Package: CodeDepends 0.6.6.1
Gabriel Becker
CodeDepends: Analysis of R Code for Reproducible Research and Code Comprehension
Tools for analyzing R expressions or blocks of code and determining the dependencies between them. It focuses on R scripts, but can be used on the bodies of functions. There are many facilities including the ability to summarize or get a high-level view of code, determining dependencies between variables, code improvement suggestions.
Authors:
CodeDepends_0.6.6.1.tar.gz
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CodeDepends_0.6.6.1.tgz(r-4.4-any)CodeDepends_0.6.6.1.tgz(r-4.3-any)
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CodeDepends.pdf |CodeDepends.html✨
CodeDepends/json (API)
NEWS
| # Install 'CodeDepends' in R: |
| install.packages('CodeDepends', repos = c('https://duncantl.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/duncantl/codedepends/issues
Last updated 11 months agofrom:7fd96dfee1. Checks:OK: 3 NOTE: 4. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Sep 15 2024 |
| R-4.5-win | NOTE | Sep 15 2024 |
| R-4.5-linux | NOTE | Sep 15 2024 |
| R-4.4-win | NOTE | Sep 15 2024 |
| R-4.4-mac | NOTE | Sep 15 2024 |
| R-4.3-win | OK | Sep 15 2024 |
| R-4.3-mac | OK | Sep 15 2024 |
Exports:addRemoveIntermediatesapplyhandlerfactoryassignfunhandlerassignhandlerasVarNamecoercecolonshandlercounthandlerdatahandlerdefaultFuncHandlersdefhandlerdollarhandlerfilterhandlerfindWhenUnneededforhandlerformulahandlerfullnsehandlerfunchandlerfunshandlergetDependsThreadgetDetailedTimelinesgetExpressionThreadgetInputsgetPropagateChangesgetSectionDependsgetVariableDependsgetVariablesgroupbyhandlerguessTaskTypehighlightCodehistoryAsScriptinputCollectorlibreqhandlermakeCallGraphmakeTaskGraphmakeVariableGraphnoophandlernseafterfirstnsehandlerfactorynseonlyhandlerfactorypipehandlerreadAnnotatedScriptreadScriptrmhandlerrunUpToSectionscriptInfoseparateExpressionBlockssourceVariablesplitRedefinitionsspreadhandlersummarize_handlerfactoryupdatingScript
Dependencies:BiocGenericscodetoolsgraphXML
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| asVarName | asVarName |
| Determine the code block after which a variable can be explicitly removed | addRemoveIntermediates findWhenUnneeded |
| Specifying custom processing behavior, Function handlers and handler factories | applyhandlerfactory assignfunhandler assignhandler colonshandler counthandler datahandler defaultFuncHandlers defhandler dollarhandler filterhandler forhandler formulahandler fullnsehandler funchandler functionhandlers funshandler groupbyhandler libreqhandler noophandler nseafterfirst nsehandlerfactory nseonlyhandlerfactory pipehandler rmhandler spreadhandler summarize_handlerfactory |
| Compute which code blocks in a script are inputs to define a variable | getDependsThread getDependsThread,character-method getDependsThread,name-method getDependsThread,numeric-method |
| Compute and plot life cycle of variables in code | coerce,DetailedVariableTimeline,matrix-method getDetailedTimelines plot.DetailedVariableTimeline |
| Find the sequence of expressions needed to get to a certain point in the code | getExpressionThread |
| Get input and output variables and literals from R expressions | getInputs getInputs,ANY-method getInputs,function-method getInputs,Script-method getInputs,ScriptNode-method getInputs,ScriptNodeInfo-method scriptInfo |
| Determine which expressions to update when a variable changes | getPropagateChanges |
| Determine dependencies for code blocks | getSectionDepends getVariableDepends |
| Get the names of the variables used in code | getVariables getVariables,expression-method getVariables,Script-method getVariables,ScriptInfo-method getVariables,ScriptNode-method getVariables,ScriptNodeInfo-method |
| Guess the type of high-level task of a code block | guessTaskType |
| Display R code with highlighting of variables, links to functions and packages | highlightCode |
| Convert R interactive history to a Script object | historyAsScript |
| Create customized input/output collector for use in getInputs | inputCollector |
| Create a graph representing which functions call other functions | makeCallGraph makeCallGraph,character-method makeCallGraph,function-method makeCallGraph,list-method |
| Create a graph connecting the tasks within a script | makeTaskGraph |
| Create a graph describing the relationships between variables in a script | makeVariableGraph |
| Read the code blocks/chunks from a document | readAnnotatedScript readScript readScript,character-method readScript,connection-method readScript,missing-method readScript,XMLInternalDocument-method |
| Evaluate the code blocks up to a particular section of a document | runUpToSection |
| The Script class and elements | $,Script-method AnnotatedScript-class coerce,expression,ScriptNodeInfo-method coerce,language,ScriptNodeInfo-method coerce,Script,ScriptInfo-method coerce,ScriptNode,ScriptNodeInfo-method Script-class ScriptInfo-class ScriptNode-class ScriptNodeInfo-class [,Script,character,missing-method [,Script,vector,missing-method |
| Convert a script into individual top-level calls | separateExpressionBlocks |
| Evaluate code in document in order to define the specified variables | sourceVariable |
| Divide a script into separate lists of code based on redefinition of a variable | splitRedefinitions |
| Create a Script object that re-reads the original file as needed | coerce,DynScript,Script-method getInputs,DynScript-method updatingScript |