From 48d916c7921440e47cffe8e7a85bb3769e92a569 Mon Sep 17 00:00:00 2001 From: zkamvar Date: Tue, 2 Jan 2024 01:05:13 +0000 Subject: [PATCH] [actions] update 44 packages --- renv/profiles/lesson-requirements/renv.lock | 186 ++++++++++---------- 1 file changed, 96 insertions(+), 90 deletions(-) diff --git a/renv/profiles/lesson-requirements/renv.lock b/renv/profiles/lesson-requirements/renv.lock index 614d975c..e9086f48 100644 --- a/renv/profiles/lesson-requirements/renv.lock +++ b/renv/profiles/lesson-requirements/renv.lock @@ -1,6 +1,6 @@ { "R": { - "Version": "4.3.1", + "Version": "4.3.2", "Repositories": [ { "Name": "BioCsoft", @@ -177,14 +177,14 @@ }, "DBI": { "Package": "DBI", - "Version": "1.1.3", + "Version": "1.2.0", "Source": "Repository", "Repository": "CRAN", "Requirements": [ "R", "methods" ], - "Hash": "b2866e62bab9378c3cc9476a1954226b" + "Hash": "3e0051431dff9acfe66c23765e55c556" }, "DESeq2": { "Package": "DESeq2", @@ -230,7 +230,7 @@ }, "DT": { "Package": "DT", - "Version": "0.30", + "Version": "0.31", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -243,7 +243,7 @@ "magrittr", "promises" ], - "Hash": "dffb4d94a00be1b4a4507e53ab95bd90" + "Hash": "77b5189f5272ae2b21e3ac2175ad107c" }, "DelayedArray": { "Package": "DelayedArray", @@ -453,7 +453,7 @@ }, "Matrix": { "Package": "Matrix", - "Version": "1.6-1.1", + "Version": "1.6-4", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -466,7 +466,7 @@ "stats", "utils" ], - "Hash": "1a00d4828f33a9d690806e98bd17150c" + "Hash": "d9c655b30a2edc6bb2244c1d1e8d549d" }, "MatrixGenerics": { "Package": "MatrixGenerics", @@ -512,7 +512,7 @@ }, "RSQLite": { "Package": "RSQLite", - "Version": "2.3.3", + "Version": "2.3.4", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -524,9 +524,10 @@ "memoise", "methods", "pkgconfig", - "plogr" + "plogr", + "rlang" ], - "Hash": "3de9b130745b42015c060758cf6d9b8d" + "Hash": "4bf2af2d714d0ee2b4fec0e6b8c150e6" }, "Rcpp": { "Package": "Rcpp", @@ -541,7 +542,7 @@ }, "RcppArmadillo": { "Package": "RcppArmadillo", - "Version": "0.12.6.6.0", + "Version": "0.12.6.6.1", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -551,7 +552,7 @@ "stats", "utils" ], - "Hash": "aabc6cb0f0953d0442d3c82d8a9d2610" + "Hash": "d2b60e0a15d73182a3a766ff0a7d0d7f" }, "RcppEigen": { "Package": "RcppEigen", @@ -806,7 +807,7 @@ }, "bbmle": { "Package": "bbmle", - "Version": "1.0.25", + "Version": "1.0.25.1", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -821,7 +822,7 @@ "stats", "stats4" ], - "Hash": "ded471b3be03b4c65419abbc1b5e9f86" + "Hash": "f32b6a1dfc5c80504326aa3474b10fe6" }, "bdsmatrix": { "Package": "bdsmatrix", @@ -879,7 +880,7 @@ }, "bslib": { "Package": "bslib", - "Version": "0.5.1", + "Version": "0.6.1", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -890,12 +891,13 @@ "htmltools", "jquerylib", "jsonlite", + "lifecycle", "memoise", "mime", "rlang", "sass" ], - "Hash": "283015ddfbb9d7bf15ea9f0b5698f0d9" + "Hash": "c0d8599494bc7fb408cd206bbdd9cab0" }, "caTools": { "Package": "caTools", @@ -940,14 +942,14 @@ }, "cli": { "Package": "cli", - "Version": "3.6.1", + "Version": "3.6.2", "Source": "Repository", "Repository": "CRAN", "Requirements": [ "R", "utils" ], - "Hash": "89e6d8219950eac806ae0c489052048a" + "Hash": "1216ac65ac55ec0058a6f75d7ca0fd52" }, "clue": { "Package": "clue", @@ -965,7 +967,7 @@ }, "cluster": { "Package": "cluster", - "Version": "2.1.4", + "Version": "2.1.6", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -975,7 +977,7 @@ "stats", "utils" ], - "Hash": "5edbbabab6ce0bf7900a74fd4358628e" + "Hash": "0aaa05204035dc43ea0004b9c76611dd" }, "clusterProfiler": { "Package": "clusterProfiler", @@ -1065,7 +1067,7 @@ }, "cowplot": { "Package": "cowplot", - "Version": "1.1.1", + "Version": "1.1.2", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -1078,17 +1080,17 @@ "rlang", "scales" ], - "Hash": "b418e8423699d11c7f2087c2bfd07da2" + "Hash": "ef28211987921217c61b4f4068068dac" }, "cpp11": { "Package": "cpp11", - "Version": "0.4.6", + "Version": "0.4.7", "Source": "Repository", "Repository": "CRAN", "Requirements": [ "R" ], - "Hash": "707fae4bbf73697ec8d85f9d7076c061" + "Hash": "5a295d7d963cc5035284dcdbaf334f4e" }, "crayon": { "Package": "crayon", @@ -1104,7 +1106,7 @@ }, "crosstalk": { "Package": "crosstalk", - "Version": "1.2.0", + "Version": "1.2.1", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -1113,28 +1115,28 @@ "jsonlite", "lazyeval" ], - "Hash": "6aa54f69598c32177e920eb3402e8293" + "Hash": "ab12c7b080a57475248a30f4db6298c0" }, "curl": { "Package": "curl", - "Version": "5.1.0", + "Version": "5.2.0", "Source": "Repository", - "Repository": "CRAN", + "Repository": "https://carpentries.r-universe.dev", "Requirements": [ "R" ], - "Hash": "9123f3ef96a2c1a93927d828b2fe7d4c" + "Hash": "ce88d13c0b10fe88a37d9c59dba2d7f9" }, "data.table": { "Package": "data.table", - "Version": "1.14.8", + "Version": "1.14.10", "Source": "Repository", "Repository": "CRAN", "Requirements": [ "R", "methods" ], - "Hash": "b4c06e554f33344e044ccd7fdca750a9" + "Hash": "6ea17a32294d8ca00455825ab0cf71b9" }, "digest": { "Package": "digest", @@ -1174,9 +1176,9 @@ }, "dplyr": { "Package": "dplyr", - "Version": "1.1.3", + "Version": "1.1.4", "Source": "Repository", - "Repository": "RSPM", + "Repository": "CRAN", "Requirements": [ "R", "R6", @@ -1193,7 +1195,7 @@ "utils", "vctrs" ], - "Hash": "e85ffbebaad5f70e1a2e2ef4302b4949" + "Hash": "fedd9d00c2944ff00a0e2696ccf048ec" }, "ellipsis": { "Package": "ellipsis", @@ -1265,7 +1267,7 @@ }, "fansi": { "Package": "fansi", - "Version": "1.0.5", + "Version": "1.0.6", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -1273,7 +1275,7 @@ "grDevices", "utils" ], - "Hash": "3e8583a60163b4bc1a80016e63b9959e" + "Hash": "962174cf2aeb5b9eea581522286a911f" }, "farver": { "Package": "farver", @@ -1666,7 +1668,7 @@ }, "gtools": { "Package": "gtools", - "Version": "3.9.4", + "Version": "3.9.5", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -1674,7 +1676,7 @@ "stats", "utils" ], - "Hash": "88bb96eaf7140cdf29e374ef74182220" + "Hash": "588d091c35389f1f4a9d533c8d709b35" }, "hexbin": { "Package": "hexbin", @@ -1735,7 +1737,7 @@ }, "htmlwidgets": { "Package": "htmlwidgets", - "Version": "1.6.2", + "Version": "1.6.4", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -1746,13 +1748,13 @@ "rmarkdown", "yaml" ], - "Hash": "a865aa85bcb2697f47505bfd70422471" + "Hash": "04291cc45198225444a397606810ac37" }, "httpuv": { "Package": "httpuv", - "Version": "1.6.12", + "Version": "1.6.13", "Source": "Repository", - "Repository": "https://carpentries.r-universe.dev", + "Repository": "CRAN", "Requirements": [ "R", "R6", @@ -1761,7 +1763,7 @@ "promises", "utils" ], - "Hash": "c992f75861325961c29a188b45e549f7" + "Hash": "d23d2879001f3d82ee9dc38a9ef53c4c" }, "httr": { "Package": "httr", @@ -1814,7 +1816,7 @@ }, "igraph": { "Package": "igraph", - "Version": "1.5.1", + "Version": "1.6.0", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -1832,7 +1834,7 @@ "stats", "utils" ], - "Hash": "80401cb5ec513e8ddc56764d03f63669" + "Hash": "eef74fe28b747e52288ea9e1d3600034" }, "isoband": { "Package": "isoband", @@ -1868,13 +1870,13 @@ }, "jsonlite": { "Package": "jsonlite", - "Version": "1.8.7", + "Version": "1.8.8", "Source": "Repository", "Repository": "CRAN", "Requirements": [ "methods" ], - "Hash": "266a20443ca13c65688b2116d5220f76" + "Hash": "e1b9c55281c5adc4dd113652d9e26768" }, "knitr": { "Package": "knitr", @@ -1916,14 +1918,14 @@ }, "later": { "Package": "later", - "Version": "1.3.1", + "Version": "1.3.2", "Source": "Repository", "Repository": "CRAN", "Requirements": [ "Rcpp", "rlang" ], - "Hash": "40401c9cf2bc2259dfe83311c9384710" + "Hash": "a3e051d405326b8b0012377434c62b37" }, "lattice": { "Package": "lattice", @@ -1952,7 +1954,7 @@ }, "lifecycle": { "Package": "lifecycle", - "Version": "1.0.3", + "Version": "1.0.4", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -1961,7 +1963,7 @@ "glue", "rlang" ], - "Hash": "001cecbeac1cff9301bdc3775ee46a86" + "Hash": "b8552d117e1b808b09a832f589b79035" }, "limma": { "Package": "limma", @@ -2000,13 +2002,13 @@ }, "matrixStats": { "Package": "matrixStats", - "Version": "1.0.0", + "Version": "1.2.0", "Source": "Repository", "Repository": "CRAN", "Requirements": [ "R" ], - "Hash": "9143629fd64335aac6a6250d1c1ed82a" + "Hash": "33a3ca9e732b57244d14f5d732ffc9eb" }, "memoise": { "Package": "memoise", @@ -2021,7 +2023,7 @@ }, "mgcv": { "Package": "mgcv", - "Version": "1.9-0", + "Version": "1.9-1", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -2034,7 +2036,7 @@ "stats", "utils" ], - "Hash": "086028ca0460d0c368028d3bda58f31b" + "Hash": "110ee9d83b496279960e162ac97764ce" }, "microbenchmark": { "Package": "microbenchmark", @@ -2098,18 +2100,18 @@ }, "mvtnorm": { "Package": "mvtnorm", - "Version": "1.2-3", + "Version": "1.2-4", "Source": "Repository", "Repository": "CRAN", "Requirements": [ "R", "stats" ], - "Hash": "463b268710930f7bffef33147400966a" + "Hash": "17e96668f44a28aef0981d9e17c49b59" }, "nlme": { "Package": "nlme", - "Version": "3.1-163", + "Version": "3.1-164", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -2119,7 +2121,7 @@ "stats", "utils" ], - "Hash": "8d1938040a05566f4f7a14af4feadd6b" + "Hash": "a623a2239e642806158bc4dc3f51565d" }, "numDeriv": { "Package": "numDeriv", @@ -2391,7 +2393,7 @@ }, "sass": { "Package": "sass", - "Version": "0.4.7", + "Version": "0.4.8", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -2401,25 +2403,27 @@ "rappdirs", "rlang" ], - "Hash": "6bd4d33b50ff927191ec9acbf52fd056" + "Hash": "168f9353c76d4c4b0a0bbf72e2c2d035" }, "scales": { "Package": "scales", - "Version": "1.2.1", + "Version": "1.3.0", "Source": "Repository", "Repository": "CRAN", "Requirements": [ "R", "R6", "RColorBrewer", + "cli", "farver", + "glue", "labeling", "lifecycle", "munsell", "rlang", "viridisLite" ], - "Hash": "906cb23d2f1c5680b8ce439b44c6fa63" + "Hash": "c19df082ba346b0ffa6f833e92de34d1" }, "scatterpie": { "Package": "scatterpie", @@ -2467,7 +2471,7 @@ }, "shiny": { "Package": "shiny", - "Version": "1.7.5.1", + "Version": "1.8.0", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -2497,7 +2501,7 @@ "withr", "xtable" ], - "Hash": "5ec01cc255f2138fc2f0dc74d2b1a1a1" + "Hash": "3a1f41807d648a908e3c7f0334bf85e6" }, "shinyAce": { "Package": "shinyAce", @@ -2581,20 +2585,20 @@ }, "stringi": { "Package": "stringi", - "Version": "1.7.12", + "Version": "1.8.3", "Source": "Repository", - "Repository": "CRAN", + "Repository": "https://carpentries.r-universe.dev", "Requirements": [ "R", "stats", "tools", "utils" ], - "Hash": "ca8bd84263c77310739d2cf64d84d7c9" + "Hash": "058aebddea264f4c99401515182e656a" }, "stringr": { "Package": "stringr", - "Version": "1.5.0", + "Version": "1.5.1", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -2607,7 +2611,7 @@ "stringi", "vctrs" ], - "Hash": "671a4d384ae9d32fc47a14e98bfa3dc8" + "Hash": "960e2ae9e09656611e0b8214ad543207" }, "sys": { "Package": "sys", @@ -2620,7 +2624,7 @@ "Package": "systemfonts", "Version": "1.0.5", "Source": "Repository", - "Repository": "https://carpentries.r-universe.dev", + "Repository": "RSPM", "Requirements": [ "R", "cpp11" @@ -2648,7 +2652,7 @@ }, "tidygraph": { "Package": "tidygraph", - "Version": "1.2.3", + "Version": "1.3.0", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -2657,6 +2661,7 @@ "cpp11", "dplyr", "igraph", + "lifecycle", "magrittr", "pillar", "rlang", @@ -2666,7 +2671,7 @@ "tools", "utils" ], - "Hash": "0fc97a52b4b32a0b4a3de4c5241348e2" + "Hash": "5c1d6e75684cd37665f7f686dad19510" }, "tidyr": { "Package": "tidyr", @@ -2709,7 +2714,7 @@ }, "tidytree": { "Package": "tidytree", - "Version": "0.4.5", + "Version": "0.4.6", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -2727,28 +2732,28 @@ "tidyselect", "yulab.utils" ], - "Hash": "b6c0b32b3632419e1a91bf4e0c4f7337" + "Hash": "a700d295c0eff82fbce42eac067bb89d" }, "tinytex": { "Package": "tinytex", - "Version": "0.48", + "Version": "0.49", "Source": "Repository", "Repository": "CRAN", "Requirements": [ "xfun" ], - "Hash": "8f96d229b7311beb32b94cf413b13f84" + "Hash": "5ac22900ae0f386e54f1c307eca7d843" }, "treeio": { "Package": "treeio", - "Version": "1.27.0", + "Version": "1.27.0.002", "Source": "GitHub", "RemoteType": "github", - "RemoteHost": "api.github.com", "RemoteUsername": "GuangchuangYu", "RemoteRepo": "treeio", "RemoteRef": "devel", - "RemoteSha": "a8b64d4a3ac47406684f573f6e94080ff1e95b2d", + "RemoteSha": "acf29745bd1f98f78ca8e8ab23758c95f65e8086", + "RemoteHost": "api.github.com", "Requirements": [ "R", "ape", @@ -2760,9 +2765,10 @@ "stats", "tibble", "tidytree", - "utils" + "utils", + "yulab.utils" ], - "Hash": "cdce4cde2d2f25f0de840b9b344c2303" + "Hash": "964b4d2d3153b74deb486aace69f802a" }, "tweenr": { "Package": "tweenr", @@ -2791,7 +2797,7 @@ }, "vctrs": { "Package": "vctrs", - "Version": "0.6.4", + "Version": "0.6.5", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -2801,11 +2807,11 @@ "lifecycle", "rlang" ], - "Hash": "266c1ca411266ba8f365fcc726444b87" + "Hash": "c03fa420630029418f7e6da3667aac4a" }, "vipor": { "Package": "vipor", - "Version": "0.4.5", + "Version": "0.4.7", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -2813,7 +2819,7 @@ "graphics", "stats" ], - "Hash": "ea85683da7f2bfa63a98dc6416892591" + "Hash": "86493c62c14eb78140f1725003958a77" }, "viridis": { "Package": "viridis", @@ -2891,14 +2897,14 @@ }, "yaml": { "Package": "yaml", - "Version": "2.3.7", + "Version": "2.3.8", "Source": "Repository", "Repository": "CRAN", - "Hash": "0d0056cc5383fbc240ccd0cb584bf436" + "Hash": "29240487a071f535f5e5d5a323b7afbd" }, "yulab.utils": { "Package": "yulab.utils", - "Version": "0.1.0", + "Version": "0.1.2", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -2911,7 +2917,7 @@ "tools", "utils" ], - "Hash": "792b3c5bc98f04a7d49cbd8c55fe0770" + "Hash": "b737d549a97343eeebe7b87fa76b53c2" }, "zlibbioc": { "Package": "zlibbioc",