CRAN Package Check Results for Package epigraphdb

Last updated on 2021-10-17 22:48:32 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.2.2 3.33 57.77 61.10 OK
r-devel-linux-x86_64-debian-gcc 0.2.2 2.50 45.37 47.87 OK
r-devel-linux-x86_64-fedora-clang 0.2.2 85.65 OK
r-devel-linux-x86_64-fedora-gcc 0.2.2 74.36 OK
r-devel-windows-x86_64 0.2.2 9.00 237.00 246.00 OK
r-devel-windows-x86_64-gcc10-UCRT 0.2.2 OK
r-patched-linux-x86_64 0.2.2 3.58 65.94 69.52 OK
r-patched-solaris-x86 0.2.2 72.60 ERROR
r-release-linux-x86_64 0.2.2 3.12 65.40 68.52 OK
r-release-macos-arm64 0.2.2 OK
r-release-macos-x86_64 0.2.2 OK
r-release-windows-ix86+x86_64 0.2.2 5.00 237.00 242.00 OK
r-oldrel-macos-x86_64 0.2.2 OK
r-oldrel-windows-ix86+x86_64 0.2.2 7.00 290.00 297.00 OK

Check Details

Version: 0.2.2
Check: examples
Result: ERROR
    Running examples in ‘epigraphdb-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: confounder
    > ### Title: MR evidence on confounding traits between exposure and outcome
    > ### Aliases: confounder
    >
    > ### ** Examples
    >
    > confounder(exposure_trait = "Body mass index", outcome_trait = "Coronary heart disease")
    Error in curl::curl_fetch_memory(url, handle = handle): SSL certificate problem: certificate has expired
    Request failed [ERROR]. Retrying in 4 seconds...
    Error in curl::curl_fetch_memory(url, handle = handle): SSL certificate problem: certificate has expired
    Request failed [ERROR]. Retrying in 4 seconds...
    Error in curl::curl_fetch_memory(url, handle = handle): SSL certificate problem: certificate has expired
    Request failed [ERROR]. Retrying in 4.6 seconds...
    Error in curl::curl_fetch_memory(url, handle = handle): SSL certificate problem: certificate has expired
    Request failed [ERROR]. Retrying in 14.5 seconds...
    Error in curl::curl_fetch_memory(url, handle = handle) :
     SSL certificate problem: certificate has expired
    Calls: confounder ... api_request -> do.call -> <Anonymous> -> <Anonymous>
    Execution halted
Flavor: r-patched-solaris-x86

Version: 0.2.2
Check: tests
Result: ERROR
     Running ‘spelling.R’
     Running ‘testthat.R’ [0m/21m]
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > library(testthat)
     >
     > options(epigraphdb.ci = TRUE)
     > test_check("epigraphdb")
     Loading required package: epigraphdb
    
     EpiGraphDB v1.0 (API: https://api.epigraphdb.org)
    
     ══ Failed tests ════════════════════════════════════════════════════════════════
     ── Error (test-confounder.R:7:3): /confounder ──────────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-confounder.R:7:2
     ── Failure (test-confounder.R:21:3): confounder ────────────────────────────────
     `confounder(exposure_trait = exposure, outcome_trait = outcome)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-confounder.R:21:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::confounder(exposure_trait = exposure, outcome_trait = outcome)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-cypher.R:8:3): POST /cypher ─────────────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-cypher.R:8:2
     ── Failure (test-cypher.R:21:3): cypher ────────────────────────────────────────
     `cypher(query = query)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(cypher(query = query), NA) test-cypher.R:21:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::cypher(query = query)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-drugs.R:6:3): /drugs/risk-factors ───────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-drugs.R:6:2
     ── Failure (test-drugs.R:18:3): drugs_risk_factors ─────────────────────────────
     `drugs_risk_factors(trait = trait)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(drugs_risk_factors(trait = trait), NA) test-drugs.R:18:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::drugs_risk_factors(trait = trait)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-genetic_cor.R:6:3): genetic_cor endpoint ────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-genetic_cor.R:6:2
     ── Failure (test-genetic_cor.R:18:3): genetic_cor mode = "table" ───────────────
     `df <- genetic_cor(trait = trait)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(df <- genetic_cor(trait = trait), NA) test-genetic_cor.R:18:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::genetic_cor(trait = trait)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-genetic_cor.R:24:3): genetic_cor mode = "table" ───────────────
     `df` inherits from `'function'` not `'character'`.
     ── Failure (test-genetic_cor.R:29:3): genetic_cor mode = "raw" ─────────────────
     `response <- genetic_cor(trait = trait, mode = "raw")` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-genetic_cor.R:29:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::genetic_cor(trait = trait, mode = "raw")
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-genetic_cor.R:36:3): genetic_cor mode = "raw" ───────────────────
     Error in `eval_bare(expr, quo_get_env(quo))`: object 'response' not found
     Backtrace:
     █
     1. └─testthat::expect_equal(length(response), 2L) test-genetic_cor.R:36:2
     2. └─testthat::quasi_label(enquo(object), label, arg = "object")
     3. └─rlang::eval_bare(expr, quo_get_env(quo))
     ── Failure (test-genetic_cor.R:41:3): genetic_cor cor_coef_threshold ───────────
     `response <- genetic_cor(trait = trait, cor_coef_threshold = 0.8)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-genetic_cor.R:41:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::genetic_cor(trait = trait, cor_coef_threshold = 0.8)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-genetic_cor.R:48:3): genetic_cor cor_coef_threshold ───────────
     `response <- genetic_cor(trait = trait, cor_coef_threshold = 0.6)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-genetic_cor.R:48:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::genetic_cor(trait = trait, cor_coef_threshold = 0.6)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-genetic_cor.R:55:3): genetic_cor cor_coef_threshold ───────────
     `response <- genetic_cor(trait = trait, cor_coef_threshold = 0.4)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-genetic_cor.R:55:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::genetic_cor(trait = trait, cor_coef_threshold = 0.4)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-literature.R:7:3): /literature/gwas ─────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-literature.R:7:2
     ── Failure (test-literature.R:20:3): literature_gwas ───────────────────────────
     `literature_gwas(trait = trait)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(literature_gwas(trait = trait), NA) test-literature.R:20:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::literature_gwas(trait = trait)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-mappings.R:9:3): POST /mappings/gene-to-protein ─────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-mappings.R:9:2
     ── Failure (test-mappings.R:22:3): mappings_gene_to_protein, by gene name ──────
     `df <- mappings_gene_to_protein(gene_name_list = gene_name_list)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-mappings.R:22:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::mappings_gene_to_protein(gene_name_list = gene_name_list)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-mappings.R:28:3): mappings_gene_to_protein, by gene name ──────
     `df` inherits from `'function'` not `'character'`.
     ── Failure (test-mappings.R:33:3): mappings_gene_to_protein, by gene name, singleton ──
     `df <- mappings_gene_to_protein(gene_name_list = gene_name_list)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-mappings.R:33:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::mappings_gene_to_protein(gene_name_list = gene_name_list)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-mappings.R:39:3): mappings_gene_to_protein, by gene name, singleton ──
     `df` inherits from `'function'` not `'character'`.
     ── Failure (test-mappings.R:44:3): mappings_gene_to_protein, by gene id ────────
     `df <- mappings_gene_to_protein(gene_id_list = gene_id_list, by_gene_id = TRUE)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-mappings.R:44:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::mappings_gene_to_protein(...)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-mappings.R:51:3): mappings_gene_to_protein, by gene id ────────
     `df` inherits from `'function'` not `'character'`.
     ── Failure (test-mappings.R:56:3): mappings_gene_to_protein, by gene id, singleton ──
     `df <- mappings_gene_to_protein(gene_id_list = gene_id_list, by_gene_id = TRUE)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-mappings.R:56:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::mappings_gene_to_protein(...)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-mappings.R:63:3): mappings_gene_to_protein, by gene id, singleton ──
     `df` inherits from `'function'` not `'character'`.
     ── Error (test-meta.R:6:3): GET /meta/nodes/list ───────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-meta.R:6:2
     ── Error (test-meta.R:17:3): GET /meta/rels/list ───────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-meta.R:17:2
     ── Failure (test-meta.R:26:3): meta_nodes_list ─────────────────────────────────
     `meta_nodes_list()` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(meta_nodes_list(), NA) test-meta.R:26:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::meta_nodes_list()
     7. └─epigraphdb::query_epigraphdb(route = "/meta/nodes/list", mode = mode)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-meta.R:33:3): meta_rels_list ──────────────────────────────────
     `meta_rels_list()` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(meta_rels_list(), NA) test-meta.R:33:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::meta_rels_list()
     7. └─epigraphdb::query_epigraphdb(route = "/meta/rels/list", mode = mode)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-meta.R:41:3): meta_nodes_list_node ────────────────────────────
     `meta_nodes_list_node(meta_node = meta_node)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-meta.R:41:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::meta_nodes_list_node(meta_node = meta_node)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-meta.R:51:3): meta_rels_list_rel ──────────────────────────────
     `meta_rels_list_rel(meta_rel = meta_rel)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-meta.R:51:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::meta_rels_list_rel(meta_rel = meta_rel)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-meta.R:62:3): meta_nodes_search_node, by id ───────────────────
     `meta_nodes_search_node(meta_node = meta_node, id = id)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-meta.R:62:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::meta_nodes_search_node(meta_node = meta_node, id = id)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-meta.R:74:3): meta_nodes_search_node, by name ─────────────────
     `meta_nodes_search_node(meta_node = meta_node, name = name)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-meta.R:74:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::meta_nodes_search_node(meta_node = meta_node, name = name)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-mr.R:7:3): mr endpoint ──────────────────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-mr.R:7:2
     ── Failure (test-mr.R:21:3): mr mode = "table" ─────────────────────────────────
     `df <- mr(exposure_trait = exposure, outcome_trait = outcome)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-mr.R:21:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::mr(exposure_trait = exposure, outcome_trait = outcome)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-mr.R:28:3): mr mode = "table" ─────────────────────────────────
     `df` inherits from `'function'` not `'character'`.
     ── Failure (test-mr.R:34:3): mr mode = "raw" ───────────────────────────────────
     `... <- NULL` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-mr.R:34:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::mr(...)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-mr.R:42:3): mr mode = "raw" ─────────────────────────────────────
     Error in `eval_bare(expr, quo_get_env(quo))`: object 'response' not found
     Backtrace:
     █
     1. └─testthat::expect_equal(length(response), 2L) test-mr.R:42:2
     2. └─testthat::quasi_label(enquo(object), label, arg = "object")
     3. └─rlang::eval_bare(expr, quo_get_env(quo))
     ── Failure (test-mr.R:48:3): mr parameters ─────────────────────────────────────
     `mr(exposure_trait = exposure, outcome_trait = NULL)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-mr.R:48:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::mr(exposure_trait = exposure, outcome_trait = NULL)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-mr.R:55:3): mr parameters ─────────────────────────────────────
     `mr(exposure_trait = NULL, outcome_trait = outcome)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-mr.R:55:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::mr(exposure_trait = NULL, outcome_trait = outcome)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-mr.R:72:3): mr pval_threshold ─────────────────────────────────
     `response <- mr(exposure_trait = exposure, pval_threshold = 1e-05)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-mr.R:72:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::mr(exposure_trait = exposure, pval_threshold = 1e-05)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-mr.R:79:3): mr pval_threshold ─────────────────────────────────
     `response <- mr(exposure_trait = exposure, pval_threshold = 1e-08)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-mr.R:79:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::mr(exposure_trait = exposure, pval_threshold = 1e-08)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-mr.R:86:3): mr pval_threshold ─────────────────────────────────
     `response <- mr(exposure_trait = exposure, pval_threshold = 0.01)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-mr.R:86:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::mr(exposure_trait = exposure, pval_threshold = 0.01)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-obs_cor.R:6:3): obs_cor endpoint ────────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-obs_cor.R:6:2
     ── Failure (test-obs_cor.R:18:3): obs_cor mode = "table" ───────────────────────
     `df <- obs_cor(trait = trait)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(df <- obs_cor(trait = trait), NA) test-obs_cor.R:18:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::obs_cor(trait = trait)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-obs_cor.R:24:3): obs_cor mode = "table" ───────────────────────
     `df` inherits from `'function'` not `'character'`.
     ── Failure (test-obs_cor.R:29:3): obs_cor mode = "raw" ─────────────────────────
     `response <- obs_cor(trait = trait, mode = "raw")` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-obs_cor.R:29:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::obs_cor(trait = trait, mode = "raw")
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-obs_cor.R:36:3): obs_cor mode = "raw" ───────────────────────────
     Error in `eval_bare(expr, quo_get_env(quo))`: object 'response' not found
     Backtrace:
     █
     1. └─testthat::expect_equal(length(response), 2L) test-obs_cor.R:36:2
     2. └─testthat::quasi_label(enquo(object), label, arg = "object")
     3. └─rlang::eval_bare(expr, quo_get_env(quo))
     ── Failure (test-obs_cor.R:41:3): obs_cor cor_coef_threshold ───────────────────
     `response <- obs_cor(trait = trait, cor_coef_threshold = 0.8)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-obs_cor.R:41:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::obs_cor(trait = trait, cor_coef_threshold = 0.8)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-obs_cor.R:48:3): obs_cor cor_coef_threshold ───────────────────
     `response <- obs_cor(trait = trait, cor_coef_threshold = 0.6)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-obs_cor.R:48:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::obs_cor(trait = trait, cor_coef_threshold = 0.6)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-obs_cor.R:55:3): obs_cor cor_coef_threshold ───────────────────
     `response <- obs_cor(trait = trait, cor_coef_threshold = 0.4)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-obs_cor.R:55:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::obs_cor(trait = trait, cor_coef_threshold = 0.4)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-ontology.R:6:3): ontology endpoint ──────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-ontology.R:6:2
     ── Failure (test-ontology.R:18:3): ontology mode = "table" ─────────────────────
     `df <- ontology_gwas_efo(efo_term = efo_term)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-ontology.R:18:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::ontology_gwas_efo(efo_term = efo_term)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-ontology.R:24:3): ontology mode = "table" ─────────────────────
     `df` inherits from `'function'` not `'character'`.
     ── Failure (test-ontology.R:29:3): mr mode = "raw" ─────────────────────────────
     `response <- ontology_gwas_efo(efo_term = efo_term, mode = "raw")` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-ontology.R:29:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::ontology_gwas_efo(efo_term = efo_term, mode = "raw")
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-ontology.R:36:3): mr mode = "raw" ───────────────────────────────
     Error in `eval_bare(expr, quo_get_env(quo))`: object 'response' not found
     Backtrace:
     █
     1. └─testthat::expect_equal(length(response), 2L) test-ontology.R:36:2
     2. └─testthat::quasi_label(enquo(object), label, arg = "object")
     3. └─rlang::eval_bare(expr, quo_get_env(quo))
     ── Error (test-pathway.R:6:3): /pathway ────────────────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-pathway.R:6:2
     ── Failure (test-pathway.R:18:3): pathway ──────────────────────────────────────
     `pathway(trait = trait)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(pathway(trait = trait), NA) test-pathway.R:18:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::pathway(trait = trait)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Error (test-pqtl.R:9:3): pqtl protein endpoint ──────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-pqtl.R:9:2
     ── Error (test-pqtl.R:28:3): pqtl trait endpoint ───────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-pqtl.R:28:2
     ── Error (test-pqtl.R:44:3): pqtl_pleio endpoint ───────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-pqtl.R:44:2
     ── Error (test-pqtl.R:57:3): pqtl_list endpoint ────────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-pqtl.R:57:2
     ── Error (test-pqtl.R:71:3): pqtl correct input ────────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─epigraphdb::pqtl(...) test-pqtl.R:71:2
     2. └─epigraphdb::query_epigraphdb(...)
     3. └─epigraphdb:::api_request(...)
     4. ├─base::do.call(...)
     5. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     6. └─httr::RETRY(...)
     ── Error (test-pqtl.R:102:3): pqtl not found input ─────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─epigraphdb::pqtl(...) test-pqtl.R:102:2
     2. └─epigraphdb::query_epigraphdb(...)
     3. └─epigraphdb:::api_request(...)
     4. ├─base::do.call(...)
     5. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     6. └─httr::RETRY(...)
     ── Error (test-pqtl.R:114:3): pqtl_pleio correct input for a list of proteins ──
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─epigraphdb::pqtl_pleio(rsid = rsid, prflag = prflag) test-pqtl.R:114:2
     2. └─epigraphdb::query_epigraphdb(...)
     3. └─epigraphdb:::api_request(...)
     4. ├─base::do.call(...)
     5. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     6. └─httr::RETRY(...)
     ── Error (test-pqtl.R:124:3): pqtl_pleio correct input for a count ─────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─epigraphdb::pqtl_pleio(rsid = rsid, prflag = prflag) test-pqtl.R:124:2
     2. └─epigraphdb::query_epigraphdb(...)
     3. └─epigraphdb:::api_request(...)
     4. ├─base::do.call(...)
     5. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     6. └─httr::RETRY(...)
     ── Error (test-pqtl.R:145:3): pqtl_pleio not found input ───────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─epigraphdb::pqtl_pleio(rsid = rsid, prflag = prflag) test-pqtl.R:145:2
     2. └─epigraphdb::query_epigraphdb(...)
     3. └─epigraphdb:::api_request(...)
     4. ├─base::do.call(...)
     5. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     6. └─httr::RETRY(...)
     ── Error (test-pqtl.R:154:3): pqtl_list raw ────────────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─epigraphdb::pqtl_list(flag = flag, mode = "raw") test-pqtl.R:154:2
     2. └─epigraphdb::query_epigraphdb(...)
     3. └─epigraphdb:::api_request(...)
     4. ├─base::do.call(...)
     5. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     6. └─httr::RETRY(...)
     ── Error (test-pqtl.R:163:3): pqtl_list correct exposures input ────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─epigraphdb::pqtl_list(flag = flag) test-pqtl.R:163:2
     2. └─epigraphdb::query_epigraphdb(...)
     3. └─epigraphdb:::api_request(...)
     4. ├─base::do.call(...)
     5. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     6. └─httr::RETRY(...)
     ── Error (test-pqtl.R:172:3): pqtl_list correct outcomes input ─────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─epigraphdb::pqtl_list(flag = flag) test-pqtl.R:172:2
     2. └─epigraphdb::query_epigraphdb(...)
     3. └─epigraphdb:::api_request(...)
     4. ├─base::do.call(...)
     5. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     6. └─httr::RETRY(...)
     ── Error (test-protein.R:9:3): POST /protein/in-pathway ────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-protein.R:9:2
     ── Failure (test-protein.R:22:3): protein_in_pathway ───────────────────────────
     `df <- protein_in_pathway(uniprot_id_list = uniprot_id_list)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-protein.R:22:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::protein_in_pathway(uniprot_id_list = uniprot_id_list)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-protein.R:28:3): protein_in_pathway ───────────────────────────
     `df` inherits from `'function'` not `'character'`.
     ── Failure (test-protein.R:33:3): protein_in_pathway, singleton ────────────────
     `df <- protein_in_pathway(uniprot_id_list = uniprot_id_list)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-protein.R:33:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::protein_in_pathway(uniprot_id_list = uniprot_id_list)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-protein.R:39:3): protein_in_pathway, singleton ────────────────
     `df` inherits from `'function'` not `'character'`.
     ── Failure (test-request_and_response.R:4:3): query_epigraphdb raw ─────────────
     `... <- NULL` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-request_and_response.R:4:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::query_epigraphdb(...)
     7. └─epigraphdb:::api_request(...)
     8. ├─base::do.call(...)
     9. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     10. └─httr::RETRY(...)
     ── Error (test-request_and_response.R:14:3): query_epigraphdb raw ──────────────
     Error in `eval_bare(expr, quo_get_env(quo))`: object 'results' not found
     Backtrace:
     █
     1. └─testthat::expect_equal(names(results), c("metadata", "results")) test-request_and_response.R:14:2
     2. └─testthat::quasi_label(enquo(object), label, arg = "object")
     3. └─rlang::eval_bare(expr, quo_get_env(quo))
     ── Failure (test-request_and_response.R:18:3): query_epigraphdb table ──────────
     `... <- NULL` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-request_and_response.R:18:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::query_epigraphdb(...)
     7. └─epigraphdb:::api_request(...)
     8. ├─base::do.call(...)
     9. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     10. └─httr::RETRY(...)
     ── Error (test-request_and_response.R:29:3): query_epigraphdb table ────────────
     Error in `eval_bare(expr, quo_get_env(quo))`: object 'results' not found
     Backtrace:
     █
     1. └─testthat::expect_is(results, "tbl_df") test-request_and_response.R:29:2
     2. └─testthat::quasi_label(enquo(object), label, arg = "object")
     3. └─rlang::eval_bare(expr, quo_get_env(quo))
     ── Failure (test-request_and_response.R:45:3): query_epigraphdb POST 1 ─────────
     `... <- NULL` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-request_and_response.R:45:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::query_epigraphdb(...)
     7. └─epigraphdb:::api_request(...)
     8. ├─base::do.call(...)
     9. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     10. └─httr::RETRY(...)
     ── Error (test-request_and_response.R:55:3): query_epigraphdb POST 1 ───────────
     Error in `eval_bare(expr, quo_get_env(quo))`: object 'results' not found
     Backtrace:
     █
     1. └─testthat::expect_equal(names(results), c("metadata", "results")) test-request_and_response.R:55:2
     2. └─testthat::quasi_label(enquo(object), label, arg = "object")
     3. └─rlang::eval_bare(expr, quo_get_env(quo))
     ── Failure (test-request_and_response.R:59:3): query_epigraphdb POST 2 ─────────
     `... <- NULL` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-request_and_response.R:59:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::query_epigraphdb(...)
     7. └─epigraphdb:::api_request(...)
     8. ├─base::do.call(...)
     9. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     10. └─httr::RETRY(...)
     ── Error (test-request_and_response.R:78:3): query_epigraphdb POST 2 ───────────
     Error in `eval_bare(expr, quo_get_env(quo))`: object 'results' not found
     Backtrace:
     █
     1. └─testthat::expect_is(results, "tbl_df") test-request_and_response.R:78:2
     2. └─testthat::quasi_label(enquo(object), label, arg = "object")
     3. └─rlang::eval_bare(expr, quo_get_env(quo))
     ── Error (test-xqtl.R:6:3): /xqtl/multi-snp-mr ─────────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-xqtl.R:6:2
     ── Error (test-xqtl.R:19:3): /xqtl/single-snp-mr ───────────────────────────────
     Error in `curl::curl_fetch_memory(url, handle = handle)`: SSL certificate problem: certificate has expired
     Backtrace:
     █
     1. └─httr::RETRY(...) test-xqtl.R:19:2
     ── Failure (test-xqtl.R:31:3): xqtl_multi_snp_mr ───────────────────────────────
     `xqtl_multi_snp_mr(outcome_trait = outcome_trait)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-xqtl.R:31:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::xqtl_multi_snp_mr(outcome_trait = outcome_trait)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
     ── Failure (test-xqtl.R:41:3): xqtl_single_snp_mr ──────────────────────────────
     `xqtl_single_snp_mr(outcome_trait = outcome_trait)` threw an error.
     Message: SSL certificate problem: certificate has expired
     Class: simpleError/error/condition
     Backtrace:
     █
     1. ├─testthat::expect_error(...) test-xqtl.R:41:2
     2. │ └─testthat:::quasi_capture(...)
     3. │ ├─testthat:::.capture(...)
     4. │ │ └─base::withCallingHandlers(...)
     5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     6. └─epigraphdb::xqtl_single_snp_mr(outcome_trait = outcome_trait)
     7. └─epigraphdb::query_epigraphdb(...)
     8. └─epigraphdb:::api_request(...)
     9. ├─base::do.call(...)
     10. └─(function (route, params, retry_times, retry_pause_min, call = sys.call(-1)) ...
     11. └─httr::RETRY(...)
    
     [ FAIL 87 | WARN 0 | SKIP 0 | PASS 6 ]
     Error: Test failures
     Execution halted
Flavor: r-patched-solaris-x86