From c695159c38f2e4f8e5d45f6c5e8f4a3487d8d7c6 Mon Sep 17 00:00:00 2001 From: Kui LIU Date: Mon, 6 Nov 2017 20:10:17 +0100 Subject: [PATCH] New features. --- Dataset/LiveStudy/Patches | 119 + Dataset/Patterns/Fix-Patterns | 131 + .../Source-Code-Patterns-Unfixed-Violations | 107 + Dataset/a.txt | 2518 ----------------- .../violations/FixedViolationHunkParser.java | 3 +- .../MultipleThreadsParser3/AkkaParser.java | 45 +- .../bugLocalization/BuggyTreeParser.java | 108 - .../serval/bugLocalization/FixedAlarms.java | 100 - .../bugLocalization/ProjectScanner.java | 195 -- .../lu/uni/serval/bugLocalization/Step8.java | 43 - .../lu/uni/serval/bugLocalization/test.java | 108 - .../java/edu/lu/uni/serval/defects4j/Bug.java | 43 + .../lu/uni/serval/defects4j/BugParser.java | 206 ++ .../edu/lu/uni/serval/livestudy/Test.java | 19 - .../lu/uni/serval/statistics/Categories.java | 2 +- .../statistics/NumberOfFilesAndCodeLines.java | 16 +- .../lu/uni/serval/statistics/Statistic.java | 85 +- .../statistics/UnhappenedTypesLiveStudy.java | 73 + .../serval/violation/code/parser/Test.java | 10 - .../code/parser/ViolationCodeParser.java | 51 +- .../code/parser/ViolationSourceCodeTree.java | 17 +- .../violation/parse/TestViolationParser.java | 6 +- 22 files changed, 843 insertions(+), 3162 deletions(-) create mode 100644 Dataset/LiveStudy/Patches create mode 100644 Dataset/Patterns/Fix-Patterns create mode 100644 Dataset/Patterns/Source-Code-Patterns-Unfixed-Violations delete mode 100644 Dataset/a.txt delete mode 100644 src/main/java/edu/lu/uni/serval/bugLocalization/BuggyTreeParser.java delete mode 100644 src/main/java/edu/lu/uni/serval/bugLocalization/FixedAlarms.java delete mode 100644 src/main/java/edu/lu/uni/serval/bugLocalization/ProjectScanner.java delete mode 100644 src/main/java/edu/lu/uni/serval/bugLocalization/Step8.java delete mode 100644 src/main/java/edu/lu/uni/serval/bugLocalization/test.java create mode 100644 src/main/java/edu/lu/uni/serval/defects4j/Bug.java create mode 100644 src/main/java/edu/lu/uni/serval/defects4j/BugParser.java delete mode 100644 src/main/java/edu/lu/uni/serval/livestudy/Test.java create mode 100644 src/main/java/edu/lu/uni/serval/statistics/UnhappenedTypesLiveStudy.java diff --git a/Dataset/LiveStudy/Patches b/Dataset/LiveStudy/Patches new file mode 100644 index 0000000..c94a805 --- /dev/null +++ b/Dataset/LiveStudy/Patches @@ -0,0 +1,119 @@ +BC_UNCONFIRMED_CAST +BC_UNCONFIRMED_CAST_OF_RETURN_VALUE Comments: no any useful common fix patterns. +EI_EXPOSE_REP +EI_EXPOSE_REP2 +IS2_INCONSISTENT_SYNC +NM_METHOD_NAMING_CONVENTION + +DE_MIGHT_IGNORE Compile failed. +DLS_DEAD_LOCAL_STORE Compile failed +NP_LOAD_OF_KNOWN_NULL_VALUE + +DM_CONVERT_CASE To be improved + +DM_BOXED_PRIMITIVE_FOR_PARSING +DM_DEFAULT_ENCODING +DM_FP_NUMBER_CTOR +DM_NUMBER_CTOR +ES_COMPARING_STRINGS_WITH_EQ Comments: ignored + +MS_PKGPROTECT +MS_SHOULD_BE_FINAL Comments: failed to checkstyle. + +NP_NONNULL_RETURN_VIOLATION +NP_NULL_ON_SOME_PATH +NP_NULL_ON_SOME_PATH_FROM_RETURN_VALUE +NP_PARAMETER_MUST_BE_NONNULL_BUT_MARKED_AS_NULLABLE +OBL_UNSATISFIED_OBLIGATION +OBL_UNSATISFIED_OBLIGATION_EXCEPTION_EDGE +ODR_OPEN_DATABASE_RESOURCE +OS_OPEN_STREAM +OS_OPEN_STREAM_EXCEPTION_PATH +PZLA_PREFER_ZERO_LENGTH_ARRAYS +RCN_REDUNDANT_NULLCHECK_OF_NONNULL_VALUE +RCN_REDUNDANT_NULLCHECK_WOULD_HAVE_BEEN_A_NPE +REC_CATCH_EXCEPTION +RI_REDUNDANT_INTERFACES +RV_RETURN_VALUE_IGNORED_BAD_PRACTICE +RV_RETURN_VALUE_IGNORED_NO_SIDE_EFFECT +SBSC_USE_STRINGBUFFER_CONCATENATION +SE_NO_SERIALVERSIONID +SF_SWITCH_NO_DEFAULT +SIC_INNER_SHOULD_BE_STATIC +SIC_INNER_SHOULD_BE_STATIC_ANON +SQL_PREPARED_STATEMENT_GENERATED_FROM_NONCONSTANT_STRING +ST_WRITE_TO_STATIC_FROM_INSTANCE_METHOD +UC_USELESS_CONDITION +UC_USELESS_OBJECT +UCF_USELESS_CONTROL_FLOW +UPM_UNCALLED_PRIVATE_METHOD +URF_UNREAD_FIELD +URF_UNREAD_PUBLIC_OR_PROTECTED_FIELD +UWF_FIELD_NOT_INITIALIZED_IN_CONSTRUCTOR +UWF_UNWRITTEN_FIELD +VA_FORMAT_STRING_USES_NEWLINE +WMI_WRONG_MAP_ITERATOR + + +rejected 1 https://github.com/apache/commons-io/pull/47 +rejected 1 https://github.com/apache/commons-io/pull/45 + +rejected 1 https://github.com/apache/commons-lang/pull/298 + 5 https://github.com/apache/commons-lang/pull/297 +improved 1 https://github.com/apache/commons-lang/pull/297 Comments: some patches failed to pass test cases, some patches led to compile failed, some patches led to checkstyle failed. + + 2 https://github.com/apache/commons-math/pull/69 + 1 https://github.com/apache/commons-math/pull/68 Comments: inner static class, there is no need to fix the violations in this kind of class. + 2 https://github.com/apache/commons-math/pull/67 Comments: improve patches. + 1 https://github.com/apache/commons-math/pull/66 + +rejected 1 https://github.com/apache/ant/pull/47 +improved 1 https://github.com/apache/ant/pull/46 +merged 2 https://github.com/apache/ant/pull/46 + 2 https://github.com/apache/ant/pull/45 +rejected 3 https://github.com/apache/ant/pull/44 +merged 1 https://github.com/apache/ant/pull/43 +merged 5 https://github.com/apache/ant/pull/42 Comments: need to import new packages, unless the fixed patches will fail to compile. +merged 1 https://github.com/apache/ant/pull/41 + + 1 https://github.com/apache/aries/pull/80 + 1 https://github.com/apache/aries/pull/79 + 1 https://github.com/apache/aries/pull/78 + 1 https://github.com/apache/aries/pull/77 + 1 https://github.com/apache/aries/pull/76 + +rejected 1 https://github.com/apache/camel/pull/2031 ShouldBeFinal +rejected 6 https://github.com/apache/camel/pull/2029 master5 +merged 1 https://github.com/apache/camel/pull/2035 master7 +merged 2 https://github.com/apache/camel/pull/2032 Useless +merged 2 https://github.com/apache/camel/pull/2025 master6 +merged 1 https://github.com/apache/camel/pull/2024 master4 +merged 1 https://github.com/apache/camel/pull/2023 master2 +rejected 1 https://github.com/apache/camel/pull/2017 master3 Comments: compile failed, the return value of method invocation is not Boolean, it is a specific case. +merged 1 https://github.com/apache/camel/pull/2016 master +merged 6 https://github.com/apache/camel/pull/2038 boxedParsing + + + 3 https://github.com/apache/cassandra/pull/165 + 4 https://github.com/apache/cassandra/pull/164 + 2 https://github.com/apache/cassandra/pull/163 + +Fixed 1 https://github.com/fangyidong/json-simple/pull/126 Comments: fixed in another version. https://github.com/RalleYTN/SimpleJSON + 1 https://github.com/fangyidong/json-simple/pull/125 + +On hold 1 https://github.com/apache/mahout/pull/346 + 1 https://github.com/apache/mahout/pull/345 + 1 https://github.com/apache/mahout/pull/344 + +merged 2 https://github.com/apache/poi/pull/77 5 +merged 4 https://github.com/apache/poi/pull/78 6 +merged 2 https://github.com/apache/poi/pull/79 t +merged 1 https://github.com/apache/poi/pull/80 4 +merged 4 https://github.com/apache/poi/pull/76 2 +merged 30 https://github.com/apache/poi/pull/75 master +merged 1 https://github.com/apache/poi/pull/74 3 + + + +Some violations never happened in these projects: + diff --git a/Dataset/Patterns/Fix-Patterns b/Dataset/Patterns/Fix-Patterns new file mode 100644 index 0000000..e14f13a --- /dev/null +++ b/Dataset/Patterns/Fix-Patterns @@ -0,0 +1,131 @@ +===================================== +=========Useful Fix Patterns========= +===================================== +==============Detailed=============== +DM_CONVERT_CASE + (1) ADD a rule of Locale.ENGLISH into toLowerCase/toUpperCase. +RCN_REDUNDANT_NULLCHECK_OF_NONNULL_VALUE + (1) DEL Null-Check IfStatement, + (2) DEL Null-Check Conditional Expression. +REC_CATCH_EXCEPTION + (1) Change Exception to a specific exception class. +SE_NO_SERIALVERSIONID + (1) Insert a private static final field serialVersionUID. +VA_FORMAT_STRING_USES_NEWLINE + (1) DEL "$backslash$n", + (2) Replace "$backslash$n" with "n" +MS_SHOULD_BE_FINAL + (1) ADD a ``final'' modifier. +WMI_WRONG_MAP_ITERATOR + (1) Replace the KeySet iterating ForStatement with an EntrySet iterating ForStatement. +DM_NUMBER_CTOR + (1) Replace the NumberType ClassInstanceCreation with a NumberType.valueOf() method invocation. +SIC_INNER_SHOULD_BE_STATIC + (1) ADD a "static" modifier, + (2) DEL the buggy statements. +DE_MIGHT_IGNORE + (1) Change Exception to a specific exception class. +DM_BOXED_PRIMITIVE_FOR_PARSING + (1) Replace NumberType.valueOf() with NumberType.parseNumberType(). +DM_FP_NUMBER_CTOR + (1) DEL the buggy statement, + (2) Replace Double or Float ClassInstanceCreation with (Double or Float).valueOf(), + (3) Remove the Double or Float ClassInstanceCreation from the buggy expression. +MS_PKGPROTECT + (1) DEL the buggy statement, + (2) DEL the ``public'' or ``protected'' modifier + (3) Replace the ``public'' or ``protected'' modifier with the ``private'' modifier. + (4) DEL the initialization expression. +ES_COMPARING_STRINGS_WITH_EQ + (1) Replace the ``=='' InfixExpression with a stringVar.equals() method invocation. + + +===============Abstract============== +NP_NULL_ON_SOME_PATH + (1) ADD a Null-check statement or expression. +RI_REDUNDANT_INTERFACES + (1) DEL the implemented Interface type. +NP_NULL_ON_SOME_PATH_FROM_RETURN_VALUE + (1) ADD a Null-check statement or expression, + (2) DEL the buggy statement. +UCF_USELESS_CONTROL_FLOW + (1) DEL the buggy statement, + (2) DEL the useless ConditionalExpression. +UC_USELESS_CONDITION + (1) UPD the operator of a ConditionalExpersion, + (2) UPD an sub-expression of a ConditionExpression. +NP_LOAD_OF_KNOWN_NULL_VALUE + (1) DEL Null-check expression or statement, + (2) Replace the null-known variable with NULL. +SBSC_USE_STRINGBUFFER_CONCATENATION + (1) Replace String type with StringBuilder, and replace plus operator of StringVarialbe with the append method of StringBuilder. +UC_USELESS_OBJECT + (1) DEL the buggy statement. +UPM_UNCALLED_PRIVATE_METHOD + (1) DEL the buggy statements. +NM_METHOD_NAMING_CONVENTION + (1) Update Method Name of MethodDeclaration. +URF_UNREAD_FIELD + (1) DEL the buggy statement. +===================================== +NP_NONNULL_RETURN_VIOLATION + (1) DEL the null-returned ReturnStatement. + (2) Replace NullLiteral with an Expression which returns an empty list. +PZLA_PREFER_ZERO_LENGTH_ARRAYS + (1) DEL the buggy statement, + √ (2) Replace NullLiteral with an empty array. +SIC_INNER_SHOULD_BE_STATIC_ANON + (1) DEL a parameter of a ClassInstanceCreation in an AnonymousClassDeclaration, + (2) DEL the statement contains an AnonymousClassDeclaration, + √ (3) Replace the AnonymousClassDeclaration with an defined Static Object of this class. +DLS_DEAD_LOCAL_STORE + (1) DEL the buggy statement. +DM_DEFAULT_ENCODING + √ (1) ADD a parameter (i.e., "UTF-8") into the ClassInstanceCreation of a Stream object. + (2) Replace ClassInstanceCreation with a MethodInvocation. + (3) DEL the buggy statement. +BC_UNCONFIRMED_CAST + (1) DEL the buggy statement, + (2) DEL the Cast Type, + (3) Replace CastExpression with NullLiteral. +URF_UNREAD_PUBLIC_OR_PROTECTED_FIELD + (1) ADD a ``final'' modifier, + √ (2) DEL the buggy statement. +RV_RETURN_VALUE_IGNORED_BAD_PRACTICE + (1) Replace boolean-returned statement with a a new MethodInvocation. + √ (2) ADD an IfStatement. +EI_EXPOSE_REP + (1) DEL the buggy statement, + * (2) Replace the being assigned Expression with a ConditionalExpression. + √ (3) Replace the Expression being assigned with other Expression +EI_EXPOSE_REP2 + (1) DEL the buggy statement, + * (2) Replace the being assigned Expression with a ConditionalExpression. + √ (3) Replace the being assigned Expression with other Expression. + +===================================== +==========Null Fix Patterns========== +===================================== +UWF_FIELD_NOT_INITIALIZED_IN_CONSTRUCTOR null. +OBL_UNSATISFIED_OBLIGATION null. +OS_OPEN_STREAM_EXCEPTION_PATH null. +SF_SWITCH_NO_DEFAULT null. +UWF_UNWRITTEN_FIELD null. +IS2_INCONSISTENT_SYNC null. +ODR_OPEN_DATABASE_RESOURCE null. +SQL_PREPARED_STATEMENT_GENERATED_FROM_NONCONSTANT_STRING null. +OBL_UNSATISFIED_OBLIGATION_EXCEPTION_EDGE null. +OS_OPEN_STREAM null. +NP_PARAMETER_MUST_BE_NONNULL_BUT_MARKED_AS_NULLABLE null. + +===================================== +========Useless Fix Patterns========= +===================================== +BC_UNCONFIRMED_CAST_OF_RETURN_VALUE + (1) UPD T1 v1 = (T1) method_invocation() with T2 v1 = method_invocation(), + (2) DEL the buggy statement, + (3) Replace the buggy CastExpresion with a MethodInvocation. +ST_WRITE_TO_STATIC_FROM_INSTANCE_METHOD + (1) DEL the buggy statement. +RCN_REDUNDANT_NULLCHECK_WOULD_HAVE_BEEN_A_NPE + (1) ADD a Null-check statement or expression. diff --git a/Dataset/Patterns/Source-Code-Patterns-Unfixed-Violations b/Dataset/Patterns/Source-Code-Patterns-Unfixed-Violations new file mode 100644 index 0000000..a748015 --- /dev/null +++ b/Dataset/Patterns/Source-Code-Patterns-Unfixed-Violations @@ -0,0 +1,107 @@ +================================ +=========Single Pattern========= +================================ +SIC_INNER_SHOULD_BE_STATIC_ANON: new Type() { override some methods(...){...} }. Anonymous inner class declaration. 100% +DE_MIGHT_IGNORE: try{...} catch (Exception e) {...}, Exception is not any specified. +VA_FORMAT_STRING_USES_NEWLINE: "\n", this new line symbol is in a StringLiteral of a format method. +UCF_USELESS_CONTROL_FLOW: if (conditional expression) {empty statements.}. +UC_USELESS_CONDITION: if (conditional expressions) {...}. +UC_USELESS_OBJECT: T1 v1 = new T1(). +PZLA_PREFER_ZERO_LENGTH_ARRAYS: return null. +EI_EXPOSE_REP: return variable; +REC_CATCH_EXCEPTION: try{...} catch (Exception e) {...}, Exception is not any specific exception. +SF_SWITCH_NO_DEFAULT: switch(exp) {case1:...case2:...}, without default statement. +UWF_UNWRITTEN_FIELD: return exp / variable. +SBSC_USE_STRINGBUFFER_CONCATENATION: stringVariable += stringExp, +RV_RETURN_VALUE_IGNORED_NO_SIDE_EFFECT: return method_invocation_exp. Method invocation statement returns a value, but does not assign the value to any variable. (High false positives.) +NP_NONNULL_RETURN_VIOLATION: return null. (High false positives.) +================================ +========Multiple Patterns======= +================================ +NP_NULL_ON_SOME_PATH_FROM_RETURN_VALUE: (1) for (File file : filesArray) {...} (2) for (int i =0; i < filesArray.length; i ++) {...} +DM_CONVERT_CASE: (1) stringExp.toLowerCase(), 24,897 + (2)stringExp.toUpperCase(). 10,406 +MS_PKGPROTECT: (1) public static final T1 v1 = initializationExp, 2442 + (2) protected static final T1 v1 = initializationExp. 175 + (3) protected static T1 v1 = initializationExp. 158 + (4) public static T1 v1 = initializationExp. 262, other 46 +SIC_INNER_SHOULD_BE_STATIC: (1) this.v1 = v2; 590 + (2) v1 = v2; 170 + (3) super(...). 213 +BC_UNCONFIRMED_CAST: (1) T1 v1 = (T(1) v2/exp, (2) v1 = (T(1) v2/exp, (3) ((T(1) v2).exp. +ES_COMPARING_STRINGS_WITH_EQ: (1) stringExp1 == stringExp2 IfStatement, ReturnStatement, WhileStatement. + (2) stringExp1 != stringExp2 +RCN_REDUNDANT_NULLCHECK_OF_NONNULL_VALUE: (1) if (exp == null ...) {...}, + (2) if (exp != null ...) {...}, + (3) exp == null ? exp1 : exp2, + (4) exp != null ? exp1 : exp2. +DM_NUMBER_CTOR: (1) new Long(...), (2)new Integer(...), (3)new Short(...), (4)new Byte(...), (5)new Char(...). +DM_FP_NUMBER_CTOR: (1) new Double(exp), (2)new Float(exp). +DM_BOXED_PRIMITIVE_FOR_PARSING: (1) Integer.valueOf(str), (2)Long.valueOf(str). Comments: it contains fewer patterns than findbugs. +EI_EXPOSE_REP2: (1) this.v1 = v2, + (2) v1 = v2. 3700 +BC_UNCONFIRMED_CAST_OF_RETURN_VALUE: (1) T1 v1 = (T) method_invocation(), + (2) v1 = (T) method_invocation(), + (3) ((T) method_invocation()).exp. +ST_WRITE_TO_STATIC_FROM_INSTANCE_METHOD: (1) static_v1 = instance_exp1.method_invocation(), + (2) v1 = instance_exp1.method_invocation(), + (3) v1 = exp1, other variable assignment statement. +RV_RETURN_VALUE_IGNORED_BAD_PRACTICE: (1) File.mkdirs(), + (2) File.mkdir(), + (3) File.delete(), + (4) File.createNewFile(), + (5) other exp.method_invoation() returns a value. +SQL_PREPARED_STATEMENT_GENERATED_FROM_NONCONSTANT_STRING: (1) sqlExecutionStatement = StringLiteral1 + stringV1 + ... + StringLiteral2 + stringV2. + (2) sqlRelatedVariable = sqlRelatedMethodInvocation(); +OS_OPEN_STREAM: (1) StreamType v = new StreamType(...), 2) streamVariable = new StreamType(new StreamType2(...)), e.g., 1. FileOutputStream fos = new FileOutputStream(outFile); +DM_DEFAULT_ENCODING: (1) new BufferedReader(new InputStreamReader(input)), 99+ + (2) new StreamWriter(output); + (3) stringExp.getBytes(), + (4) new String(byteExp), + (5) byteExp.toString(). +ODR_OPEN_DATABASE_RESOURCE: (1) conn.createStatement(), + (2) conn.createStatement.execute(...), + (3) PreparedStatement st = conn.prepareStatement(), + (4) DataBaseConnection conn = exp.getConnection(...). +NP_PARAMETER_MUST_BE_NONNULL_BUT_MARKED_AS_NULLABLE: (1) return method_invocation(...), 2) return class_instance_creation(...). +======================================== +==========Inefficient Patterns========== +======================================== +OBL_UNSATISFIED_OBLIGATION: (1) StreamType v = new StreamType(...), + (2) streamVariable = new StreamType(new StreamType2(...)), + (3) sqlStatementExp.executeMethod(). e.g., 1. FileOutputStream fos = new FileOutputStream(outFile); 2. ResultSet rs = sqlStmt.executeQuery(). +OS_OPEN_STREAM_EXCEPTION_PATH: (1) StreamType v = new StreamType(...), + (2) streamVariable = new StreamType(...). +IS2_INCONSISTENT_SYNC: (1) return v1, + (2) if(conditionalExp) {...}, + (3) sqlStmt = stringLiteral1 + stringExp + stringLiteral2. not very consistent. +OBL_UNSATISFIED_OBLIGATION_EXCEPTION_EDGE: (1) StreamType v = new StreamType(...), + (2) streamVariable = new StreamType(new StreamType2(...)), + (3) sqlStatementExp.executeMethod(). e.g., 1. FileOutputStream fos = new FileOutputStream(outFile); 2. ResultSet rs = sqlStmt.executeQuery(). +WMI_WRONG_MAP_ITERATOR: for statement { ... MapVariable.get(keyExp) ... }. or NULL. Lack of enough information. +======================================== +=====Redundant Inconsistent Pattern===== +======================================== +MS_SHOULD_BE_FINAL: (1) public (28,302) static T1 v1 = exp. e.g., public static int maxStringLength = 65535. + (2) protected (6,719) static T1 v1 = exp. +URF_UNREAD_FIELD: (1) this.v1 = v2, (2)this.v1 = new T(), (3)private Type v = exp. Comments: it contains more patterns than findbugs. only pattern 3 is consistent. +URF_UNREAD_PUBLIC_OR_PROTECTED_FIELD: (1) this.v1 = v2, + (2) public/protected (static) T1 v1 = exp; Comments: only 2 is consistent. + (3) v1 = exp1. +======================================== +=========Inconsistent Patterns========= +======================================== +RI_REDUNDANT_INTERFACES: super(...). Comments: not very consistent. Locate on the position of super classes. +======================================== +==============Null Pattern============== +======================================== +===========Inaccurate Position========== +NM_METHOD_NAMING_CONVENTION: null. Comments: violate on title, but position locates on body. +SE_NO_SERIALVERSIONID: null. +UPM_UNCALLED_PRIVATE_METHOD: null. (method body) +UWF_FIELD_NOT_INITIALIZED_IN_CONSTRUCTOR: null. inaccurate positions. +==========Specific Source Code========== +DLS_DEAD_LOCAL_STORE: null. Variable assignment statements. Comments: specific source code. +NP_NULL_ON_SOME_PATH: null. +NP_LOAD_OF_KNOWN_NULL_VALUE: null. +RCN_REDUNDANT_NULLCHECK_WOULD_HAVE_BEEN_A_NPE: null. diff --git a/Dataset/a.txt b/Dataset/a.txt deleted file mode 100644 index 3f5e8ad..0000000 --- a/Dataset/a.txt +++ /dev/null @@ -1,2518 +0,0 @@ -vi renepickhardt-generalized-language-modeling-toolkit_501d3c_b72164src#main#java#de#glmtk#options#QueryModeFilesOption.txt - : 37 : 39 -vi forcedotcom-phoenix_7f2b08_df0a4dsrc#main#java#com#salesforce#phoenix#flume#serializer#RegexEventSerializer.txt - : 82 : 155 -vi forcedotcom-phoenix_7f2b08_df0a4dsrc#main#java#com#salesforce#phoenix#flume#serializer#RegexEventSerializer.txt - : 82 : 155 -vi forcedotcom-phoenix_7f2b08_df0a4dsrc#main#java#com#salesforce#phoenix#flume#serializer#RegexEventSerializer.txt - : 82 : 155 -vi code4craft-webmagic_b21e20_8c33bewebmagic-core#src#main#java#us#codecraft#webmagic#downloader#HttpClientDownloader.txt - : 134 : 144 -vi LEDS-sincap-entities_b0bc66_50e599src#main#java#br#ifes#leds#sincap#gerenciaNotificacao#cln#util#dataFactory#DataFactoryMain.txt - : 37 : 66 -vi LEDS-sincap-entities_b0bc66_50e599src#main#java#br#ifes#leds#sincap#gerenciaNotificacao#cln#util#dataFactory#DataFactoryMain.txt - : 37 : 66 -vi LEDS-sincap-entities_b0bc66_50e599src#main#java#br#ifes#leds#sincap#gerenciaNotificacao#cln#util#dataFactory#DataFactoryMain.txt - : 32 : 66 -vi LEDS-sincap-entities_b0bc66_50e599src#main#java#br#ifes#leds#sincap#gerenciaNotificacao#cln#util#dataFactory#DataFactoryMain.txt - : 32 : 66 -vi LEDS-sincap-entities_b0bc66_50e599src#main#java#br#ifes#leds#sincap#gerenciaNotificacao#cln#util#dataFactory#DataFactoryMain.txt - : 30 : 66 -vi LEDS-sincap-entities_b0bc66_50e599src#main#java#br#ifes#leds#sincap#gerenciaNotificacao#cln#util#dataFactory#DataFactoryMain.txt - : 30 : 66 -vi perfectsense-dari_443eec_1133bcutil#src#main#java#com#psddev#dari#util#HtmlGrid.txt - : 68 : 119 -vi arjovanramshorst-bubble-bobble-sem_aaa245_8b5cb3core#src#main#java#sem#group15#bubblebobble#core#objects#PlayerObject.txt - : 41 : 46 -vi simon-eastwood-DependencyCheckCM_804e48_240ab0src#main#java#org#codesecure#dependencycheck#data#cpe#Index.txt - : 271 : 287 -vi simon-eastwood-DependencyCheckCM_804e48_240ab0src#main#java#org#codesecure#dependencycheck#data#cpe#Index.txt - : 271 : 287 -vi apache-commons-codec_114830_1a3a1bsrc#main#java#org#apache#commons#codec#binary#Base64.txt - : 337 : 391 -vi apache-commons-codec_114830_1a3a1bsrc#main#java#org#apache#commons#codec#binary#Base64.txt - : 337 : 391 -vi jcabi-jcabi-github_b0b882_f8f107src#main#java#com#jcabi#github#mock#MkOrganizations.txt - : 116 : 141 -vi Bukkit-Bukkit_98d6a3_d5fdc4src#main#java#org#bukkit#plugin#java#JavaPluginLoader.txt - : 122 : 184 -vi Bukkit-Bukkit_98d6a3_d5fdc4src#main#java#org#bukkit#plugin#java#JavaPluginLoader.txt - : 122 : 184 -vi greese-dasein-cloud-core_043c84_a491a6src#main#java#org#dasein#cloud#network#NetworkInterface.txt - : 53 : 58 -vi greese-dasein-cloud-core_043c84_a491a6src#main#java#org#dasein#cloud#network#NetworkInterface.txt - : 52 : 58 -vi greese-dasein-cloud-core_043c84_a491a6src#main#java#org#dasein#cloud#network#NetworkInterface.txt - : 52 : 58 -vi greese-dasein-cloud-core_043c84_a491a6src#main#java#org#dasein#cloud#network#NetworkInterface.txt - : 53 : 58 -vi relayrides-pushy_219812_9747d7src#main#java#com#relayrides#pushy#apns#ApnsConnection.txt - : 135 : 139 -vi EngineHub-CommandHelper_1fc018_2ed314src#main#java#com#laytonsmith#core#functions#BasicLogic.txt - : 2514 : 2515 -vi perfectsense-dari_ddc6eb_6233bfutil#src#main#java#com#psddev#dari#util#HtmlGrid.txt - : 68 : 119 -vi karamelchef-karamel_d8c349_8b52f3karamel-core#src#main#java#se#kth#karamel#backend#ClusterManager.txt - : 209 : 235 -vi forcedotcom-phoenix_170471_21ed44src#main#java#com#salesforce#phoenix#util#CSVLoader.txt - : 99 : 148 -vi forcedotcom-phoenix_170471_21ed44src#main#java#com#salesforce#phoenix#util#CSVLoader.txt - : 99 : 148 -vi jbossas-jboss-ejb-client_fd7126_7a8879src#main#java#org#jboss#ejb#client#remoting#ConfigBasedEJBClientContextSelector.txt - : 100 : 125 -vi jbossas-jboss-ejb-client_fd7126_7a8879src#main#java#org#jboss#ejb#client#remoting#ConfigBasedEJBClientContextSelector.txt - 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: 295 : 311 -vi kohsuke-github-api_9d9154_dd6179src#main#java#org#kohsuke#github#Requester.txt - : 295 : 311 -vi GenomicParisCentre-eoulsan_97c6a4_cc0eb8src#main#java#fr#ens#transcriptome#eoulsan#steps#expression#hadoop#ExpressionHadoopStep.txt - : 496 : 558 -vi jensnerche-plantuml_2d958a_ff8f32src#net#sourceforge#plantuml#command#note#FactoryTipOnEntityCommand.txt - : 115 : 161 -vi Poweruser-MinetickMod_6b3b10_9014fasrc#main#java#de#minetick#PlayerChunkManager.txt - : 112 : 193 -vi FIWARE-Middleware-KIARA_8f0f3d_a24398src#main#java#org#fiware#kiara#ps#rtps#messages#MessageReceiver.txt - : 578 : 623 -vi FIWARE-Middleware-KIARA_8f0f3d_a24398src#main#java#org#fiware#kiara#ps#rtps#messages#MessageReceiver.txt - : 578 : 623 -vi FIWARE-Middleware-KIARA_8f0f3d_a24398src#main#java#org#fiware#kiara#ps#rtps#messages#MessageReceiver.txt - : 578 : 623 -vi FIWARE-Middleware-KIARA_8f0f3d_a24398src#main#java#org#fiware#kiara#ps#rtps#messages#MessageReceiver.txt - : 578 : 623 -vi JolantaWojcik-biojavaOwn_b34fc0_c15f55biojava3-aa-prop#src#main#java#org#biojava3#aaproperties#PeptidePropertiesImpl.txt - : 74 : 79 -vi lsds-SEEP_6c9790_4b1cc1src#main#java#uk#ac#imperial#lsds#seep#Main.txt - : 42 : 63 -vi lsds-SEEP_6c9790_4b1cc1src#main#java#uk#ac#imperial#lsds#seep#Main.txt - : 42 : 63 -vi lsds-SEEP_6c9790_4b1cc1src#main#java#uk#ac#imperial#lsds#seep#Main.txt - : 43 : 63 -vi lsds-SEEP_6c9790_4b1cc1src#main#java#uk#ac#imperial#lsds#seep#Main.txt - : 43 : 63 -vi ClemsonRSRG-RESOLVE_769dc8_546b3fsrc#main#java#edu#clemson#cs#r2jt#rewriteprover#absyn#PSymbol.txt - : 737 : 770 -vi ClemsonRSRG-RESOLVE_769dc8_546b3fsrc#main#java#edu#clemson#cs#r2jt#rewriteprover#absyn#PSymbol.txt - : 737 : 770 -vi ClemsonRSRG-RESOLVE_769dc8_546b3fsrc#main#java#edu#clemson#cs#r2jt#rewriteprover#absyn#PSymbol.txt - : 741 : 770 -vi ClemsonRSRG-RESOLVE_769dc8_546b3fsrc#main#java#edu#clemson#cs#r2jt#rewriteprover#absyn#PSymbol.txt - : 741 : 770 -vi ClemsonRSRG-RESOLVE_ad0919_7b2a00src#main#java#edu#clemson#cs#r2jt#init2#ResolveCompiler.txt - : 379 : 421 -vi ClemsonRSRG-RESOLVE_ad0919_7b2a00src#main#java#edu#clemson#cs#r2jt#init2#ResolveCompiler.txt - : 379 : 421 -vi PerfCake-PerfCake_d8b86e_d20157src#main#java#org#perfcake#message#sender#CommandSender.txt - : 140 : 142 -vi PerfCake-PerfCake_d8b86e_d20157src#main#java#org#perfcake#message#sender#CommandSender.txt - : 141 : 142 -vi apache-directory-shared_144d39_7e36adldap-ldif#src#main#java#org#apache#directory#shared#ldap#ldif#LdifEntry.txt - : 676 : 824 -vi swagger-api-swagger-core_d588f9_ee0b63modules#swagger-models#src#main#java#com#wordnik#swagger#models#properties#PropertyBuilder.txt - : 19 : 121 -vi swagger-api-swagger-core_d588f9_ee0b63modules#swagger-models#src#main#java#com#wordnik#swagger#models#properties#PropertyBuilder.txt - : 19 : 121 -vi swagger-api-swagger-core_d588f9_ee0b63modules#swagger-models#src#main#java#com#wordnik#swagger#models#properties#PropertyBuilder.txt - : 19 : 121 -vi swagger-api-swagger-core_d588f9_ee0b63modules#swagger-models#src#main#java#com#wordnik#swagger#models#properties#PropertyBuilder.txt - : 19 : 121 -vi niyue-coding_557f95_9d7bc1src#main#java#com#niyue#coding#leetcode#flattenbinarytree#Solution.txt - : 17 : 49 -vi imagej-imagej-legacy_93a180_ddd4dbsrc#main#java#net#imagej#legacy#ui#LegacyUI.txt - : 86 : 87 -vi imagej-imagej-legacy_93a180_ddd4dbsrc#main#java#net#imagej#legacy#ui#LegacyUI.txt - : 86 : 87 -vi cismet-cismet-gui-commons_81aff1_319482src#main#java#de#cismet#tools#gui#downloadmanager#DownloadManager.txt - : 341 : 381 -vi nodebox-nodebox_cecb5b_5b3e34src#main#java#nodebox#client#NodeBoxDocument.txt - : 1077 : 1120 -vi nodebox-nodebox_cecb5b_5b3e34src#main#java#nodebox#client#NodeBoxDocument.txt - : 1077 : 1120 -vi rapla-rapla_1488ce_a7520csrc#main#java#org#rapla#components#i18n#I18nLocaleLoadUtil.txt - : 15 : 36 -vi slipcor-pvparena_5fe045_6b83c4src#net#slipcor#pvparena#arena#Arena.txt - : 1532 : 1562 -vi apache-wss4j_b98c4d_8be7b6src#main#java#org#apache#ws#security#processor#EncryptedKeyProcessor.txt - : 191 : 250 -vi belaban-JGroups_d94ba1_3f5084src#org#jgroups#util#PropertiesToXML.txt - : 176 : 202 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - 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: 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 -vi ClemsonRSRG-RESOLVE_80b1dc_0392e4src#main#java#edu#clemson#cs#r2jt#verification#Verifier.txt - : 6300 : 6801 diff --git a/src/main/java/edu/lu/uni/serval/FixPatternParser/violations/FixedViolationHunkParser.java b/src/main/java/edu/lu/uni/serval/FixPatternParser/violations/FixedViolationHunkParser.java index 32f3bb3..156e1fe 100644 --- a/src/main/java/edu/lu/uni/serval/FixPatternParser/violations/FixedViolationHunkParser.java +++ b/src/main/java/edu/lu/uni/serval/FixPatternParser/violations/FixedViolationHunkParser.java @@ -6,6 +6,8 @@ import java.io.IOException; import java.io.StringReader; import java.util.ArrayList; import java.util.List; +import java.util.Map; +import java.util.TreeMap; import com.github.gumtreediff.tree.ITree; @@ -272,7 +274,6 @@ public class FixedViolationHunkParser extends FixedViolationParser { } } } - if (children.size() == 0) { List hunkActionSets = violation.getActionSets(); /* diff --git a/src/main/java/edu/lu/uni/serval/MultipleThreadsParser3/AkkaParser.java b/src/main/java/edu/lu/uni/serval/MultipleThreadsParser3/AkkaParser.java index 91d5db1..40a8917 100644 --- a/src/main/java/edu/lu/uni/serval/MultipleThreadsParser3/AkkaParser.java +++ b/src/main/java/edu/lu/uni/serval/MultipleThreadsParser3/AkkaParser.java @@ -32,28 +32,31 @@ public class AkkaParser { for (File violationT : violationTypes) { if (violationT.isDirectory()) { violationType = violationT.getName(); - if (!violationType.equals("SF_SWITCH_NO_DEFAULT")) continue; - // input data - log.info("Get the input data..."); - final List msgFiles = getMessageFiles(Configuration.GUM_TREE_INPUT, violationType); - log.info("MessageFiles: " + msgFiles.size()); - - // output path - final String sourceCodeFilesPath = Configuration.ROOT_PATH + "UnfixedViolations_RQ3/" + violationType + "/"; - FileHelper.deleteDirectory(sourceCodeFilesPath); + if (//violationType.equals("SF_SWITCH_NO_DEFAULT") || +// violationType.equals("SE_NO_SERIALVERSIONID") || + violationType.equals("DM_DEFAULT_ENCODING")) { + // input data + log.info("Get the input data..."); + final List msgFiles = getMessageFiles(Configuration.GUM_TREE_INPUT, violationType); + log.info("MessageFiles: " + msgFiles.size()); + + // output path + final String sourceCodeFilesPath = Configuration.ROOT_PATH + "UnfixedViolations_RQ3/" + violationType + "/"; + FileHelper.deleteDirectory(sourceCodeFilesPath); - ActorSystem system = null; - ActorRef parsingActor = null; - int numberOfWorkers = 200; - final WorkMessage msg = new WorkMessage(0, msgFiles); - try { - log.info("Akka begins..."); - system = ActorSystem.create("Mining-Pattern-System-" + violationType); - parsingActor = system.actorOf(ParseFixPatternActor.props(numberOfWorkers, sourceCodeFilesPath, violationType), "mine-pattern-actor-" + violationType); - parsingActor.tell(msg, ActorRef.noSender()); - } catch (Exception e) { - system.shutdown(); - e.printStackTrace(); + ActorSystem system = null; + ActorRef parsingActor = null; + int numberOfWorkers = 200; + final WorkMessage msg = new WorkMessage(0, msgFiles); + try { + log.info("Akka begins..."); + system = ActorSystem.create("Mining-Pattern-System-" + violationType); + parsingActor = system.actorOf(ParseFixPatternActor.props(numberOfWorkers, sourceCodeFilesPath, violationType), "mine-pattern-actor-" + violationType); + parsingActor.tell(msg, ActorRef.noSender()); + } catch (Exception e) { + system.shutdown(); + e.printStackTrace(); + } } } } diff --git a/src/main/java/edu/lu/uni/serval/bugLocalization/BuggyTreeParser.java b/src/main/java/edu/lu/uni/serval/bugLocalization/BuggyTreeParser.java deleted file mode 100644 index 6cda3c8..0000000 --- a/src/main/java/edu/lu/uni/serval/bugLocalization/BuggyTreeParser.java +++ /dev/null @@ -1,108 +0,0 @@ -package edu.lu.uni.serval.bugLocalization; - -import java.io.BufferedReader; -import java.io.File; -import java.io.IOException; -import java.io.StringReader; -import java.util.ArrayList; -import java.util.List; - -import com.github.gumtreediff.tree.ITree; - -import edu.lu.uni.serval.FixPatternParser.Tokenizer; -import edu.lu.uni.serval.config.Configuration; -import edu.lu.uni.serval.gumtree.regroup.SimpleTree; -import edu.lu.uni.serval.gumtree.regroup.SimplifyTree; -import edu.lu.uni.serval.utils.FileHelper; -import edu.lu.uni.serval.violation.code.parser.ViolationSourceCodeTree; - -/** - * - * Testing data - * localized bugs by FindBugs. - * Use their java file, use GumTree to parse it, simplify the buggy code. - * get all buggy code tokens. - * - * training data - * - * - * Word2Vec embeds data. - * - * - * @author kui.liu - * - */ -public class BuggyTreeParser { - - public static void main(String[] args) { - List data = readInfo("Dataset/localized-violations1.list"); - StringBuilder bugTokens = new StringBuilder(); - int i = 0; - for (String bug : data) { - i ++; - String[] info = bug.split(" : "); - String bugId = info[0].trim(); - String fileName = info[2].trim(); - int startLine = Integer.parseInt(info[3].trim()); - int endLine = Integer.parseInt(info[4].trim()); - - bugId = bugId.substring(0, bugId.lastIndexOf(".")); - String[] bugIdInfo = bugId.split("_"); - String projectName = bugIdInfo[0]; - String bugIdSt = bugIdInfo[1]; - String path = "../FPM_Violations/Testing/projects/" + projectName + "/" + bugIdSt + "/buggy/"; - if ("Chart".equals(projectName)) { - path += "source/"; - } else { - path += "src/"; - } - List javaFiles = FileHelper.getAllFiles(path, ".java"); - for (File javaFile : javaFiles) { - if (javaFile.getPath().endsWith(fileName)) { - - ViolationSourceCodeTree alarmTree = new ViolationSourceCodeTree(javaFile, startLine, endLine); - alarmTree.extract(); - List matchedTrees = alarmTree.getViolationSourceCodeTrees(); - SimpleTree simpleTree = new SimpleTree(); - simpleTree.setLabel("Block"); - simpleTree.setNodeType("Block"); - List children = new ArrayList<>(); - - for (ITree matchedTree : matchedTrees) { - SimpleTree simpleT = new SimplifyTree().canonicalizeSourceCodeTree(matchedTree, null); - children.add(simpleT); - } - simpleTree.setChildren(children); - - String tokens = Tokenizer.getTokensDeepFirst(simpleTree); - bugTokens.append(tokens + "\n"); - System.out.println(i + "### " + tokens); - } - } - } - - FileHelper.outputToFile(Configuration.EMBEDDING_DATA_TOKENS2, bugTokens, false); - } - - private static List readInfo(String file) { - List info = new ArrayList<>(); - String content = FileHelper.readFile(file); - BufferedReader reader = new BufferedReader(new StringReader(content)); - String line = null; - try { - while ((line = reader.readLine()) != null) { - info.add(line); - } - } catch (IOException e) { - e.printStackTrace(); - } finally { - try { - reader.close(); - } catch (IOException e) { - e.printStackTrace(); - } - } - return info; - } - -} diff --git a/src/main/java/edu/lu/uni/serval/bugLocalization/FixedAlarms.java b/src/main/java/edu/lu/uni/serval/bugLocalization/FixedAlarms.java deleted file mode 100644 index 9d9994c..0000000 --- a/src/main/java/edu/lu/uni/serval/bugLocalization/FixedAlarms.java +++ /dev/null @@ -1,100 +0,0 @@ -package edu.lu.uni.serval.bugLocalization; - -import java.io.File; -import java.io.FileInputStream; -import java.io.FileNotFoundException; -import java.io.IOException; -import java.util.HashMap; -import java.util.Map; -import java.util.Scanner; - -import edu.lu.uni.serval.config.Configuration; -import edu.lu.uni.serval.utils.Exporter; -import edu.lu.uni.serval.utils.FileHelper; -import edu.lu.uni.serval.utils.MapSorter; - -public class FixedAlarms { - /** - * -unfixed alarms -321403 -5336 -MaxLength: 1508 - * @param args - */ - - public static void main(String[] args) { - String fileName = "unfixedAlarms"; - String tokensFile = Configuration.ROOT_PATH + "Alarms_tokens/" + fileName + ".list"; // MaxLength: 1508 - FileHelper.deleteFile(Configuration.ROOT_PATH + "Alarms_tokens/" + fileName + "Tokens.list"); - - int maxLength = 0; - StringBuilder tokensBuilder = new StringBuilder(); - StringBuilder sizesBuilder = new StringBuilder(); - Map alarmTypes = new HashMap<>(); - FileInputStream fis = null; - Scanner scanner = null; - int counter = 0; - try { - fis = new FileInputStream(tokensFile); - scanner = new Scanner(fis); - - while (scanner.hasNextLine()) { - String line = scanner.nextLine(); - int colonIndex = line.indexOf(":"); - String alarmType = line.substring(0, colonIndex); - if (alarmTypes.containsKey(alarmType)) { - alarmTypes.put(alarmType, alarmTypes.get(alarmType) + 1); - } else { - alarmTypes.put(alarmType, 1); - } - - line = line.substring(colonIndex + 1); - colonIndex = line.indexOf(":"); - String violationFileName = line.substring(0, colonIndex); - line = line.substring(colonIndex + 1); - colonIndex = line.indexOf(":"); - String startLine = line.substring(0, colonIndex); - line = line.substring(colonIndex + 1); - colonIndex = line.indexOf(":"); - String endLine = line.substring(0, colonIndex); - - String tokens = line.substring(colonIndex + 1); - String[] tokensArray = tokens.split(" "); - int length = tokensArray.length; - if (length > maxLength) maxLength = length; - tokensBuilder.append(tokens + "\n"); - sizesBuilder.append(length + "\n"); - - if (++ counter % 5000 == 0) { - FileHelper.outputToFile(Configuration.ROOT_PATH + "Alarms_tokens/" + fileName + "Tokens.list", tokensBuilder, true); - tokensBuilder.setLength(0); - } - } - } catch (FileNotFoundException e) { - e.printStackTrace(); - } finally { - try { - scanner.close(); - fis.close(); - } catch (IOException e) { - e.printStackTrace(); - } - } - - System.out.println("MaxLength: " + maxLength); - FileHelper.outputToFile(Configuration.ROOT_PATH + "Alarms_tokens/" + fileName + "Tokens.list", tokensBuilder, true); - tokensBuilder.setLength(0); - FileHelper.outputToFile(Configuration.ROOT_PATH + "Alarms_tokens/" + fileName + "TokenSizes.csv", sizesBuilder, false); - MapSorter sorter = new MapSorter(); - alarmTypes = sorter.sortByKeyAscending(alarmTypes); - String[] columns = { "Alarm Type", "amount" }; - Exporter.exportOutliers(alarmTypes, new File(Configuration.ROOT_PATH + "Alarms_tokens/" + fileName + "TokenTypes.xls"), 1, columns); -// String s = ""; -// for (Map.Entry entry : alarmTypes.entrySet()) { -// s += entry.getKey() + " : " + entry.getValue() + "\n"; -// -// } -// FileHelper.outputToFile(Configuration.ROOT_PATH + "Alarms_tokens/fixedAlarmTypesAmount.list", s, false); - } -} diff --git a/src/main/java/edu/lu/uni/serval/bugLocalization/ProjectScanner.java b/src/main/java/edu/lu/uni/serval/bugLocalization/ProjectScanner.java deleted file mode 100644 index 529b1b1..0000000 --- a/src/main/java/edu/lu/uni/serval/bugLocalization/ProjectScanner.java +++ /dev/null @@ -1,195 +0,0 @@ -package edu.lu.uni.serval.bugLocalization; - -import java.io.File; -import java.util.ArrayList; -import java.util.List; - -import org.eclipse.jdt.core.dom.CompilationUnit; - -import com.github.gumtreediff.tree.ITree; - -import edu.lu.uni.serval.FixPattern.utils.ASTNodeMap; -import edu.lu.uni.serval.FixPattern.utils.Checker; -import edu.lu.uni.serval.FixPatternParser.CUCreator; -import edu.lu.uni.serval.FixPatternParser.Tokenizer; -import edu.lu.uni.serval.config.Configuration; -import edu.lu.uni.serval.gumtree.GumTreeGenerator; -import edu.lu.uni.serval.gumtree.GumTreeGenerator.GumTreeType; -import edu.lu.uni.serval.gumtree.regroup.SimpleTree; -import edu.lu.uni.serval.gumtree.regroup.SimplifyTree; -import edu.lu.uni.serval.utils.FileHelper; - -/** - * Scan the whole java project. - * Get the source code tokens of all statements. - * - * @author kui.liu - * - */ -public class ProjectScanner { - - private int maxSize; - private int numberOfFiles; - private List allSimpleTrees = null; - - private StringBuilder tokensBuilder; - private StringBuilder localizationsBuilder; - private int counter; - - public ProjectScanner() { - maxSize = Integer.parseInt(FileHelper.readFile(Configuration.MAX_TOKEN_VECTORS_SIZE_OF_SOURCE_CODE)); - numberOfFiles = 0; - tokensBuilder = new StringBuilder(); - localizationsBuilder = new StringBuilder(); - counter = 0; - } - - public void scanJavaProject(File[] projects, String outputLocalizeFile, String outputTokensFile, int limitation) { - for (File project : projects) { - scanJavaProject(project, outputLocalizeFile, outputTokensFile, limitation); - } - } - - public void scanJavaProject(File javaProject, String outputLocalizeFile, String outputTokensFile, int limitation) { - List files = new ArrayList<>(); - files.addAll(FileHelper.getAllFiles(javaProject.getPath(), ".java")); - for (File file : files) { - if (file.getPath().toLowerCase().contains("test")) { - continue; // ignore all test-related java files. - } - ITree tree = new GumTreeGenerator().generateITreeForJavaFile(file, GumTreeType.EXP_JDT); - - CUCreator cuCreator = new CUCreator(); - CompilationUnit cUnit = cuCreator.createCompilationUnit(file); - getTokenVectorOfAllStatements(tree, cUnit, javaProject.getPath(), file.getPath(), outputLocalizeFile, outputTokensFile, limitation); - } - - if (localizationsBuilder.length() > 0) { - numberOfFiles ++; - FileHelper.outputToFile(outputLocalizeFile + "Positions_" + numberOfFiles + ".list", localizationsBuilder, true); - FileHelper.outputToFile(outputTokensFile + "Tokens_" + numberOfFiles + ".list", tokensBuilder, true); - localizationsBuilder.setLength(0); - tokensBuilder.setLength(0); - } - } - - private void getTokenVectorOfAllStatements(ITree tree, CompilationUnit unit, String projectName, String filePath, String outputLocalizeFile, String outputTokensFile, int limitation) { - String astNodeType = ASTNodeMap.map.get(tree.getType()); //ignore: SwitchCase, SuperConstructorInvocation, ConstructorInvocation - if ((astNodeType.endsWith("Statement") && !astNodeType.equals("TypeDeclarationStatement")) - || astNodeType.equals("FieldDeclaration")) { - List children = new ArrayList<>(); - if (Checker.containsBodyBlock(astNodeType)) { - List childrenList = tree.getChildren(); - for (ITree child : childrenList) { - if (!child.getLabel().endsWith("Body")) { - children.add(child); - } - } - tree.setChildren(children); - } else { - children.addAll(tree.getChildren()); - } - - if (children.size() > 0) { - SimplifyTree simplifier = new SimplifyTree(); - SimpleTree simpleTree = simplifier.canonicalizeSourceCodeTree(tree, null); - // project name: file name: line number - String tokens = Tokenizer.getTokensDeepFirst(simpleTree).trim(); - String[] tokensArray = tokens.split(" "); - - if (tokensArray.length <= maxSize) { - int position = tree.getPos(); - int lineNum = unit.getLineNumber(position); - tokensBuilder.append(tokens).append("\n"); - localizationsBuilder.append(projectName + ":" + filePath + "LineNum:" + lineNum + "\n"); //project name: file name: line number - ++ counter; - - if ( counter % limitation == 0) { - numberOfFiles ++; - FileHelper.outputToFile(outputLocalizeFile + "Positions_" + numberOfFiles + ".list", localizationsBuilder, true); - FileHelper.outputToFile(outputTokensFile + "Tokens_" + numberOfFiles + ".list", tokensBuilder, true); - localizationsBuilder.setLength(0); - tokensBuilder.setLength(0); - } - } - } - } else { - List children = tree.getChildren(); - for (ITree child : children) { - if (astNodeType.endsWith("Name")) continue; - if (Checker.isExpressionType(astNodeType) && !"LambdaExpression".equals(astNodeType)) continue; - - getSimpleTreesOfAllStatements(child); - } - - } - } - - public void getSimpleTreesOfAllStatements(ITree tree) { - String astNodeType = ASTNodeMap.map.get(tree.getType()); //ignore: SwitchCase, SuperConstructorInvocation, ConstructorInvocation - if ((astNodeType.endsWith("Statement") && !astNodeType.equals("TypeDeclarationStatement")) - || astNodeType.equals("FieldDeclaration")) { - SimpleTree simpleTree = new SimpleTree(); - List children = getChildren(tree, astNodeType, simpleTree); - if (children != null) { // Ignore LabeledStatements and TryStatements - simpleTree.setNodeType(astNodeType); - simpleTree.setLabel(astNodeType); - simpleTree.setParent(null); - simpleTree.setChildren(children); - allSimpleTrees.add(simpleTree); - - } - } else { - List children = tree.getChildren(); - for (ITree child : children) { - getSimpleTreesOfAllStatements(child); - } - } - } - - private List getChildren(ITree tree, String astNodeType, SimpleTree parent) { - List children = new ArrayList<>(); - if (Checker.containsBodyBlock(astNodeType)) { - List childrenList = tree.getChildren(); - for (ITree child : childrenList) { - if (!child.getLabel().endsWith("Body")) { - children.add(child); - } - } - } else { - children.addAll(tree.getChildren()); - } - - if (children.size() == 0) { - return null; - } - - List childrenSimpleTrees = new ArrayList<>(); - for (ITree child : children) { - childrenSimpleTrees.add(getSimpleTree(child, parent)); - } - return childrenSimpleTrees; - } - - private SimpleTree getSimpleTree(ITree tree, SimpleTree parent) { - String astNodeType = ASTNodeMap.map.get(tree.getType()); - SimpleTree simpleTree = new SimpleTree(); - simpleTree.setNodeType(astNodeType); - - List children = tree.getChildren(); - if (children.size() > 0) { - List subTrees = new ArrayList<>(); - for (ITree child : children) { - subTrees.add(getSimpleTree(child, simpleTree)); - } - simpleTree.setChildren(subTrees); - simpleTree.setLabel(astNodeType); - } else { - simpleTree.setLabel(tree.getLabel()); - } - - simpleTree.setParent(parent); - return simpleTree; - } - -} diff --git a/src/main/java/edu/lu/uni/serval/bugLocalization/Step8.java b/src/main/java/edu/lu/uni/serval/bugLocalization/Step8.java deleted file mode 100644 index cf88007..0000000 --- a/src/main/java/edu/lu/uni/serval/bugLocalization/Step8.java +++ /dev/null @@ -1,43 +0,0 @@ -package edu.lu.uni.serval.bugLocalization; - -import java.io.File; - -import edu.lu.uni.serval.config.Configuration; -import edu.lu.uni.serval.utils.FileHelper; - -/** - * Prepare testing data for evaluation. - * - * Parse java projects to get the token vectors of all statements. - * - * @author kui.liu - * - */ -public class Step8 { - - public static void main(String[] args) { -// String outputLocalizeFile = Configuration.TEST_POSITION_FILE; -// String outputTokensFile = Configuration.TEST_DATA_FILE; -// FileHelper.deleteDirectory(outputLocalizeFile); -// FileHelper.deleteDirectory(outputTokensFile); -// -// int limitationOfTestingInstances = Integer.parseInt(FileHelper.readFile(Configuration.NUMBER_OF_TRAINING_DATA).trim()) / 10; -// -// File testProjects = new File(Configuration.TEST_INPUT); -// File[] projects = testProjects.listFiles(); -// ProjectScanner scanner = new ProjectScanner(); -// scanner.scanJavaProject(projects, outputLocalizeFile, outputTokensFile, limitationOfTestingInstances); - for (int i = 1; i <= 106; i ++) { - System.out.println("cd ../../" + i + "/buggy"); - System.out.println("mvn package -DskipTests=true"); - System.out.println("mv target/commons-math3-3.3-SNAPSHOT.jar ../../Math" + i + ".jar"); - } - } - -} -/* -cd ../../4/buggy -mvn package -Dmaven.test.skip=true - -mv target/commons-lang3-3.2-SNAPSHOT.jar ../../Lang - */ \ No newline at end of file diff --git a/src/main/java/edu/lu/uni/serval/bugLocalization/test.java b/src/main/java/edu/lu/uni/serval/bugLocalization/test.java deleted file mode 100644 index 0fa1c4a..0000000 --- a/src/main/java/edu/lu/uni/serval/bugLocalization/test.java +++ /dev/null @@ -1,108 +0,0 @@ -package edu.lu.uni.serval.bugLocalization; - -import java.io.BufferedReader; -import java.io.IOException; -import java.io.StringReader; -import java.util.ArrayList; -import java.util.HashMap; -import java.util.List; -import java.util.Map; - -import edu.lu.uni.serval.utils.FileHelper; -import edu.lu.uni.serval.utils.ListSorter; - -public class test { - /* -Alarm Type :UPM_UNCALLED_PRIVATE_METHOD : 13 -Alarm Type :SS_SHOULD_BE_STATIC : 2 -Alarm Type :FE_FLOATING_POINT_EQUALITY : 1 -Alarm Type :UWF_UNWRITTEN_FIELD : 2 -Alarm Type :CN_IDIOM_NO_SUPER_CALL : 1 -Alarm Type :SBSC_USE_STRINGBUFFER_CONCATENATION : 2 -Alarm Type :RV_RETURN_VALUE_IGNORED_NO_SIDE_EFFECT : 2 -Alarm Type :URF_UNREAD_PUBLIC_OR_PROTECTED_FIELD : 15 -Alarm Type :SF_SWITCH_FALLTHROUGH : 1 -Alarm Type :EI_EXPOSE_REP2 : 7 -Alarm Type :REC_CATCH_EXCEPTION : 1 -Alarm Type :MS_MUTABLE_ARRAY : 1 -Alarm Type :FI_MISSING_SUPER_CALL : 1 -Alarm Type :RI_REDUNDANT_INTERFACES : 1 -Alarm Type :RCN_REDUNDANT_NULLCHECK_OF_NONNULL_VALUE : 5 -Alarm Type :DB_DUPLICATE_SWITCH_CLAUSES : 1 -Alarm Type :UCF_USELESS_CONTROL_FLOW : 6 -Alarm Type :NP_DEREFERENCE_OF_READLINE_VALUE : 1 -Alarm Type :RV_RETURN_VALUE_IGNORED_BAD_PRACTICE : 4 -Alarm Type :DLS_DEAD_LOCAL_STORE : 41 -Alarm Type :EI_EXPOSE_REP : 1 -Alarm Type :URF_UNREAD_FIELD : 19 -Alarm Type :ODR_OPEN_DATABASE_RESOURCE : 1 -Alarm Type :DMI_RANDOM_USED_ONLY_ONCE : 1 -Alarm Type :NP_LOAD_OF_KNOWN_NULL_VALUE : 1 -Alarm Type :OBL_UNSATISFIED_OBLIGATION : 1 -Alarm Type :WA_NOT_IN_LOOP : 1 -Alarm Type :MS_SHOULD_BE_FINAL : 3 -Alarm Type :RV_CHECK_FOR_POSITIVE_INDEXOF : 1 -Alarm Type :DM_DEFAULT_ENCODING : 13 -Alarm Type :ODR_OPEN_DATABASE_RESOURCE_EXCEPTION_PATH : 1 -Alarm Type :DM_GC : 1 -Alarm Type :SIC_INNER_SHOULD_BE_STATIC : 3 -Alarm Type :ES_COMPARING_STRINGS_WITH_EQ : 3 -Alarm Type :ICAST_INTEGER_MULTIPLY_CAST_TO_LONG : 1 -Alarm Type :ES_COMPARING_PARAMETER_STRING_WITH_EQ : 3 -Alarm Type :UWF_FIELD_NOT_INITIALIZED_IN_CONSTRUCTOR : 3 -Alarm Type :WMI_WRONG_MAP_ITERATOR : 1 -Alarm Type :BC_UNCONFIRMED_CAST : 1 -Alarm Type :MS_PKGPROTECT : 2 -Alarm Type :SIC_INNER_SHOULD_BE_STATIC_ANON : 3 -Alarm Type :PZLA_PREFER_ZERO_LENGTH_ARRAYS : 2 -Alarm Type :SC_START_IN_CTOR : 1 -Alarm Type :RR_NOT_CHECKED : 4 -Alarm Type :RCN_REDUNDANT_NULLCHECK_WOULD_HAVE_BEEN_A_NPE : 2 -Alarm Type :DM_CONVERT_CASE : 10 -Alarm Type :DE_MIGHT_IGNORE : 1 -Alarm Type :SW_SWING_METHODS_INVOKED_IN_SWING_THREAD : 1 -Alarm Type :ST_WRITE_TO_STATIC_FROM_INSTANCE_METHOD : 14 - */ - - public static void main(String[] args) throws IOException { - String content = FileHelper.readFile("OUTPUT/DEL_INS.list"); - Map map = new HashMap<>(); - BufferedReader reader = new BufferedReader(new StringReader(content)); - String line = null; - StringBuilder singleAlarm = new StringBuilder(); - List alarms = new ArrayList<>(); - while ((line = reader.readLine()) != null) { - if (line.startsWith("Alarm")) { - if (singleAlarm.length() > 0) { - alarms.add(singleAlarm.toString()); - singleAlarm = new StringBuilder(); - } - } - singleAlarm.append(line + "\n"); -// String type = line.trim(); -// -// if (map.containsKey(type)) { -// map.put(type, map.get(type) + 1); -// } else { -// map.put(type, 1); -// } - } - reader.close(); - alarms.add(singleAlarm.toString()); - - ListSorter sorter = new ListSorter(alarms); - alarms = sorter.sortAscending(); - - StringBuilder alarmsBuilder = new StringBuilder(); - for (String a : alarms) { - alarmsBuilder.append(a); - } - FileHelper.outputToFile("OUTPUT/DEL.list", alarmsBuilder, false); - - for (Map.Entry entry : map.entrySet()) { - System.out.println(entry.getKey() + " : " + entry.getValue()); - } - System.out.println(); - } - -} diff --git a/src/main/java/edu/lu/uni/serval/defects4j/Bug.java b/src/main/java/edu/lu/uni/serval/defects4j/Bug.java new file mode 100644 index 0000000..e169ddd --- /dev/null +++ b/src/main/java/edu/lu/uni/serval/defects4j/Bug.java @@ -0,0 +1,43 @@ +package edu.lu.uni.serval.defects4j; + +public class Bug { + private String project; + + private String fileName; + + private int startLine; + + private int endLine; + + private String type; + + public Bug(String project, String fileName, int startLine, int endLine, String type) { + super(); + this.project = project; + this.fileName = fileName; + this.startLine = startLine; + this.endLine = endLine; + this.type = type; + } + + public String getProject() { + return project; + } + + public String getFileName() { + return fileName; + } + + public int getStartLine() { + return startLine; + } + + public int getEndLine() { + return endLine; + } + + public String getType() { + return type; + } + +} diff --git a/src/main/java/edu/lu/uni/serval/defects4j/BugParser.java b/src/main/java/edu/lu/uni/serval/defects4j/BugParser.java new file mode 100644 index 0000000..8a30ee0 --- /dev/null +++ b/src/main/java/edu/lu/uni/serval/defects4j/BugParser.java @@ -0,0 +1,206 @@ +package edu.lu.uni.serval.defects4j; + +import java.io.BufferedReader; +import java.io.File; +import java.io.FileInputStream; +import java.io.FileNotFoundException; +import java.io.IOException; +import java.io.StringReader; +import java.util.ArrayList; +import java.util.List; +import java.util.Scanner; + +import com.github.gumtreediff.tree.ITree; + +import edu.lu.uni.serval.FixPatternParser.Tokenizer; +import edu.lu.uni.serval.config.Configuration; +import edu.lu.uni.serval.gumtree.regroup.SimpleTree; +import edu.lu.uni.serval.gumtree.regroup.SimplifyTree; +import edu.lu.uni.serval.utils.FileHelper; +import edu.lu.uni.serval.violation.code.parser.ViolationSourceCodeTree; + +public class BugParser { + + public static void main(String[] args) throws IOException { + List bugs = new ArrayList<>(); + String bugsFile = "Dataset/Defects4j/Bugs.txt"; + String content = FileHelper.readFile(bugsFile); + BufferedReader reader = new BufferedReader(new StringReader(content)); + String line = null; + + StringBuilder tokensBuilder = new StringBuilder(); + StringBuilder buggyCodeBuilder = new StringBuilder(); + while ((line = reader.readLine()) != null) { + String[] elements = line.split(" : "); + String type = elements[0]; + String project = elements[1]; + project = project.substring(0, project.lastIndexOf(".")); + String fileName = elements[2]; + int startLine = Integer.parseInt(elements[3]); + int endLine = Integer.parseInt(elements[4]); + + Bug bug = new Bug(project, fileName, startLine, endLine, type); + bugs.add(bug); + } + int i = 0; + for (Bug bug : bugs) { + String type = bug.getType(); + String project = bug.getProject(); + String fileName = bug.getFileName(); + int startLine = bug.getStartLine(); + int endLine = bug.getEndLine(); + File buggyFile = null; + + String[] elements = project.split("_"); + if (elements.length < 2) System.out.println(type + "-" + project + "-" + fileName + "-" + startLine + "-" + endLine); + List javaFiles = FileHelper.getAllFiles(Configuration.ROOT_PATH + "Testing/projects1/" + elements[0] + "/" + elements[1] + "-b", ".java"); + for (File javaFile : javaFiles) { + if (javaFile.getPath().endsWith(fileName)) { + buggyFile = javaFile; + break; + } + } + if (i == 31) { + i = i + 1 - 1; + } + SimpleTree simpleTree = null; + if ("EQ_DOESNT_OVERRIDE_EQUALS".equals(type)|| "HE_EQUALS_USE_HASHCODE".equals(type) || "HE_INHERITS_EQUALS_USE_HASHCODE".equals(type)|| + "SE_NO_SUITABLE_CONSTRUCTOR".equals(type) || "RI_REDUNDANT_INTERFACES".equals(type) +// ||"CN_IDIOM_NO_SUPER_CALL".equals(type) + ||"SE_NO_SERIALVERSIONID".equals(type) || "SE_COMPARATOR_SHOULD_BE_SERIALIZABLE".equals(type)) { + ViolationSourceCodeTree parser = new ViolationSourceCodeTree(buggyFile, startLine, endLine); + ITree classNameTree = parser.getClassNameTokens(); + simpleTree = new SimplifyTree().canonicalizeSourceCodeTree(classNameTree, null); + + startLine = parser.getViolationFinalStartLine(); + endLine = parser.getViolationFinalEndLine(); + } else { + ViolationSourceCodeTree alarmTree = new ViolationSourceCodeTree(buggyFile, startLine, endLine); + alarmTree.extract(); + List matchedTrees = alarmTree.getViolationSourceCodeTrees(); + if (matchedTrees.size() == 0) { + System.err.println("#Null_Violation_Hunk: " + buggyFile.getName() + ":" + startLine + ":" + endLine); + continue; + } + simpleTree = new SimpleTree(); + simpleTree.setLabel("Block"); + simpleTree.setNodeType("Block"); + List children = new ArrayList<>(); + + for (ITree matchedTree : matchedTrees) { + SimpleTree simpleT = new SimplifyTree().canonicalizeSourceCodeTree(matchedTree, null); + children.add(simpleT); + } + simpleTree.setChildren(children); + + startLine = alarmTree.getViolationFinalStartLine(); + endLine = alarmTree.getViolationFinalEndLine(); + } + + String tokens = Tokenizer.getTokensDeepFirst(simpleTree); + String[] tokensArray = tokens.split(" "); + int length = tokensArray.length; + System.out.println((++ i) + "==" + length); +// sizes += length + "\n"; +// this.tokens += tokens + "\n"; + String sourceCode = readSourceCode(buggyFile, startLine, endLine, type); +// this.sourceCode += sourceCode + "\n"; +// tokensBuilder.append(type).append(":").append(tokens).append("\n"); + tokensBuilder.append(tokens).append("\n"); + buggyCodeBuilder.append(sourceCode).append("\n"); + } + + FileHelper.outputToFile("Dataset/Defects4j/buggyTokens.list", tokensBuilder, false); + FileHelper.outputToFile("Dataset/Defects4j/buggySourceCode.list", buggyCodeBuilder, false); + } + + private static String readSourceCode(File javaFile, int startLine, int endLine, String violationType) { + StringBuilder sourceCode = new StringBuilder("##Source_Code:\n"); + sourceCode.append(violationType).append("\n"); + sourceCode.append(javaFile.getName().replaceAll("#", "/")).append("\nPosition: ").append(startLine).append(" : ").append(endLine).append("\n"); + FileInputStream fis = null; + Scanner scanner = null; + + try { + fis = new FileInputStream(javaFile); + scanner = new Scanner(fis); + int counter = 0; + while (scanner.hasNextLine()) { + String line = scanner.nextLine(); + counter ++; + if (startLine <= counter && counter <= endLine) { + sourceCode.append(line + "\n"); + } + if (counter == endLine) break; + } + } catch (FileNotFoundException e) { + e.printStackTrace(); + } finally { + try { + scanner.close(); + fis.close(); + } catch (IOException e) { + e.printStackTrace(); + } + } + + return sourceCode.toString(); + } +} + + + +/* +20 +32 +20 +8 +8 +16 +22 +10 +10 +10 +12 +16 +18 +10 +12 +8 +14 +44 +8 +26 +20 +10 +12 +12 +10 +4 +10 +8 +8 +12 +16 +1776 +8 +10 +10 +12 +8 +50 +18 +8 +12 +38 +4 +4 +14 +16 +20 +26 +8 +14 +12 +14 +*/ \ No newline at end of file diff --git a/src/main/java/edu/lu/uni/serval/livestudy/Test.java b/src/main/java/edu/lu/uni/serval/livestudy/Test.java deleted file mode 100644 index e0e3632..0000000 --- a/src/main/java/edu/lu/uni/serval/livestudy/Test.java +++ /dev/null @@ -1,19 +0,0 @@ -package edu.lu.uni.serval.livestudy; - -import java.io.File; -import java.util.List; - -import edu.lu.uni.serval.config.Configuration; -import edu.lu.uni.serval.utils.FileHelper; - -public class Test { - public static void main(String[] argus) { - List files = FileHelper.getAllFiles(Configuration.ROOT_PATH + "LiveStudy/projects/camel/", ".java"); - for (File file : files ) { -// if (file.getPath().endsWith("/ItemList.java")) { -// System.out.println(file.getPath()); -// } - FileHelper.outputToFile("OUTPUT/camel.test", file.getPath() + "\n", true); - } - } -} diff --git a/src/main/java/edu/lu/uni/serval/statistics/Categories.java b/src/main/java/edu/lu/uni/serval/statistics/Categories.java index d110c39..0eea731 100644 --- a/src/main/java/edu/lu/uni/serval/statistics/Categories.java +++ b/src/main/java/edu/lu/uni/serval/statistics/Categories.java @@ -14,7 +14,7 @@ import edu.lu.uni.serval.utils.FileHelper; public class Categories { public static void main(String[] args) throws IOException { - String content = FileHelper.readFile(Configuration.ROOT_PATH + "RQ1/Quantity-per-V-Type.csv"); + String content = FileHelper.readFile(Configuration.ROOT_PATH + "RQ1/Quantity-per-Fixed_1.0V-Type.csv");//"RQ1/Quantity-per-V-Type.csv"); BufferedReader reader = new BufferedReader(new StringReader(content)); String line = reader.readLine(); int counter = 0; diff --git a/src/main/java/edu/lu/uni/serval/statistics/NumberOfFilesAndCodeLines.java b/src/main/java/edu/lu/uni/serval/statistics/NumberOfFilesAndCodeLines.java index 0386b8a..8a9fe38 100644 --- a/src/main/java/edu/lu/uni/serval/statistics/NumberOfFilesAndCodeLines.java +++ b/src/main/java/edu/lu/uni/serval/statistics/NumberOfFilesAndCodeLines.java @@ -20,15 +20,13 @@ import edu.lu.uni.serval.utils.FileHelper; public class NumberOfFilesAndCodeLines { public static void main(String[] args) { -// String projectsPath = Configuration.ROOT_PATH + "LiveStudy/BugsInfo/"; -// File[] projects = new File(projectsPath).listFiles(); -// for (File project : projects) { -// if (project.isDirectory()) { -// new NumberOfFilesAndCodeLines().statistic(project.getName()); -// } -// } - for (int i = 1; i <= 50; i ++) { - System.out.print(" & " + i); + String projectsPath = Configuration.ROOT_PATH + "LiveStudy/BugsInfo/"; + File[] projects = new File(projectsPath).listFiles(); + for (File project : projects) { + if (project.isDirectory()) { + if (project.getName().equals("poi")) + new NumberOfFilesAndCodeLines().statistic(project.getName()); + } } } diff --git a/src/main/java/edu/lu/uni/serval/statistics/Statistic.java b/src/main/java/edu/lu/uni/serval/statistics/Statistic.java index 783f53c..80992fe 100644 --- a/src/main/java/edu/lu/uni/serval/statistics/Statistic.java +++ b/src/main/java/edu/lu/uni/serval/statistics/Statistic.java @@ -12,12 +12,35 @@ import java.util.List; import java.util.Map; import java.util.Scanner; +import edu.lu.uni.serval.config.Configuration; import edu.lu.uni.serval.utils.FileHelper; import edu.lu.uni.serval.utils.ListSorter; import edu.lu.uni.serval.utils.MapSorter; public class Statistic { + private static Map map1 = new HashMap(); + private static Map map2 = new HashMap<>(); + public static void main(String[] args) throws IOException { + /* + * DM_DEFAULT_ENCODING + * NP_NONNULL_RETURN_VIOLATION + * NP_NULL_ON_SOME_PATH_FROM_RETURN_VALUE + * NP_PARAMETER_MUST_BE_NONNULL_BUT_MARKED_AS_NULLABLE + * ODR_OPEN_DATABASE_RESOURCE + * PZLA_PREFER_ZERO_LENGTH_ARRAYS + * RI_REDUNDANT_INTERFACES + * RV_RETURN_VALUE_IGNORED_BAD_PRACTICE + * RV_RETURN_VALUE_IGNORED_NO_SIDE_EFFECT + * SE_NO_SERIALVERSIONID + * SF_SWITCH_NO_DEFAULT + * SIC_INNER_SHOULD_BE_STATIC + * SQL_PREPARED_STATEMENT_GENERATED_FROM_NONCONSTANT_STRING + * UC_USELESS_CONDITION + * UC_USELESS_OBJECT + * UCF_USELESS_CONTROL_FLOW + * WMI_WRONG_MAP_ITERATOR + */ // /* // * Quantities' distribution of all violation types. // */ @@ -48,12 +71,52 @@ public class Statistic { /** * Do statistics from two files: */ -// statistics("../FPM_Violations/RQ1/all-leafnodes-per-project-vtype.csv", ""); + statistics("../FPM_Violations/RQ1/all-leafnodes-per-project-vtype.csv", "", map1, 16918530, 730); // statistics("../FPM_Violations/RQ1/distinct-fixed-summary-per-project-vtype.csv", "Fixed"); - statistics("../FPM_Violations/RQ1/fixedViolations-v-1.0.csv", "Fixed_1.0"); + statistics("../FPM_Violations/RQ1/fixedViolations-v-1.0.csv", "Fixed_1.0", map2, 88927, 548); // fixedVSunfixed(); + StringBuilder builder = new StringBuilder(); + for (Map.Entry entry : map1.entrySet()) { + String key = entry.getKey(); + builder.append(key + "," + entry.getValue() + "," + (map2.containsKey(key) ? map2.get(key) : 0) + "\n"); + } + FileHelper.outputToFile(Configuration.ROOT_PATH + "RQ2/quantity-ratios.csv", builder, false); - statisticsOfFixedViolations(); +// statisticsOfFixedViolations(); + + //rsync -avP gaia-cluster:/work/users/kliu/FixPattern/FPM_Violations/UnfixedViolations/BC_UNCONFIRMED_CAST/Sizes.list Sizes/Sizes1.list +// String s = "rsync -avP gaia-cluster:/work/users/kliu/FixPattern/FPM_Violations/UnfixedViolations_RQ3/"; +// File[] files = new File(Configuration.ROOT_PATH + "RQ3_1/UnfixedInstances/").listFiles(); +// int i = 0; +// for (File file : files) { +// if (file.getName().endsWith(".list")) { +// i ++; +// System.out.println(s + FileHelper.getFileNameWithoutExtension(file) + "/Sizes.list Sizes/Sizes" + i + ".list"); +// } +// } +// tokenSizes(); + } + + public static void tokenSizes() { + List sizes = new ArrayList<>(); + List files = FileHelper.getAllFilesInCurrentDiectory(Configuration.ROOT_PATH + "RQ3_1/Sizes/", ".list"); + StringBuilder builder = new StringBuilder(); + for (File file : files) { + try { + String content = FileHelper.readFile(file); + BufferedReader reader = new BufferedReader(new StringReader(content)); + String line = null; + while ((line = reader.readLine()) != null) { + sizes.add(Integer.parseInt(line)); + builder.append("1,").append(line).append("\n"); + } + reader.close(); + } catch (IOException e) { + e.printStackTrace(); + } + } + System.out.println(sizes.size()); + FileHelper.outputToFile(Configuration.ROOT_PATH + "RQ3_1/Sizes.csv", builder, false); } public static void statisticsOfFixedViolations() { @@ -237,7 +300,7 @@ B: 4682 */ } - public static void statistics(String fileName, String type) throws IOException { + public static void statistics(String fileName, String type, Map map, int totalQ, int totalS) throws IOException { FileInputStream fis = new FileInputStream(fileName); Scanner scanner = new Scanner(fis); @@ -332,7 +395,7 @@ B: 4682 Map quantityOfCategory = new HashMap<>(); Map> violationTypesOfCategory = new HashMap<>(); Map> projectsOfCategory = new HashMap<>(); - StringBuilder violationsBuilder = new StringBuilder("Type,Identifier,Quantity,Widespread,Category\n"); + StringBuilder violationsBuilder = new StringBuilder("Type,Identifier,Quantity,Ratio,Widespread,Ratio2, Categories\n"); int identifier = 0; for (Map.Entry entry : violationTypesMap.entrySet()) { String violationType = entry.getKey(); @@ -342,8 +405,9 @@ B: 4682 if (category == null || category.equals("null")) { category = "Other"; } - violationsBuilder.append(violationType + "," + identifier + "," + quantity + "," + widespreadViolationsMap.get(violationType).size() - + "," + category + "\n"); + int spread = widespreadViolationsMap.get(violationType).size(); + violationsBuilder.append(violationType + "," + identifier + "," + quantity + "," + ((double) quantity / totalQ * 100) + "," + + spread + "," + ((double) spread / totalS * 100) + "," + category + "\n"); if (quantityOfCategory.containsKey(category)) { quantityOfCategory.put(category, quantityOfCategory.get(category) + quantity); @@ -375,6 +439,8 @@ B: 4682 } sortedViolationTypes.add(violationType); + + map.put(violationType, quantity); } FileHelper.outputToFile("../FPM_Violations/RQ1/Quantity-per-" + type + "V-Type.csv", violationsBuilder, false); @@ -411,21 +477,26 @@ B: 4682 // builder.append("," + i); // } // builder.append("\n"); + StringBuilder bui = new StringBuilder(); for (int i = 0; i < projectNames.size(); i++) { String projectName = projectNames.get(i); builder.append(projectName); + for (int j = 0; j < sortedViolationTypes.size(); j ++) { String violationType = sortedViolationTypes.get(j); String key = projectName + "," + violationType; Integer value = perVperProjMap.get(key); if (value == null) { value = 0; + } else { + bui.append(projectName).append(",").append(violationType).append(",").append(value).append(",").append(categories.get(violationType) == null ? "Other" : categories.get(violationType)).append("\n"); } builder.append("," + value); } builder.append("\n"); } FileHelper.outputToFile("../FPM_Violations/RQ1/Distribution-per-project-per-" + type + "type.csv", builder, false); + FileHelper.outputToFile("../FPM_Violations/RQ1/Distribution-per-project-per-" + type + "type___.csv", bui, false); StringBuilder ssbuilder = new StringBuilder("Type, Identifier, Quantity, Category\n"); Map perTypePerProj = new HashMap<>(); diff --git a/src/main/java/edu/lu/uni/serval/statistics/UnhappenedTypesLiveStudy.java b/src/main/java/edu/lu/uni/serval/statistics/UnhappenedTypesLiveStudy.java new file mode 100644 index 0000000..12ea075 --- /dev/null +++ b/src/main/java/edu/lu/uni/serval/statistics/UnhappenedTypesLiveStudy.java @@ -0,0 +1,73 @@ +package edu.lu.uni.serval.statistics; + +import java.io.BufferedReader; +import java.io.File; +import java.io.IOException; +import java.io.StringReader; +import java.util.ArrayList; +import java.util.HashMap; +import java.util.List; +import java.util.Map; + +import edu.lu.uni.serval.config.Configuration; +import edu.lu.uni.serval.utils.FileHelper; +import edu.lu.uni.serval.utils.MapSorter; + +public class UnhappenedTypesLiveStudy { + + public static void main(String[] args) throws IOException { + List top50Types = readTypes(); + String path = Configuration.ROOT_PATH + "RQ3_3/LiveStudy/BugsInfo/"; + File[] projects = new File(path).listFiles(); + Map map = new HashMap<>(); + int i = 0; + for (File project : projects) { + if (project.isDirectory()) { + File[] types = project.listFiles(); + List top50TypesCopy = new ArrayList<>(); + top50TypesCopy.addAll(top50Types); + for (File type :types) { + if (type.isDirectory()) { + String typeStr = type.getName(); + top50TypesCopy.remove(typeStr); + } + } + + System.out.println(project.getName() + "::"); + for (String type : top50TypesCopy) { + System.out.println(type); + if (map.containsKey(type)) { + map.put(type, map.get(type) + 1); + } else { + map.put(type, 1); + } + } + i ++; + if (i == 10) break; + } + } + + MapSorter sorter = new MapSorter<>(); + map = sorter.sortByValueDescending(map); + for (Map.Entry entry : map.entrySet()) { + System.out.println(entry.getKey() + "==" + entry.getValue()); + } + } + + private static List readTypes() throws IOException { + List types = new ArrayList<>(); + String content = FileHelper.readFile(Configuration.ROOT_PATH + "RQ1/Quantity-per-Fixed_1.0V-Type.csv"); + BufferedReader reader = new BufferedReader(new StringReader(content)); + String line = null; + int i = 0; + while ((line = reader.readLine()) != null) { + String type = line.substring(0, line.indexOf(",")); + types.add(type); + i ++; + if (i == 51) break; + } + + return types; + } + +} diff --git a/src/main/java/edu/lu/uni/serval/violation/code/parser/Test.java b/src/main/java/edu/lu/uni/serval/violation/code/parser/Test.java index 7668195..e848b11 100644 --- a/src/main/java/edu/lu/uni/serval/violation/code/parser/Test.java +++ b/src/main/java/edu/lu/uni/serval/violation/code/parser/Test.java @@ -18,18 +18,8 @@ import edu.lu.uni.serval.utils.FileHelper; import edu.lu.uni.serval.utils.ListSorter; public class Test { - /** - * Commons-lang: 54. PZLA_PREFER_ZERO_LENGTH_ARRAYS - * commons-lang: 1, 4, 5 ES_COMPARING_PARAMETER_STRING_WITH_EQ - * @param args - * @throws IOException - */ public static void main(String[] args) throws IOException { - boolean b1 = false; - boolean b2 = false; - System.out.println(!b1 || b2 && b1); - System.out.println(b2 && b1); // testV1(); // testV2(); // testV3("../FPM_Violations/OAR.FPM.4225346.stderr", "OUTPUT/unparsedviolations.txt"); diff --git a/src/main/java/edu/lu/uni/serval/violation/code/parser/ViolationCodeParser.java b/src/main/java/edu/lu/uni/serval/violation/code/parser/ViolationCodeParser.java index 5a09dd6..5f01175 100644 --- a/src/main/java/edu/lu/uni/serval/violation/code/parser/ViolationCodeParser.java +++ b/src/main/java/edu/lu/uni/serval/violation/code/parser/ViolationCodeParser.java @@ -133,32 +133,43 @@ public class ViolationCodeParser { //// continue; //// } // } - ViolationSourceCodeTree alarmTree = new ViolationSourceCodeTree(javaFile, startLine, endLine); - alarmTree.extract(); - List matchedTrees = alarmTree.getViolationSourceCodeTrees(); - if (matchedTrees.size() == 0) { - System.err.println("#Null_Violation_Hunk: " + javaFile.getName() + ":" + startLine + ":" + endLine); - continue; + SimpleTree simpleTree = null; + if ("EQ_DOESNT_OVERRIDE_EQUALS".equals(type)|| "HE_EQUALS_USE_HASHCODE".equals(type) || "HE_INHERITS_EQUALS_USE_HASHCODE".equals(type)|| + "SE_NO_SUITABLE_CONSTRUCTOR".equals(type) || "RI_REDUNDANT_INTERFACES".equals(type) + ||"CN_IDIOM".equals(type)||"SE_NO_SERIALVERSIONID".equals(type) || "SE_COMPARATOR_SHOULD_BE_SERIALIZABLE".equals(type)) { + ViolationSourceCodeTree parser = new ViolationSourceCodeTree(javaFile, violation.getStartLineNum(), violation.getEndLineNum()); + ITree classNameTree = parser.getClassNameTokens(); + simpleTree = new SimplifyTree().canonicalizeSourceCodeTree(classNameTree, null); + + startLine = parser.getViolationFinalStartLine(); + endLine = parser.getViolationFinalEndLine(); + } else { + ViolationSourceCodeTree alarmTree = new ViolationSourceCodeTree(javaFile, startLine, endLine); + alarmTree.extract(); + List matchedTrees = alarmTree.getViolationSourceCodeTrees(); + if (matchedTrees.size() == 0) { + System.err.println("#Null_Violation_Hunk: " + javaFile.getName() + ":" + startLine + ":" + endLine); + continue; + } + simpleTree = new SimpleTree(); + simpleTree.setLabel("Block"); + simpleTree.setNodeType("Block"); + List children = new ArrayList<>(); + + for (ITree matchedTree : matchedTrees) { + SimpleTree simpleT = new SimplifyTree().canonicalizeSourceCodeTree(matchedTree, null); + children.add(simpleT); + } + simpleTree.setChildren(children); + + startLine = alarmTree.getViolationFinalStartLine(); + endLine = alarmTree.getViolationFinalEndLine(); } - SimpleTree simpleTree = new SimpleTree(); - simpleTree.setLabel("Block"); - simpleTree.setNodeType("Block"); - List children = new ArrayList<>(); - - for (ITree matchedTree : matchedTrees) { - SimpleTree simpleT = new SimplifyTree().canonicalizeSourceCodeTree(matchedTree, null); - children.add(simpleT); - } - simpleTree.setChildren(children); - String tokens = Tokenizer.getTokensDeepFirst(simpleTree); String[] tokensArray = tokens.split(" "); int length = tokensArray.length; sizes += length + "\n"; this.tokens += tokens + "\n"; - - startLine = alarmTree.getViolationFinalStartLine(); - endLine = alarmTree.getViolationFinalEndLine(); String sourceCode = readSourceCode(javaFile, startLine, endLine, violation.getViolationType()); this.sourceCode += sourceCode + "\n"; } diff --git a/src/main/java/edu/lu/uni/serval/violation/code/parser/ViolationSourceCodeTree.java b/src/main/java/edu/lu/uni/serval/violation/code/parser/ViolationSourceCodeTree.java index 22fc65c..d48173a 100644 --- a/src/main/java/edu/lu/uni/serval/violation/code/parser/ViolationSourceCodeTree.java +++ b/src/main/java/edu/lu/uni/serval/violation/code/parser/ViolationSourceCodeTree.java @@ -98,7 +98,13 @@ public class ViolationSourceCodeTree { int endPosition = startPosition + tree.getLength(); int endLine = cUnit.getLineNumber(endPosition - 1); if (endLine < violationStartLine) continue; - + /* + violationT || + violationType.equals("UC_USELESS_CONDITION") + */ + if (type.equals("SE_NO_SERIALVERSIONID")) { + + } // FIXME the violation occurred in the Class Name matchTrees(tree.getChildren()); } @@ -387,6 +393,9 @@ public class ViolationSourceCodeTree { && type != 76 && type != 84 && type != 87 && type != 88) { // ArrayType, PrimitiveType, SimpleType, ParameterizedType, // QualifiedType, WildcardType, UnionType, IntersectionType, NameQualifiedType + if (type == 42 && child.getLabel().startsWith("ClassName:")) { + continue; + } if (i > 0) { child = children.get(i - 1); return child.getPos() + child.getLength() + 1; @@ -684,10 +693,16 @@ public class ViolationSourceCodeTree { && type != 76 && type != 84 && type != 87 && type != 88) { // ArrayType, PrimitiveType, SimpleType, ParameterizedType, // QualifiedType, WildcardType, UnionType, IntersectionType, NameQualifiedType + if (type == 42 && child.getLabel().startsWith("ClassName:")) { + newChildren.add(child); + continue; + } if (i > 0) { child = children.get(i - 1); + tree.setChildren(newChildren); return child.getPos() + child.getLength() + 1; } else { + tree.setChildren(newChildren); return child.getPos() - 1; } } else { diff --git a/src/main/java/edu/lu/uni/serval/violation/parse/TestViolationParser.java b/src/main/java/edu/lu/uni/serval/violation/parse/TestViolationParser.java index b4f67c5..42a7431 100644 --- a/src/main/java/edu/lu/uni/serval/violation/parse/TestViolationParser.java +++ b/src/main/java/edu/lu/uni/serval/violation/parse/TestViolationParser.java @@ -28,6 +28,9 @@ public class TestViolationParser { } List violationTypes = new ArrayList<>(); + /* + * DM_DEFAULT_ENCODING + */ violationTypes.add("NP_NONNULL_RETURN_VIOLATION"); violationTypes.add("NP_NULL_ON_SOME_PATH_FROM_RETURN_VALUE"); violationTypes.add("NP_PARAMETER_MUST_BE_NONNULL_BUT_MARKED_AS_NULLABLE"); @@ -52,7 +55,8 @@ public class TestViolationParser { List unfixedAlarmFiles = FileHelper.getAllFilesInCurrentDiectory(unfixedViolations, ".list"); for (File file : unfixedAlarmFiles) { String fileName = FileHelper.getFileNameWithoutExtension(file); - if (!violationTypes.contains(fileName)) continue; +// if (!violationTypes.contains(fileName)) continue; + if (!fileName.equals("DM_DEFAULT_ENCODING")) continue; FileHelper.createDirectory(unfixedFilesPath + fileName + "/"); FileHelper.createDirectory(unfixedPositionsFilePath + fileName + "/"); ViolationParser parser = new ViolationParser();