Inconsistent data store

tomswinkels · August 28, 2018, 8:03am

Hi,

Us data of Neo4j is inconsistent, we have run neo4j-admin check-consistency.

We can fix the data with GitHub - jexp/store-utils: Utilities to compact, copy, fix, analyse Neo4j stores then there are 6 records removed copying of 80610658 relationship records took 2418 seconds (33337 rec/s). Unused Records 11433462 (14%) Removed Records 6 (0%).

But we want to see what the problems are, in de readme of store-utils we find a config for store_copy_log_dir and bad_entries_log_dir, but they folders are everytime empty.

Is there some option to see what the inconsistent problems are?

michael.hunger · August 28, 2018, 9:03am

Did you run a consistency check before? That should show you the inconsistencies.

See: Consistency checker - Operations Manual

Sorry, it seems that I meant to use those two settings but they are currently ignored.

Did you check: target-db/store-copy.log ?

tomswinkels · August 28, 2018, 10:00am

Yes, see here the results;

consistency check

ERROR: The string block is not in use.
	Property[24853620,used=true,prev=-1,next=24853619,PropertyBlock[blocks=1,SHORT_STRING,key=87,value=hausa],PropertyBlock[blocks=1,LONG,key=18,value=1511211638],PropertyBlock[blocks=1,LONG,key=19,value=1528306804],PropertyBlock[blocks=1,STRING,key=198,firstDynamic=74917274]]
	Inconsistent with: PropertyBlock[blocks=1,STRING,key=198,firstDynamic=74917274] DynamicRecord[74917274,used=false,(120),type=-1,data=byte[size=120],start=true,next=74917275]
ERROR: The string block is not in use.
	Property[20252482,used=true,prev=20253629,next=-1,PropertyBlock[blocks=2,SHORT_STRING,key=205,value=added_video],PropertyBlock[blocks=1,SHORT_STRING,key=117,value=video],PropertyBlock[blocks=1,STRING,key=87,firstDynamic=70320644]]
	Inconsistent with: PropertyBlock[blocks=1,STRING,key=87,firstDynamic=70320644] DynamicRecord[70320644,used=false,(11),type=-1,data=byte[size=11],start=true,next=-1]
ERROR: The string block is not in use.
	Property[37120413,used=true,prev=37120541,next=37120308,PropertyBlock[blocks=1,STRING,key=87,firstDynamic=78115552],PropertyBlock[blocks=1,LONG,key=18,value=1528289905],PropertyBlock[blocks=1,STRING,key=36,firstDynamic=75655778],PropertyBlock[blocks=1,STRING,key=23,firstDynamic=74917275]]
	Inconsistent with: PropertyBlock[blocks=1,STRING,key=23,firstDynamic=74917275] DynamicRecord[74917275,used=false,(11),type=-1,data=byte[size=11],start=true,next=-1]
ERROR: The next block is not in use.
	DynamicRecord[70957033,used=true,(120),type=-1,data=byte[size=120],start=false,next=73256095]
	Inconsistent with: DynamicRecord[73256095,used=false,(120),type=-1,data=byte[size=120],start=true,next=92974166]
ERROR: The next block is not in use.
	DynamicRecord[76735940,used=true,(120),type=-1,data=byte[size=120],start=true,next=70320644]
	Inconsistent with: DynamicRecord[70320644,used=false,(11),type=-1,data=byte[size=11],start=true,next=-1]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=739, descriptor=Index( GENERAL, :label[159](property[24]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=743, descriptor=Index( GENERAL, :label[98](property[87]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=745, descriptor=Index( GENERAL, :label[130](property[87]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=747, descriptor=Index( UNIQUE, :label[216](property[16]) ), provider={key=lucene+native, version=2.0}, owner=750] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=754, descriptor=Index( UNIQUE, :label[206](property[16]) ), provider={key=lucene+native, version=2.0}, owner=757] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=761, descriptor=Index( UNIQUE, :label[206](property[87]) ), provider={key=lucene+native, version=2.0}, owner=764] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=775, descriptor=Index( UNIQUE, :label[132](property[16]) ), provider={key=lucene+native, version=2.0}, owner=778] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=782, descriptor=Index( UNIQUE, :label[165](property[16]) ), provider={key=lucene+native, version=2.0}, owner=785] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=789, descriptor=Index( UNIQUE, :label[246](property[16]) ), provider={key=lucene+native, version=2.0}, owner=792] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=796, descriptor=Index( UNIQUE, :label[108](property[16]) ), provider={key=lucene+native, version=2.0}, owner=799] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=803, descriptor=Index( UNIQUE, :label[106](property[16]) ), provider={key=lucene+native, version=2.0}, owner=806] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=810, descriptor=Index( UNIQUE, :label[96](property[16]) ), provider={key=lucene+native, version=2.0}, owner=813] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=817, descriptor=Index( UNIQUE, :label[10](property[16]) ), provider={key=lucene+native, version=2.0}, owner=820] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=824, descriptor=Index( UNIQUE, :label[10](property[22]) ), provider={key=lucene+native, version=2.0}, owner=827] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=831, descriptor=Index( UNIQUE, :label[0](property[16]) ), provider={key=lucene+native, version=2.0}, owner=834] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=838, descriptor=Index( UNIQUE, :label[113](property[16]) ), provider={key=lucene+native, version=2.0}, owner=841] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=845, descriptor=Index( UNIQUE, :label[134](property[16]) ), provider={key=lucene+native, version=2.0}, owner=848] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=852, descriptor=Index( UNIQUE, :label[47](property[16]) ), provider={key=lucene+native, version=2.0}, owner=855] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=859, descriptor=Index( UNIQUE, :label[150](property[16]) ), provider={key=lucene+native, version=2.0}, owner=862] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=866, descriptor=Index( UNIQUE, :label[204](property[16]) ), provider={key=lucene+native, version=2.0}, owner=869] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=873, descriptor=Index( UNIQUE, :label[212](property[16]) ), provider={key=lucene+native, version=2.0}, owner=876] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=880, descriptor=Index( UNIQUE, :label[210](property[16]) ), provider={key=lucene+native, version=2.0}, owner=883] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=887, descriptor=Index( UNIQUE, :label[217](property[16]) ), provider={key=lucene+native, version=2.0}, owner=890] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=894, descriptor=Index( UNIQUE, :label[215](property[16]) ), provider={key=lucene+native, version=2.0}, owner=897] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=901, descriptor=Index( UNIQUE, :label[223](property[16]) ), provider={key=lucene+native, version=2.0}, owner=904] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=908, descriptor=Index( UNIQUE, :label[238](property[16]) ), provider={key=lucene+native, version=2.0}, owner=911] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=915, descriptor=Index( UNIQUE, :label[209](property[16]) ), provider={key=lucene+native, version=2.0}, owner=918] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=922, descriptor=Index( UNIQUE, :label[239](property[16]) ), provider={key=lucene+native, version=2.0}, owner=925] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=929, descriptor=Index( UNIQUE, :label[36](property[57]) ), provider={key=lucene+native, version=2.0}, owner=932] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=936, descriptor=Index( UNIQUE, :label[37](property[57]) ), provider={key=lucene+native, version=2.0}, owner=939] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=943, descriptor=Index( UNIQUE, :label[35](property[57]) ), provider={key=lucene+native, version=2.0}, owner=946] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=950, descriptor=Index( UNIQUE, :label[34](property[57]) ), provider={key=lucene+native, version=2.0}, owner=953] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=957, descriptor=Index( UNIQUE, :label[131](property[16]) ), provider={key=lucene+native, version=2.0}, owner=960] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=964, descriptor=Index( UNIQUE, :label[14](property[16]) ), provider={key=lucene+native, version=2.0}, owner=967] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=971, descriptor=Index( UNIQUE, :label[14](property[52]) ), provider={key=lucene+native, version=2.0}, owner=974] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=978, descriptor=Index( UNIQUE, :label[15](property[16]) ), provider={key=lucene+native, version=2.0}, owner=981] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=985, descriptor=Index( UNIQUE, :label[15](property[54]) ), provider={key=lucene+native, version=2.0}, owner=988] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=992, descriptor=Index( UNIQUE, :label[60](property[57]) ), provider={key=lucene+native, version=2.0}, owner=995] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=999, descriptor=Index( UNIQUE, :label[13](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1002] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1006, descriptor=Index( UNIQUE, :label[24](property[57]) ), provider={key=lucene+native, version=2.0}, owner=1009] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1013, descriptor=Index( UNIQUE, :label[24](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1016] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1020, descriptor=Index( UNIQUE, :label[205](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1023] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1027, descriptor=Index( UNIQUE, :label[208](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1030] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1034, descriptor=Index( UNIQUE, :label[128](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1037] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1041, descriptor=Index( UNIQUE, :label[129](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1044] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1048, descriptor=Index( UNIQUE, :label[94](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1051] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1055, descriptor=Index( UNIQUE, :label[247](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1058] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1062, descriptor=Index( UNIQUE, :label[227](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1065] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1069, descriptor=Index( UNIQUE, :label[194](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1072] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1076, descriptor=Index( UNIQUE, :label[76](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1079] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1083, descriptor=Index( UNIQUE, :label[76](property[22]) ), provider={key=lucene+native, version=2.0}, owner=1086] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1090, descriptor=Index( UNIQUE, :label[159](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1093] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1097, descriptor=Index( UNIQUE, :label[211](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1100] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1104, descriptor=Index( UNIQUE, :label[93](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1107] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1111, descriptor=Index( UNIQUE, :label[93](property[162]) ), provider={key=lucene+native, version=2.0}, owner=1114] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1118, descriptor=Index( UNIQUE, :label[125](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1121] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1125, descriptor=Index( UNIQUE, :label[73](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1128] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1132, descriptor=Index( UNIQUE, :label[142](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1135] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1139, descriptor=Index( UNIQUE, :label[38](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1142] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1146, descriptor=Index( UNIQUE, :label[196](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1149] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1153, descriptor=Index( UNIQUE, :label[253](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1156] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1160, descriptor=Index( UNIQUE, :label[103](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1163] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1167, descriptor=Index( UNIQUE, :label[257](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1170] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1174, descriptor=Index( GENERAL, :label[134](property[58]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1176, descriptor=Index( GENERAL, :label[134](property[159]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1178, descriptor=Index( GENERAL, :label[259](property[159]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1180, descriptor=Index( GENERAL, :label[259](property[58]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1182, descriptor=Index( UNIQUE, :label[261](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1185] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1189, descriptor=Index( UNIQUE, :label[261](property[1073]) ), provider={key=lucene+native, version=2.0}, owner=1192] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1196, descriptor=Index( GENERAL, :label[113](property[58]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1198, descriptor=Index( GENERAL, :label[113](property[159]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1200, descriptor=Index( UNIQUE, :label[118](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1203] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1207, descriptor=Index( GENERAL, :label[118](property[243]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1209, descriptor=Index( GENERAL, :label[118](property[241]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1211, descriptor=Index( GENERAL, :label[118](property[364]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1213, descriptor=Index( GENERAL, :label[118](property[242]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1215, descriptor=Index( UNIQUE, :label[69](property[22], property[117]) ), provider={key=lucene+native, version=2.0}, owner=1218] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1222, descriptor=Index( GENERAL, :label[125](property[895]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1224, descriptor=Index( UNIQUE, :label[198](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1227] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1234, descriptor=Index( GENERAL, :label[108](property[18]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1236, descriptor=Index( UNIQUE, :label[71](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1239] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1243, descriptor=Index( UNIQUE, :label[242](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1246] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1250, descriptor=Index( UNIQUE, :label[107](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1253] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1257, descriptor=Index( UNIQUE, :label[124](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1260] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1264, descriptor=Index( UNIQUE, :label[110](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1267] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1271, descriptor=Index( UNIQUE, :label[260](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1274] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1278, descriptor=Index( UNIQUE, :label[225](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1281] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1285, descriptor=Index( UNIQUE, :label[225](property[17]) ), provider={key=lucene+native, version=2.0}, owner=1288] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1292, descriptor=Index( UNIQUE, :label[133](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1295] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1299, descriptor=Index( UNIQUE, :label[148](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1302] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1306, descriptor=Index( UNIQUE, :label[171](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1309] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1313, descriptor=Index( UNIQUE, :label[75](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1316] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1320, descriptor=Index( UNIQUE, :label[153](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1323] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1327, descriptor=Index( UNIQUE, :label[236](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1330] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1341, descriptor=Index( UNIQUE, :label[189](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1344] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1348, descriptor=Index( UNIQUE, :label[189](property[449]) ), provider={key=lucene+native, version=2.0}, owner=1351] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1355, descriptor=Index( UNIQUE, :label[109](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1358] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1362, descriptor=Index( UNIQUE, :label[109](property[17]) ), provider={key=lucene+native, version=2.0}, owner=1365] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1372, descriptor=Index( UNIQUE, :label[121](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1375] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1379, descriptor=Index( GENERAL, :label[121](property[292]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1381, descriptor=Index( UNIQUE, :label[186](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1384] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1388, descriptor=Index( GENERAL, :label[186](property[457]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1390, descriptor=Index( GENERAL, :label[186](property[458]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1392, descriptor=Index( GENERAL, :label[36](property[576]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1394, descriptor=Index( GENERAL, :label[36](property[574]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1396, descriptor=Index( UNIQUE, :label[189](property[66], property[67]) ), provider={key=lucene+native, version=2.0}, owner=1399] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1403, descriptor=Index( UNIQUE, :label[21](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1406] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1410, descriptor=Index( GENERAL, :label[96](property[18]) ), provider={key=lucene+native, version=2.0}] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1412, descriptor=Index( UNIQUE, :label[166](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1415] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1419, descriptor=Index( UNIQUE, :label[61](property[17]) ), provider={key=lucene+native, version=2.0}, owner=1422] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1426, descriptor=Index( UNIQUE, :label[61](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1429] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1433, descriptor=Index( UNIQUE, :label[187](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1436] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1440, descriptor=Index( UNIQUE, :label[70](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1443] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1447, descriptor=Index( UNIQUE, :label[57](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1450] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1454, descriptor=Index( UNIQUE, :label[57](property[73]) ), provider={key=lucene+native, version=2.0}, owner=1457] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1461, descriptor=Index( UNIQUE, :label[162](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1464] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1474, descriptor=Index( UNIQUE, :label[105](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1477] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1481, descriptor=Index( UNIQUE, :label[112](property[16]) ), provider={key=lucene+native, version=2.0}, owner=1484] ]
WARN : Index was not properly shutdown and rebuild is required.
	Index[ IndexRule[id=1488, descriptor=Index( UNIQUE, :label[103](property[204]) ), provider={key=lucene+native, version=2.0}, owner=1491] ]
WARN : Inconsistencies found: ConsistencySummaryStatistics{
	Number of errors: 5
	Number of warnings: 119
	Number of inconsistent PROPERTY records: 3
	Number of inconsistent STRING_PROPERTY records: 2
}

tomswinkels · August 28, 2018, 10:01am

copy-store.log

To use your existing Neo4j 3.3.x installation set NEO4J_HOME to your Neo4j directory. Currently set to: 
Usage: copy-store.sh [community|enterprise] source.db target.db [RELS,TO,SKIP] [props,to,skip] [Labels,To,Skip] [Labels,To,Delete,Nodes]

Using: Heap 4G Pagecache 2G Edition 'enterprise' from '/var/lib/neo4j/data/databases/graph.db' to '/var/lib/neo4j/data/databases/graph.db.fixed' skipping labels: '', removing nodes with labels: '' rels: '' props '' Keeping Node Ids: 

Please note that you will need this memory (2G + 1G + 4G) as it opens 2 databases one for reading and one for writing.

[INFO] Error stacktraces are turned on.
[INFO] Scanning for projects...
[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building store-util 3.4.5
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ store-util ---
[INFO] Deleting /usr/src/store-utils/target
[INFO] 
[INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ store-util ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /usr/src/store-utils/src/main/resources
[INFO] 
[INFO] --- maven-compiler-plugin:2.3.2:compile (default-compile) @ store-util ---
[INFO] Compiling 7 source files to /usr/src/store-utils/target/classes
[WARNING] /usr/src/store-utils/src/main/java/org/neo4j/tool/StoreComparer.java:[56,101] [deprecation] setConfig(Map<String,String>) in GraphDatabaseBuilder has been deprecated
[WARNING] /usr/src/store-utils/src/main/java/org/neo4j/tool/StoreComparer.java:[57,101] [deprecation] setConfig(Map<String,String>) in GraphDatabaseBuilder has been deprecated
[WARNING] /usr/src/store-utils/src/main/java/org/neo4j/tool/StoreComparer.java:[59,25] [try] auto-closeable resource srcDbTx is never referenced in body of corresponding try statement
[WARNING] /usr/src/store-utils/src/main/java/org/neo4j/tool/StoreComparer.java:[60,25] [try] auto-closeable resource targetDbTx is never referenced in body of corresponding try statement
[WARNING] /usr/src/store-utils/src/main/java/org/neo4j/tool/StoreUpdate.java:[17,15] [unchecked] unchecked conversion
[WARNING]     Map
/usr/src/store-utils/src/main/java/org/neo4j/tool/StoreUpdate.java:[33,95] [deprecation] setConfig(Map<String,String>) in GraphDatabaseBuilder has been deprecated
[WARNING] /usr/src/store-utils/src/main/java/org/neo4j/tool/PropertyAnalyzer.java:[85,15] [unchecked] unchecked conversion
[WARNING]     Map
/usr/src/store-utils/src/main/java/org/neo4j/tool/PropertyAnalyzer.java:[99,112] [deprecation] setConfig(Map<String,String>) in GraphDatabaseBuilder has been deprecated
[INFO] 
[INFO] >>> exec-maven-plugin:1.1:java (default-cli) > validate @ store-util >>>
[INFO] 
[INFO] <<< exec-maven-plugin:1.1:java (default-cli) < validate @ store-util <<<
[INFO] 
[INFO] --- exec-maven-plugin:1.1:java (default-cli) @ store-util ---
Copying from /var/lib/neo4j/data/databases/graph.db to /var/lib/neo4j/data/databases/graph.db.fixed ingoring rel-types [] ignoring properties [] ignoring labels [] removing nodes with labels [] keep node ids true 
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............
 copying of 39629360 node records took 6419 seconds (6173 rec/s). Unused Records 10355765 (26%). Removed Records 0 (0%).
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...........
 copying of 80610658 relationship records took 2418 seconds (33337 rec/s). Unused Records 11433462 (14%) Removed Records 6 (0%)
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 02:29 h
[INFO] Finished at: 2018-08-23T12:44:04+02:00
[INFO] Final Memory: 39M/4096M
[INFO] ------------------------------------------------------------------------

Where can i find the problems, and can we fix that manually?

michael.hunger · August 28, 2018, 11:12am

You cannot fix them manually, you'd have to binary-edit the store.
Bascially there are 5 properties that are broken. So if you can you can after running store-utils find the nodes with those properties and re-set them.

tomswinkels · August 28, 2018, 11:44am

We don't know witch nodes are have problems. Store-utils don't tell us witch nodes are deleted or broken. How can we find the nodes?

michael.hunger · August 28, 2018, 12:50pm

Are you 100% sure there is no store-copy.log in your target database directory?

tomswinkels · August 29, 2018, 7:54am

In the target database directory (/var/lib/neo4j/data/databases/graph.db/store-copy.log) there is a store-copy.log but the file is empty.

tomswinkels · August 29, 2018, 9:09am

We found some corrupt records with the Neo4j browser. When we delete that record we get some error.

MATCH (n:RssItem) WHERE ID(n) = 19926597 DETACH DELETE n

Neo.DatabaseError.General.UnknownError: DynamicRecord[74917275,used=false,(0),type=-1,data=byte[],start=true,next=-1] not in use

Is there some option for delete that records?

michael.hunger · August 29, 2018, 3:11pm

You can just use the store that store-utils generated.

Really weird though that store-copy.log is empty, it should contain info about the skipped relationships.

tomswinkels · August 30, 2018, 6:32am

But we can not use store-utils on a running database.

So we need to tell us customers that we have downtime for +/- 5 hours.

I think when we fix the data with store-utils this are the steps;

Backup last data of Neo4j
Remove all indexes
Stop Neo4j service
Run store-utils (2.5 hours)
Start Neo4j
Create all indexes (alot of indexes)

In the best case we don't want have a downtime of +/- 5 hours, is there some other way to fix the problem?

michael.hunger · August 30, 2018, 12:33pm

Unfortunately fixing store errors is not something you can do online.

You only need the enterprise indexes, but you need to recreate them all.

If you have more time, I can see if I find time in the next weeks to finish the work on the faster version of store-utils. That faster version will also use more CPUs and I/O so it would benefit from a larger machine to run on.

Alternatively you can try to go via support.

tomswinkels · September 7, 2018, 5:23am

Today we wanted run the store-utils on us production server but we get this error;

root@neo01:~/store-util-3.4.5# export NEO4J_HOME=/usr/bin/neo4j
root@neo01:~/store-util-3.4.5# ./copy-store.sh enterprise /root/corrupt.db /root/test.db
To use your existing Neo4j 3.3.x installation set NEO4J_HOME to your Neo4j directory. Currently set to: /usr/bin/neo4j
Usage: copy-store.sh [community|enterprise] source.db target.db [RELS,TO,SKIP] [props,to,skip] [Labels,To,Skip] [Labels,To,Delete,Nodes]

Using: Heap 4G Pagecache 2G Edition ‘enterprise’ from ‘/root/corrupt.db’ to ‘/root/test.db’ skipping labels: ‘’, removing nodes with labels: ‘’ rels: ‘’ props ‘’ Keeping Node Ids: 

Please note that you will need this memory (2G + 1G + 4G) as it opens 2 databases one for reading and one for writing.

[INFO] Error stacktraces are turned on.
[INFO] Scanning for projects...
[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building store-util 3.4.5
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ store-util ---
[INFO] 
[INFO] --- maven-resources-plugin:2.3:resources (default-resources) @ store-util ---
[INFO] Using ‘UTF-8’ encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /root/store-util-3.4.5/src/main/resources
[INFO] 
[INFO] --- maven-compiler-plugin:2.3.2:compile (default-compile) @ store-util ---
[INFO] No sources to compile
[INFO] 
[INFO] >>> exec-maven-plugin:1.1:java (default-cli) @ store-util >>>
[INFO] 
[INFO] <<< exec-maven-plugin:1.1:java (default-cli) @ store-util <<<
[INFO] 
[INFO] --- exec-maven-plugin:1.1:java (default-cli) @ store-util ---
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 2:54.337s
[INFO] Finished at: Fri Sep 07 07:13:04 CEST 2018
[INFO] Final Memory: 14M/4096M
[INFO] ------------------------------------------------------------------------
[ERROR] Failed to execute goal org.codehaus.mojo:exec-maven-plugin:1.1:java (default-cli) on project store-util: An exception occured while executing the Java class. org.neo4j.tool.StoreCopy -> [Help 1]
org.apache.maven.lifecycle.LifecycleExecutionException: Failed to execute goal org.codehaus.mojo:exec-maven-plugin:1.1:java (default-cli) on project store-util: An exception occured while executing the Java class. org.neo4j.tool.StoreCopy
	at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:217)
	at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:153)
	at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:145)
	at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:84)
	at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:59)
	at org.apache.maven.lifecycle.internal.LifecycleStarter.singleThreadedBuild(LifecycleStarter.java:183)
	at org.apache.maven.lifecycle.internal.LifecycleStarter.execute(LifecycleStarter.java:161)
	at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:320)
	at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:156)
	at org.apache.maven.cli.MavenCli.execute(MavenCli.java:537)
	at org.apache.maven.cli.MavenCli.doMain(MavenCli.java:196)
	at org.apache.maven.cli.MavenCli.main(MavenCli.java:141)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced(Launcher.java:289)
	at org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:229)
	at org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode(Launcher.java:415)
	at org.codehaus.plexus.classworlds.launcher.Launcher.main(Launcher.java:356)
Caused by: org.apache.maven.plugin.MojoExecutionException: An exception occured while executing the Java class. org.neo4j.tool.StoreCopy
	at org.codehaus.mojo.exec.ExecJavaMojo.execute(ExecJavaMojo.java:345)
	at org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo(DefaultBuildPluginManager.java:101)
	at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:209)
	... 19 more
Caused by: java.lang.ClassNotFoundException: org.neo4j.tool.StoreCopy
	at java.net.URLClassLoader.findClass(URLClassLoader.java:381)
	at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
	at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
	at org.codehaus.mojo.exec.ExecJavaMojo$1.run(ExecJavaMojo.java:283)
	at java.lang.Thread.run(Thread.java:748)
[ERROR] 
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR] 
[ERROR] For more information about the errors and possible solutions, please read the following articles:

We running it on Ubuntu 14.04.

Do you now what the error is?

michael.hunger · September 7, 2018, 1:37pm

Did you just clone the repo? Or download the release?

tomswinkels · September 9, 2018, 12:16pm

We have fix it to delete Java 7, and use Java 8.

michael.hunger · September 9, 2018, 3:26pm

Oh sorry, I was not aware that there is an issue with Java7 thanks for finding it out.

I make a note in the readme, and probably add a check in the script.

tim.hanssen · September 29, 2018, 6:40pm

Solution; We fixed the issue by running GitHub - jexp/store-utils: Utilities to compact, copy, fix, analyse Neo4j stores with Java 8 on our data store.

michael.hunger · October 9, 2018, 10:17pm

Glad it worked out in the end.

rvenkat6 · July 30, 2019, 3:17pm

Hi,

Am facing the below error on store-utils-3.5.1. Any help will be highly appreciated.

[ERROR] Failed to execute goal org.codehaus.mojo:exec-maven-plugin:1.1:java (default-cli) on project store-util: An exception occured while executing the Java class. null: InvocationTargetException: Error starting org.neo4j.kernel.impl.factory.GraphDatabaseFacadeFactory, /xtra200/neo4j/databases/graph.db: Component 'org.neo4j.kernel.NeoStoreDataSource@6ebf13f2' was successfully initialized, but failed to start. Please see the attached cause exception "Tried to get index provider with name {key=native-btree, version=1.0} whereas available providers in this session being [lucene-1.0, lucene+native-1.0, lucene+native-2.0], and default being lucene+native-2.0". org.neo4j.kernel.lifecycle.LifecycleException: Component 'org.neo4j.kernel.impl.storageengine.impl.recordstorage.RecordStorageEngine@6e5c49fb' failed to initialize. Please see the attached cause exception "Tried to get index provider with name {key=native-btree, version=1.0} whereas available providers in this session being [lucene-1.0, lucene+native-1.0, lucene+native-2.0], and default being lucene+native-2.0". -> [Help 1]
org.apache.maven.lifecycle.LifecycleExecutionException: Failed to execute goal org.codehaus.mojo:exec-maven-plugin:1.1:java (default-cli) on project store-util: An exception occured while executing the Java class. null

rvenkat6 · July 30, 2019, 8:22pm

The issue has been resolved after adding setting.xml file in the .m2 dir.

Regards
Krishnan

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