CRAN Package Check Results for Maintainer ‘Amir Feizi <afeizi at gmail.com>’

Last updated on 2024-05-20 11:56:38 CEST.

Package	ERROR	OK
otargen	1	12

Package otargen

Current CRAN status: ERROR: 1, OK: 12

Version: 1.1.1
Check: tests
Result: ERROR Running ‘testthat.R’ [11s/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... [68ms] \ Downloading data for ENSG00000169174 ... | Downloading data for ENSG00000169174 ... v Downloading data for ENSG00000169174 ... [1.3s] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [16ms] \ Downloading data for ENSG00000163946 ... v Downloading data for ENSG00000163946 ... [897ms] \ Downloading data for ENSG00000169174 ... v Downloading data for ENSG00000169174 ... [566ms] \ Downloading data for ENSG00000143001 ... v Downloading data for ENSG00000143001 ... [478ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [310ms] \ Downloading data for ENSG00000141510 ... | Downloading data for ENSG00000141510 ... v Downloading data for ENSG00000141510 ... [1.3s] \ Downloading data for ENSG00000163946 ... v Downloading data for ENSG00000163946 ... [458ms] \ Downloading data for ENSG00000169174 ... v Downloading data for ENSG00000169174 ... [532ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [104ms] \ Downloading data for ENSG00000169174 ... v Downloading data for ENSG00000169174 ... [471ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [17ms] \ Downloading data... v Downloading data... [131ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [97ms] \ Downloading data... v Downloading data... [174ms] \ Connecting to the Open Targets Genetics GrpahQL API... x Connecting to the Open Targets Genetics GrpahQL API... [143ms] \ Connecting to the Open Targets Genetics GraphQL API... v Connecting to the Open Targets Genetics GraphQL API... [14ms] \ Downloading data for 1_154453788_C_T ... v Downloading data for 1_154453788_C_T ... [487ms] \ Connecting to the Open Targets Genetics GraphQL API... v Connecting to the Open Targets Genetics GraphQL API... [160ms] \ Downloading data for rs55808324 ... v Downloading data for rs55808324 ... [409ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [14ms] \ Downloading data... v Downloading data... [135ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [20ms] \ Downloading data... x Downloading data... [207ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [41ms] \ Downloading data... v Downloading data... [427ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [31ms] \ Downloading the data... v Downloading the data... [139ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [28ms] \ Downloading the data... v Downloading the data... [219ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [26ms] \ Downloading data... v Downloading data... [174ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [24ms] \ Downloading data... v Downloading data... [1.5s] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [15ms] \ Downloading data... v Downloading data... [711ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [14ms] \ Downloading data... v Downloading data... [658ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [14ms] \ Downloading data for variant 1_55063514_G_A ... v Downloading data for variant 1_55063514_G_A ... [187ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [105ms] \ Downloading data for variant rs72698179 ... v Downloading data for variant rs72698179 ... [210ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [14ms] \ Downloading data for ENSG00000169174 ... v Downloading data for ENSG00000169174 ... [298ms] 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 ... [374ms] \ Downloading data for ENSG00000096968 ... v Downloading data for ENSG00000096968 ... [893ms] \ Downloading data for ENSG00000138821 ... v Downloading data for ENSG00000138821 ... [375ms] \ Downloading data for ENSG00000125255 ... v Downloading data for ENSG00000125255 ... [459ms] Selecting by Trait_reported_trimmed \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [109ms] \ Downloading data for ENSG00000141510 ... v Downloading data for ENSG00000141510 ... [1.2s] Selecting by Trait_reported_trimmed \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [276ms] \ Downloading data for ENSG00000169174 ... v Downloading data for ENSG00000169174 ... [271ms] \ Downloading data for ENSG00000163946 ... | Downloading data for ENSG00000163946 ... v Downloading data for ENSG00000163946 ... [461ms] \ Downloading data for ENSG00000141510 ... v Downloading data for ENSG00000141510 ... [1.1s] Selecting by Trait_reported_trimmed \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [13ms] \ 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... [14ms] \ Downloading data... v Downloading data... [3s] \ 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 ... [211ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [138ms] \ Downloading data for variant rs55808324 ... v Downloading data for variant rs55808324 ... [219ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [30ms] \ Downloading data... v Downloading data... [320ms] \ Connecting the database... v Connecting the database... [17ms] \ Downloading data... v Downloading data... [183ms] \ Connecting the database... v Connecting the database... [205ms] \ Downloading data... v Downloading data... [190ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [18ms] \ Downloading data for ENSG00000169174 ... x Downloading data for ENSG00000169174 ... [10.1s] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [15ms] \ Downloading data... v Downloading data... [131ms] \ Connecting to the Open Targets Genetics GraphQL API... v Connecting to the Open Targets Genetics GraphQL API... [14ms] \ Downloading data for GCST003044 , 14_88009660_C_T ... v Downloading data for GCST003044 , 14_88009660_C_T ... [896ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [31ms] \ Downloading data... v Downloading data... [1.6s] \ Connecting the database... v Connecting the database... [22ms] \ Downloading data... v Downloading data... [270ms] \ Connecting to the Open Targets Genetics GrpahQL API... v Connecting to the Open Targets Genetics GrpahQL API... [15ms] \ Downloading data... v Downloading data... [182ms] \ Connecting to the Open Targets Genetics GraphQL API... v Connecting to the Open Targets Genetics GraphQL API... [19ms] \ Downloading data... v Downloading data... [140ms] \ Connecting to the Open Targets Genetics GraphQL API... v Connecting to the Open Targets Genetics GraphQL API... [113ms] \ Downloading data... v Downloading data... [152ms] [ 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:2:3'): test studiesAndLeadVariantsForGeneByL2G works ── Error: Bad Gateway (HTTP 502) Backtrace: ▆ 1. └─otargen::studiesAndLeadVariantsForGeneByL2G(gene = "ENSG00000169174") at test-studiesAndLeadVariantsForGeneByL2G.R:2:3 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-release-linux-x86_64