The following document contains the results of Checkstyle. 
| Files | Infos  | Warnings  | Errors  |
|---|---|---|---|
| 2 | 0 | 0 | 45 |
| Rules | Violations | Severity |
|---|---|---|
| PackageHtml | 0 | Error |
| NewlineAtEndOfFile | 0 | Error |
| Translation | 0 | Error |
| JavadocMethod | 9 | Error |
| JavadocType | 0 | Error |
| JavadocVariable | 0 | Error |
| JavadocStyle | 0 | Error |
| ConstantName | 0 | Error |
| LocalFinalVariableName | 0 | Error |
| LocalVariableName | 0 | Error |
| MemberName | 0 | Error |
| MethodName | 0 | Error |
| PackageName | 0 | Error |
| ParameterName | 0 | Error |
| StaticVariableName | 0 | Error |
| TypeName | 0 | Error |
| AvoidStarImport | 0 | Error |
| IllegalImport | 0 | Error |
| RedundantImport | 0 | Error |
| UnusedImports | 0 | Error |
| FileLength | 0 | Error |
| LineLength | 0 | Error |
| MethodLength | 0 | Error |
| ParameterNumber | 0 | Error |
| EmptyForIteratorPad | 0 | Error |
| MethodParamPad | 0 | Error |
| NoWhitespaceAfter | 0 | Error |
| NoWhitespaceBefore | 0 | Error |
| OperatorWrap | 0 | Error |
| ParenPad | 0 | Error |
| TypecastParenPad | 0 | Error |
| TabCharacter | 0 | Error |
| WhitespaceAfter | 0 | Error |
| WhitespaceAround | 0 | Error |
| ModifierOrder | 0 | Error |
| RedundantModifier | 0 | Error |
| AvoidNestedBlocks | 0 | Error |
| EmptyBlock | 0 | Error |
| LeftCurly | 0 | Error |
| NeedBraces | 9 | Error |
| RightCurly | 0 | Error |
| AvoidInlineConditionals | 0 | Error |
| DoubleCheckedLocking | 0 | Error |
| EmptyStatement | 0 | Error |
| EqualsHashCode | 0 | Error |
| HiddenField | 0 | Error |
| IllegalInstantiation | 0 | Error |
| InnerAssignment | 0 | Error |
| MagicNumber | 5 | Error |
| MissingSwitchDefault | 0 | Error |
| RedundantThrows | 0 | Error |
| SimplifyBooleanExpression | 0 | Error |
| SimplifyBooleanReturn | 0 | Error |
| DesignForExtension | 0 | Error |
| FinalClass | 0 | Error |
| HideUtilityClassConstructor | 0 | Error |
| InterfaceIsType | 0 | Error |
| VisibilityModifier | 1 | Error |
| ArrayTypeStyle | 0 | Error |
| FinalParameters | 19 | Error |
GenericIllegalRegexp
| 0 | Error |
| TodoComment | 2 | Error |
| UpperEll | 0 | Error |
| Files | I | W | E |
|---|---|---|---|
| org/psychomad/dnarep/DnaRep.java | 0 | 0 | 45 |
| Violation | Message | Line |
|---|---|---|
| Comment matches to-do format 'TODO:'. | 85 |
| Comment matches to-do format 'TODO:'. | 95 |
| '750' is a magic number. | 101 |
| '500' is a magic number. | 101 |
| Parameter jta should be final. | 143 |
| Parameter e should be final. | 154 |
| Parameter e should be final. | 159 |
| Parameter e should be final. | 163 |
| '10' is a magic number. | 189 |
| '30' is a magic number. | 190 |
| '10' is a magic number. | 234 |
| Variable 'wrongCharPosition' must be private and have accessor methods. | 252 |
| Parameter rows should be final. | 260 |
| Parameter columns should be final. | 260 |
| Missing a Javadoc comment. | 266 |
| Parameter orig should be final. | 266 |
| 'if' construct must use '{}'s. | 276 |
| 'if' construct must use '{}'s. | 278 |
| 'if' construct must use '{}'s. | 280 |
| 'if' construct must use '{}'s. | 282 |
| Parameter rows should be final. | 308 |
| Parameter columns should be final. | 308 |
| Missing a Javadoc comment. | 315 |
| Parameter e should be final. | 315 |
| Missing a Javadoc comment. | 328 |
| Parameter e should be final. | 328 |
| Missing a Javadoc comment. | 332 |
| Parameter e should be final. | 332 |
| Missing a Javadoc comment. | 336 |
| Parameter orig should be final. | 336 |
| 'if' construct must use '{}'s. | 343 |
| 'if' construct must use '{}'s. | 345 |
| 'if' construct must use '{}'s. | 347 |
| 'if' construct must use '{}'s. | 349 |
| 'else' construct must use '{}'s. | 351 |
| Parameter rows should be final. | 372 |
| Parameter columns should be final. | 372 |
| Missing a Javadoc comment. | 379 |
| Parameter e should be final. | 379 |
| Missing a Javadoc comment. | 392 |
| Parameter e should be final. | 392 |
| Missing a Javadoc comment. | 396 |
| Parameter e should be final. | 396 |
| Missing a Javadoc comment. | 400 |
| Parameter orig should be final. | 400 |
