CRAN Package Check Results for Maintainer ‘Rodrigo Fonseca Villa <rodrigo03.villa at gmail.com>’

Last updated on 2026-05-05 11:52:09 CEST.

Package	ERROR	OK
rmet		13
Rtwalk		13
taxodist	7	6

Package rmet

Current CRAN status: OK: 13

Package Rtwalk

Current CRAN status: OK: 13

Package taxodist

Current CRAN status: ERROR: 7, OK: 6

Additional issues

MKL

Version: 0.2.0
Check: tests
Result: ERROR Running ‘testthat.R’ [0m/20m] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(taxodist) > > test_check("taxodist") v Cache saved to '/tmp/Rtmp2b0MHy/file1c57a3ccfcc87.rds' (1 entries). v Cache saved to '/tmp/Rtmp2b0MHy/file1c57a32935fa92.rds' (1 entries). v Cache loaded from '/tmp/Rtmp2b0MHy/file1c57a32935fa92.rds' (1 entries). v Cache saved to '/tmp/Rtmp2b0MHy/file1c57a37f0ff343.rds' (2 entries). v Cache loaded from '/tmp/Rtmp2b0MHy/file1c57a37f0ff343.rds' (2 entries). v Cache saved to '/tmp/Rtmp2b0MHy/file1c57a35ef7b1af.rds' (0 entries). v Cache saved to '/tmp/Rtmp2b0MHy/file1c57a3f339212.rds' (0 entries). v Cache loaded from '/tmp/Rtmp2b0MHy/file1c57a3f339212.rds' (0 entries). x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Tyrannosaurus only (2 nodes): > Theropoda > Tyrannosaurus Triceratops only (2 nodes): > Ornithischia > Triceratops x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus i Fetching 3 lineages... v Lineages fetched. i Using cached ID for Carnotaurus i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Using cached lineage for ID 99999 ! Could not retrieve lineage for ID 00000 ! Could not retrieve lineage for ID 99999 i Using cached lineage for ID 50841 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 x Could not retrieve one or both lineages -- Lineage Comparison -- MRCA: NA at depth 0 Drosophila only (5 nodes): > Biota > Animalia > Arthropoda > Insecta > Drosophila Saccharomyces only (3 nodes): > Fungi > Ascomycota > Saccharomyces -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Dinosauria only (0 nodes): Carnotaurus only (2 nodes): > Theropoda > Carnotaurus Saving _problems/test-distance-649.R i Searching Taxonomicon for Carnotaurus... ! Carnotaurus not found in Taxonomicon Saving _problems/test-distance-670.R i Searching Taxonomicon for Pterodactylus... ! Pterodactylus not found in Taxonomicon Saving _problems/test-distance-691.R i Searching Taxonomicon for Quercus... ! Quercus not found in Taxonomicon -- Taxonomic Ordination Summary (PCoA) -- Goodness-of-Fit (GOF): 95% -- Taxonomic Ordination Summary (PCoA) -- Goodness-of-Fit (GOF): 95% [ FAIL 3 | WARN 0 | SKIP 26 | PASS 132 ] ══ Skipped tests (26) ══════════════════════════════════════════════════════════ • On CRAN (26): 'test-distance.R:765:3', 'test-distance.R:776:3', 'test-distance.R:785:3', 'test-distance.R:794:3', 'test-distance.R:802:3', 'test-distance.R:810:3', 'test-distance.R:816:3', 'test-distance.R:826:3', 'test-distance.R:833:3', 'test-distance.R:841:3', 'test-distance.R:849:3', 'test-distance.R:855:3', 'test-distance.R:861:3', 'test-distance.R:867:3', 'test-distance.R:875:3', 'test-distance.R:882:3', 'test-distance.R:888:3', 'test-distance.R:897:3', 'test-distance.R:907:3', 'test-distance.R:917:3', 'test-distance.R:925:3', 'test-distance.R:931:3', 'test-distance.R:943:3', 'test-distance.R:950:3', 'test-distance.R:956:3', 'test-distance.R:962:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-distance.R:649:3'): get_taxonomicon_id parses HTML and returns id ── Expected `result` to equal "12345". Differences: `actual` is NULL `expected` is a character vector ('12345') ── Failure ('test-distance.R:670:3'): get_taxonomicon_id skips astronomical entries ── Expected `result` to equal "12345". Differences: `actual` is NULL `expected` is a character vector ('12345') ── Failure ('test-distance.R:691:3'): get_taxonomicon_id skips row matching both bio and astronomical keywords ── Expected `result` to equal "42042". Differences: `actual` is NULL `expected` is a character vector ('42042') [ FAIL 3 | WARN 0 | SKIP 26 | PASS 132 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.2.0
Check: tests
Result: ERROR Running ‘testthat.R’ [0m/30m] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(taxodist) > > test_check("taxodist") v Cache saved to '/tmp/RtmpZWuYTn/working_dir/Rtmps5bOkJ/file23be8863fcf0ef.rds' (1 entries). v Cache saved to '/tmp/RtmpZWuYTn/working_dir/Rtmps5bOkJ/file23be882605a87e.rds' (1 entries). v Cache loaded from '/tmp/RtmpZWuYTn/working_dir/Rtmps5bOkJ/file23be882605a87e.rds' (1 entries). v Cache saved to '/tmp/RtmpZWuYTn/working_dir/Rtmps5bOkJ/file23be8860d96a13.rds' (2 entries). v Cache loaded from '/tmp/RtmpZWuYTn/working_dir/Rtmps5bOkJ/file23be8860d96a13.rds' (2 entries). v Cache saved to '/tmp/RtmpZWuYTn/working_dir/Rtmps5bOkJ/file23be885e0a2a31.rds' (0 entries). v Cache saved to '/tmp/RtmpZWuYTn/working_dir/Rtmps5bOkJ/file23be88a2a9dbb.rds' (0 entries). v Cache loaded from '/tmp/RtmpZWuYTn/working_dir/Rtmps5bOkJ/file23be88a2a9dbb.rds' (0 entries). x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Tyrannosaurus only (2 nodes): > Theropoda > Tyrannosaurus Triceratops only (2 nodes): > Ornithischia > Triceratops x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus i Fetching 3 lineages... v Lineages fetched. i Using cached ID for Carnotaurus i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Using cached lineage for ID 99999 ! Could not retrieve lineage for ID 00000 ! Could not retrieve lineage for ID 99999 i Using cached lineage for ID 50841 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 x Could not retrieve one or both lineages -- Lineage Comparison -- MRCA: NA at depth 0 Drosophila only (5 nodes): > Biota > Animalia > Arthropoda > Insecta > Drosophila Saccharomyces only (3 nodes): > Fungi > Ascomycota > Saccharomyces -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Dinosauria only (0 nodes): Carnotaurus only (2 nodes): > Theropoda > Carnotaurus Saving _problems/test-distance-649.R i Searching Taxonomicon for Carnotaurus... ! Carnotaurus not found in Taxonomicon Saving _problems/test-distance-670.R i Searching Taxonomicon for Pterodactylus... ! Pterodactylus not found in Taxonomicon Saving _problems/test-distance-691.R i Searching Taxonomicon for Quercus... ! Quercus not found in Taxonomicon -- Taxonomic Ordination Summary (PCoA) -- Goodness-of-Fit (GOF): 95% -- Taxonomic Ordination Summary (PCoA) -- Goodness-of-Fit (GOF): 95% [ FAIL 3 | WARN 0 | SKIP 26 | PASS 132 ] ══ Skipped tests (26) ══════════════════════════════════════════════════════════ • On CRAN (26): 'test-distance.R:765:3', 'test-distance.R:776:3', 'test-distance.R:785:3', 'test-distance.R:794:3', 'test-distance.R:802:3', 'test-distance.R:810:3', 'test-distance.R:816:3', 'test-distance.R:826:3', 'test-distance.R:833:3', 'test-distance.R:841:3', 'test-distance.R:849:3', 'test-distance.R:855:3', 'test-distance.R:861:3', 'test-distance.R:867:3', 'test-distance.R:875:3', 'test-distance.R:882:3', 'test-distance.R:888:3', 'test-distance.R:897:3', 'test-distance.R:907:3', 'test-distance.R:917:3', 'test-distance.R:925:3', 'test-distance.R:931:3', 'test-distance.R:943:3', 'test-distance.R:950:3', 'test-distance.R:956:3', 'test-distance.R:962:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-distance.R:649:3'): get_taxonomicon_id parses HTML and returns id ── Expected `result` to equal "12345". Differences: `actual` is NULL `expected` is a character vector ('12345') ── Failure ('test-distance.R:670:3'): get_taxonomicon_id skips astronomical entries ── Expected `result` to equal "12345". Differences: `actual` is NULL `expected` is a character vector ('12345') ── Failure ('test-distance.R:691:3'): get_taxonomicon_id skips row matching both bio and astronomical keywords ── Expected `result` to equal "42042". Differences: `actual` is NULL `expected` is a character vector ('42042') [ FAIL 3 | WARN 0 | SKIP 26 | PASS 132 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.2.0
Check: tests
Result: ERROR Running ‘testthat.R’ [9s/10s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(taxodist) > > test_check("taxodist") v Cache saved to '/tmp/RtmpNf6Xil/working_dir/RtmpjD8eYx/file228cf65919185a.rds' (1 entries). v Cache saved to '/tmp/RtmpNf6Xil/working_dir/RtmpjD8eYx/file228cf651a8d681.rds' (1 entries). v Cache loaded from '/tmp/RtmpNf6Xil/working_dir/RtmpjD8eYx/file228cf651a8d681.rds' (1 entries). v Cache saved to '/tmp/RtmpNf6Xil/working_dir/RtmpjD8eYx/file228cf67f80d52f.rds' (2 entries). v Cache loaded from '/tmp/RtmpNf6Xil/working_dir/RtmpjD8eYx/file228cf67f80d52f.rds' (2 entries). v Cache saved to '/tmp/RtmpNf6Xil/working_dir/RtmpjD8eYx/file228cf64257926c.rds' (0 entries). v Cache saved to '/tmp/RtmpNf6Xil/working_dir/RtmpjD8eYx/file228cf61551092.rds' (0 entries). v Cache loaded from '/tmp/RtmpNf6Xil/working_dir/RtmpjD8eYx/file228cf61551092.rds' (0 entries). x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Tyrannosaurus only (2 nodes): > Theropoda > Tyrannosaurus Triceratops only (2 nodes): > Ornithischia > Triceratops x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus i Fetching 3 lineages... v Lineages fetched. i Using cached ID for Carnotaurus i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Using cached lineage for ID 99999 ! Could not retrieve lineage for ID 00000 ! Could not retrieve lineage for ID 99999 i Using cached lineage for ID 50841 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 x Could not retrieve one or both lineages -- Lineage Comparison -- MRCA: NA at depth 0 Drosophila only (5 nodes): > Biota > Animalia > Arthropoda > Insecta > Drosophila Saccharomyces only (3 nodes): > Fungi > Ascomycota > Saccharomyces -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Dinosauria only (0 nodes): Carnotaurus only (2 nodes): > Theropoda > Carnotaurus Saving _problems/test-distance-649.R i Searching Taxonomicon for Carnotaurus... ! Carnotaurus not found in Taxonomicon Saving _problems/test-distance-670.R i Searching Taxonomicon for Pterodactylus... ! Pterodactylus not found in Taxonomicon Saving _problems/test-distance-691.R i Searching Taxonomicon for Quercus... ! Quercus not found in Taxonomicon -- Taxonomic Ordination Summary (PCoA) -- Goodness-of-Fit (GOF): 95% -- Taxonomic Ordination Summary (PCoA) -- Goodness-of-Fit (GOF): 95% [ FAIL 3 | WARN 0 | SKIP 26 | PASS 132 ] ══ Skipped tests (26) ══════════════════════════════════════════════════════════ • On CRAN (26): 'test-distance.R:765:3', 'test-distance.R:776:3', 'test-distance.R:785:3', 'test-distance.R:794:3', 'test-distance.R:802:3', 'test-distance.R:810:3', 'test-distance.R:816:3', 'test-distance.R:826:3', 'test-distance.R:833:3', 'test-distance.R:841:3', 'test-distance.R:849:3', 'test-distance.R:855:3', 'test-distance.R:861:3', 'test-distance.R:867:3', 'test-distance.R:875:3', 'test-distance.R:882:3', 'test-distance.R:888:3', 'test-distance.R:897:3', 'test-distance.R:907:3', 'test-distance.R:917:3', 'test-distance.R:925:3', 'test-distance.R:931:3', 'test-distance.R:943:3', 'test-distance.R:950:3', 'test-distance.R:956:3', 'test-distance.R:962:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-distance.R:649:3'): get_taxonomicon_id parses HTML and returns id ── Expected `result` to equal "12345". Differences: `actual` is NULL `expected` is a character vector ('12345') ── Failure ('test-distance.R:670:3'): get_taxonomicon_id skips astronomical entries ── Expected `result` to equal "12345". Differences: `actual` is NULL `expected` is a character vector ('12345') ── Failure ('test-distance.R:691:3'): get_taxonomicon_id skips row matching both bio and astronomical keywords ── Expected `result` to equal "42042". Differences: `actual` is NULL `expected` is a character vector ('42042') [ FAIL 3 | WARN 0 | SKIP 26 | PASS 132 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 0.2.0
Check: tests
Result: ERROR Running ‘testthat.R’ [0m/30m] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(taxodist) > > test_check("taxodist") v Cache saved to '/home/hornik/tmp/scratch/Rtmpd8aUAs/file2e46e526e49540.rds' (1 entries). v Cache saved to '/home/hornik/tmp/scratch/Rtmpd8aUAs/file2e46e5752cf873.rds' (1 entries). v Cache loaded from '/home/hornik/tmp/scratch/Rtmpd8aUAs/file2e46e5752cf873.rds' (1 entries). v Cache saved to '/home/hornik/tmp/scratch/Rtmpd8aUAs/file2e46e538c16570.rds' (2 entries). v Cache loaded from '/home/hornik/tmp/scratch/Rtmpd8aUAs/file2e46e538c16570.rds' (2 entries). v Cache saved to '/home/hornik/tmp/scratch/Rtmpd8aUAs/file2e46e516dcf782.rds' (0 entries). v Cache saved to '/home/hornik/tmp/scratch/Rtmpd8aUAs/file2e46e55c5ca57f.rds' (0 entries). v Cache loaded from '/home/hornik/tmp/scratch/Rtmpd8aUAs/file2e46e55c5ca57f.rds' (0 entries). x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Tyrannosaurus only (2 nodes): > Theropoda > Tyrannosaurus Triceratops only (2 nodes): > Ornithischia > Triceratops x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus i Fetching 3 lineages... v Lineages fetched. i Using cached ID for Carnotaurus i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Using cached lineage for ID 99999 ! Could not retrieve lineage for ID 00000 ! Could not retrieve lineage for ID 99999 i Using cached lineage for ID 50841 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 x Could not retrieve one or both lineages -- Lineage Comparison -- MRCA: NA at depth 0 Drosophila only (5 nodes): > Biota > Animalia > Arthropoda > Insecta > Drosophila Saccharomyces only (3 nodes): > Fungi > Ascomycota > Saccharomyces -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Dinosauria only (0 nodes): Carnotaurus only (2 nodes): > Theropoda > Carnotaurus Saving _problems/test-distance-649.R i Searching Taxonomicon for Carnotaurus... ! Carnotaurus not found in Taxonomicon Saving _problems/test-distance-670.R i Searching Taxonomicon for Pterodactylus... ! Pterodactylus not found in Taxonomicon Saving _problems/test-distance-691.R i Searching Taxonomicon for Quercus... ! Quercus not found in Taxonomicon -- Taxonomic Ordination Summary (PCoA) -- Goodness-of-Fit (GOF): 95% -- Taxonomic Ordination Summary (PCoA) -- Goodness-of-Fit (GOF): 95% [ FAIL 3 | WARN 0 | SKIP 26 | PASS 132 ] ══ Skipped tests (26) ══════════════════════════════════════════════════════════ • On CRAN (26): 'test-distance.R:765:3', 'test-distance.R:776:3', 'test-distance.R:785:3', 'test-distance.R:794:3', 'test-distance.R:802:3', 'test-distance.R:810:3', 'test-distance.R:816:3', 'test-distance.R:826:3', 'test-distance.R:833:3', 'test-distance.R:841:3', 'test-distance.R:849:3', 'test-distance.R:855:3', 'test-distance.R:861:3', 'test-distance.R:867:3', 'test-distance.R:875:3', 'test-distance.R:882:3', 'test-distance.R:888:3', 'test-distance.R:897:3', 'test-distance.R:907:3', 'test-distance.R:917:3', 'test-distance.R:925:3', 'test-distance.R:931:3', 'test-distance.R:943:3', 'test-distance.R:950:3', 'test-distance.R:956:3', 'test-distance.R:962:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-distance.R:649:3'): get_taxonomicon_id parses HTML and returns id ── Expected `result` to equal "12345". Differences: `actual` is NULL `expected` is a character vector ('12345') ── Failure ('test-distance.R:670:3'): get_taxonomicon_id skips astronomical entries ── Expected `result` to equal "12345". Differences: `actual` is NULL `expected` is a character vector ('12345') ── Failure ('test-distance.R:691:3'): get_taxonomicon_id skips row matching both bio and astronomical keywords ── Expected `result` to equal "42042". Differences: `actual` is NULL `expected` is a character vector ('42042') [ FAIL 3 | WARN 0 | SKIP 26 | PASS 132 ] Error: ! Test failures. Execution halted Flavor: r-patched-linux-x86_64

Version: 0.2.0
Check: tests
Result: ERROR Running ‘testthat.R’ [6s/8s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(taxodist) > > test_check("taxodist") v Cache saved to '/home/hornik/tmp/scratch/Rtmp3NUNye/file2878ba4f8581fa.rds' (1 entries). v Cache saved to '/home/hornik/tmp/scratch/Rtmp3NUNye/file2878ba5eb6ece9.rds' (1 entries). v Cache loaded from '/home/hornik/tmp/scratch/Rtmp3NUNye/file2878ba5eb6ece9.rds' (1 entries). v Cache saved to '/home/hornik/tmp/scratch/Rtmp3NUNye/file2878ba2fac5eb0.rds' (2 entries). v Cache loaded from '/home/hornik/tmp/scratch/Rtmp3NUNye/file2878ba2fac5eb0.rds' (2 entries). v Cache saved to '/home/hornik/tmp/scratch/Rtmp3NUNye/file2878ba48fc80cf.rds' (0 entries). v Cache saved to '/home/hornik/tmp/scratch/Rtmp3NUNye/file2878ba1055f7d8.rds' (0 entries). v Cache loaded from '/home/hornik/tmp/scratch/Rtmp3NUNye/file2878ba1055f7d8.rds' (0 entries). x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Tyrannosaurus only (2 nodes): > Theropoda > Tyrannosaurus Triceratops only (2 nodes): > Ornithischia > Triceratops x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus i Fetching 3 lineages... v Lineages fetched. i Using cached ID for Carnotaurus i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Using cached lineage for ID 99999 ! Could not retrieve lineage for ID 00000 ! Could not retrieve lineage for ID 99999 i Using cached lineage for ID 50841 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 x Could not retrieve one or both lineages -- Lineage Comparison -- MRCA: NA at depth 0 Drosophila only (5 nodes): > Biota > Animalia > Arthropoda > Insecta > Drosophila Saccharomyces only (3 nodes): > Fungi > Ascomycota > Saccharomyces -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Dinosauria only (0 nodes): Carnotaurus only (2 nodes): > Theropoda > Carnotaurus Saving _problems/test-distance-649.R i Searching Taxonomicon for Carnotaurus... ! Carnotaurus not found in Taxonomicon Saving _problems/test-distance-670.R i Searching Taxonomicon for Pterodactylus... ! Pterodactylus not found in Taxonomicon Saving _problems/test-distance-691.R i Searching Taxonomicon for Quercus... ! Quercus not found in Taxonomicon -- Taxonomic Ordination Summary (PCoA) -- Goodness-of-Fit (GOF): 95% -- Taxonomic Ordination Summary (PCoA) -- Goodness-of-Fit (GOF): 95% [ FAIL 3 | WARN 0 | SKIP 26 | PASS 132 ] ══ Skipped tests (26) ══════════════════════════════════════════════════════════ • On CRAN (26): 'test-distance.R:765:3', 'test-distance.R:776:3', 'test-distance.R:785:3', 'test-distance.R:794:3', 'test-distance.R:802:3', 'test-distance.R:810:3', 'test-distance.R:816:3', 'test-distance.R:826:3', 'test-distance.R:833:3', 'test-distance.R:841:3', 'test-distance.R:849:3', 'test-distance.R:855:3', 'test-distance.R:861:3', 'test-distance.R:867:3', 'test-distance.R:875:3', 'test-distance.R:882:3', 'test-distance.R:888:3', 'test-distance.R:897:3', 'test-distance.R:907:3', 'test-distance.R:917:3', 'test-distance.R:925:3', 'test-distance.R:931:3', 'test-distance.R:943:3', 'test-distance.R:950:3', 'test-distance.R:956:3', 'test-distance.R:962:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-distance.R:649:3'): get_taxonomicon_id parses HTML and returns id ── Expected `result` to equal "12345". Differences: `actual` is NULL `expected` is a character vector ('12345') ── Failure ('test-distance.R:670:3'): get_taxonomicon_id skips astronomical entries ── Expected `result` to equal "12345". Differences: `actual` is NULL `expected` is a character vector ('12345') ── Failure ('test-distance.R:691:3'): get_taxonomicon_id skips row matching both bio and astronomical keywords ── Expected `result` to equal "42042". Differences: `actual` is NULL `expected` is a character vector ('42042') [ FAIL 3 | WARN 0 | SKIP 26 | PASS 132 ] Error: ! Test failures. Execution halted Flavor: r-release-linux-x86_64

Version: 0.2.0
Check: tests
Result: ERROR Running ‘testthat.R’ [0m/29m] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(taxodist) > > test_check("taxodist") v Cache saved to '/Volumes/Temp/tmp/RtmprtDYYa/file5f9b398bff0d.rds' (1 entries). v Cache saved to '/Volumes/Temp/tmp/RtmprtDYYa/file5f9b18e789d.rds' (1 entries). v Cache loaded from '/Volumes/Temp/tmp/RtmprtDYYa/file5f9b18e789d.rds' (1 entries). v Cache saved to '/Volumes/Temp/tmp/RtmprtDYYa/file5f9b6f4ba5bb.rds' (2 entries). v Cache loaded from '/Volumes/Temp/tmp/RtmprtDYYa/file5f9b6f4ba5bb.rds' (2 entries). v Cache saved to '/Volumes/Temp/tmp/RtmprtDYYa/file5f9b2e705a9a.rds' (0 entries). v Cache saved to '/Volumes/Temp/tmp/RtmprtDYYa/file5f9b3e09d1ec.rds' (0 entries). v Cache loaded from '/Volumes/Temp/tmp/RtmprtDYYa/file5f9b3e09d1ec.rds' (0 entries). x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Tyrannosaurus only (2 nodes): > Theropoda > Tyrannosaurus Triceratops only (2 nodes): > Ornithischia > Triceratops x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus i Fetching 3 lineages... v Lineages fetched. i Using cached ID for Carnotaurus i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Using cached lineage for ID 99999 ! Could not retrieve lineage for ID 00000 ! Could not retrieve lineage for ID 99999 i Using cached lineage for ID 50841 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 x Could not retrieve one or both lineages -- Lineage Comparison -- MRCA: NA at depth 0 Drosophila only (5 nodes): > Biota > Animalia > Arthropoda > Insecta > Drosophila Saccharomyces only (3 nodes): > Fungi > Ascomycota > Saccharomyces -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Dinosauria only (0 nodes): Carnotaurus only (2 nodes): > Theropoda > Carnotaurus Saving _problems/test-distance-649.R i Searching Taxonomicon for Carnotaurus... ! Carnotaurus not found in Taxonomicon Saving _problems/test-distance-670.R i Searching Taxonomicon for Pterodactylus... ! Interrupting test: get_taxonomicon_id skips row matching both bio and astronomical keywords Execution halted Flavor: r-release-macos-x86_64

Version: 0.2.0
Check: tests
Result: ERROR Running 'testthat.R' [6s] Running the tests in 'tests/testthat.R' failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(taxodist) > > test_check("taxodist") v Cache saved to 'D:\temp\2026_05_04_01_50_00_14077\RtmpkzEQT7\file55704cc964d1.rds' (1 entries). v Cache saved to 'D:\temp\2026_05_04_01_50_00_14077\RtmpkzEQT7\file55703d5b74ab.rds' (1 entries). v Cache loaded from 'D:\temp\2026_05_04_01_50_00_14077\RtmpkzEQT7\file55703d5b74ab.rds' (1 entries). v Cache saved to 'D:\temp\2026_05_04_01_50_00_14077\RtmpkzEQT7\file5570283140e8.rds' (2 entries). v Cache loaded from 'D:\temp\2026_05_04_01_50_00_14077\RtmpkzEQT7\file5570283140e8.rds' (2 entries). v Cache saved to 'D:\temp\2026_05_04_01_50_00_14077\RtmpkzEQT7\file5570657042b7.rds' (0 entries). v Cache saved to 'D:\temp\2026_05_04_01_50_00_14077\RtmpkzEQT7\file557015f7be1.rds' (0 entries). v Cache loaded from 'D:\temp\2026_05_04_01_50_00_14077\RtmpkzEQT7\file557015f7be1.rds' (0 entries). x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Taxonomic Path: Tyrannosaurus → Triceratops -- Dinosauria (depth 2) ↑ Animalia (depth 1) ↑ * Dinosauria (MRCA, depth 3) Ornithischia (depth 1) ↓ Triceratops (depth 2) ↓ -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Tyrannosaurus only (2 nodes): > Theropoda > Tyrannosaurus Triceratops only (2 nodes): > Ornithischia > Triceratops x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus x Could not retrieve lineage for Fakeosaurus i Fetching 3 lineages... v Lineages fetched. i Using cached ID for Carnotaurus i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Searching Taxonomicon for Drosophila... ! Could not reach Taxonomicon for Drosophila i Using cached lineage for ID 99999 ! Could not retrieve lineage for ID 00000 ! Could not retrieve lineage for ID 99999 i Using cached lineage for ID 50841 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 -- Taxonomic Distance -- * Carnotaurus vs Triceratops Distance : 0.333333333333333 MRCA : Dinosauria (depth 3) Depth A : 6 Depth B : 5 x Could not retrieve one or both lineages -- Lineage Comparison -- MRCA: NA at depth 0 Drosophila only (5 nodes): > Biota > Animalia > Arthropoda > Insecta > Drosophila Saccharomyces only (3 nodes): > Fungi > Ascomycota > Saccharomyces -- Lineage Comparison -- MRCA: Dinosauria at depth 3 Shared lineage (3 nodes): Biota Animalia Dinosauria Dinosauria only (0 nodes): Carnotaurus only (2 nodes): > Theropoda > Carnotaurus Saving _problems/test-distance-649.R i Searching Taxonomicon for Carnotaurus... ! Carnotaurus not found in Taxonomicon Saving _problems/test-distance-670.R i Searching Taxonomicon for Pterodactylus... ! Pterodactylus not found in Taxonomicon Saving _problems/test-distance-691.R i Searching Taxonomicon for Quercus... ! Quercus not found in Taxonomicon -- Taxonomic Ordination Summary (PCoA) -- Goodness-of-Fit (GOF): 95% -- Taxonomic Ordination Summary (PCoA) -- Goodness-of-Fit (GOF): 95% [ FAIL 3 | WARN 0 | SKIP 26 | PASS 132 ] ══ Skipped tests (26) ══════════════════════════════════════════════════════════ • On CRAN (26): 'test-distance.R:765:3', 'test-distance.R:776:3', 'test-distance.R:785:3', 'test-distance.R:794:3', 'test-distance.R:802:3', 'test-distance.R:810:3', 'test-distance.R:816:3', 'test-distance.R:826:3', 'test-distance.R:833:3', 'test-distance.R:841:3', 'test-distance.R:849:3', 'test-distance.R:855:3', 'test-distance.R:861:3', 'test-distance.R:867:3', 'test-distance.R:875:3', 'test-distance.R:882:3', 'test-distance.R:888:3', 'test-distance.R:897:3', 'test-distance.R:907:3', 'test-distance.R:917:3', 'test-distance.R:925:3', 'test-distance.R:931:3', 'test-distance.R:943:3', 'test-distance.R:950:3', 'test-distance.R:956:3', 'test-distance.R:962:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-distance.R:649:3'): get_taxonomicon_id parses HTML and returns id ── Expected `result` to equal "12345". Differences: `actual` is NULL `expected` is a character vector ('12345') ── Failure ('test-distance.R:670:3'): get_taxonomicon_id skips astronomical entries ── Expected `result` to equal "12345". Differences: `actual` is NULL `expected` is a character vector ('12345') ── Failure ('test-distance.R:691:3'): get_taxonomicon_id skips row matching both bio and astronomical keywords ── Expected `result` to equal "42042". Differences: `actual` is NULL `expected` is a character vector ('42042') [ FAIL 3 | WARN 0 | SKIP 26 | PASS 132 ] Error: ! Test failures. Execution halted Flavor: r-release-windows-x86_64