{"comment":{"url":"https://api.github.com/repos/steinbaugh/wormbase/comments/31387111","html_url":"https://github.com/steinbaugh/wormbase/commit/f2b323e377e517c1222f68c08e69d71922b66abb#commitcomment-31387111","id":31387111,"node_id":"MDEzOkNvbW1pdENvbW1lbnQzMTM4NzExMQ==","user":{"login":"lintr-bot","id":10925265,"node_id":"MDQ6VXNlcjEwOTI1MjY1","avatar_url":"https://avatars3.githubusercontent.com/u/10925265?v=4","gravatar_id":"","url":"https://api.github.com/users/lintr-bot","html_url":"https://github.com/lintr-bot","followers_url":"https://api.github.com/users/lintr-bot/followers","following_url":"https://api.github.com/users/lintr-bot/following{/other_user}","gists_url":"https://api.github.com/users/lintr-bot/gists{/gist_id}","starred_url":"https://api.github.com/users/lintr-bot/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/lintr-bot/subscriptions","organizations_url":"https://api.github.com/users/lintr-bot/orgs","repos_url":"https://api.github.com/users/lintr-bot/repos","events_url":"https://api.github.com/users/lintr-bot/events{/privacy}","received_events_url":"https://api.github.com/users/lintr-bot/received_events","type":"User","site_admin":false},"position":null,"line":null,"path":null,"commit_id":"f2b323e377e517c1222f68c08e69d71922b66abb","created_at":"2018-11-21T19:41:16Z","updated_at":"2018-11-21T19:41:16Z","author_association":"NONE","body":"[R/assertions.R:2:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/assertions.R#L2) *warning:* **no visible global function definition for ‘assert_is_character’**\n```r\n​    assert_is_character(x)\n    ^~~~~~~~~~~~~~~~~~~\n```\n[R/assertions.R:7:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/assertions.R#L7) *warning:* **no visible global function definition for ‘assert_has_no_duplicates’**\n```r\n​    assert_has_no_duplicates(x)\n    ^~~~~~~~~~~~~~~~~~~~~~~~\n```\n[R/assertions.R:13:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/assertions.R#L13) *warning:* **no visible global function definition for ‘assertIsStringOrNULL’**\n```r\n​    assertIsStringOrNULL(x)\n    ^~~~~~~~~~~~~~~~~~~~\n```\n[R/assertions.R:15:9:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/assertions.R#L15) *warning:* **no visible global function definition for ‘.assertIsVersion’**\n```r\n​        .assertIsVersion(x)\n        ^~~~~~~~~~~~~~~~\n```\n[R/assertions.R:22:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/assertions.R#L22) *warning:* **no visible global function definition for ‘assert_is_a_string’**\n```r\n​    assert_is_a_string(x)\n    ^~~~~~~~~~~~~~~~~~\n```\n[R/assertions.R:23:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/assertions.R#L23) *warning:* **no visible global function definition for ‘assert_all_are_matching_regex’**\n```r\n​    assert_all_are_matching_regex(x, versionPattern)\n    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~\n```\n[R/assertions.R:23:38:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/assertions.R#L23) *warning:* **no visible binding for global variable ‘versionPattern’**\n```r\n​    assert_all_are_matching_regex(x, versionPattern)\n                                     ^~~~~~~~~~~~~~\n```\n[R/description.R:16:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/description.R#L16) *warning:* **no visible global function definition for ‘assert_is_a_bool’**\n```r\n​    assert_is_a_bool(progress)\n    ^~~~~~~~~~~~~~~~\n```\n[R/description.R:73:18:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/description.R#L73) *warning:* **no visible global function definition for ‘str_match’**\n```r\n​        names <- str_match(x, keyPattern)[, 2L]\n                 ^~~~~~~~~\n```\n[R/description.R:79:16:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/description.R#L79) *warning:* **no visible global function definition for ‘as_tibble’**\n```r\n​        tbl <- as_tibble(t(x))\n               ^~~~~~~~~\n```\n[R/externalIDs.R:15:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/externalIDs.R#L15) *warning:* **no visible global function definition for ‘.assertAllAreGenes’**\n```r\n​    .assertAllAreGenes(genes)\n    ^~~~~~~~~~~~~~~~~~\n```\n[R/externalIDs.R:16:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/externalIDs.R#L16) *warning:* **no visible global function definition for ‘assert_is_a_bool’**\n```r\n​    assert_is_a_bool(progress)\n    ^~~~~~~~~~~~~~~~\n```\n[R/ftp-internal.R:36:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/ftp-internal.R#L36) *warning:* **no visible global function definition for ‘assert_is_a_string’**\n```r\n​    assert_is_a_string(subdir)\n    ^~~~~~~~~~~~~~~~~~\n```\n[R/ftp-internal.R:37:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/ftp-internal.R#L37) *warning:* **no visible global function definition for ‘.assertFormalVersion’**\n```r\n​    .assertFormalVersion(version)\n    ^~~~~~~~~~~~~~~~~~~~\n```\n[R/ftp-internal.R:60:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/ftp-internal.R#L60) *warning:* **no visible global function definition for ‘assert_is_of_length’**\n```r\n​    assert_is_of_length(file, 1L)\n    ^~~~~~~~~~~~~~~~~~~\n```\n[R/geneOntology.R:15:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/geneOntology.R#L15) *warning:* **no visible global function definition for ‘assert_is_a_bool’**\n```r\n​    assert_is_a_bool(progress)\n    ^~~~~~~~~~~~~~~~\n```\n[R/geneOntology.R:20:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/geneOntology.R#L20) *warning:* **no visible global function definition for ‘.assertAllAreGenes’**\n```r\n​    .assertAllAreGenes(genes)\n    ^~~~~~~~~~~~~~~~~~\n```\n[R/oligos.R:22:25:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/oligos.R#L22) *warning:* **no visible global function definition for ‘str_extract’**\n```r\n​    data[[\"geneID\"]] <- str_extract(data[[\"geneID\"]], \"WBGene\\\\d{8}\")\n                        ^~~~~~~~~~~\n```\n[R/orthologs.R:16:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/orthologs.R#L16) *warning:* **no visible global function definition for ‘assert_is_a_bool’**\n```r\n​    assert_is_a_bool(progress)\n    ^~~~~~~~~~~~~~~~\n```\n[R/orthologs.R:47:17:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/orthologs.R#L47) *warning:* **no visible global function definition for ‘str_extract’**\n```r\n​        gene <- str_extract(x, genePattern)\n                ^~~~~~~~~~~\n```\n[R/orthologs.R:47:32:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/orthologs.R#L47) *warning:* **no visible binding for global variable ‘genePattern’**\n```r\n​        gene <- str_extract(x, genePattern)\n                               ^~~~~~~~~~~\n```\n[R/peptides.R:16:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/peptides.R#L16) *warning:* **no visible global function definition for ‘assert_is_a_bool’**\n```r\n​    assert_is_a_bool(progress)\n    ^~~~~~~~~~~~~~~~\n```\n[R/peptides.R:40:14:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/peptides.R#L40) *warning:* **no visible global function definition for ‘read_lines’, Did you mean 'readline'?**\n```r\n​    lines <- read_lines(file.path(dir, wormpepTable), progress = FALSE)\n             ^~~~~~~~~~\n```\n[R/peptides.R:47:23:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/peptides.R#L47) *style:* **Only use double-quotes.**\n```r\n​            gsub('\"', '', .)\n                      ^~\n```\n[R/rest-internal.R:7:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/rest-internal.R#L7) *warning:* **no visible global function definition for ‘content’, Did you mean 'confint'?**\n```r\n​    content(x)\n    ^~~~~~~\n```\n[R/rnaiPhenotypes.R:16:5:](https://github.com/steinbaugh/wormbase/blob/f2b323e377e517c1222f68c08e69d71922b66abb/R/rnaiPhenotypes.R#L16) *warning:* **no visible global function definition for ‘assert_is_a_bool’**\n```r\n​    assert_is_a_bool(progress)\n    ^~~~~~~~~~~~~~~~\n```"}}
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