CRAN Package Check Results for Maintainer Jesse Bennett <j3553 at ufl.edu>

CRAN Package Check Results for Maintainer ‘Jesse Bennett <j3553 at ufl.edu>’

Last updated on 2025-09-29 16:50:22 CEST.

Package	ERROR	OK
ridigbio	4	9

Package ridigbio

Current CRAN status: ERROR: 4, OK: 9

Version: 0.4.1
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘BadCoordinateID.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘BadCoordinateID.Rmd’ --- re-building ‘BasicUsage.Rmd’ using rmarkdown Quitting from BasicUsage.Rmd:59-61 [unnamed-chunk-4] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- Backtrace: ▆ 1. └─ridigbio::idig_search_records(rq = list(scientificname = "Galax urceolata")) 2. └─ridigbio::idig_search(...) 3. └─ridigbio:::idig_POST(paste0("search/", type), body = query, ...) 4. └─ridigbio:::idig_check(req) 5. └─base::tryCatch(...) 6. └─base (local) tryCatchList(expr, classes, parentenv, handlers) 7. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 8. └─value[[3L]](cond) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'BasicUsage.Rmd' failed with diagnostics: HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- failed re-building ‘BasicUsage.Rmd’ --- re-building ‘Fields.Rmd’ using rmarkdown Quitting from Fields.Rmd:124-127 [unnamed-chunk-8] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- Backtrace: ▆ 1. └─ridigbio::idig_search_records(...) 2. └─ridigbio::idig_search(...) 3. └─ridigbio:::idig_POST(paste0("search/", type), body = query, ...) 4. └─ridigbio:::idig_check(req) 5. └─base::tryCatch(...) 6. └─base (local) tryCatchList(expr, classes, parentenv, handlers) 7. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 8. └─value[[3L]](cond) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Fields.Rmd' failed with diagnostics: HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- failed re-building ‘Fields.Rmd’ --- re-building ‘FindTissue.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. [WARNING] Div at FindTissue.knit.md line 173 column 1 unclosed at FindTissue.knit.md line 27615 column 1, closing implicitly. --- finished re-building ‘FindTissue.Rmd’ --- re-building ‘IDDataFlags.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘IDDataFlags.Rmd’ --- re-building ‘MediaAPIDemo.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘MediaAPIDemo.Rmd’ --- re-building ‘ModifiedDataID.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘ModifiedDataID.Rmd’ --- re-building ‘RecordAPIDemo.Rmd’ using rmarkdown Quitting from RecordAPIDemo.Rmd:145-164 [unnamed-chunk-6] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- Backtrace: ▆ 1. └─ridigbio::idig_search_records(...) 2. └─ridigbio::idig_search(...) 3. └─ridigbio:::idig_POST(paste0("search/", type), body = query, ...) 4. └─ridigbio:::idig_check(req) 5. └─base::tryCatch(...) 6. └─base (local) tryCatchList(expr, classes, parentenv, handlers) 7. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 8. └─value[[3L]](cond) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'RecordAPIDemo.Rmd' failed with diagnostics: HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- failed re-building ‘RecordAPIDemo.Rmd’ --- re-building ‘ridigbio.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘ridigbio.Rmd’ SUMMARY: processing the following files failed: ‘BasicUsage.Rmd’ ‘Fields.Rmd’ ‘RecordAPIDemo.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.4.1
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building 'BadCoordinateID.Rmd' using rmarkdown Quitting from BadCoordinateID.Rmd:60-95 [unnamed-chunk-3] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- Backtrace: ▆ 1. ├─... %>% ... 2. ├─dplyr::select(...) 3. ├─dplyr::rename(...) 4. └─ridigbio::idig_search_records(...) 5. └─ridigbio::idig_search(...) 6. └─ridigbio:::idig_POST(paste0("search/", type), body = query, ...) 7. └─ridigbio:::idig_check(req) 8. └─base::tryCatch(...) 9. └─base (local) tryCatchList(expr, classes, parentenv, handlers) 10. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 11. └─value[[3L]](cond) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'BadCoordinateID.Rmd' failed with diagnostics: HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- failed re-building 'BadCoordinateID.Rmd' --- re-building 'BasicUsage.Rmd' using rmarkdown --- finished re-building 'BasicUsage.Rmd' --- re-building 'Fields.Rmd' using rmarkdown Quitting from Fields.Rmd:179-188 [unnamed-chunk-12] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- Backtrace: ▆ 1. └─ridigbio::idig_search_media(...) 2. └─ridigbio::idig_search(...) 3. └─ridigbio:::idig_POST(paste0("search/", type), body = query, ...) 4. └─ridigbio:::idig_check(req) 5. └─base::tryCatch(...) 6. └─base (local) tryCatchList(expr, classes, parentenv, handlers) 7. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 8. └─value[[3L]](cond) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Fields.Rmd' failed with diagnostics: HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- failed re-building 'Fields.Rmd' --- re-building 'FindTissue.Rmd' using rmarkdown Quitting from FindTissue.Rmd:58-75 [unnamed-chunk-3] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- Backtrace: ▆ 1. └─ridigbio::idig_search_records(...) 2. └─ridigbio::idig_search(...) 3. └─ridigbio:::idig_POST(paste0("search/", type), body = query, ...) 4. └─ridigbio:::idig_check(req) 5. └─base::tryCatch(...) 6. └─base (local) tryCatchList(expr, classes, parentenv, handlers) 7. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 8. └─value[[3L]](cond) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'FindTissue.Rmd' failed with diagnostics: HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- failed re-building 'FindTissue.Rmd' --- re-building 'IDDataFlags.Rmd' using rmarkdown --- finished re-building 'IDDataFlags.Rmd' --- re-building 'MediaAPIDemo.Rmd' using rmarkdown Quitting from MediaAPIDemo.Rmd:58-85 [unnamed-chunk-3] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- Backtrace: ▆ 1. └─ridigbio::idig_search_media(...) 2. └─ridigbio::idig_search(...) 3. └─ridigbio:::idig_POST(paste0("search/", type), body = query, ...) 4. └─ridigbio:::idig_check(req) 5. └─base::tryCatch(...) 6. └─base (local) tryCatchList(expr, classes, parentenv, handlers) 7. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 8. └─value[[3L]](cond) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'MediaAPIDemo.Rmd' failed with diagnostics: HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- failed re-building 'MediaAPIDemo.Rmd' --- re-building 'ModifiedDataID.Rmd' using rmarkdown --- finished re-building 'ModifiedDataID.Rmd' --- re-building 'RecordAPIDemo.Rmd' using rmarkdown --- finished re-building 'RecordAPIDemo.Rmd' --- re-building 'ridigbio.Rmd' using rmarkdown --- finished re-building 'ridigbio.Rmd' SUMMARY: processing the following files failed: 'BadCoordinateID.Rmd' 'Fields.Rmd' 'FindTissue.Rmd' 'MediaAPIDemo.Rmd' Error: Vignette re-building failed. Execution halted Flavor: r-release-windows-x86_64

Version: 0.4.1
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building 'BadCoordinateID.Rmd' using rmarkdown --- finished re-building 'BadCoordinateID.Rmd' --- re-building 'BasicUsage.Rmd' using rmarkdown error in vignette: object 'galax_media' not founderror in vignette: object 'galax_media2' not found--- finished re-building 'BasicUsage.Rmd' --- re-building 'Fields.Rmd' using rmarkdown --- finished re-building 'Fields.Rmd' --- re-building 'FindTissue.Rmd' using rmarkdown --- finished re-building 'FindTissue.Rmd' --- re-building 'IDDataFlags.Rmd' using rmarkdown --- finished re-building 'IDDataFlags.Rmd' --- re-building 'MediaAPIDemo.Rmd' using rmarkdown --- finished re-building 'MediaAPIDemo.Rmd' --- re-building 'ModifiedDataID.Rmd' using rmarkdown --- finished re-building 'ModifiedDataID.Rmd' --- re-building 'RecordAPIDemo.Rmd' using rmarkdown Quitting from RecordAPIDemo.Rmd:68-93 [unnamed-chunk-3] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- Backtrace: ▆ 1. └─ridigbio::idig_search_records(...) 2. └─ridigbio::idig_search(...) 3. └─ridigbio:::idig_POST(paste0("search/", type), body = query, ...) 4. └─ridigbio:::idig_check(req) 5. └─base::tryCatch(...) 6. └─base (local) tryCatchList(expr, classes, parentenv, handlers) 7. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 8. └─value[[3L]](cond) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'RecordAPIDemo.Rmd' failed with diagnostics: HTTP failure: 503 Error message from API server: {"error":"Internal Server Error"} --- failed re-building 'RecordAPIDemo.Rmd' --- re-building 'ridigbio.Rmd' using rmarkdown --- finished re-building 'ridigbio.Rmd' SUMMARY: processing the following file failed: 'RecordAPIDemo.Rmd' Error: Vignette re-building failed. Execution halted Flavor: r-oldrel-windows-x86_64