Last updated on 2025-12-07 07:50:41 CET.
| Package | ERROR | WARN | NOTE | OK |
|---|---|---|---|---|
| medicalcoder | 2 | 1 | 10 | |
| pedalfast.data | 1 | 12 | ||
| pedbp | 1 | 2 | 10 | |
| phoenix | 1 | 12 | ||
| pTITAN2 | 1 | 1 | 11 | |
| REDCapExporter | 1 | 12 |
Current CRAN status: ERROR: 2, WARN: 1, OK: 10
Version: 0.7.0
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'kableExtra', 'knitr', 'rmarkdown'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.7.0
Check: package vignettes
Result: NOTE
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.7.0
Check: tests
Result: ERROR
Running ‘test-asserts.R’ [5s/5s]
Running ‘test-charlson.R’ [7s/7s]
Running ‘test-comorbidities.R’ [1s/1s]
Running ‘test-data-frame-tools.R’ [1s/1s]
Running ‘test-elixhauser-example.R’ [1s/1s]
Running ‘test-elixhauser.R’ [1s/1s]
Running ‘test-icd_compact_to_full.R’ [1s/1s]
Running ‘test-internal-data.R’ [6s/6s]
Running ‘test-is_icd.R’ [13s/13s]
Running ‘test-locked-bindings.R’ [2s/2s]
Running ‘test-longitudinal-comorbidities.R’ [2s/2s]
Running ‘test-longitudinal-pccc-v3.1.R’ [1s/1s]
Running ‘test-lookup_icd_codes.R’ [7s/7s]
Running the tests in ‘tests/test-lookup_icd_codes.R’ failed.
Complete output:
> source('utilities.R')
> library(medicalcoder)
>
> # lookup exact vs regex consistency
> lx <- lookup_icd_codes(c("E11.9","I50.9"), regex = FALSE)
> lf <- lookup_icd_codes(factor(c("E11.9","I50.9")), regex = FALSE)
> lr <- lookup_icd_codes(c("^E11\\.9$","^I50\\.9$"), regex = TRUE)
> stopifnot(
+ identical(lx, lf),
+ all(lx$full_code %in% lr$full_code),
+ all(lr$full_code %in% lx$full_code)
+ )
>
> # the following gives an error:
> # Error in merge.data.frame(x = input, y = matches, all.x = TRUE, by = c(ifelse(regex, :
> # negative length vectors are not allowed
> m <- tryCatchError(lookup_icd_codes(x = "", regex = TRUE))
*** caught segfault ***
address 0x680008000, cause 'invalid permissions'
Traceback:
1: merge.data.frame(x = input, y = matches, all.x = TRUE, by = col_order[1:2])
2: merge(x = input, y = matches, all.x = TRUE, by = col_order[1:2])
3: lookup_icd_codes(x = "", regex = TRUE)
4: doTryCatch(return(expr), name, parentenv, handler)
5: tryCatchOne(expr, names, parentenv, handlers[[1L]])
6: tryCatchList(expr, classes, parentenv, handlers)
7: tryCatch(expr, ..., error = function(e) { e})
8: tryCatchError(lookup_icd_codes(x = "", regex = TRUE))
An irrecoverable exception occurred. R is aborting now ...
Flavor: r-release-macos-arm64
Version: 0.7.0
Check: tests
Result: ERROR
Running ‘test-asserts.R’ [5s/5s]
Running ‘test-charlson.R’ [7s/7s]
Running ‘test-comorbidities.R’ [1s/1s]
Running ‘test-data-frame-tools.R’ [1s/1s]
Running ‘test-elixhauser-example.R’ [1s/1s]
Running ‘test-elixhauser.R’ [1s/1s]
Running ‘test-icd_compact_to_full.R’ [1s/1s]
Running ‘test-internal-data.R’ [6s/6s]
Running ‘test-is_icd.R’ [12s/12s]
Running ‘test-locked-bindings.R’ [2s/2s]
Running ‘test-longitudinal-comorbidities.R’ [2s/2s]
Running ‘test-longitudinal-pccc-v3.1.R’ [1s/1s]
Running ‘test-lookup_icd_codes.R’ [6s/6s]
Running the tests in ‘tests/test-lookup_icd_codes.R’ failed.
Complete output:
> source('utilities.R')
> library(medicalcoder)
>
> # lookup exact vs regex consistency
> lx <- lookup_icd_codes(c("E11.9","I50.9"), regex = FALSE)
> lf <- lookup_icd_codes(factor(c("E11.9","I50.9")), regex = FALSE)
> lr <- lookup_icd_codes(c("^E11\\.9$","^I50\\.9$"), regex = TRUE)
> stopifnot(
+ identical(lx, lf),
+ all(lx$full_code %in% lr$full_code),
+ all(lr$full_code %in% lx$full_code)
+ )
>
> # the following gives an error:
> # Error in merge.data.frame(x = input, y = matches, all.x = TRUE, by = c(ifelse(regex, :
> # negative length vectors are not allowed
> m <- tryCatchError(lookup_icd_codes(x = "", regex = TRUE))
*** caught segfault ***
address 0x680008000, cause 'invalid permissions'
Traceback:
1: merge.data.frame(x = input, y = matches, all.x = TRUE, by = col_order[1:2])
2: merge(x = input, y = matches, all.x = TRUE, by = col_order[1:2])
3: lookup_icd_codes(x = "", regex = TRUE)
4: doTryCatch(return(expr), name, parentenv, handler)
5: tryCatchOne(expr, names, parentenv, handlers[[1L]])
6: tryCatchList(expr, classes, parentenv, handlers)
7: tryCatch(expr, ..., error = function(e) { e})
8: tryCatchError(lookup_icd_codes(x = "", regex = TRUE))
An irrecoverable exception occurred. R is aborting now ...
Flavor: r-oldrel-macos-arm64
Current CRAN status: WARN: 1, OK: 12
Version: 1.0.2
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'kableExtra', 'knitr', 'qwraps2'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.0.2
Check: package vignettes
Result: NOTE
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Flavor: r-devel-linux-x86_64-debian-gcc
Current CRAN status: WARN: 1, NOTE: 2, OK: 10
Version: 2.0.3
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'covr', 'DT', 'knitr', 'qwraps2', 'rmarkdown'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.0.3
Check: package vignettes
Result: NOTE
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.0.3
Check: installed package size
Result: NOTE
installed size is 5.7Mb
sub-directories of 1Mb or more:
libs 3.9Mb
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Current CRAN status: WARN: 1, OK: 12
Version: 1.1.3
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'knitr', 'qwraps2', 'rmarkdown'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.1.3
Check: package vignettes
Result: NOTE
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Flavor: r-devel-linux-x86_64-debian-gcc
Current CRAN status: WARN: 1, NOTE: 1, OK: 11
Version: 1.0.2
Check: CRAN incoming feasibility
Result: NOTE
Maintainer: ‘Peter DeWitt <peter.dewitt@cuanschutz.edu>’
Package CITATION file contains call(s) to old-style citEntry(). Please
use bibentry() instead.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc
Version: 1.0.2
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'bookdown', 'DiagrammeR', 'knitr', 'rmarkdown'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.0.2
Check: package vignettes
Result: NOTE
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Flavor: r-devel-linux-x86_64-debian-gcc
Current CRAN status: ERROR: 1, OK: 12
Version: 0.3.2
Check: package dependencies
Result: ERROR
Package required but not available: ‘keyring’
Packages suggested but not available for checking:
'devtools', 'kableExtra', 'knitr', 'qwraps2', 'rmarkdown'
VignetteBuilder package required for checking but not installed: ‘knitr’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Flavor: r-devel-linux-x86_64-debian-gcc