* 4store　配置

* Load performance

• Allie upload
• PDBJ upload
• Uniprot upload
• DDBJ upload

* Sparql query performance

• Allie query
• PDBJ query
• Uniprot query
• DDBJ query

4store 配置

$ cd $4STORE_HOME/bin
$ ./4s-backend-setup allie
$ ./4s-backend allie
./4s-import -v allie --format ntriples datapath --model http://myURI.com

Configuration consideration (refer to  http://4store.org/):

Here specify the cluster and segmentation values:

4s-backend-setup --node 0 --cluster 1 --segments 4 demo

The number of segments should be a power of 2, parallelisation depends on segmentation. As a rule of thumb try a power of 2 close to twice as many segments as there are physical CPUs or CPU cores on the system, but depending on the workload you may find less or more work better.

Load Performance

Allie upload

Approach 1: Default setting (2 segments)

About 12 minutes

Approach 2: 8 segments

About 13 minutes

Segment setting makes no too much difference.

PDBJ upload

Over 4 days(4.45 days)

Uniprot upload

DDBJ upload

Sparql query performance

Cell cycle query

Query\time(ms)	time 1	time 2	time 3	time 4	time 5
case1	54	53	55	65	62
case2	16	17	17	22	23
case3	2244	1229	1246	1224	1243
case4	13	13	12	14	15
case5	34	34	34	33	31
case6	68	67	69	65	55
case7	22	21	21	22	25
case8	67	67	67	66	68
case9	2035	2035	2033	2036	2036
case10	7	8	8	8	6
case11	6	6	6	6	6
case12	1064	1063	2063	2063	2062
case13	9	8	9	8	8
case14	8	8	8	7	6
case15
case16	X	X	X	X	X
case17	X	X	X	X	X
case18	X	X	X	X	X
case19	15	16	15	16	15

X: parser error: syntax error, unexpected COUNT, expecting '(' or '?' or '$' or '*' on line 4.

Allie query

Query\time(ms)	time 1	time 2	time 3	time 4	time 5
case1	X	X	X	X	X
case2	220	225	212	222	215
case3	X	X	X	X	X
case4	X	X	X	X	X
case5	68245	64945	67070	67703	60794

PDBJ query

Query\time(ms)	time 1	time 2	time 3	time 4	time 5
case1	3639	1024	1026	1024	1026
case2	1024	2027	2024	1027	1024
case3	97728	131	134	128	134
case4	2027	1023	2027	2024	1023

Uniprot query

DDBJ query