added new fly cell types, proliferation modules, and added new divisi… #161
reviewdog [checkstyle] report
reported by reviewdog 🐶
Findings (56)
src/arcade/potts/agent/cell/PottsCellFlyStemWT.java|14 col 1| Wrong order for 'ec.util.MersenneTwisterFast' import.
src/arcade/potts/agent/cell/PottsCellFlyStemWT.java|16 col 1| Missing a Javadoc comment.
src/arcade/potts/agent/cell/PottsCellFlyStemWT.java|16 col 56| '{' is not preceded with whitespace.
src/arcade/potts/agent/cell/PottsCellFlyStemWT.java|18 col 5| Missing a Javadoc comment.
src/arcade/potts/agent/cell/PottsCellFlyStemWT.java|20 col 5| Missing a Javadoc comment.
src/arcade/potts/agent/cell/PottsCellFlyStemWT.java|35| Line is longer than 100 characters (found 119).
src/arcade/potts/agent/cell/PottsCellContainer.java|159| Line is longer than 100 characters (found 108).
src/arcade/potts/agent/cell/PottsCellContainer.java|163| Line is longer than 100 characters (found 108).
src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java|14 col 1| Wrong order for 'ec.util.MersenneTwisterFast' import.
src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java|16 col 1| Missing a Javadoc comment.
src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java|17| Line is longer than 100 characters (found 101).
src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java|17 col 5| Missing a Javadoc comment.
src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java|26| Line is longer than 100 characters (found 107).
src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java|14 col 1| Wrong order for 'ec.util.MersenneTwisterFast' import.
src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java|16 col 1| Missing a Javadoc comment.
src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java|16 col 75| '{' is not preceded with whitespace.
src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java|18 col 5| Missing a Javadoc comment.
src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java|20| Line is longer than 100 characters (found 118).
src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java|20 col 5| Missing a Javadoc comment.
src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java|35| Line is longer than 100 characters (found 119).
src/arcade/potts/agent/module/PottsModuleProliferationFlyStemWT.java|233| Line is longer than 100 characters (found 142).
src/arcade/potts/agent/module/PottsModuleProliferationFlyStemWT.java|233| Line is longer than 120 characters (found 142).
src/arcade/potts/agent/module/PottsModuleProliferationFlyStemWT.java|233 col 119| Comment matches to-do format 'TODO:'.
src/arcade/potts/agent/module/PottsModuleProliferation.java|99| Line is longer than 100 characters (found 109).
src/arcade/potts/agent/module/PottsModuleProliferation.java|99 col 86| Comment matches to-do format 'TODO:'.
src/arcade/potts/agent/module/PottsModuleProliferationFlyStemMUDMutOneStemDaughter.java|233| Line is longer than 100 characters (found 125).
src/arcade/potts/agent/module/PottsModuleProliferationFlyStemMUDMutOneStemDaughter.java|233| Line is longer than 120 characters (found 125).
src/arcade/potts/agent/module/PottsModuleProliferationFlyStemMUDMutOneStemDaughter.java|233 col 102| Comment matches to-do format 'TODO:'.
src/arcade/potts/sim/PottsSeries.java|194 col 15| Comment matches to-do format 'TODO:'.
src/arcade/potts/env/location/PottsLocation.java|296 col 5| Class 'PottsLocation' looks like designed for extension (can be subclassed), but the method 'splitHalvesVertically' does not have javadoc that explains how to do that safely. If class is not designed for extension consider making the class 'PottsLocation' final or making the method 'splitHalvesVertically' static/final/abstract/empty, or adding allowed annotation for the method.
src/arcade/potts/env/location/PottsLocation.java|296 col 5| Missing a Javadoc comment.
src/arcade/potts/env/location/PottsLocation.java|321 col 5| Class 'PottsLocation' looks like designed for extension (can be subclassed), but the method 'splitTwoThirdsOneThirdKeepTopTwoThirds' does not have javadoc that explains how to do that safely. If class is not designed for extension consider making the class 'PottsLocation' final or making the method 'splitTwoThirdsOneThirdKeepTopTwoThirds' static/final/abstract/empty, or adding allowed annotation for the method.
src/arcade/potts/env/location/PottsLocation.java|321 col 5| Missing a Javadoc comment.
src/arcade/potts/env/location/PottsLocation.java|321 col 5| 'METHOD_DEF' has more than 1 empty lines before.
src/arcade/potts/env/location/PottsLocation.java|340 col 5| Class 'PottsLocation' looks like designed for extension (can be subclassed), but the method 'getTopThird' does not have javadoc that explains how to do that safely. If class is not designed for extension consider making the class 'PottsLocation' final or making the method 'getTopThird' static/final/abstract/empty, or adding allowed annotation for the method.
src/arcade/potts/env/location/PottsLocation.java|340 col 5| Missing a Javadoc comment.
src/arcade/potts/env/location/PottsLocationContainer.java|7 col 8| Unused import - arcade.core.util.MiniBox.
src/arcade/patch/agent/cell/PatchCell.java|181 col 11| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/cell/PatchCell.java|319 col 11| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/cell/PatchCell.java|433 col 19| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/cell/PatchCell.java|440 col 11| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/cell/PatchCellCancerStem.java|56 col 11| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/module/PatchModuleProliferation.java|80 col 23| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/module/PatchModuleProliferation.java|107 col 23| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/module/PatchModuleMigration.java|60 col 23| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/process/PatchProcessMetabolismSimple.java|73 col 11| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/process/PatchProcessSignalingComplex.java|225 col 11| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/process/PatchProcessSignalingMedium.java|154 col 11| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/process/PatchProcessSignalingRandom.java|37 col 11| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/process/PatchProcessMetabolismMedium.java|83 col 11| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/process/PatchProcessMetabolismComplex.java|100 col 11| Comment matches to-do format 'TODO:'.
src/arcade/patch/agent/process/PatchProcessSignalingSimple.java|116 col 11| Comment matches to-do format 'TODO:'.
src/arcade/patch/sim/output/PatchOutputSerializer.java|155 col 15| Comment matches to-do format 'TODO:'.
src/arcade/core/gui/GUI.java|364 col 5| Class XMLFileFilter should be declared as final.
setup/setupMUDmutOneStemDaughter.xml|1| File does not end with a newline.
setup/setupWT.xml|1| File does not end with a newline.
Filtered Findings (0)
Annotations
Check failure on line 14 in src/arcade/potts/agent/cell/PottsCellFlyStemWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemWT.java#L14 <com.puppycrawl.tools.checkstyle.checks.imports.ImportOrderCheck>
Wrong order for 'ec.util.MersenneTwisterFast' import.
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemWT.java:14:1: error: Wrong order for 'ec.util.MersenneTwisterFast' import. (com.puppycrawl.tools.checkstyle.checks.imports.ImportOrderCheck)
Check failure on line 16 in src/arcade/potts/agent/cell/PottsCellFlyStemWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemWT.java#L16 <com.puppycrawl.tools.checkstyle.checks.javadoc.MissingJavadocTypeCheck>
Missing a Javadoc comment.
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemWT.java:16:1: error: Missing a Javadoc comment. (com.puppycrawl.tools.checkstyle.checks.javadoc.MissingJavadocTypeCheck)
Check failure on line 16 in src/arcade/potts/agent/cell/PottsCellFlyStemWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemWT.java#L16 <com.puppycrawl.tools.checkstyle.checks.whitespace.WhitespaceAroundCheck>
'{' is not preceded with whitespace.Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemWT.java:16:56: error: '{' is not preceded with whitespace. (com.puppycrawl.tools.checkstyle.checks.whitespace.WhitespaceAroundCheck)
Check failure on line 18 in src/arcade/potts/agent/cell/PottsCellFlyStemWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemWT.java#L18 <com.puppycrawl.tools.checkstyle.checks.javadoc.JavadocVariableCheck>
Missing a Javadoc comment.
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemWT.java:18:5: error: Missing a Javadoc comment. (com.puppycrawl.tools.checkstyle.checks.javadoc.JavadocVariableCheck)
Check failure on line 20 in src/arcade/potts/agent/cell/PottsCellFlyStemWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemWT.java#L20 <com.puppycrawl.tools.checkstyle.checks.javadoc.MissingJavadocMethodCheck>
Missing a Javadoc comment.
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemWT.java:20:5: error: Missing a Javadoc comment. (com.puppycrawl.tools.checkstyle.checks.javadoc.MissingJavadocMethodCheck)
Check failure on line 35 in src/arcade/potts/agent/cell/PottsCellFlyStemWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemWT.java#L35 <LineLength>
Line is longer than 100 characters (found 119).
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemWT.java:35:0: error: Line is longer than 100 characters (found 119). (LineLength)
Check failure on line 159 in src/arcade/potts/agent/cell/PottsCellContainer.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellContainer.java#L159 <LineLength>
Line is longer than 100 characters (found 108).
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellContainer.java:159:0: error: Line is longer than 100 characters (found 108). (LineLength)
Check failure on line 163 in src/arcade/potts/agent/cell/PottsCellContainer.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellContainer.java#L163 <LineLength>
Line is longer than 100 characters (found 108).
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellContainer.java:163:0: error: Line is longer than 100 characters (found 108). (LineLength)
Check failure on line 14 in src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java#L14 <com.puppycrawl.tools.checkstyle.checks.imports.ImportOrderCheck>
Wrong order for 'ec.util.MersenneTwisterFast' import.
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java:14:1: error: Wrong order for 'ec.util.MersenneTwisterFast' import. (com.puppycrawl.tools.checkstyle.checks.imports.ImportOrderCheck)
Check failure on line 16 in src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java#L16 <com.puppycrawl.tools.checkstyle.checks.javadoc.MissingJavadocTypeCheck>
Missing a Javadoc comment.
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java:16:1: error: Missing a Javadoc comment. (com.puppycrawl.tools.checkstyle.checks.javadoc.MissingJavadocTypeCheck)
Check failure on line 17 in src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java#L17 <LineLength>
Line is longer than 100 characters (found 101).
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java:17:0: error: Line is longer than 100 characters (found 101). (LineLength)
Check failure on line 17 in src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java#L17 <com.puppycrawl.tools.checkstyle.checks.javadoc.MissingJavadocMethodCheck>
Missing a Javadoc comment.
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java:17:5: error: Missing a Javadoc comment. (com.puppycrawl.tools.checkstyle.checks.javadoc.MissingJavadocMethodCheck)
Check failure on line 26 in src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java#L26 <LineLength>
Line is longer than 100 characters (found 107).
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyNeuronWT.java:26:0: error: Line is longer than 100 characters (found 107). (LineLength)
Check failure on line 14 in src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java#L14 <com.puppycrawl.tools.checkstyle.checks.imports.ImportOrderCheck>
Wrong order for 'ec.util.MersenneTwisterFast' import.
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java:14:1: error: Wrong order for 'ec.util.MersenneTwisterFast' import. (com.puppycrawl.tools.checkstyle.checks.imports.ImportOrderCheck)
Check failure on line 16 in src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java#L16 <com.puppycrawl.tools.checkstyle.checks.javadoc.MissingJavadocTypeCheck>
Missing a Javadoc comment.
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java:16:1: error: Missing a Javadoc comment. (com.puppycrawl.tools.checkstyle.checks.javadoc.MissingJavadocTypeCheck)
Check failure on line 16 in src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java#L16 <com.puppycrawl.tools.checkstyle.checks.whitespace.WhitespaceAroundCheck>
'{' is not preceded with whitespace.Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java:16:75: error: '{' is not preceded with whitespace. (com.puppycrawl.tools.checkstyle.checks.whitespace.WhitespaceAroundCheck)
Check failure on line 18 in src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java#L18 <com.puppycrawl.tools.checkstyle.checks.javadoc.JavadocVariableCheck>
Missing a Javadoc comment.
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java:18:5: error: Missing a Javadoc comment. (com.puppycrawl.tools.checkstyle.checks.javadoc.JavadocVariableCheck)
Check failure on line 20 in src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java#L20 <LineLength>
Line is longer than 100 characters (found 118).
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java:20:0: error: Line is longer than 100 characters (found 118). (LineLength)
Check failure on line 20 in src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java#L20 <com.puppycrawl.tools.checkstyle.checks.javadoc.MissingJavadocMethodCheck>
Missing a Javadoc comment.
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java:20:5: error: Missing a Javadoc comment. (com.puppycrawl.tools.checkstyle.checks.javadoc.MissingJavadocMethodCheck)
Check failure on line 35 in src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java#L35 <LineLength>
Line is longer than 100 characters (found 119).
Raw output
/github/workspace/./src/arcade/potts/agent/cell/PottsCellFlyStemMUDMutOneStemDaughter.java:35:0: error: Line is longer than 100 characters (found 119). (LineLength)
Check failure on line 233 in src/arcade/potts/agent/module/PottsModuleProliferationFlyStemWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/module/PottsModuleProliferationFlyStemWT.java#L233 <LineLength>
Line is longer than 100 characters (found 142).
Raw output
/github/workspace/./src/arcade/potts/agent/module/PottsModuleProliferationFlyStemWT.java:233:0: error: Line is longer than 100 characters (found 142). (LineLength)
Check failure on line 233 in src/arcade/potts/agent/module/PottsModuleProliferationFlyStemWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/module/PottsModuleProliferationFlyStemWT.java#L233 <LineLengthTest>
Line is longer than 120 characters (found 142).
Raw output
/github/workspace/./src/arcade/potts/agent/module/PottsModuleProliferationFlyStemWT.java:233:0: error: Line is longer than 120 characters (found 142). (LineLengthTest)
Check failure on line 233 in src/arcade/potts/agent/module/PottsModuleProliferationFlyStemWT.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/module/PottsModuleProliferationFlyStemWT.java#L233 <com.puppycrawl.tools.checkstyle.checks.TodoCommentCheck>
Comment matches to-do format 'TODO:'.
Raw output
/github/workspace/./src/arcade/potts/agent/module/PottsModuleProliferationFlyStemWT.java:233:119: error: Comment matches to-do format 'TODO:'. (com.puppycrawl.tools.checkstyle.checks.TodoCommentCheck)
Check failure on line 99 in src/arcade/potts/agent/module/PottsModuleProliferation.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/module/PottsModuleProliferation.java#L99 <LineLength>
Line is longer than 100 characters (found 109).
Raw output
/github/workspace/./src/arcade/potts/agent/module/PottsModuleProliferation.java:99:0: error: Line is longer than 100 characters (found 109). (LineLength)
Check failure on line 99 in src/arcade/potts/agent/module/PottsModuleProliferation.java
github-actions / checkstyle
[checkstyle] src/arcade/potts/agent/module/PottsModuleProliferation.java#L99 <com.puppycrawl.tools.checkstyle.checks.TodoCommentCheck>
Comment matches to-do format 'TODO:'.
Raw output
/github/workspace/./src/arcade/potts/agent/module/PottsModuleProliferation.java:99:86: error: Comment matches to-do format 'TODO:'. (com.puppycrawl.tools.checkstyle.checks.TodoCommentCheck)