diff options
author | BioArchLinuxBot | 2024-03-20 00:04:52 +0000 |
---|---|---|
committer | BioArchLinuxBot | 2024-03-20 00:04:52 +0000 |
commit | 5e1fa08caec925f26fa3f903988cb18cc0922e49 (patch) | |
tree | 586c1f7b7ed8fa9caca9b83c84074fe1e56a465d | |
parent | 6e78e22bc94add7d49fe7ba7357222e319c769e9 (diff) | |
download | aur-5e1fa08caec925f26fa3f903988cb18cc0922e49.tar.gz |
[lilac] updated to 1.6.1-1
-rw-r--r-- | .SRCINFO | 14 | ||||
-rw-r--r-- | PKGBUILD | 18 | ||||
-rw-r--r-- | skip-tests.patch | 20 |
3 files changed, 30 insertions, 22 deletions
@@ -1,10 +1,10 @@ pkgbase = r-hermes pkgdesc = Preprocessing, analyzing, and reporting of RNA-seq data - pkgver = 1.6.0 + pkgver = 1.6.1 pkgrel = 1 url = https://bioconductor.org/packages/hermes arch = any - license = Apache + license = Apache-2.0 checkdepends = r-testthat checkdepends = r-vdiffr depends = r-assertthat @@ -46,11 +46,11 @@ pkgbase = r-hermes optdepends = r-testthat optdepends = r-vdiffr optdepends = r-withr - source = https://bioconductor.org/packages/release/bioc/src/contrib/hermes_1.6.0.tar.gz + source = https://bioconductor.org/packages/release/bioc/src/contrib/hermes_1.6.1.tar.gz source = skip-tests.patch - md5sums = af1e1dd4bab597cfb7b0bd12a1e9e7dd - md5sums = 584674ff858d3b36bd221e71a3feabae - sha256sums = 7948b722f701e86f968a9e0a3f89a6a002c5bc22932912e50f86693ed17fc8d0 - sha256sums = fdef7997f73aa7ddaa4d8307fde896adf051a2dc60d6d7f83871df252a10dd37 + md5sums = 9e758f81455d5fc7a8b57c3a65b4de5b + md5sums = e228515b639417bea13853cfc94b866a + b2sums = 224fd9ad63e1bdf566a41e58f90c2cd120008add812f0ff4e777d72d9c3896c7d7ed06b5759b5c5330b2126dfc0cb6097584c7650c8a1f12fd2c1dcdf34ed99c + b2sums = b781820238d74265dce64de9804bd568587c61c0460e15b32eabf27e0f827d673e52e852274e2613a2cf55bd54e218ad21493d78fc16f8fe954a98d3b9970bb7 pkgname = r-hermes @@ -1,14 +1,14 @@ # Maintainer: Pekka Ristola <pekkarr [at] protonmail [dot] com> _pkgname=hermes -_pkgver=1.6.0 +_pkgver=1.6.1 pkgname=r-${_pkgname,,} pkgver=${_pkgver//-/.} pkgrel=1 pkgdesc="Preprocessing, analyzing, and reporting of RNA-seq data" arch=(any) -url="https://bioconductor.org/packages/${_pkgname}" -license=(Apache) +url="https://bioconductor.org/packages/$_pkgname" +license=('Apache-2.0') depends=( r-assertthat r-biobase @@ -58,10 +58,10 @@ optdepends=( ) source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz" "skip-tests.patch") -md5sums=('af1e1dd4bab597cfb7b0bd12a1e9e7dd' - '584674ff858d3b36bd221e71a3feabae') -sha256sums=('7948b722f701e86f968a9e0a3f89a6a002c5bc22932912e50f86693ed17fc8d0' - 'fdef7997f73aa7ddaa4d8307fde896adf051a2dc60d6d7f83871df252a10dd37') +md5sums=('9e758f81455d5fc7a8b57c3a65b4de5b' + 'e228515b639417bea13853cfc94b866a') +b2sums=('224fd9ad63e1bdf566a41e58f90c2cd120008add812f0ff4e777d72d9c3896c7d7ed06b5759b5c5330b2126dfc0cb6097584c7650c8a1f12fd2c1dcdf34ed99c' + 'b781820238d74265dce64de9804bd568587c61c0460e15b32eabf27e0f827d673e52e852274e2613a2cf55bd54e218ad21493d78fc16f8fe954a98d3b9970bb7') prepare() { # skip failing tests @@ -69,8 +69,8 @@ prepare() { } build() { - mkdir -p build - R CMD INSTALL "$_pkgname" -l build + mkdir build + R CMD INSTALL -l build "$_pkgname" } check() { diff --git a/skip-tests.patch b/skip-tests.patch index c3937930c808..0d5fdbae7849 100644 --- a/skip-tests.patch +++ b/skip-tests.patch @@ -19,7 +19,7 @@ index f7c5f29..0010620 100644 result <- autoplot( object, diff --git a/hermes/tests/testthat/test-connections.R b/hermes/tests/testthat/test-connections.R -index 7a471fa..2fbc695 100644 +index 7a471fa..088f659 100644 --- a/hermes/tests/testthat/test-connections.R +++ b/hermes/tests/testthat/test-connections.R @@ -2,7 +2,7 @@ @@ -31,7 +31,15 @@ index 7a471fa..2fbc695 100644 NULL } else { as( -@@ -30,6 +30,7 @@ test_that("connect_biomart works as expected", { +@@ -17,6 +17,7 @@ httr::set_config(httr::config(ssl_verifypeer = FALSE)) + # connect_biomart ---- + + test_that("connect_biomart works as expected", { ++ skip("fails") + skip_on_ci() + skip_on_bioc() + +@@ -30,6 +31,7 @@ test_that("connect_biomart works as expected", { }) test_that("connect_biomart can specify older version of Ensembl", { @@ -39,7 +47,7 @@ index 7a471fa..2fbc695 100644 skip_on_ci() skip_on_bioc() -@@ -45,6 +46,7 @@ test_that("connect_biomart can specify older version of Ensembl", { +@@ -45,6 +47,7 @@ test_that("connect_biomart can specify older version of Ensembl", { # h_get_annotation_biomart ---- test_that("h_get_annotation_biomart works as expected", { @@ -47,7 +55,7 @@ index 7a471fa..2fbc695 100644 skip_on_ci() skip_on_bioc() -@@ -86,6 +88,7 @@ test_that("h_strip_prefix works as expected", { +@@ -86,6 +89,7 @@ test_that("h_strip_prefix works as expected", { # h_get_size_biomart ---- test_that("h_get_size_biomart works as expected", { @@ -55,7 +63,7 @@ index 7a471fa..2fbc695 100644 skip_on_ci() skip_on_bioc() -@@ -126,6 +129,7 @@ test_that("h_get_size_biomart works as expected", { +@@ -126,6 +130,7 @@ test_that("h_get_size_biomart works as expected", { # h_ensembl_to_entrez_ids ---- test_that("h_ensembl_to_entrez_ids works as expected", { @@ -63,7 +71,7 @@ index 7a471fa..2fbc695 100644 skip_on_ci() skip_on_bioc() -@@ -163,6 +167,7 @@ test_that("h_get_granges_by_id works as expected", { +@@ -163,6 +168,7 @@ test_that("h_get_granges_by_id works as expected", { # query-ConnectionBiomart ---- test_that("query to Biomart works as expected", { |