version 0.3.0

cran · Jan 8, 2018 · 96366a0 · 96366a0
1 parent 9d9c303
commit 96366a0
Show file tree

Hide file tree

Showing 103 changed files with 27,717 additions and 459 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,18 +1,28 @@
 Package: rCBA
 Title: CBA Classifier for R
-Version: 0.0.1
-Authors@R: person("Jaroslav", "Kuchar", email = "jaroslav.kuchar@gmail.com", role = c("aut", "cre"))
-Author: Jaroslav Kuchar [aut, cre]
+Version: 0.3.0
+Authors@R: c(person("Jaroslav", "Kuchar", email = "jaroslav.kuchar@gmail.com", role = c("aut", "cre")),
+             person("Tomas", "Kliegr", email="kliegr@gmail.com", role = c("ctb")))
+Author: Jaroslav Kuchar [aut, cre], Tomas Kliegr [ctb]
 Maintainer: Jaroslav Kuchar <jaroslav.kuchar@gmail.com>
 URL: https://github.com/jaroslav-kuchar/rCBA
 BugReports: https://github.com/jaroslav-kuchar/rCBA/issues
-Description: Provides implementations of rule pruning algorithms based on the "Classification Based on Associations" (CBA). It can be used for building classification models from association rules. Rules are pruned in the order of precedence given by the sort criteria and a default rule is added. CBA was originally proposed by Liu, B. Hsu, W. and Ma, Y (1998). Integrating Classification and Association Rule Mining. Proceedings KDD-98, New York, 27-31 August. AAAI. pp80-86.
+Description: Provides implementations of a classifier based on the
+    "Classification Based on Associations" (CBA). It can be used for building
+    classification models from association rules. Rules are pruned in the order of
+    precedence given by the sort criteria and a default rule is added. The final
+    classifier labels provided instances. CBA was originally proposed by Liu,
+    B. Hsu, W. and Ma, Y. Integrating Classification and Association Rule
+    Mining. Proceedings KDD-98, New York, 27-31 August. AAAI. pp80-86 (1998, ISBN:1-57735-070-7).
 Depends: R (>= 3.1.3), rJava, arules
+Imports: R.utils, TunePareto, methods, stats, utils
 License: Apache License (== 2.0)
 LazyData: true
-SystemRequirements: Java (>= 8.0)
-RoxygenNote: 5.0.1
+SystemRequirements: Java (>= 8)
+RoxygenNote: 6.0.1
+Collate: 'init.R' 'build.R' 'buildFPGrowth.R' 'classification.R'
+        'fpgrowth.R' 'pruning.R' 'utils.R'
 NeedsCompilation: no
-Packaged: 2015-12-10 09:32:29 UTC; root
+Packaged: 2018-01-08 20:12:29 UTC; vagrant
 Repository: CRAN
-Date/Publication: 2015-12-11 13:31:03
+Date/Publication: 2018-01-08 20:20:23 UTC
diff --git a/MD5 b/MD5
@@ -1,73 +1,80 @@
-4db9126aec41c2c38b95f9c4e1fbdc49 *DESCRIPTION
-6a7d0ae4795bf81aebb4c9158664d7ad *NAMESPACE
-b24c05543c9b72ea05a3fbe54dbc7220 *NEWS
-fffb768c64eaa111046a5b34f9b0bdba *R/pruning.R
+141a14b7c4eb11457d780f51bf35a730 *DESCRIPTION
+6471b35750096a78e542e400fe5c0772 *NAMESPACE
+044bf0b5c3191935d1db463b149da173 *NEWS
+cc6e2be4a2b56e4e16cf0394a3a34005 *R/build.R
+e8c5ef27c2f75af43e1541eea70a0b86 *R/buildFPGrowth.R
+9b8ede59e1dfc66605a44844a6706555 *R/classification.R
+da2314576a0e457fe24453337e85e5b3 *R/fpgrowth.R
+cda62193dbbd51d46c2a8aeddf75789e *R/init.R
+e1d33803839b645fb5e9ed2112c131a9 *R/pruning.R
+0377f22c16f2c5476a44094cea3c4733 *R/utils.R
 1121f148e65ea22fc688b863e9304390 *inst/java/classes/cz/jkuchar/rcba/Application.class
-664411930998322bc9f3650973095d6c *inst/java/classes/cz/jkuchar/rcba/pruning/ASet.class
+ec91959c2665ada1e35fa6f1868372bb *inst/java/classes/cz/jkuchar/rcba/build/RandomSearch$State.class
+d80b82b1332162415a86f9015fc5f591 *inst/java/classes/cz/jkuchar/rcba/build/RandomSearch.class
+1d7690a964303ac5e716a6e12551da83 *inst/java/classes/cz/jkuchar/rcba/fpg/AssociationRules$1.class
+bd7857fbde54fcf8d93be11eaccafeff *inst/java/classes/cz/jkuchar/rcba/fpg/AssociationRules.class
+42429a014976e9a9138d9485cd5a8ba4 *inst/java/classes/cz/jkuchar/rcba/fpg/FPGrowth$1.class
+de730587e66ba854dd4d155536366766 *inst/java/classes/cz/jkuchar/rcba/fpg/FPGrowth.class
+a839dbeee1ef04244eb8b4a5d3973f70 *inst/java/classes/cz/jkuchar/rcba/fpg/FPTree.class
+a7570d4e2ccc4ab926049b1aaa8b1955 *inst/java/classes/cz/jkuchar/rcba/fpg/FrequentPattern.class
+0102cd4b07a0e1f4dfa2214a766ab3ed *inst/java/classes/cz/jkuchar/rcba/pruning/ASet.class
 082ad6a6f7b617ad7f714ca35a53dc5a *inst/java/classes/cz/jkuchar/rcba/pruning/CBAM2Box$1.class
 996f72666fe8bb7eff4ddc11dedddfd8 *inst/java/classes/cz/jkuchar/rcba/pruning/CBAM2Box$2.class
-32268a10add1644cb7ce36a036609db9 *inst/java/classes/cz/jkuchar/rcba/pruning/CBAM2Box$3.class
-3d694a3322c391b82f3fe22adb0a5d4e *inst/java/classes/cz/jkuchar/rcba/pruning/CBAM2Box.class
-9443161577edc02c0a9dde991e9e3194 *inst/java/classes/cz/jkuchar/rcba/pruning/DCBrCBA.class
-dbf0b166053eb11f95461ecfdf5ee0a4 *inst/java/classes/cz/jkuchar/rcba/pruning/M1CBA$1.class
-fb374219a3c640e2356c7bddda48142d *inst/java/classes/cz/jkuchar/rcba/pruning/M1CBA.class
-327c7ac34f0744801b717a8cd4cfcebd *inst/java/classes/cz/jkuchar/rcba/pruning/M2CBA$1.class
-fa43c42d769118a12fb7977a55620e9d *inst/java/classes/cz/jkuchar/rcba/pruning/M2CBA.class
-f4fa6b48d97cde8498887331a45c94c7 *inst/java/classes/cz/jkuchar/rcba/pruning/Pruning.class
-73b37cc5ab3c34bebca53e2fc340f99b *inst/java/classes/cz/jkuchar/rcba/pruning/Tuple.class
-748ad8b739705fb157c1c63b9f79efb1 *inst/java/classes/cz/jkuchar/rcba/r/RPruning.class
-2f8b264d2a13d4d2da5880ae1cf02393 *inst/java/classes/cz/jkuchar/rcba/r/RSpring.class
+b46d9fd3f78ac90a233f77443fab6ea0 *inst/java/classes/cz/jkuchar/rcba/pruning/CBAM2Box$3.class
+95622699fab606ee8d1f6eba4d400260 *inst/java/classes/cz/jkuchar/rcba/pruning/CBAM2Box.class
+9d5549e1a9cf63163e223e37a2913060 *inst/java/classes/cz/jkuchar/rcba/pruning/CBAM2BoxASet.class
+56921aec726135dbb3c32b96d680cb09 *inst/java/classes/cz/jkuchar/rcba/pruning/DCBrCBA.class
+a5ac9a763038509cf8c3bebfa670c859 *inst/java/classes/cz/jkuchar/rcba/pruning/M1CBA$1.class
+589bea653b1edc860fbd6a6d6fcb0bf2 *inst/java/classes/cz/jkuchar/rcba/pruning/M1CBA.class
+001da7d0ae8c4ca5495298c63af01e9b *inst/java/classes/cz/jkuchar/rcba/pruning/M2CBA$1.class
+3f211337398835897164a617c77a960a *inst/java/classes/cz/jkuchar/rcba/pruning/M2CBA.class
+de953c6f9c2386f405cce94c0d310aa5 *inst/java/classes/cz/jkuchar/rcba/pruning/Pruning.class
+e1311975beda89ce0cb19fc1a5e9bc3d *inst/java/classes/cz/jkuchar/rcba/r/RPruning.class
 5a576274f9c4e7f63b91d0e5ec84a661 *inst/java/classes/cz/jkuchar/rcba/rules/BadRuleFormatException.class
-5e58823e8971f8ed8575637a6b25bb77 *inst/java/classes/cz/jkuchar/rcba/rules/Item.class
-04a429ba6caa1e8589547604a9e830ee *inst/java/classes/cz/jkuchar/rcba/rules/Rule.class
-c729c17d863fadcc0167e042d3852cfc *inst/java/classes/cz/jkuchar/rcba/rules/RuleEngine.class
+9526da13c6371e980503c155e7703b83 *inst/java/classes/cz/jkuchar/rcba/rules/Item.class
+adb424874da3897cdf40d05c308efc9c *inst/java/classes/cz/jkuchar/rcba/rules/Rule.class
+1d7a7b24759cd78aef91df2782be2662 *inst/java/classes/cz/jkuchar/rcba/rules/RuleEngine.class
+360b0f584ce2881e07b8d7d617c9a126 *inst/java/classes/cz/jkuchar/rcba/rules/Tuple.class
+de6fcb72a4c6c8d7c984030530258d8a *inst/java/classes/cz/jkuchar/rcba/rules/TupleCollection$1.class
+899f285ddf96383f704393ebcb630147 *inst/java/classes/cz/jkuchar/rcba/rules/TupleCollection.class
 276e3e8eb260c6ebc6df5a8d1e06bb3f *inst/java/conf/logback.xml
-04177054e180d09e3998808efa0401c7 *inst/java/lib/aopalliance-1.0.jar
-3128bf75a2549ebe38663401191bacab *inst/java/lib/commons-lang3-3.3.2.jar
-6393363b47ddcbba82321110c3e07519 *inst/java/lib/hamcrest-core-1.3.jar
-110ad2ea84f7031a1798648b6b318e79 *inst/java/lib/hamcrest-library-1.3.jar
-84a0bc98b537d6497424905b91407701 *inst/java/lib/jcl-over-slf4j-1.7.11.jar
-04640364363128dc014c07b23447b056 *inst/java/lib/jul-to-slf4j-1.7.11.jar
-5b38c40c97fbd0adee29f91e60405584 *inst/java/lib/junit-4.12.jar
-73262d373ce0391f9453ef1f1b5777d5 *inst/java/lib/log4j-over-slf4j-1.7.11.jar
-19ec751a4fe907ddb204dff93103acbb *inst/java/lib/logback-classic-1.1.3.jar
-94975ef44aa05c5067563875a783351e *inst/java/lib/logback-core-1.1.3.jar
-c1967f0a515c4b8155f62478ec823464 *inst/java/lib/mockito-core-1.10.19.jar
-32ccb1d20a42b5aaaceb90c9082a2efa *inst/java/lib/objenesis-2.1.jar
-d8e956b5abae83e5354c023aff6f990a *inst/java/lib/opencsv-3.3.jar
-65e3c5a7dd0691cfc94d06d2d2cc1590 *inst/java/lib/slf4j-api-1.7.11.jar
-1dd614fe1f1d9b6b5ef0fd2c1857e659 *inst/java/lib/snakeyaml-1.14.jar
-456e3d919a0a3ad28a1f75170b2dc1fd *inst/java/lib/spring-aop-4.1.6.RELEASE.jar
-36b5c255cf87425f1e528d6a3d0eb5f1 *inst/java/lib/spring-beans-4.1.6.RELEASE.jar
-b523e55c9a8a5a9a6ec28fe3dbc6aaad *inst/java/lib/spring-boot-1.2.3.RELEASE.jar
-4b6acabbe064d1c4635eef5b88348b8a *inst/java/lib/spring-boot-autoconfigure-1.2.3.RELEASE.jar
-a7fe370d4ad11e0f2788f3fe44067740 *inst/java/lib/spring-boot-starter-1.2.3.RELEASE.jar
-ada57d691d6032672e3760885826db21 *inst/java/lib/spring-boot-starter-logging-1.2.3.RELEASE.jar
-0b78f41e4c9cce0d380cfc1de0fe4e4c *inst/java/lib/spring-boot-starter-test-1.2.3.RELEASE.jar
-63168ed33eabfddc144e5acf32d76e5e *inst/java/lib/spring-context-4.1.6.RELEASE.jar
-f9f20b46de6a0555ca748ad3a436c08c *inst/java/lib/spring-core-4.1.6.RELEASE.jar
-c134bcc59701dba1534250a7b20767f3 *inst/java/lib/spring-expression-4.1.6.RELEASE.jar
-964f67c771742df1aeeca71afaf99270 *inst/java/lib/spring-test-4.1.6.RELEASE.jar
-e874fbd3fd9470358678e3534e5d720d *java/pom.xml
+bd8fa0789e0a1cf79e0a361ae3a3fb14 *java/pom.xml
 9709b321ba8a614071b706c3af1d4d64 *java/src/main/java/cz/jkuchar/rcba/Application.java
-6dba8408973d7eade89da618fe91fa6d *java/src/main/java/cz/jkuchar/rcba/pruning/ASet.java
-8a65c8bbc6f1c2716e8affd55cbbbe62 *java/src/main/java/cz/jkuchar/rcba/pruning/CBAM2Box.java
-fc15bbd9cb613cffa3385b09a81123ee *java/src/main/java/cz/jkuchar/rcba/pruning/DCBrCBA.java
-eb60fa02c4e9daf39b9b4db7974eab31 *java/src/main/java/cz/jkuchar/rcba/pruning/M1CBA.java
-4a903cfce28f9e3078bd1a22827292f0 *java/src/main/java/cz/jkuchar/rcba/pruning/M2CBA.java
-b9d5f7d378b17ce9b41247c57d611c45 *java/src/main/java/cz/jkuchar/rcba/pruning/Pruning.java
-3a04b92d949eec9d0d6c3ab0bda35174 *java/src/main/java/cz/jkuchar/rcba/pruning/Tuple.java
-6627339143935300ee5ba8e9dfc98761 *java/src/main/java/cz/jkuchar/rcba/r/RPruning.java
-35614f40d6dd940c66227c158d190dad *java/src/main/java/cz/jkuchar/rcba/r/RSpring.java
+bcca771079a321f66f7872dee0ce884b *java/src/main/java/cz/jkuchar/rcba/build/RandomSearch.java
+b806f5168e72b233e4b312d35877cb9e *java/src/main/java/cz/jkuchar/rcba/fpg/AssociationRules.java
+6cc59589eefd763817f1b18155ed9d0f *java/src/main/java/cz/jkuchar/rcba/fpg/FPGrowth.java
+3525b68c29f953713c8531f2e2603abb *java/src/main/java/cz/jkuchar/rcba/fpg/FPTree.java
+46f2a3068023be74db6f8075fc0cadaf *java/src/main/java/cz/jkuchar/rcba/fpg/FrequentPattern.java
+297249b4b327d5d5bc9072885e26dd6f *java/src/main/java/cz/jkuchar/rcba/pruning/ASet.java
+cbdfb5e009b86194b187a30547d52fe5 *java/src/main/java/cz/jkuchar/rcba/pruning/CBAM2Box.java
+f2e8cdf3385698b81a138553306e2fca *java/src/main/java/cz/jkuchar/rcba/pruning/CBAM2BoxASet.java
+a1a8393f14f9ac78588dd79a9f6bee1c *java/src/main/java/cz/jkuchar/rcba/pruning/DCBrCBA.java
+b98fb151d46ddcfd08cbba0a2f8f55b1 *java/src/main/java/cz/jkuchar/rcba/pruning/M1CBA.java
+1f51474a28b3eb20b279624d425c7f1a *java/src/main/java/cz/jkuchar/rcba/pruning/M2CBA.java
+1879c0b49bba37ae10eb63679a8e82fd *java/src/main/java/cz/jkuchar/rcba/pruning/Pruning.java
+1c944a4cde37657ce69ea8d447adebce *java/src/main/java/cz/jkuchar/rcba/r/RPruning.java
 62e62073c77a124c230b9fc8bb56e6ea *java/src/main/java/cz/jkuchar/rcba/rules/BadRuleFormatException.java
-c8227f2700db3367ed99dfc0cd674e48 *java/src/main/java/cz/jkuchar/rcba/rules/Item.java
-fb400ae0c786d8bbe752bc1d03f5a3d3 *java/src/main/java/cz/jkuchar/rcba/rules/Rule.java
-7ec56bce15597a85f05d52898ecc067d *java/src/main/java/cz/jkuchar/rcba/rules/RuleEngine.java
-e2b25fcaee26143d439639f2d3a8d39f *java/src/test/java/cz/jkuchar/rcba/TestConfiguration.java
-6d23eafa298abc73462196937d03c381 *java/src/test/java/cz/jkuchar/rcba/pruning/PruningTest.java
-d2e85002ea57cfa41f1f47ea667b20c7 *java/src/test/java/cz/jkuchar/rcba/rules/RuleEngineTest.java
-b13ec0e7f31600c01dac2703832f45f8 *java/src/test/java/cz/jkuchar/rcba/rules/RuleTest.java
+30b1ec685773c2326d136dc7c1fdbe5b *java/src/main/java/cz/jkuchar/rcba/rules/Item.java
+e34951361e75fc71c7cdc5a0a4989d6f *java/src/main/java/cz/jkuchar/rcba/rules/Rule.java
+b6b72a051315accc680d97f394a48569 *java/src/main/java/cz/jkuchar/rcba/rules/RuleEngine.java
+0179aa29d51c924e9497bb21241ce1e1 *java/src/main/java/cz/jkuchar/rcba/rules/Tuple.java
+a1a965347a12ff1952cb6d25ffdb0362 *java/src/main/java/cz/jkuchar/rcba/rules/TupleCollection.java
+5ca6945d901f4b1e99b5f560a57762e5 *java/src/test/java/cz/jkuchar/rcba/fpg/FPGrowthSPPTest.java
+0ac9e18e13df54ac0b8cb51fcca36613 *java/src/test/java/cz/jkuchar/rcba/fpg/FPGrowthTest.java
+5a1d9dc600b12509d5cbd1c7a874ee8a *java/src/test/java/cz/jkuchar/rcba/pruning/PruningTest.java
+9966bb433e11213aa9d46220a81b3820 *java/src/test/java/cz/jkuchar/rcba/pruning/PruningTestZoo.java
+187bb49ec9bd2b7988fb289eb0facb5b *java/src/test/java/cz/jkuchar/rcba/rules/RuleEngineTest.java
+bedb231c4e6f42433abb7bf2f6ab8a67 *java/src/test/java/cz/jkuchar/rcba/rules/RuleTest.java
+e795fa4cab1c9dd7f15200b79c85b2ef *java/src/test/resources/audiology0.csv
+57fce90c81521889c736445f058c4838 *java/src/test/resources/iris.csv
 38fce0dea1a89569c4d3cb36f1658f77 *java/src/test/resources/rules.csv
 f5dc235f091fa3752c4cb31246c182d0 *java/src/test/resources/train.csv
-0500bbf376769c3f57a73d8f4b5f0c06 *java/update.sh
-cf9876e073118ddfa425a91d0e427a57 *man/pruning.Rd
+520876393890147a425662858155b141 *java/src/test/resources/zoo.csv
+b5b49f3be4aa6f0d757128660a5e1ffc *java/src/test/resources/zoorules.csv
+e4b6a42e852463ac5ce56b2424083604 *java/update.sh
+042aa6da5520e2c786adb287c9a14707 *man/build.Rd
+d275f2a415313f348f16552499343f23 *man/buildFPGrowth.Rd
+2e3f9b65f9424bc8d3a01a80f3dfbf1a *man/classification.Rd
+57404841d0fb438bf6147af43d2ca9f0 *man/fpgrowth.Rd
+d6ca94e5694ee62672bedb4a24eccdbd *man/frameToRules.Rd
+f86c101f21d218f5e5ab71c323c5ebdd *man/pruning.Rd
diff --git a/NAMESPACE b/NAMESPACE
@@ -1,6 +1,19 @@
 # Generated by roxygen2: do not edit by hand
 
+export(build)
+export(buildFPGrowth)
+export(classification)
+export(fpgrowth)
+export(frameToRules)
 export(pruning)
+import(R.utils)
+import(TunePareto)
 import(arules)
+import(parallel)
 import(rJava)
+importFrom(methods,as)
+importFrom(methods,is)
+importFrom(stats,runif)
+importFrom(stats,setNames)
+importFrom(utils,modifyList)
 importFrom(utils,write.table)
diff --git a/NEWS b/NEWS
@@ -1,6 +1,38 @@
+rCBA 0.3.0 (Release date: 2018-01-08)
+==============
+
+Changes:
+
+* FPGrowth as an alternative algorithm
+* FPGrowth-based automatic build of the model
+* Vagrant + RStudio server development environment
+* Fixed typos and bugs
+
+
+rCBA 0.2.0 (Release date: 2016-10-05)
+==============
+
+Changes:
+
+* Support for transactions as inputs
+* Fixed typos and bugs
+* Optimalization of Java dependencies
+
+
+rCBA 0.1.0 (Release date: 2016-02-01)
+==============
+
+Changes:
+
+* Improved pruning algorithms
+* Implemented a classification function
+* Implemented an automatic model build
+* Optimalization of Java dependencies
+
+
 rCBA 0.0.1 (Release date: 2015-12-08)
 ==============
 
 Changes:
 
-* Initial version of rCBA
+* Initial version of rCBA