Last updated on 2021-12-01 07:50:30 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.5.1 | 11.19 | 197.06 | 208.25 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.5.1 | 9.12 | 155.33 | 164.45 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.5.1 | 304.28 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 0.5.1 | 278.08 | NOTE | |||
| r-devel-windows-x86_64-new-UL | 0.5.1 | 20.00 | 457.00 | 477.00 | OK | |
| r-devel-windows-x86_64-new-TK | 0.5.1 | NOTE | ||||
| r-devel-windows-x86_64-old | 0.5.1 | 22.00 | 359.00 | 381.00 | OK | |
| r-patched-linux-x86_64 | 0.5.1 | 16.97 | 196.08 | 213.05 | ERROR | |
| r-patched-solaris-x86 | 0.5.1 | 310.20 | NOTE | |||
| r-release-linux-x86_64 | 0.5.1 | 10.18 | 195.78 | 205.96 | ERROR | |
| r-release-macos-arm64 | 0.5.1 | NOTE | ||||
| r-release-macos-x86_64 | 0.5.1 | NOTE | ||||
| r-release-windows-ix86+x86_64 | 0.5.1 | 26.00 | 357.00 | 383.00 | OK | |
| r-oldrel-macos-x86_64 | 0.5.1 | NOTE | ||||
| r-oldrel-windows-ix86+x86_64 | 0.5.1 | 20.00 | 386.00 | 406.00 | OK |
Version: 0.5.1
Check: tests
Result: ERROR
Running 'testthat.R' [51s/173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(occCite)
>
> test_check("occCite")
[1] "NOTE: 1 BIEN dataset(s) for Protea cynaroides is/are missing citation data. Key(s) missing citations are: 280. Source(s) are identified as: MO."
OccCite query occurred on: 24 November, 2020
User query type: User-supplied list of taxa.
Sources for taxonomic rectification: NCBI
Taxonomic cleaning results:
Input Name Best Match Taxonomic Databases w/ Matches
1 Protea cynaroides Protea cynaroides NCBI
Sources for occurrence data: gbif, bien
Species Occurrences Sources
1 Protea cynaroides 1293 17
GBIF dataset DOIs:
Species GBIF Access Date GBIF DOI
1 Protea cynaroides 2020-11-23 10.15468/dl.2449qy
OccCite query occurred on: 24 November, 2020
User query type: User-supplied list of taxa.
Sources for taxonomic rectification: NCBI
Taxonomic cleaning results:
Input Name Best Match Taxonomic Databases w/ Matches
1 Protea cynaroides Protea cynaroides NCBI
Sources for occurrence data: gbif
Species Occurrences Sources
1 Protea cynaroides 1145 12
GBIF dataset DOIs:
Species GBIF Access Date GBIF DOI
1 Protea cynaroides 2020-11-23 10.15468/dl.2449qy
OccCite query occurred on: 24 November, 2020
User query type: User-supplied list of taxa.
Sources for taxonomic rectification: NCBI
Taxonomic cleaning results:
Input Name Best Match Taxonomic Databases w/ Matches
1 Protea cynaroides Protea cynaroides NCBI
Sources for occurrence data: bien
Species Occurrences Sources
1 Protea cynaroides 148 5
== Skipped tests ===============================================================
* GBIF Login information not available (1)
* On CRAN (14)
== Failed tests ================================================================
-- Error (test-occCitePrint.R:11:1): (code run outside of `test_that()`) -------
Error in `curl::curl_fetch_memory(x$url$url, handle = x$url$handle)`: HTTP/2 stream 4253 was not closed cleanly before end of the underlying stream
Backtrace:
x
1. \-occCite::occQuery(...) test-occCitePrint.R:11:0
2. \-occCite:::gbifRetriever(searchTaxa[[i]])
3. \-rgbif::name_backbone(cleanTaxon)
4. \-rgbif:::gbif_GET(url, args, FALSE, curlopts)
5. \-cli$get(query = args)
6. \-private$make_request(rr)
7. \-crul:::crul_fetch(opts)
8. \-curl::curl_fetch_memory(x$url$url, handle = x$url$handle)
[ FAIL 1 | WARN 0 | SKIP 15 | PASS 203 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.5.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [41s/155s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(occCite)
>
> test_check("occCite")
[1] "NOTE: 1 BIEN dataset(s) for Protea cynaroides is/are missing citation data. Key(s) missing citations are: 280. Source(s) are identified as: MO."
OccCite query occurred on: 24 November, 2020
User query type: User-supplied list of taxa.
Sources for taxonomic rectification: NCBI
Taxonomic cleaning results:
Input Name Best Match Taxonomic Databases w/ Matches
1 Protea cynaroides Protea cynaroides NCBI
Sources for occurrence data: gbif, bien
Species Occurrences Sources
1 Protea cynaroides 1293 17
GBIF dataset DOIs:
Species GBIF Access Date GBIF DOI
1 Protea cynaroides 2020-11-23 10.15468/dl.2449qy
OccCite query occurred on: 24 November, 2020
User query type: User-supplied list of taxa.
Sources for taxonomic rectification: NCBI
Taxonomic cleaning results:
Input Name Best Match Taxonomic Databases w/ Matches
1 Protea cynaroides Protea cynaroides NCBI
Sources for occurrence data: gbif
Species Occurrences Sources
1 Protea cynaroides 1145 12
GBIF dataset DOIs:
Species GBIF Access Date GBIF DOI
1 Protea cynaroides 2020-11-23 10.15468/dl.2449qy
OccCite query occurred on: 24 November, 2020
User query type: User-supplied list of taxa.
Sources for taxonomic rectification: NCBI
Taxonomic cleaning results:
Input Name Best Match Taxonomic Databases w/ Matches
1 Protea cynaroides Protea cynaroides NCBI
Sources for occurrence data: bien
Species Occurrences Sources
1 Protea cynaroides 148 5
══ Skipped tests ═══════════════════════════════════════════════════════════════
• GBIF Login information not available (1)
• On CRAN (14)
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test-occCitePrint.R:11:1): (code run outside of `test_that()`) ───────
Error in `curl::curl_fetch_memory(x$url$url, handle = x$url$handle)`: HTTP/2 stream 4253 was not closed cleanly before end of the underlying stream
Backtrace:
█
1. └─occCite::occQuery(...) test-occCitePrint.R:11:0
2. └─occCite:::gbifRetriever(searchTaxa[[i]])
3. └─rgbif::name_backbone(cleanTaxon)
4. └─rgbif:::gbif_GET(url, args, FALSE, curlopts)
5. └─cli$get(query = args)
6. └─private$make_request(rr)
7. └─crul:::crul_fetch(opts)
8. └─curl::curl_fetch_memory(x$url$url, handle = x$url$handle)
[ FAIL 1 | WARN 0 | SKIP 15 | PASS 203 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.5.1
Check: dependencies in R code
Result: NOTE
Namespace in Imports field not imported from: ‘httr’
All declared Imports should be used.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64-new-TK, r-patched-solaris-x86, r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-x86_64
Version: 0.5.1
Check: data for non-ASCII characters
Result: NOTE
Note: found 6 marked UTF-8 strings
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64-new-TK, r-patched-solaris-x86, r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-x86_64
Version: 0.5.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [51s/163s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(occCite)
>
> test_check("occCite")
[1] "NOTE: 1 BIEN dataset(s) for Protea cynaroides is/are missing citation data. Key(s) missing citations are: 280. Source(s) are identified as: MO."
OccCite query occurred on: 24 November, 2020
User query type: User-supplied list of taxa.
Sources for taxonomic rectification: NCBI
Taxonomic cleaning results:
Input Name Best Match Taxonomic Databases w/ Matches
1 Protea cynaroides Protea cynaroides NCBI
Sources for occurrence data: gbif, bien
Species Occurrences Sources
1 Protea cynaroides 1293 17
GBIF dataset DOIs:
Species GBIF Access Date GBIF DOI
1 Protea cynaroides 2020-11-23 10.15468/dl.2449qy
OccCite query occurred on: 24 November, 2020
User query type: User-supplied list of taxa.
Sources for taxonomic rectification: NCBI
Taxonomic cleaning results:
Input Name Best Match Taxonomic Databases w/ Matches
1 Protea cynaroides Protea cynaroides NCBI
Sources for occurrence data: gbif
Species Occurrences Sources
1 Protea cynaroides 1145 12
GBIF dataset DOIs:
Species GBIF Access Date GBIF DOI
1 Protea cynaroides 2020-11-23 10.15468/dl.2449qy
OccCite query occurred on: 24 November, 2020
User query type: User-supplied list of taxa.
Sources for taxonomic rectification: NCBI
Taxonomic cleaning results:
Input Name Best Match Taxonomic Databases w/ Matches
1 Protea cynaroides Protea cynaroides NCBI
Sources for occurrence data: bien
Species Occurrences Sources
1 Protea cynaroides 148 5
══ Skipped tests ═══════════════════════════════════════════════════════════════
• GBIF Login information not available (1)
• On CRAN (14)
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test-occCitePrint.R:11:1): (code run outside of `test_that()`) ───────
Error in `curl::curl_fetch_memory(x$url$url, handle = x$url$handle)`: HTTP/2 stream 4253 was not closed cleanly before end of the underlying stream
Backtrace:
█
1. └─occCite::occQuery(...) test-occCitePrint.R:11:0
2. └─occCite:::gbifRetriever(searchTaxa[[i]])
3. └─rgbif::name_backbone(cleanTaxon)
4. └─rgbif:::gbif_GET(url, args, FALSE, curlopts)
5. └─cli$get(query = args)
6. └─private$make_request(rr)
7. └─crul:::crul_fetch(opts)
8. └─curl::curl_fetch_memory(x$url$url, handle = x$url$handle)
[ FAIL 1 | WARN 0 | SKIP 15 | PASS 203 ]
Error: Test failures
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.5.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [52s/176s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(occCite)
>
> test_check("occCite")
[1] "NOTE: 1 BIEN dataset(s) for Protea cynaroides is/are missing citation data. Key(s) missing citations are: 280. Source(s) are identified as: MO."
OccCite query occurred on: 24 November, 2020
User query type: User-supplied list of taxa.
Sources for taxonomic rectification: NCBI
Taxonomic cleaning results:
Input Name Best Match Taxonomic Databases w/ Matches
1 Protea cynaroides Protea cynaroides NCBI
Sources for occurrence data: gbif, bien
Species Occurrences Sources
1 Protea cynaroides 1293 17
GBIF dataset DOIs:
Species GBIF Access Date GBIF DOI
1 Protea cynaroides 2020-11-23 10.15468/dl.2449qy
OccCite query occurred on: 24 November, 2020
User query type: User-supplied list of taxa.
Sources for taxonomic rectification: NCBI
Taxonomic cleaning results:
Input Name Best Match Taxonomic Databases w/ Matches
1 Protea cynaroides Protea cynaroides NCBI
Sources for occurrence data: gbif
Species Occurrences Sources
1 Protea cynaroides 1145 12
GBIF dataset DOIs:
Species GBIF Access Date GBIF DOI
1 Protea cynaroides 2020-11-23 10.15468/dl.2449qy
OccCite query occurred on: 24 November, 2020
User query type: User-supplied list of taxa.
Sources for taxonomic rectification: NCBI
Taxonomic cleaning results:
Input Name Best Match Taxonomic Databases w/ Matches
1 Protea cynaroides Protea cynaroides NCBI
Sources for occurrence data: bien
Species Occurrences Sources
1 Protea cynaroides 148 5
══ Skipped tests ═══════════════════════════════════════════════════════════════
• GBIF Login information not available (1)
• On CRAN (14)
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test-occCitePrint.R:11:1): (code run outside of `test_that()`) ───────
Error in `curl::curl_fetch_memory(x$url$url, handle = x$url$handle)`: HTTP/2 stream 4253 was not closed cleanly before end of the underlying stream
Backtrace:
█
1. └─occCite::occQuery(...) test-occCitePrint.R:11:0
2. └─occCite:::gbifRetriever(searchTaxa[[i]])
3. └─rgbif::name_backbone(cleanTaxon)
4. └─rgbif:::gbif_GET(url, args, FALSE, curlopts)
5. └─cli$get(query = args)
6. └─private$make_request(rr)
7. └─crul:::crul_fetch(opts)
8. └─curl::curl_fetch_memory(x$url$url, handle = x$url$handle)
[ FAIL 1 | WARN 0 | SKIP 15 | PASS 203 ]
Error: Test failures
Execution halted
Flavor: r-release-linux-x86_64