CRAN Package Check Results for Maintainer Evan Biederstedt <evan.biederstedt at gmail.com>

CRAN Package Check Results for Maintainer ‘Evan Biederstedt <evan.biederstedt at gmail.com>’

Last updated on 2025-10-21 00:50:39 CEST.

Package	NOTE	OK
conos	4	7
dendsort		13
edlibR		13
gapmap		13
ggrastr		13
leidenAlg	3	8
N2R	4	7
pagoda2	3	8
RMTstat	2	11
Rook	2	11
sccore	2	9
vrnmf		13

Package conos

Current CRAN status: NOTE: 4, OK: 7

Version: 1.5.2
Check: HTML version of manual
Result: NOTE Found the following HTML validation problems: Conos.html:183:1 (Conos.Rd:147): Warning: <h5> anchor "Usage" already defined Conos.html:189:1 (Conos.Rd:151): Warning: <h5> anchor "Arguments" already defined Conos.html:206:1 (Conos.Rd:162): Warning: <h5> anchor "Returns" already defined Conos.html:223:1 (Conos.Rd:171): Warning: <h5> anchor "Usage" already defined Conos.html:263:1 (Conos.Rd:209): Warning: <h5> anchor "Arguments" already defined Conos.html:346:1 (Conos.Rd:286): Warning: <h5> anchor "Returns" already defined Conos.html:353:1 (Conos.Rd:289): Warning: <h5> anchor "Examples" already defined Conos.html:376:1 (Conos.Rd:307): Warning: <h5> anchor "Usage" already defined Conos.html:390:1 (Conos.Rd:319): Warning: <h5> anchor "Arguments" already defined Conos.html:415:1 (Conos.Rd:338): Warning: <h5> anchor "Returns" already defined Conos.html:432:1 (Conos.Rd:347): Warning: <h5> anchor "Usage" already defined Conos.html:449:1 (Conos.Rd:362): Warning: <h5> anchor "Arguments" already defined Conos.html:480:1 (Conos.Rd:387): Warning: <h5> anchor "Returns" already defined Conos.html:487:1 (Conos.Rd:390): Warning: <h5> anchor "Examples" already defined Conos.html:510:1 (Conos.Rd:408): Warning: <h5> anchor "Usage" already defined Conos.html:527:1 (Conos.Rd:423): Warning: <h5> anchor "Arguments" already defined Conos.html:559:1 (Conos.Rd:449): Warning: <h5> anchor "Returns" already defined Conos.html:576:1 (Conos.Rd:458): Warning: <h5> anchor "Usage" already defined Conos.html:594:1 (Conos.Rd:474): Warning: <h5> anchor "Arguments" already defined Conos.html:641:1 (Conos.Rd:511): Warning: <h5> anchor "Usage" already defined Conos.html:647:1 (Conos.Rd:515): Warning: <h5> anchor "Arguments" already defined Conos.html:662:1 (Conos.Rd:524): Warning: <h5> anchor "Returns" already defined Conos.html:679:1 (Conos.Rd:533): Warning: <h5> anchor "Usage" already defined Conos.html:695:1 (Conos.Rd:547): Warning: <h5> anchor "Arguments" already defined Conos.html:724:1 (Conos.Rd:570): Warning: <h5> anchor "Returns" already defined Conos.html:742:1 (Conos.Rd:580): Warning: <h5> anchor "Usage" already defined Conos.html:759:1 (Conos.Rd:595): Warning: <h5> anchor "Arguments" already defined Conos.html:790:1 (Conos.Rd:620): Warning: <h5> anchor "Returns" already defined Conos.html:811:1 (Conos.Rd:633): Warning: <h5> anchor "Usage" already defined Conos.html:817:1 (Conos.Rd:637): Warning: <h5> anchor "Arguments" already defined Conos.html:835:1 (Conos.Rd:649): Warning: <h5> anchor "Returns" already defined Conos.html:855:1 (Conos.Rd:661): Warning: <h5> anchor "Usage" already defined Conos.html:866:1 (Conos.Rd:670): Warning: <h5> anchor "Arguments" already defined Conos.html:885:1 (Conos.Rd:683): Warning: <h5> anchor "Returns" already defined Conos.html:902:1 (Conos.Rd:692): Warning: <h5> anchor "Usage" already defined Conos.html:908:1 (Conos.Rd:696): Warning: <h5> anchor "Returns" already defined Conos.html:915:1 (Conos.Rd:699): Warning: <h5> anchor "Examples" already defined Conos.html:936:1 (Conos.Rd:715): Warning: <h5> anchor "Usage" already defined Conos.html:942:1 (Conos.Rd:719): Warning: <h5> anchor "Arguments" already defined Conos.html:955:1 (Conos.Rd:726): Warning: <h5> anchor "Returns" already defined Conos.html:962:1 (Conos.Rd:729): Warning: <h5> anchor "Examples" already defined Conos.html:983:1 (Conos.Rd:745): Warning: <h5> anchor "Usage" already defined Conos.html:989:1 (Conos.Rd:749): Warning: <h5> anchor "Arguments" already defined edgeMat.html:72:1 (edgeMat.Rd:33): Warning: missing </ul> before </div> getCellNames.html:58:1 (getCellNames.Rd:22): Warning: missing </ul> before </div> getClustering.html:62:1 (getClustering.Rd:24): Warning: missing </ul> before </div> getCountMatrix.html:59:1 (getCountMatrix.Rd:21): Warning: missing </ul> before </div> getEmbedding.html:62:1 (getEmbedding.Rd:24): Warning: missing </ul> before </div> getGeneExpression.html:62:1 (getGeneExpression.Rd:24): Warning: missing </ul> before </div> getGenes.html:58:1 (getGenes.Rd:22): Warning: missing </ul> before </div> getOdGenesUniformly.html:50:1 (getOdGenesUniformly.Rd:12): Warning: missing </ul> before </div> getOverdispersedGenes.html:62:1 (getOverdispersedGenes.Rd:24): Warning: missing </ul> before </div> getPca.html:55:1 (getPca.Rd:19): Warning: missing </ul> before </div> getRawCountMatrix.html:62:1 (getRawCountMatrix.Rd:24): Warning: missing </ul> before </div> namedNames.html:50:1 (namedNames.Rd:12): Warning: missing </ul> before </div> propagateLabelsDiffusion.html:75:1 (propagateLabelsDiffusion.Rd:29): Warning: missing </ul> before </div> quickCCA.html:79:1 (quickCCA.Rd:31): Warning: missing </ul> before </div> saveDEasCSV.html:54:1 (saveDEasCSV.Rd:14): Warning: missing </ul> before </div> Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.5.2
Check: package dependencies
Result: NOTE Packages suggested but not available for checking: 'conosPanel', 'org.Mm.eg.db', 'p2data' Flavor: r-oldrel-macos-arm64

Version: 1.5.2
Check: installed package size
Result: NOTE installed size is 11.2Mb sub-directories of 1Mb or more: libs 9.4Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Version: 1.5.2
Check: package dependencies
Result: NOTE Packages suggested but not available for checking: 'conosPanel', 'p2data' Flavors: r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package dendsort

Current CRAN status: OK: 13

Package edlibR

Current CRAN status: OK: 13

Package gapmap

Current CRAN status: OK: 13

Package ggrastr

Current CRAN status: OK: 13

Package leidenAlg

Current CRAN status: NOTE: 3, OK: 8

Version: 1.1.5
Check: for GNU extensions in Makefiles
Result: NOTE GNU make is a SystemRequirements. Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package N2R

Current CRAN status: NOTE: 4, OK: 7

Version: 1.0.3
Check: CRAN incoming feasibility
Result: NOTE Maintainer: ‘Evan Biederstedt <evan.biederstedt@gmail.com>’ The Description field contains <doi:10.1109/TPAMI.2018.2889473>, <arXiv:1603.09320>. Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Version: 1.0.3
Check: installed package size
Result: NOTE installed size is 5.7Mb sub-directories of 1Mb or more: libs 5.6Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Package pagoda2

Current CRAN status: NOTE: 3, OK: 8

Version: 1.0.13
Check: HTML version of manual
Result: NOTE Found the following HTML validation problems: Pagoda2.html:237:1 (Pagoda2.Rd:199): Warning: <h5> anchor "Usage" already defined Pagoda2.html:253:1 (Pagoda2.Rd:213): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:282:1 (Pagoda2.Rd:236): Warning: <h5> anchor "Returns" already defined Pagoda2.html:300:1 (Pagoda2.Rd:246): Warning: <h5> anchor "Usage" already defined Pagoda2.html:320:1 (Pagoda2.Rd:264): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:357:1 (Pagoda2.Rd:295): Warning: <h5> anchor "Returns" already defined Pagoda2.html:364:1 (Pagoda2.Rd:298): Warning: <h5> anchor "Examples" already defined Pagoda2.html:394:1 (Pagoda2.Rd:323): Warning: <h5> anchor "Usage" already defined Pagoda2.html:413:1 (Pagoda2.Rd:340): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:448:1 (Pagoda2.Rd:369): Warning: <h5> anchor "Returns" already defined Pagoda2.html:455:1 (Pagoda2.Rd:372): Warning: <h5> anchor "Examples" already defined Pagoda2.html:487:1 (Pagoda2.Rd:399): Warning: <h5> anchor "Usage" already defined Pagoda2.html:502:1 (Pagoda2.Rd:412): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:530:1 (Pagoda2.Rd:434): Warning: <h5> anchor "Returns" already defined Pagoda2.html:547:1 (Pagoda2.Rd:443): Warning: <h5> anchor "Usage" already defined Pagoda2.html:563:1 (Pagoda2.Rd:453): Warning: <h5> anchor "Usage" already defined Pagoda2.html:580:1 (Pagoda2.Rd:468): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:611:1 (Pagoda2.Rd:493): Warning: <h5> anchor "Returns" already defined Pagoda2.html:628:1 (Pagoda2.Rd:502): Warning: <h5> anchor "Usage" already defined Pagoda2.html:642:1 (Pagoda2.Rd:514): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:667:1 (Pagoda2.Rd:533): Warning: <h5> anchor "Returns" already defined Pagoda2.html:684:1 (Pagoda2.Rd:542): Warning: <h5> anchor "Usage" already defined Pagoda2.html:699:1 (Pagoda2.Rd:555): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:726:1 (Pagoda2.Rd:576): Warning: <h5> anchor "Returns" already defined Pagoda2.html:743:1 (Pagoda2.Rd:585): Warning: <h5> anchor "Usage" already defined Pagoda2.html:759:1 (Pagoda2.Rd:599): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:788:1 (Pagoda2.Rd:622): Warning: <h5> anchor "Returns" already defined Pagoda2.html:810:1 (Pagoda2.Rd:636): Warning: <h5> anchor "Usage" already defined Pagoda2.html:830:1 (Pagoda2.Rd:654): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:867:1 (Pagoda2.Rd:685): Warning: <h5> anchor "Returns" already defined Pagoda2.html:884:1 (Pagoda2.Rd:694): Warning: <h5> anchor "Usage" already defined Pagoda2.html:895:1 (Pagoda2.Rd:703): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:914:1 (Pagoda2.Rd:716): Warning: <h5> anchor "Returns" already defined Pagoda2.html:931:1 (Pagoda2.Rd:725): Warning: <h5> anchor "Usage" already defined Pagoda2.html:953:1 (Pagoda2.Rd:745): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:994:1 (Pagoda2.Rd:780): Warning: <h5> anchor "Returns" already defined Pagoda2.html:1011:1 (Pagoda2.Rd:789): Warning: <h5> anchor "Usage" already defined Pagoda2.html:1026:1 (Pagoda2.Rd:802): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:1053:1 (Pagoda2.Rd:823): Warning: <h5> anchor "Returns" already defined Pagoda2.html:1070:1 (Pagoda2.Rd:832): Warning: <h5> anchor "Usage" already defined Pagoda2.html:1080:1 (Pagoda2.Rd:840): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:1097:1 (Pagoda2.Rd:851): Warning: <h5> anchor "Returns" already defined Pagoda2.html:1114:1 (Pagoda2.Rd:860): Warning: <h5> anchor "Usage" already defined Pagoda2.html:1120:1 (Pagoda2.Rd:864): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:1135:1 (Pagoda2.Rd:873): Warning: <h5> anchor "Returns" already defined Pagoda2.html:1152:1 (Pagoda2.Rd:882): Warning: <h5> anchor "Usage" already defined Pagoda2.html:1172:1 (Pagoda2.Rd:900): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:1209:1 (Pagoda2.Rd:931): Warning: <h5> anchor "Returns" already defined Pagoda2.html:1227:1 (Pagoda2.Rd:941): Warning: <h5> anchor "Usage" already defined Pagoda2.html:1249:1 (Pagoda2.Rd:961): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:1290:1 (Pagoda2.Rd:996): Warning: <h5> anchor "Returns" already defined Pagoda2.html:1307:1 (Pagoda2.Rd:1005): Warning: <h5> anchor "Usage" already defined Pagoda2.html:1335:1 (Pagoda2.Rd:1031): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:1388:1 (Pagoda2.Rd:1078): Warning: <h5> anchor "Returns" already defined Pagoda2.html:1406:1 (Pagoda2.Rd:1088): Warning: <h5> anchor "Usage" already defined Pagoda2.html:1433:1 (Pagoda2.Rd:1113): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:1484:1 (Pagoda2.Rd:1158): Warning: <h5> anchor "Returns" already defined Pagoda2.html:1501:1 (Pagoda2.Rd:1167): Warning: <h5> anchor "Usage" already defined Pagoda2.html:1523:1 (Pagoda2.Rd:1187): Warning: <h5> anchor "Arguments" already defined Pagoda2.html:1565:1 (Pagoda2.Rd:1223): Warning: <h5> anchor "Returns" already defined Pagoda2.html:1582:1 (Pagoda2.Rd:1232): Warning: <h5> anchor "Usage" already defined Pagoda2.html:1588:1 (Pagoda2.Rd:1236): Warning: <h5> anchor "Arguments" already defined diffExprOnP2FromWebSelection.html:60:1 (diffExprOnP2FromWebSelection.Rd:17): Warning: missing </ul> before </div> diffExprOnP2FromWebSelectionOneGroup.html:56:1 (diffExprOnP2FromWebSelectionOneGroup.Rd:15): Warning: missing </ul> before </div> dot-onUnload.html:46:1 (dot-onUnload.Rd:10): Warning: missing </ul> before </div> p2.generate.dr.go.web.html:50:1 (p2.generate.dr.go.web.Rd:12): Warning: missing </ul> before </div> p2.generate.go.html:69:1 (p2.generate.go.Rd:25): Warning: missing </ul> before </div> p2.generate.go.web.html:63:1 (p2.generate.go.web.Rd:21): Warning: missing </ul> before </div> p2.generate.go.web.fromGOEnv.html:46:1 (p2.generate.go.web.fromGOEnv.Rd:10): Warning: missing </ul> before </div> p2.generate.human.go.web.html:50:1 (p2.generate.human.go.web.Rd:12): Warning: missing </ul> before </div> p2.generate.mouse.go.web.html:50:1 (p2.generate.mouse.go.web.Rd:12): Warning: missing </ul> before </div> p2ViewPagodaApp.html:257:1 (p2ViewPagodaApp.Rd:155): Warning: missing </ul> before </div> p2ViewPagodaApp.html:158:1 (p2ViewPagodaApp.Rd:100): Warning: <h5> anchor "Usage" already defined p2ViewPagodaApp.html:164:1 (p2ViewPagodaApp.Rd:104): Warning: <h5> anchor "Arguments" already defined p2ViewPagodaApp.html:181:1 (p2ViewPagodaApp.Rd:115): Warning: <h5> anchor "Returns" already defined p2ViewPagodaApp.html:198:1 (p2ViewPagodaApp.Rd:124): Warning: <h5> anchor "Usage" already defined p2ViewPagodaApp.html:204:1 (p2ViewPagodaApp.Rd:128): Warning: <h5> anchor "Arguments" already defined p2ViewPagodaApp.html:217:1 (p2ViewPagodaApp.Rd:135): Warning: <h5> anchor "Returns" already defined p2ViewPagodaApp.html:234:1 (p2ViewPagodaApp.Rd:144): Warning: <h5> anchor "Usage" already defined p2ViewPagodaApp.html:240:1 (p2ViewPagodaApp.Rd:148): Warning: <h5> anchor "Arguments" already defined pagoda2WebApp_call.html:40:1 (pagoda2WebApp_call.Rd:7): Warning: missing </ul> before </div> readPagoda2SelectionFile.html:50:1 (readPagoda2SelectionFile.Rd:12): Warning: missing </ul> before </div> Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.0.13
Check: package dependencies
Result: NOTE Packages suggested but not available for checking: 'org.Dr.eg.db', 'org.Mm.eg.db' Flavor: r-oldrel-macos-arm64

Version: 1.0.13
Check: installed package size
Result: NOTE installed size is 7.0Mb sub-directories of 1Mb or more: libs 5.2Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Package RMTstat

Current CRAN status: NOTE: 2, OK: 11

Version: 0.3.1
Check: CRAN incoming feasibility
Result: NOTE Maintainer: ‘Evan Biederstedt <evan.biederstedt@gmail.com>’ No Authors@R field in DESCRIPTION. Please add one, modifying Authors@R: c(person(given = c("Iain", "M."), family = "Johnstone", role = "aut"), person(given = "Zongming", family = "Ma", role = "aut"), person(given = c("Patrick", "O."), family = "Perry", role = "aut"), person(given = "Morteza", family = "Shahram", role = "aut"), person(given = "Evan", family = "Biederstedt", role = c("aut", "cre"), email = "evan.biederstedt@gmail.com")) as necessary. Package CITATION file contains call(s) to old-style personList() or as.personList(). Please use c() on person objects instead. Package CITATION file contains call(s) to old-style citEntry(). Please use bibentry() instead. The BugReports field in DESCRIPTION has https://github.com/evanbiederstedt/RMTstat which should likely be https://github.com/evanbiederstedt/RMTstat/issues instead. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Package Rook

Current CRAN status: NOTE: 2, OK: 11

Additional issues

rchk

Version: 1.2
Check: CRAN incoming feasibility
Result: NOTE Maintainer: ‘Evan Biederstedt <evan.biederstedt@gmail.com>’ No Authors@R field in DESCRIPTION. Please add one, modifying Authors@R: c(person(given = "Jeffrey", family = "Horner", role = "aut"), person(given = "Evan", family = "Biederstedt", role = c("aut", "cre"), email = "evan.biederstedt@gmail.com")) as necessary. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Package sccore

Current CRAN status: NOTE: 2, OK: 9

Version: 1.0.6
Check: installed package size
Result: NOTE installed size is 5.7Mb sub-directories of 1Mb or more: libs 4.9Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Package vrnmf

Current CRAN status: OK: 13