API for Bioconductor/BiocCheck
Bioconductor-specific package checks
| Global functions | |
|---|---|
| .checkBiocDepsDESC | Source code |
| .checkDESCfields | Source code |
| .checkDescription | Source code |
| .checkEnv | Source code |
| .checkLicenseForRestrictiveUse | Source code |
| .checkORCID | Source code |
| .checkPinnedDeps | Source code |
| .checkValidNEEQPattern | Source code |
| .colonWalker | Source code |
| .composeReport | Source code |
| .filtTokens | Source code |
| .filterS3printRanges | Source code |
| .filter_data | Source code |
| .filtersetMethodRanges | Source code |
| .findInSignaler | Source code |
| .findLargeFiles | Source code |
| .findPasteInSignaler | Source code |
| .findSignalerInSignaler | Source code |
| .findSymbolRanges | Source code |
| .flattenElement | Source code |
| .formatsInParsedRd | Source code |
| .getBiocCheckDir | Source code |
| .getDirFiles | Source code |
| .getPackageDir | Source code |
| .getPackageName | Source code |
| .getPackageVersion | Source code |
| .getTokenTextCode | Source code |
| .getTokens | Source code |
| .getYAMLfront | Source code |
| .grepSymbolRanges | Source code |
| .grepTokenTextCode | Source code |
| .grepTokens | Source code |
| .in_data | Source code |
| .lineReport | Source code |
| .load_data | Source code |
| .msg | Source code |
| .nline_report | Source code |
| .parseBiocViews | Source code |
| .parsePackageImportsFromNamespace | Source code |
| .parse_Rd_pack | Source code |
| .readBiocViews | Source code |
| .read_all_rds | Source code |
| .rmYAMLfm | Source code |
| .roxygen_in_desc | Source code |
| .run_r_command | Source code |
| .skipRdCheck | Source code |
| .stop | Source code |
| .tagListExtract | Source code |
| .tagsExtract | Source code |
| .tempPackageDirTarball | Source code |
| .testRbuildignore | Source code |
| .try_read_dcf | Source code |
| .usesRdpack | Source code |
| .valueInParsedRd | Source code |
| .verbatim | Source code |
| .whichRdCheck | Source code |
| .zeroCounters | Source code |
| BiocCheck | Man page Source code |
| BiocCheck-class | Man page |
| BiocCheck-methods | Man page |
| BiocCheckGitClone | Man page Source code |
| BiocCheckRun | Source code |
| Context | Man page Source code |
| Message-class | Man page |
| Message-methods | Man page |
| add,BiocCheck-method | Man page |
| check1toN | Source code |
| checkBBScompatibility | Source code |
| checkBadFiles | Source code |
| checkBiocCheckOutputFolder | Source code |
| checkBiocViews | Source code |
| checkCatInRCode | Source code |
| checkClassNEEQLookup | Source code |
| checkCodingPractice | Source code |
| checkDESCRIPTIONFile | Source code |
| checkDataFileSizes | Source code |
| checkDeprecatedPackages | Source code |
| checkDescription | Source code |
| checkDupChunkLabels | Source code |
| checkEqInAssignment | Source code |
| checkExportsAreDocumented | Source code |
| checkExternalData | Source code |
| checkForBiocDevelSubscription | Source code |
| checkForCitationFile | Source code |
| checkForDirectSlotAccess | Source code |
| checkForLibraryRequire | Source code |
| checkForPromptComments | Source code |
| checkForSupportSiteRegistration | Source code |
| checkForValueSection | Source code |
| checkForVersionNumberMismatch | Source code |
| checkFormatting | Source code |
| checkFunctionLengths | Source code |
| checkIndivFileSizes | Source code |
| checkInstContents | Source code |
| checkInstDocFolder | Source code |
| checkIsPackageNameAlreadyInUse | Source code |
| checkIsVignetteBuilt | Source code |
| checkLazyDataUsage | Source code |
| checkManDocumentation | Source code |
| checkNEWS | Source code |
| checkNewPackageVersionNumber | Source code |
| checkOnAttachLoadCalls | Source code |
| checkPackageSize | Source code |
| checkPasteInSignaler | Source code |
| checkPkgInstallCalls | Source code |
| checkRVersionDependency | Source code |
| checkRbuildignore | Source code |
| checkRemotesUsage | Source code |
| checkSapply | Source code |
| checkSignalerInSignaler | Source code |
| checkSingleColon | Source code |
| checkSkipOnBioc | Source code |
| checkSupportReg | Source code |
| checkSystemCall | Source code |
| checkTFSymbolUsage | Source code |
| checkUnitTests | Source code |
| checkUsageOfDont | Source code |
| checkVersionNumber | Source code |
| checkVigBiocInst | Source code |
| checkVigBuilder | Source code |
| checkVigChunkEval | Source code |
| checkVigClassUsage | Source code |
| checkVigDirExists | Source code |
| checkVigEngine | Source code |
| checkVigEvalAllFalse | Source code |
| checkVigFiles | Source code |
| checkVigInstalls | Source code |
| checkVigMetadata | Source code |
| checkVigSessionInfo | Source code |
| checkVigSuggests | Source code |
| checkVigTemplate | Source code |
| checkVigTypeRNW | Source code |
| checkVignetteDir | Source code |
| checkWatchedTag | Source code |
| cleanupDependency | Source code |
| docType | Source code |
| doesManPageHaveRunnableExample | Source code |
| findLogicalFile | Source code |
| findLogicalRdir | Source code |
| findSymbolInParsedCode | Source code |
| findSymbolsInParsedCode | Source code |
| findSymbolsInRFiles | Source code |
| findSymbolsInVignettes | Source code |
| getAllDependencies | Source code |
| getAllDeprecatedPkgs | Source code |
| getBadDeps | Source code |
| getClassNEEQLookup | Source code |
| getCondition,Message-method | Man page |
| getFunctionLengths | Source code |
| getMaintainerEmail | Source code |
| getParent | Source code |
| getPkgType | Source code |
| getRSources | Source code |
| getVigBuilder | Source code |
| getVigEngine | Source code |
| getVigSources | Source code |
| get_deprecated_status | Source code |
| get_deprecated_status_db_url | Source code |
| get_status_file_cache | Source code |
| get_status_from_dcf | Source code |
| grepPkgDir | Source code |
| handleCheck | Source code |
| handleCondition | Source code |
| handleError | Source code |
| handleErrorFiles | Source code |
| handleMessage | Source code |
| handleNote | Source code |
| handleNoteFiles | Source code |
| handleVerbatim | Source code |
| handleWarning | Source code |
| handleWarningFiles | Source code |
| installAndLoad | Source code |
| isInfrastructurePackage | Source code |
| parseFile | Source code |
| parseFiles | Source code |
| purl_or_tangle | Source code |
| quiet_knitr_purl | Source code |
| safeFindGlobals | Source code |
| setCondition,Message-method | Man page |
| setMessage,Message-method | Man page |
| try_purl_or_tangle | Source code |
| vigHelper | Source code |
