Last updated on 2026-02-15 09:50:59 CET.
| Package | ERROR | OK |
|---|---|---|
| deltaccd | 14 | |
| limorhyde | 2 | 12 |
| limorhyde2 | 14 | |
| pmparser | 6 | 8 |
| simphony | 14 | |
| spectr | 14 | |
| tipa | 14 |
Current CRAN status: OK: 14
Current CRAN status: ERROR: 2, OK: 12
Version: 1.0.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘introduction.Rmd’ using rmarkdown
Quitting from introduction.Rmd:21-29 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'org.Mm.eg.db'
---
Backtrace:
▆
1. └─base::library("org.Mm.eg.db")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
there is no package called 'org.Mm.eg.db'
--- failed re-building ‘introduction.Rmd’
SUMMARY: processing the following file failed:
‘introduction.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-release-macos-x86_64, r-oldrel-macos-arm64
Version: 1.0.3
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘org.Mm.eg.db’
Flavor: r-oldrel-macos-arm64
Current CRAN status: OK: 14
Current CRAN status: ERROR: 6, OK: 8
Version: 1.0.24
Check: tests
Result: ERROR
Running ‘testthat.R’ [6s/12s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(pmparser)
>
> test_check('pmparser')
Saving _problems/test_modify_pubmed_db_dup-53.R
Saving _problems/test_modify_pubmed_db_dup-69.R
Saving _problems/test_modify_pubmed_db_std-24.R
Saving _problems/test_modify_pubmed_db_std-44.R
[ FAIL 4 | WARN 0 | SKIP 4 | PASS 67 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On CRAN (4): 'test_get_citation.R:4:3', 'test_get_citation.R:13:3',
'test_get_pubmed_files.R:7:3', 'test_get_pubmed_files.R:20:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_modify_pubmed_db_dup.R:51:3'): modifyPubmedDb create is unique ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_dup.R:51:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_dup.R:67:3'): modifyPubmedDb update is unique ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_dup.R:67:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_std.R:22:3'): modifyPubmedDb create matches standard ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_std.R:22:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_std.R:42:3'): modifyPubmedDb update matches standard ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_std.R:42:3
2. └─pmparser::getCitation(...)
[ FAIL 4 | WARN 0 | SKIP 4 | PASS 67 ]
Error:
! Test failures.
Warning message:
call dbDisconnect() when finished working with a connection
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.0.24
Check: tests
Result: ERROR
Running ‘testthat.R’ [4s/8s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(pmparser)
>
> test_check('pmparser')
Saving _problems/test_modify_pubmed_db_dup-53.R
Saving _problems/test_modify_pubmed_db_dup-69.R
Saving _problems/test_modify_pubmed_db_std-24.R
Saving _problems/test_modify_pubmed_db_std-44.R
[ FAIL 4 | WARN 0 | SKIP 4 | PASS 67 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On CRAN (4): 'test_get_citation.R:4:3', 'test_get_citation.R:13:3',
'test_get_pubmed_files.R:7:3', 'test_get_pubmed_files.R:20:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_modify_pubmed_db_dup.R:51:3'): modifyPubmedDb create is unique ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_dup.R:51:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_dup.R:67:3'): modifyPubmedDb update is unique ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_dup.R:67:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_std.R:22:3'): modifyPubmedDb create matches standard ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_std.R:22:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_std.R:42:3'): modifyPubmedDb update matches standard ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_std.R:42:3
2. └─pmparser::getCitation(...)
[ FAIL 4 | WARN 0 | SKIP 4 | PASS 67 ]
Error:
! Test failures.
Warning message:
call dbDisconnect() when finished working with a connection
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.0.24
Check: tests
Result: ERROR
Running 'testthat.R' [8s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(pmparser)
>
> test_check('pmparser')
Saving _problems/test_modify_pubmed_db_dup-53.R
Saving _problems/test_modify_pubmed_db_dup-69.R
Saving _problems/test_modify_pubmed_db_std-24.R
Saving _problems/test_modify_pubmed_db_std-44.R
[ FAIL 4 | WARN 0 | SKIP 4 | PASS 67 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On CRAN (4): 'test_get_citation.R:4:3', 'test_get_citation.R:13:3',
'test_get_pubmed_files.R:7:3', 'test_get_pubmed_files.R:20:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_modify_pubmed_db_dup.R:51:3'): modifyPubmedDb create is unique ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_dup.R:51:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_dup.R:67:3'): modifyPubmedDb update is unique ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_dup.R:67:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_std.R:22:3'): modifyPubmedDb create matches standard ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_std.R:22:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_std.R:42:3'): modifyPubmedDb update matches standard ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_std.R:42:3
2. └─pmparser::getCitation(...)
[ FAIL 4 | WARN 0 | SKIP 4 | PASS 67 ]
Error:
! Test failures.
Warning message:
call dbDisconnect() when finished working with a connection
Execution halted
Flavors: r-devel-windows-x86_64, r-release-windows-x86_64
Version: 1.0.24
Check: tests
Result: ERROR
Running ‘testthat.R’ [5s/10s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(pmparser)
>
> test_check('pmparser')
Saving _problems/test_modify_pubmed_db_dup-53.R
Saving _problems/test_modify_pubmed_db_dup-69.R
Saving _problems/test_modify_pubmed_db_std-24.R
Saving _problems/test_modify_pubmed_db_std-44.R
[ FAIL 4 | WARN 0 | SKIP 4 | PASS 67 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On CRAN (4): 'test_get_citation.R:4:3', 'test_get_citation.R:13:3',
'test_get_pubmed_files.R:7:3', 'test_get_pubmed_files.R:20:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_modify_pubmed_db_dup.R:51:3'): modifyPubmedDb create is unique ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_dup.R:51:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_dup.R:67:3'): modifyPubmedDb update is unique ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_dup.R:67:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_std.R:22:3'): modifyPubmedDb create matches standard ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_std.R:22:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_std.R:42:3'): modifyPubmedDb update matches standard ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_std.R:42:3
2. └─pmparser::getCitation(...)
[ FAIL 4 | WARN 0 | SKIP 4 | PASS 67 ]
Error:
! Test failures.
Warning message:
call dbDisconnect() when finished working with a connection
Execution halted
Flavor: r-release-linux-x86_64
Version: 1.0.24
Check: tests
Result: ERROR
Running 'testthat.R' [9s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(pmparser)
>
> test_check('pmparser')
Saving _problems/test_modify_pubmed_db_dup-53.R
Saving _problems/test_modify_pubmed_db_dup-69.R
Saving _problems/test_modify_pubmed_db_std-24.R
Saving _problems/test_modify_pubmed_db_std-44.R
[ FAIL 4 | WARN 0 | SKIP 4 | PASS 67 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On CRAN (4): 'test_get_citation.R:4:3', 'test_get_citation.R:13:3',
'test_get_pubmed_files.R:7:3', 'test_get_pubmed_files.R:20:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_modify_pubmed_db_dup.R:51:3'): modifyPubmedDb create is unique ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_dup.R:51:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_dup.R:67:3'): modifyPubmedDb update is unique ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_dup.R:67:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_std.R:22:3'): modifyPubmedDb create matches standard ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_std.R:22:3
2. └─pmparser::getCitation(...)
── Error ('test_modify_pubmed_db_std.R:42:3'): modifyPubmedDb update matches standard ──
Error in `if (md5Database == md5Remote) { message("Citation table in database is already up-to-date.") return(invisible()) }`: argument is of length zero
Backtrace:
▆
1. └─pmparser::modifyPubmedDb(...) at test_modify_pubmed_db_std.R:42:3
2. └─pmparser::getCitation(...)
[ FAIL 4 | WARN 0 | SKIP 4 | PASS 67 ]
Error:
! Test failures.
Warning message:
call dbDisconnect() when finished working with a connection
Execution halted
Flavor: r-oldrel-windows-x86_64
Current CRAN status: OK: 14
Current CRAN status: OK: 14
Current CRAN status: OK: 14
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They may not be fully stable and should be used with caution. We make no claims about them.
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