Last updated on 2024-07-22 01:49:30 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.1.1 | 9.72 | 81.76 | 91.48 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.1.1 | 6.01 | 62.09 | 68.10 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.1.1 | 118.61 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 1.1.1 | 105.03 | OK | |||
| r-devel-windows-x86_64 | 1.1.1 | 9.00 | 150.00 | 159.00 | OK | |
| r-patched-linux-x86_64 | 1.1.1 | 6.67 | 79.18 | 85.85 | OK | |
| r-release-linux-x86_64 | 1.1.1 | 5.06 | 76.14 | 81.20 | ERROR | |
| r-release-macos-arm64 | 1.1.1 | 99.00 | OK | |||
| r-release-macos-x86_64 | 1.1.1 | 122.00 | OK | |||
| r-release-windows-x86_64 | 1.1.1 | 8.00 | 119.00 | 127.00 | OK | |
| r-oldrel-macos-arm64 | 1.1.1 | 109.00 | OK | |||
| r-oldrel-macos-x86_64 | 1.1.1 | 139.00 | OK | |||
| r-oldrel-windows-x86_64 | 1.1.1 | 11.00 | 133.00 | 144.00 | OK |
Version: 1.1.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [15s/95s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(otargen)
>
> test_check("otargen")
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [292ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [3.3s]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [82ms]
\ Downloading data for ENSG00000163946 ...
v Downloading data for ENSG00000163946 ... [920ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [715ms]
\ Downloading data for ENSG00000143001 ...
v Downloading data for ENSG00000143001 ... [732ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [367ms]
\ Downloading data for ENSG00000141510 ...
v Downloading data for ENSG00000141510 ... [1.6s]
\ Downloading data for ENSG00000163946 ...
v Downloading data for ENSG00000163946 ... [883ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [1s]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [176ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [638ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [161ms]
\ Downloading data...
v Downloading data... [310ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [120ms]
\ Downloading data...
v Downloading data... [209ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
x Connecting to the Open Targets Genetics GrpahQL API... [199ms]
\ Connecting to the Open Targets Genetics GraphQL API...
v Connecting to the Open Targets Genetics GraphQL API... [64ms]
\ Downloading data for 1_154453788_C_T ...
v Downloading data for 1_154453788_C_T ... [1.3s]
\ Connecting to the Open Targets Genetics GraphQL API...
v Connecting to the Open Targets Genetics GraphQL API... [152ms]
\ Downloading data for rs55808324 ...
| Downloading data for rs55808324 ...
v Downloading data for rs55808324 ... [819ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [21ms]
\ Downloading data...
v Downloading data... [155ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [63ms]
\ Downloading data...
x Downloading data... [278ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [120ms]
\ Downloading data...
v Downloading data... [314ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [52ms]
\ Downloading the data...
v Downloading the data... [405ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [85ms]
\ Downloading the data...
v Downloading the data... [220ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [113ms]
\ Downloading data...
v Downloading data... [381ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [70ms]
\ Downloading data...
v Downloading data... [2.7s]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [51ms]
\ Downloading data...
v Downloading data... [941ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [66ms]
\ Downloading data...
v Downloading data... [883ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [90ms]
\ Downloading data for variant 1_55063514_G_A ...
v Downloading data for variant 1_55063514_G_A ... [379ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [145ms]
\ Downloading data for variant rs72698179 ...
v Downloading data for variant rs72698179 ... [279ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [28ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [630ms]
Selecting by Trait_reported_trimmed
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [59ms]
\ Downloading data for ENSG00000167207 ...
| Downloading data for ENSG00000167207 ...
v Downloading data for ENSG00000167207 ... [661ms]
\ Downloading data for ENSG00000096968 ...
v Downloading data for ENSG00000096968 ... [1.1s]
\ Downloading data for ENSG00000138821 ...
v Downloading data for ENSG00000138821 ... [667ms]
\ Downloading data for ENSG00000125255 ...
v Downloading data for ENSG00000125255 ... [453ms]
Selecting by Trait_reported_trimmed
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [173ms]
\ Downloading data for ENSG00000141510 ...
v Downloading data for ENSG00000141510 ... [1.7s]
Selecting by Trait_reported_trimmed
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [386ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [784ms]
\ Downloading data for ENSG00000163946 ...
v Downloading data for ENSG00000163946 ... [811ms]
\ Downloading data for ENSG00000141510 ...
| Downloading data for ENSG00000141510 ...
v Downloading data for ENSG00000141510 ... [1.7s]
Selecting by Trait_reported_trimmed
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [37ms]
\ Downloading data for ENSG00000167207 ...
x Downloading data for ENSG00000167207 ... [10.4s]
Error in test plot_l2g: Bad Gateway (HTTP 502)
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [142ms]
\ Downloading data...
v Downloading data... [5.4s]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [64ms]
\ Downloading data for variant 14_87978408_G_A ...
v Downloading data for variant 14_87978408_G_A ... [386ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [136ms]
\ Downloading data for variant rs55808324 ...
v Downloading data for variant rs55808324 ... [295ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [78ms]
\ Downloading data...
v Downloading data... [388ms]
\ Connecting the database...
v Connecting the database... [77ms]
\ Downloading data...
v Downloading data... [316ms]
\ Connecting the database...
v Connecting the database... [271ms]
\ Downloading data...
v Downloading data... [284ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [78ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [5.1s]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [277ms]
\ Downloading data for ENSG00000169174 ...
x Downloading data for ENSG00000169174 ... [10.3s]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [18ms]
\ Downloading data...
v Downloading data... [126ms]
\ Connecting to the Open Targets Genetics GraphQL API...
v Connecting to the Open Targets Genetics GraphQL API... [86ms]
\ Downloading data for GCST003044 , 14_88009660_C_T ...
v Downloading data for GCST003044 , 14_88009660_C_T ... [2.6s]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [58ms]
\ Downloading data...
v Downloading data... [474ms]
\ Connecting the database...
v Connecting the database... [103ms]
\ Downloading data...
v Downloading data... [491ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [65ms]
\ Downloading data...
v Downloading data... [339ms]
\ Connecting to the Open Targets Genetics GraphQL API...
v Connecting to the Open Targets Genetics GraphQL API... [115ms]
\ Downloading data...
v Downloading data... [171ms]
\ Connecting to the Open Targets Genetics GraphQL API...
v Connecting to the Open Targets Genetics GraphQL API... [201ms]
\ Downloading data...
v Downloading data... [193ms]
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 74 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-plot_l2g.R:23:5'): test plot_l2g works ───────────────────────
FALSE is not TRUE
`actual`: FALSE
`expected`: TRUE
An error occurred in plotting.
Backtrace:
▆
1. └─base::tryCatch(...) at test-plot_l2g.R:3:3
2. └─base (local) tryCatchList(expr, classes, parentenv, handlers)
3. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
4. └─value[[3L]](cond)
5. └─testthat::expect_true(FALSE, "An error occurred in plotting.") at test-plot_l2g.R:23:5
── Error ('test-studiesAndLeadVariantsForGeneByL2G.R:3:3'): test studiesAndLeadVariantsForGeneByL2G works ──
Error: Bad Gateway (HTTP 502)
Backtrace:
▆
1. └─otargen::studiesAndLeadVariantsForGeneByL2G(...) at test-studiesAndLeadVariantsForGeneByL2G.R:3:3
2. └─base::tryCatch(...)
3. └─base (local) tryCatchList(expr, classes, parentenv, handlers)
4. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
5. └─value[[3L]](cond)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 74 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 1.1.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [12s/54s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(otargen)
>
> test_check("otargen")
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [55ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [1.1s]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [17ms]
\ Downloading data for ENSG00000163946 ...
v Downloading data for ENSG00000163946 ... [751ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [394ms]
\ Downloading data for ENSG00000143001 ...
v Downloading data for ENSG00000143001 ... [397ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [308ms]
\ Downloading data for ENSG00000141510 ...
v Downloading data for ENSG00000141510 ... [853ms]
\ Downloading data for ENSG00000163946 ...
| Downloading data for ENSG00000163946 ...
v Downloading data for ENSG00000163946 ... [469ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [316ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [96ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [239ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [16ms]
\ Downloading data...
v Downloading data... [105ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [96ms]
\ Downloading data...
v Downloading data... [222ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
x Connecting to the Open Targets Genetics GrpahQL API... [119ms]
\ Connecting to the Open Targets Genetics GraphQL API...
v Connecting to the Open Targets Genetics GraphQL API... [16ms]
\ Downloading data for 1_154453788_C_T ...
v Downloading data for 1_154453788_C_T ... [547ms]
\ Connecting to the Open Targets Genetics GraphQL API...
v Connecting to the Open Targets Genetics GraphQL API... [118ms]
\ Downloading data for rs55808324 ...
v Downloading data for rs55808324 ... [290ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [32ms]
\ Downloading data...
v Downloading data... [144ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [18ms]
\ Downloading data...
x Downloading data... [209ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [26ms]
\ Downloading data...
v Downloading data... [179ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [16ms]
\ Downloading the data...
v Downloading the data... [103ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [16ms]
\ Downloading the data...
v Downloading the data... [110ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [15ms]
\ Downloading data...
v Downloading data... [126ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [14ms]
\ Downloading data...
v Downloading data... [944ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [16ms]
\ Downloading data...
v Downloading data... [490ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [15ms]
\ Downloading data...
v Downloading data... [266ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [19ms]
\ Downloading data for variant 1_55063514_G_A ...
v Downloading data for variant 1_55063514_G_A ... [191ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [133ms]
\ Downloading data for variant rs72698179 ...
v Downloading data for variant rs72698179 ... [236ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [16ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [396ms]
Selecting by Trait_reported_trimmed
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [14ms]
\ Downloading data for ENSG00000167207 ...
v Downloading data for ENSG00000167207 ... [281ms]
\ Downloading data for ENSG00000096968 ...
v Downloading data for ENSG00000096968 ... [496ms]
\ Downloading data for ENSG00000138821 ...
v Downloading data for ENSG00000138821 ... [359ms]
\ Downloading data for ENSG00000125255 ...
v Downloading data for ENSG00000125255 ... [308ms]
Selecting by Trait_reported_trimmed
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [103ms]
\ Downloading data for ENSG00000141510 ...
v Downloading data for ENSG00000141510 ... [490ms]
Selecting by Trait_reported_trimmed
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [283ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [291ms]
\ Downloading data for ENSG00000163946 ...
v Downloading data for ENSG00000163946 ... [362ms]
\ Downloading data for ENSG00000141510 ...
v Downloading data for ENSG00000141510 ... [701ms]
Selecting by Trait_reported_trimmed
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [14ms]
\ Downloading data for ENSG00000167207 ...
x Downloading data for ENSG00000167207 ... [10.1s]
Error in test plot_l2g: Bad Gateway (HTTP 502)
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [15ms]
\ Downloading data...
v Downloading data... [1.2s]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [14ms]
\ Downloading data for variant 14_87978408_G_A ...
v Downloading data for variant 14_87978408_G_A ... [168ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [130ms]
\ Downloading data for variant rs55808324 ...
v Downloading data for variant rs55808324 ... [118ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [40ms]
\ Downloading data...
v Downloading data... [146ms]
\ Connecting the database...
v Connecting the database... [15ms]
\ Downloading data...
v Downloading data... [144ms]
\ Connecting the database...
v Connecting the database... [208ms]
\ Downloading data...
v Downloading data... [154ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [26ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [6.1s]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [204ms]
\ Downloading data for ENSG00000169174 ...
v Downloading data for ENSG00000169174 ... [6s]
\ Downloading data for ENSG00000163946 ...
v Downloading data for ENSG00000163946 ... [5.8s]
\ Connecting to the Open Targets Genetics GrpahQL API...
x Connecting to the Open Targets Genetics GrpahQL API... [126ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [31ms]
\ Downloading data...
v Downloading data... [156ms]
\ Connecting to the Open Targets Genetics GraphQL API...
v Connecting to the Open Targets Genetics GraphQL API... [22ms]
\ Downloading data for GCST003044 , 14_88009660_C_T ...
v Downloading data for GCST003044 , 14_88009660_C_T ... [1.4s]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [31ms]
\ Downloading data...
v Downloading data... [587ms]
\ Connecting the database...
v Connecting the database... [27ms]
\ Downloading data...
v Downloading data... [271ms]
\ Connecting to the Open Targets Genetics GrpahQL API...
v Connecting to the Open Targets Genetics GrpahQL API... [24ms]
\ Downloading data...
v Downloading data... [148ms]
\ Connecting to the Open Targets Genetics GraphQL API...
v Connecting to the Open Targets Genetics GraphQL API... [15ms]
\ Downloading data...
v Downloading data... [124ms]
\ Connecting to the Open Targets Genetics GraphQL API...
v Connecting to the Open Targets Genetics GraphQL API... [135ms]
\ Downloading data...
v Downloading data... [146ms]
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 79 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-plot_l2g.R:23:5'): test plot_l2g works ───────────────────────
FALSE is not TRUE
`actual`: FALSE
`expected`: TRUE
An error occurred in plotting.
Backtrace:
▆
1. └─base::tryCatch(...) at test-plot_l2g.R:3:3
2. └─base (local) tryCatchList(expr, classes, parentenv, handlers)
3. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
4. └─value[[3L]](cond)
5. └─testthat::expect_true(FALSE, "An error occurred in plotting.") at test-plot_l2g.R:23:5
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 79 ]
Error: Test failures
Execution halted
Flavor: r-release-linux-x86_64