Note: The db usage in my case may not be typical.
did not work well for me:
administration tools are not user friendly
could not quite figure out how to load data from a file
Nice adminstration tools
Deployment is very simple and well explained in documentation
Speed: in my case slower than MySQL
* Preferered choice in my case
Very nice db, but deployment is rather heavy
I was considering HSQLDB as my primary choice of in memory database. After reading its history on http://en.wikipedia.org/wiki/HSQLDB :
HSQLDB is a relational database management system written in Java. It is based on Thomas Mueller's discontinued Hypersonic SQL Project.[1] He later developed H2 as a complete rewrite.
I decided to give H2 a try. Bellow is the benchmark from the H2's website, which looks quite nice. Hopefully my application will achieve similar results.
My application. I am currently running my algorithm on the top of Taste recommender engine using MySQL. A complete set of experiments for my algorithm and existing to produce results takes 3 days on a Core2 Duo machine. I need to try more than 20 different settings = 60 days. So I decided to try to speed it up. In addition I don't have permission to install db on the supercomputing cluster at my university so in memory db hopefully will solve both of my problems.
Since memory's I/O is much faster than disk I/O this should translate into significant speed up (assuming your db can fit in memory)
Could be run in embeded mode -- all you need is java and you can run it locally inside of your application (no additional sotware needs to be installed on the server etc.).
Note: I am using this setup for explorative learning algorithm; it is not a typical usage of the recommender system.
Single pass: 138 - 3,819 ms (depending on configuration)
# Create Table
CREATE TABLE taste_preferences (
user_id VARCHAR(10) NOT NULL,
item_id VARCHAR(10) NOT NULL,
preference FLOAT NOT NULL,
time_stamp VARCHAR(10),
PRIMARY KEY (user_id, item_id)
)
# Create Indexes
CREATE INDEX IDX_USER_ID ON TASTE_PREFERENCES ( USER_ID )
CREATE INDEX IDX_ITEM_ID ON TASTE_PREFERENCES ( ITEM_ID )
CREATE INDEX IDX_PREFERENCE ON TASTE_PREFERENCES ( PREFERENCE )
# Load data from file
INSERT INTO TASTE_PREFERENCES SELECT * FROM CSVREAD('/home/neil/tmp/u.txt');
see AL_CF.java for more details
Some parts of code are not well documented; the javadoc seems to be out of sync. Had to browse for this one for a while, untill found it.
// Create DB Connection
// H2
String driverName = "org.h2.Driver";
String url = "jdbc:h2:~/test";
String user = "sa";
String pwd = "";
org.h2.jdbcx.JdbcDataSource db = new org.h2.jdbcx.JdbcDataSource();
db.setUser(user);
db.setPassword(pwd);
db.setURL(url);
java.util.NoSuchElementException: Can't retrieve more due to exception: org.h2.jdbc.JdbcSQLException: The result set is not scrollable and can not be reset. You may need to use conn.createStatement(ResultSet.TYPE_SCROLL_INSENSITIVE, ResultSet.CONCUR_READ_ONLY). [90128-66]
Changed com.planetj.taste.impl.model.jdbc.AbstractJDBCDataModel
* NEIL -- Modified ResultSetUserIterator to fix the following Exception:
* TODO: Do it in a better way
org.h2.jdbc.JdbcSQLException: Syntax error in SQL statement INSERT INTO TASTE_PREFERENCES SET[*] USER_ID=?, ITEM_ID=?, PREFERENCE=? ON DUPLICATE KEY UPDATE PREFERENCE=? ; expected ., (, DEFAULT, VALUES, (, SELECT, FROM; SQL statement:
INSERT INTO taste_preferences SET user_id=?, item_id=?, preference=? ON DUPLICATE KEY UPDATE preference=? [42001-66]
at org.h2.message.Message.getSQLException(Message.java:89)
at org.h2.message.Message.getSQLException(Message.java:93)
at org.h2.message.Message.getSyntaxError(Message.java:103)
at org.h2.command.Parser.getSyntaxError(Parser.java:454)
at org.h2.command.Parser.parseSelectSimple(Parser.java:1445)
at org.h2.command.Parser.parseSelectSub(Parser.java:1366)
at org.h2.command.Parser.parseSelectUnion(Parser.java:1249)
at org.h2.command.Parser.parseSelect(Parser.java:1237)
at org.h2.command.Parser.parseInsert(Parser.java:826)
at org.h2.command.Parser.parsePrepared(Parser.java:343)
at org.h2.command.Parser.parse(Parser.java:265)
at org.h2.command.Parser.parse(Parser.java:241)
at org.h2.command.Parser.prepareCommand(Parser.java:209)
at org.h2.engine.Session.prepareLocal(Session.java:213)
at org.h2.engine.Session.prepareCommand(Session.java:195)
at org.h2.jdbc.JdbcConnection.prepareCommand(JdbcConnection.java:970)
at org.h2.jdbc.JdbcPreparedStatement.<init>(JdbcPreparedStatement.java:1206)
at org.h2.jdbc.JdbcConnection.prepareStatement(JdbcConnection.java:161)
at org.apache.commons.dbcp.PoolingDataSource$PoolGuardConnectionWrapper.prepareStatement(PoolingDataSource.java:302)
at com.planetj.taste.impl.model.jdbc.AbstractJDBCDataModel.setPreference(AbstractJDBCDataModel.java:420)
at com.planetj.taste.impl.recommender.AbstractRecommender.setPreference(AbstractRecommender.java:81)
at org.hrstc.taste.al.AL_CF.evaluate(AL_CF.java:243)
at org.hrstc.taste.al.AL_CF.main(AL_CF.java:80)
Solution:
INSERT INTO TASTE_PREFERENCES SET USER_ID='22', ITEM_ID='378', PREFERENCE='5.0' ON DUPLICATE KEY UPDATE PREFERENCE='5.0'
Was giving the above exception. Replaced it with:
INSERT INTO TASTE_PREFERENCES (user_id, item_id, preference) VALUES ('22', '378', '5.0') ON DUPLICATE KEY UPDATE PREFERENCE='4.0'
Then ... ON DUPLICATE KEY UPDATE PREFERENCE='4.0' part was not a standard SQL syntax (perhaps specific to MySQL).
A better way would be to use an ANSI/ISO standard command MERGE ( instead of other db specific variants ) e.g.:
MERGE INTO TASTE_PREFERENCES(user_id, item_id, preference) key(user_id,item_id) VALUES ('22', '378', '4.0')
wrote H2JDBCDataModel.java
I finaly got H2 to run (most of the changes where migrating incompatible SQL from MySQL to standard SQL)
The performance of it was rather slow:
INFO: It took ms: 2,119,766
Used memory-only mode http://www.h2database.com/html/features.html#memory_only_databases
INFO: It took ms: 140,568
Thats a 10 fold improvement
Let JVM use more memory; let db use more memory
Did not help
Installed TPTP for eclipse but does not work; could not figure out why
Using NetBeans to do profiling; is throwing some of the old error for some reason.
Fix: The problem with error was that class in jar was not correctly overwritten by NetBeans
For some reason when running from NetBeans userNeighbourhood.size = 0; but when running from command line the same files it is not
Fix: The problem with error was that class in jar was not correctly overwritten by NetBeans
Surprisingly the peformance of MySQL MyISAM and MEMORY engine are almost identical.
Performance of H2 is 10x slower than MySQL. The difference of code between two implementations is that for
H2: MERGE INTO
MySQL: INSERT ... ON DUPLICATE KEY UPDATE
INFO: It took ms: 20,574
Mar 24, 2008 11:05:09 AM org.hrstc.taste.al.AL_CF <init>
INFO: log running..
943
Mar 24, 2008 11:05:11 AM org.hrstc.taste.al.AL_CF getTestUsers
INFO: Selected userID: 421
Mar 24, 2008 11:05:11 AM org.hrstc.taste.al.AL_CF evaluate
INFO: AL Type: random
Mar 24, 2008 11:05:13 AM org.hrstc.taste.al.AL_CF evaluate
INFO: User's Stats:
[{MAE=5.0}]
Mar 24, 2008 11:05:13 AM org.hrstc.taste.al.AL_CF evaluate
INFO: It took ms: 1577
Mar 24, 2008 11:05:34 AM org.hrstc.taste.al.AL_CF evaluate
INFO: User's Stats:
[{MAE=5.0}, {MAE=0.8614681}]
Mar 24, 2008 11:05:34 AM org.hrstc.taste.al.AL_CF evaluate
INFO: It took ms: 20574
CREATE TABLE `taste`.`taste_preferences` (
`user_id` varchar(10) NOT NULL,
`item_id` varchar(10) NOT NULL,
`preference` float NOT NULL,
PRIMARY KEY (`user_id`,`item_id`),
KEY `user_id` (`user_id`),
KEY `item_id` (`item_id`)
) ENGINE=MyISAM DEFAULT CHARSET=latin1
INFO: It took ms: 19,781
Mar 24, 2008 2:55:58 PM org.hrstc.taste.al.AL_CF <init>
INFO: log running..
943
Mar 24, 2008 2:56:00 PM org.hrstc.taste.al.AL_CF getTestUsers
INFO: Selected userID: 421
Mar 24, 2008 2:56:00 PM org.hrstc.taste.al.AL_CF evaluate
INFO: AL Type: random
Mar 24, 2008 2:56:02 PM org.hrstc.taste.al.AL_CF evaluate
INFO: User's Stats:
[{MAE=5.0}]
Mar 24, 2008 2:56:02 PM org.hrstc.taste.al.AL_CF evaluate
INFO: It took ms: 1522
Mar 24, 2008 2:56:22 PM org.hrstc.taste.al.AL_CF evaluate
INFO: User's Stats:
[{MAE=5.0}, {MAE=0.760892}]
Mar 24, 2008 2:56:22 PM org.hrstc.taste.al.AL_CF evaluate
INFO: It took ms: 19781
Mar 24, 2008 2:56:38 PM org.hrstc.taste.al.AL_CF evaluate
INFO: User's Stats:
[{MAE=5.0}, {MAE=0.760892}, {MAE=0.86437464}]
Mar 24, 2008 2:56:38 PM org.hrstc.taste.al.AL_CF evaluate
INFO: It took ms: 16243
CREATE TABLE `taste`.`taste_preferences` (
`user_id` varchar(10) NOT NULL,
`item_id` varchar(10) NOT NULL,
`preference` float NOT NULL,
PRIMARY KEY (`user_id`,`item_id`),
KEY `user_id` (`user_id`),
KEY `item_id` (`item_id`)
) ENGINE=MEMORY DEFAULT CHARSET=latin1
INFO: It took ms: 214,899
Mar 24, 2008 3:01:21 PM org.hrstc.taste.al.AL_CF <init>
INFO: loaded data
943
Mar 24, 2008 3:01:23 PM org.hrstc.taste.al.AL_CF getTestUsers
INFO: Selected userID: 421
Mar 24, 2008 3:01:23 PM org.hrstc.taste.al.AL_CF evaluate
INFO: AL Type: random
Mar 24, 2008 3:01:24 PM org.hrstc.taste.al.AL_CF evaluate
INFO: User's Stats:
[{MAE=5.0}]
Mar 24, 2008 3:01:24 PM org.hrstc.taste.al.AL_CF evaluate
INFO: It took ms: 1865
Mar 24, 2008 3:04:59 PM org.hrstc.taste.al.AL_CF evaluate
INFO: User's Stats:
[{MAE=5.0}, {MAE=0.7894972}]
Mar 24, 2008 3:04:59 PM org.hrstc.taste.al.AL_CF evaluate
INFO: It took ms: 214899
Starting DB: java -cp ./lib/hsqldb.jar org.hsqldb.Server -database.0 file:mydb -dbname.0 xdb
java -cp ./lib/hsqldb.jar org.hsqldb.util.DatabaseManager
keywords: hsqldb load data file csv
Use Text Table ; also see src/org/hsqldb/sample/load_binding_lu.sql
Error: table not found in statement [SET TABLE SOURCE] / Error Code: -22 / State: S0002
Possible Reason: Text Tables cannot be created in memory-only databases (databases that have no script file).
Tried example from src/org/hsqldb/sample/load_binding_lu.sql
CREATE TEXT TABLE binding_tmptxt (
id integer,
name varchar(12)
);
Error: Database is memory only in statement [CREATE TEXT TABLE binding_tmptxt] / Error Code: -63 / State: S1000
Solution: this statement is not allowed for in memory database; start server db instance
When trying sudo a server [org.hsqldb.util.DatabaseManager] get the following error:
java.sql.SQLException: socket creation error
Solution: none
Performance of H2 is 10x slower than MySQL. The difference of code between two implementations is that for
H2: MERGE INTO
MySQL: INSERT ... ON DUPLICATE KEY UPDATE
Changed it but did not make a difference.
Disabled/Enabled Connection pooling but did not produce significant affect either.
Since performance still is not good rewrote code for the methods that take too long; and wrote new classes optimized for my task as seen in the next blog posting ....
http://www.h2database.com/html/features.html#trace_options
TRACE_LEVEL_SYSTEM_OUT=3
Do also java code generation; this way can benchmark it against MySQL and see where the problem is.
Turn on logging finest
See performance for my AL method and optimize for it - since it is the slowest one anyway.
If performance still is not good may need to rewrite code for the methods that take too long; or write new classes optimized for my task
For example: may compute user neighborhood only for the specific items; since I need to get estimates for only a few items, etc.
HSQLDB memory mode
MySQL's MEMORY (HEAP) Storage Engine http://dev.mysql.com/doc/refman/5.0/en/memory-storage-engine.html
Comments
nlvEfSXeFDOi
Hello | terazosin | paxil | cisapride | cosopt | atorvastatin simvastatin | valium | xanax pics | alprazolam |
nbLpQeRFieuWlVC
Hello | young studs | anime big tits | mas 90 | apache tribe |
fjGrXWpLnOkIJegF
Hello | home loans apply online | stock investing | cirrocumulus clouds | chubby bears |
DzZooiQhRQDRHDrEixU
Hello | arimidex | advair | terazosin | meridia | propecia generic brand | wellbutrin | alprazolam |
PVnTzCAPoNKmMVMXRF
Hi | vaniqa | nicotrol | detrol | lipitor | zestril | meclizine |
nEELiIkEEENCd
Hi | retin | amphetamine | hydrocodone | avalide | beclomethasone |
BwtQqkjcQhzsRtX
Hello | abilify | toprol | biaxin | amoxil | propecia alternative |
kfVvFjNOzTXkV
Hi | valsartan | apri | adderall | synalar |
vQfuXyMbXXVrkPXZL
Hi | phentermine generic pills | low price phentermine | canada online pharmacy viagra | viagra canada overnight shipping |
dRXjmkcuWuAhYnm
Hi | jacksonville florida hotel suites | toni from paradise hotel | coast hotels and casinos | loew's miami beach hotel | tremont hotel |
zmvEbXPRsryisKRrlF
Hello | car stereo classifieds | chevy caprice police car | car financial inc | national city bank car rental discount | scca car classes |
BWhdWoPGRcSqtRNw
Hello | kid puzzle games | a learning games | monster hunter game | play disney games.com | yahoo gem games |
fHDfHLFTLOCzWgV
Hello | singapore raffles hotel | boutique hotels | discound airlines | nye beach hotel | hilton lisle hotel | the moorings hotel banavie |
zmTMxNGFwqXqkTHkA
Hello | traveling medical jobs | regent beverly willshire hotel | cambridge mn hotel | yankton hotels | montecassino hotel toronto | tripadvisor rome hotels |
RsXdkcWCDygZWk
Hi | barcelona hotel jardi spain | avalon reef hotel | chorus hotel london | andromeda hotel ostend | airline discrimination price | mature porn star list | latina housewife nude | sheraton hotel portland oregon | hardcore mom movie | mature beauty nude | fuck older video woman |
kTPcIFqUvVScvXE
Generic Viagra
NTVRkiEATJGQImm
Hi | augmentin probiotics | adipex | tramadol | tiazac | ipratropium |
esPGXwKLymtlHPq
Hi | lipitor | adipex | ionamin | concerta | alprazolam | elavil |
yQVOMcgrQvneUn
Hello | seroquel | cosopt | atarax | abilify | paxil | soma | zestril |
TsnfdhJOSZznHQT
Hi | bisoprolol | zestril | soma | acetaminophen | zyloprim | bontril |
VjSEbYwtTNiQs
Hello | terazosin | celebrex | allopurinol | medrol | zetia | glucophage |
zOhCoTKXrHyYlEOV
Hi | flonase | ambien | lorazepam | ketoconazole | baclofen | lorcet |
ERKMFtEyHtPFXpUrrRK
Hi | valtrex | ditropan | atorvastatin | hyzaar | lamictal | protonix | astelin | rogaine |
eUtwjBkkQSNCePRgMvP
Hi | elimite | provigil | furosemide | levoxyl |
YyBrRXEHFnOPi
Hi | hydroxyzine pamoate dogs | advair | amoxicillin by claridymicin followed | wellbutrin | esgic | propranolol | ciprofloxacin | amoxicillin adverse |
RBMhvJRRdPrXbAZm
Hello | propecia | atorvastatin | butalbital | zoloft | avandia | zafirlukast | zetia |
HQmwAqVKBYb
Hi | antabuse | diazepam | lorcet | lexapro | carisoprodol | tenuate | paxil |
qmWxqkJWbQtVihsxm
Hi | miralax | hydrocodone | indapamide | mobic | carisoprodol | alprazolam | risperdal |
SJcIAilVyncevoZU
Hi | claritin | antivert | hoodia cactus extract | triphasil | 2b action dilantin mode | spironolactone |
SCHSCHjpCagUgBegle
Hello | lipitor | delivery phentermine saturday | generic minocycline | zafirlukast | zafirlukast | hydrocodone | hyzaar | lovastatin |
EzWddrGMcwVUBagV
Hello | tramadol cod accepted | sertraline | hydrocodone | clarithromycin |
lFHeBWGOvBGssyLAy
Hi | azithromycin | diazepam | amiodarone | captopril |
xDUCnYItSkRTE
Hello | viagra | bisoprolol | acetaminophen | fluticasone | sildenafil | denavir |
mEhjPylnyYY
Hello | levitra | paroxetine | cialis | darvon |
yWulmtJiszCtHFvP
Hello | avandia diabetics | arimidex | amoxicillin | accolate | buspirone | lexapro wellbutrin interaction |
cheNpPjfoWTJPuETMcP
Hi | ditropan | clomid | drug oxycodone picture | trimox | paxil | lanoxin | tramadol uses |
ZFiMtEckks
Hello | zyban | coumadin | buy comment hydrocodone keyword where | lovastatin | doxepin | nortriptyline |
JvuLmOufMSuwdjOG
Hello | flovent | lantus | trileptal generic | cialis | arava |
AuxWLsmFXT
Hi | adipex | neurontin | condylox | lantus | alprazolam |
qvWBaNBDoTujA
Hello | miralax | cialis | reductil | actonel | tenuate |
cpXVJUQNOpuG
umZ053 yfkdgbotyion, [url=http://znhrigzbayiq.com/]znhrigzbayiq[/url], [link=http://pewcyeitekeo.com/]pewcyeitekeo[/link], http://jynejfajpotm.com/
price
Free online prescription! http://www.ece.duke.edu/techxcite/forum/index.php?showtopic=12 >didrex without a prescription http://www.ece.duke.edu/techxcite/forum/index.php?showtopic=13 >purchase valium without a prescription http://www.ece.duke.edu/techxcite/forum/index.php?showtopic=14 >hydrocodone no prescription http://www.ece.duke.edu/techxcite/forum/index.php?showtopic=15 >buy hydrocodone without prescription http://www.ece.duke.edu/techxcite/forum/index.php?showtopic=16 >acomplia online
value
Free prescription! http://cfa.case.edu/node/90 >extra cheap phentermine http://stanford.edu/group/pdsa/cgi-bin/?q=node/54 >cheap zoloft http://stanford.edu/group/pdsa/cgi-bin/?q=node/55 >cheapest viagra prices http://stanford.edu/group/pdsa/cgi-bin/?q=node/56 >low cost cialis http://stanford.edu/group/pdsa/cgi-bin/?q=node/57 >low cost meridia
value
Free delivery! http://owlproject.media.mit.edu/node/129 >cheapest adipex http://owlproject.media.mit.edu/node/130 >cheap 37.5mg phentermine http://stanford.edu/group/pdsa/cgi-bin/?q=node/47 >buy bactrim http://stanford.edu/group/pdsa/cgi-bin/?q=node/48 >otomax without prescription http://stanford.edu/group/pdsa/cgi-bin/?q=node/49 >vicodin without prescription
pharmacy
Free delivery! http://rock.geosociety.org/forum/forum_posts.asp?TID=67 >buy ambien without a prescription http://rock.geosociety.org/forum/forum_posts.asp?TID=68 >order aldactone http://rock.geosociety.org/forum/forum_posts.asp?TID=69 >buy adipex without a prescription http://rock.geosociety.org/forum/forum_posts.asp?TID=70 >buy discount viagra online http://rock.geosociety.org/forum/forum_posts.asp?TID=71 >buy tramadol cod
pharmacy
Free delivery! http://rock.geosociety.org/forum/forum_posts.asp?TID=67 >buy ambien without a prescription http://rock.geosociety.org/forum/forum_posts.asp?TID=68 >order aldactone http://rock.geosociety.org/forum/forum_posts.asp?TID=69 >buy adipex without a prescription http://rock.geosociety.org/forum/forum_posts.asp?TID=70 >buy discount viagra online http://rock.geosociety.org/forum/forum_posts.asp?TID=71 >buy tramadol cod
pharmacy
Free delivery! http://rock.geosociety.org/forum/forum_posts.asp?TID=67 >buy ambien without a prescription http://rock.geosociety.org/forum/forum_posts.asp?TID=68 >order aldactone http://rock.geosociety.org/forum/forum_posts.asp?TID=69 >buy adipex without a prescription http://rock.geosociety.org/forum/forum_posts.asp?TID=70 >buy discount viagra online http://rock.geosociety.org/forum/forum_posts.asp?TID=71 >buy tramadol cod
delivery
Free shipping! http://data.princeton.edu/wws509/forum/detail.asp?msgid=306 >cheap generic levitra http://data.princeton.edu/wws509/forum/detail.asp?msgid=307 >buy valium in the uk http://matrix.msu.edu/iwdo/mali/forum/show.php?topic=20080516054113 >buy tenuate in the uk http://www.bus.msu.edu/discussionboard/msgs.cfm?msg=1230&forum=14 >ambien india http://www.bus.msu.edu/discussionboard/msgs.cfm?msg=1231&forum=14 >buy acyclovir online
fedex
Free shipping! http://wnyu.nyu.edu/forum/viewtopic.php?id=230 >xanax online http://wnyu.nyu.edu/forum/viewtopic.php?id=231 >phentermine online prescription http://www.ece.duke.edu/techxcite/forum/index.php?showtopic=6 >order adipex http://www.ece.duke.edu/techxcite/forum/index.php?showtopic=7 >cheap valium http://www.ece.duke.edu/techxcite/forum/index.php?showtopic=8 >cheap 37.5mg phentermine
fedex
Free shipping! http://wnyu.nyu.edu/forum/viewtopic.php?id=230 >xanax online http://wnyu.nyu.edu/forum/viewtopic.php?id=231 >phentermine online prescription http://www.ece.duke.edu/techxcite/forum/index.php?showtopic=6 >order adipex http://www.ece.duke.edu/techxcite/forum/index.php?showtopic=7 >cheap valium http://www.ece.duke.edu/techxcite/forum/index.php?showtopic=8 >cheap 37.5mg phentermine