samples/Linux/002/vmstat (+7/-0)
t/pt-summary/samples/Linux/003/dmesg_file (+283/-0)
t/pt-summary/samples/Linux/003/memory (+34/-0)
t/pt-summary/samples/Linux/003/mounted_fs (+3/-0)
t/pt-summary/samples/Linux/003/netstat (+6/-0)
t/pt-summary/samples/Linux/003/notable_procs (+2/-0)
t/pt-summary/samples/Linux/003/partitioning (+1/-0)
t/pt-summary/samples/Linux/003/proc_cpuinfo_copy (+19/-0)
t/pt-summary/samples/Linux/003/processes (+10/-0)
t/pt-summary/samples/Linux/003/summary (+19/-0)
t/pt-summary/samples/Linux/003/uptime (+1/-0)
t/pt-summary/samples/Linux/003/vmstat (+7/-0)
t/pt-summary/samples/Linux/output_002.txt (+82/-0)
t/pt-summary/samples/Linux/output_003.txt (+79/-0)
t/pt-summary/samples/MegaCli64_AdpAllInfo_aALL001.txt (+227/-0)
t/pt-summary/samples/MegaCli64_LdPdInfo_aALL_886223 (+214/-0)
t/pt-summary/samples/arcconf-001.txt (+133/-0)
t/pt-summary/samples/arcconf-003_900285.txt (+228/-0)
t/pt-summary/samples/arcconf-004_917781.txt (+162/-0)
t/pt-summary/samples/dmesg-005.txt (+787/-0)
t/pt-summary/samples/dmesg-007.txt (+136/-0)
t/pt-summary/samples/hpaculi-001.txt (+11/-0)
t/pt-summary/samples/hpaculi-002.txt (+354/-0)
t/pt-summary/samples/hpaculi-003.txt (+11/-0)
t/pt-summary/samples/ip-s-link-003.txt (+24/-0)
t/pt-summary/samples/lspci-005.txt (+38/-0)
t/pt-summary/samples/netstat-002.txt (+1328/-0)
t/pt-summary/samples/proc_cpuinfo001.txt (+57/-0)
t/pt-summary/samples/proc_cpuinfo001.txt.unq (+1/-0)
t/pt-summary/samples/proc_cpuinfo002.txt (+57/-0)
t/pt-summary/samples/proc_cpuinfo002.txt.unq (+1/-0)
t/pt-table-checksum/bugs.t (+121/-0)
t/pt-table-checksum/samples/empty-table-bug-987393.sql (+18/-0)
t/pt-table-checksum/samples/not-using-pk-bug.out (+20/-0)
t/pt-table-checksum/samples/not-using-pk-bug.sql (+20/-0)
t/pt-table-checksum/samples/undef-arrayref-bug-995274.sql (+18/-0)
t/pt-table-sync/issue_408.t (+1/-1)
t/pt-table-usage/basics.t (+138/-0)
t/pt-table-usage/create_table_definitions.t (+41/-0)
t/pt-table-usage/explain_extended.t (+79/-0)
t/pt-table-usage/samples/ee.out (+6/-0)
t/pt-table-usage/samples/ee.sql (+26/-0)
t/pt-table-usage/samples/in/slow001.txt (+24/-0)
t/pt-table-usage/samples/in/slow002.txt (+20/-0)
t/pt-table-usage/samples/in/slow003.txt (+3/-0)
t/pt-table-usage/samples/out/create-table-defs-001.txt (+4/-0)
t/pt-table-usage/samples/out/create001.txt (+5/-0)
t/pt-table-usage/samples/out/drop-table-if-exists.txt (+3/-0)
t/pt-table-usage/samples/out/query001.txt (+6/-0)
t/pt-table-usage/samples/out/query002.txt (+5/-0)
t/pt-table-usage/samples/out/slow001.txt (+31/-0)
t/pt-table-usage/samples/out/slow002.txt (+40/-0)
t/pt-table-usage/samples/out/slow003-001.txt (+6/-0)
t/pt-table-usage/samples/out/slow003-002.txt (+8/-0)
t/pt-table-usage/samples/out/slow003-003.txt (+6/-0)
util/test-bash-functions (+49/-0)