diff options
| author | V3n3RiX <venerix@koprulu.sector> | 2024-06-03 00:07:26 +0100 |
|---|---|---|
| committer | V3n3RiX <venerix@koprulu.sector> | 2024-06-03 00:07:26 +0100 |
| commit | a3bb28551df94028000fb72308a9e9baa01458b0 (patch) | |
| tree | 33b14c7bf0dffbd5bb04dbd5b395514ebdda4896 /sci-biology | |
| parent | 6657c680376cedf378fcf328e5fa03ed3b41d580 (diff) | |
gentoo auto-resync : 03:06:2024 - 00:07:25
Diffstat (limited to 'sci-biology')
| -rw-r--r-- | sci-biology/Manifest.gz | bin | 19006 -> 19006 bytes | |||
| -rw-r--r-- | sci-biology/ucsc-genome-browser/Manifest | 2 | ||||
| -rw-r--r-- | sci-biology/ucsc-genome-browser/ucsc-genome-browser-260-r2.ebuild (renamed from sci-biology/ucsc-genome-browser/ucsc-genome-browser-260-r1.ebuild) | 41 |
3 files changed, 26 insertions, 17 deletions
diff --git a/sci-biology/Manifest.gz b/sci-biology/Manifest.gz Binary files differindex b00432ffd6cc..375bb3febb00 100644 --- a/sci-biology/Manifest.gz +++ b/sci-biology/Manifest.gz diff --git a/sci-biology/ucsc-genome-browser/Manifest b/sci-biology/ucsc-genome-browser/Manifest index 13c0c81fd95e..352d6f97739a 100644 --- a/sci-biology/ucsc-genome-browser/Manifest +++ b/sci-biology/ucsc-genome-browser/Manifest @@ -1,3 +1,3 @@ DIST jksrc.v260.zip 59090224 BLAKE2B 755bb97f50cde97e7634f38aa81f0843de52710cac78f5b0a2ee6129cffc99f730b8e1ab41d24e2faebb3c0a3e1d1309c84307e2dc4af1efe9a30fb0b9ae1670 SHA512 48aa964ab3ae456ab7e7ddc5d73b91774bd4892f21f1498578a5de38d3a07e4684778ddb1ac1ae389d5bbb3586f9b8506ca3697acca1f6777b85d343cf5d9485 -EBUILD ucsc-genome-browser-260-r1.ebuild 3134 BLAKE2B f9b628c78939377f66c9aca6b68ca3cbebf7c41dde18a8d03dbc4533593069dff0381d0fe206b0287569739a96010661d275c2d43a8ffc9e1ad8f73b4d73be5e SHA512 6f33bd29ac24661d8a495913b6746d60ca4eb95e91e5ca7325420a9b430f9ca8fe990d9167ab2ffd500f151f8cce045601e1dde24efde05b185511c1b06593a7 +EBUILD ucsc-genome-browser-260-r2.ebuild 3247 BLAKE2B 7f8ece657ec2fa39c623712293009645f247f427149e617287d458a97364bf6070a3bc1c94ef2b447c6751e58b0b98f7996c7a941342ed937d9455a84a1233fb SHA512 99716737f5cb5e03ecc162a97a79e8f3369dea1452819c9dce4ae2ec593953b0c031929c0785b8677506483d6537c59d113888b89b804d9796b767f364bfc5cf MISC metadata.xml 436 BLAKE2B f0bf2e08eaadf20a1810abf0e3cd42494197b8fe2593c5f3ee243f58af5676a795009fefbc7f11d2d8e4d42ff9e34790dd7be9999a37839fe6ce780b12714116 SHA512 43d2b6e4519270b495122711c747c906ba64993811a6f4d63af5fc17a6752232dde3717f193432d673e2c183e35fb88421a39077d3d0dad18b712d26c6e64caa diff --git a/sci-biology/ucsc-genome-browser/ucsc-genome-browser-260-r1.ebuild b/sci-biology/ucsc-genome-browser/ucsc-genome-browser-260-r2.ebuild index f0bb0676ae85..ef96f491fb51 100644 --- a/sci-biology/ucsc-genome-browser/ucsc-genome-browser-260-r1.ebuild +++ b/sci-biology/ucsc-genome-browser/ucsc-genome-browser-260-r2.ebuild @@ -1,32 +1,40 @@ -# Copyright 1999-2021 Gentoo Authors +# Copyright 1999-2024 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=6 +EAPI=8 +WEBAPP_MANUAL_SLOT="yes" +# TODO: use WEBAPP_OPTIONAL? inherit toolchain-funcs flag-o-matic webapp DESCRIPTION="The UCSC genome browser suite, also known as Jim Kent's library and GoldenPath" HOMEPAGE="http://genome.ucsc.edu/" SRC_URI="http://hgdownload.cse.ucsc.edu/admin/jksrc.v${PV}.zip" +S="${WORKDIR}/kent" LICENSE="blat" SLOT="0" KEYWORDS="~amd64 ~x86" IUSE="+mysql +server static-libs" - REQUIRED_USE="server? ( mysql )" -WEBAPP_MANUAL_SLOT="yes" - +# TODO: test with other webservers RDEPEND=" - dev-libs/openssl:0= - media-libs/libpng:0= + dev-libs/openssl:= + media-libs/libpng:= !<sci-biology/ucsc-genome-browser-223 - mysql? ( dev-db/mysql-connector-c:0= ) - server? ( virtual/httpd-cgi )" # TODO: test with other webservers -DEPEND="${RDEPEND} app-arch/unzip" - -S="${WORKDIR}/kent" + mysql? ( dev-db/mysql-connector-c:= ) + server? ( virtual/httpd-cgi ) +" +DEPEND="${RDEPEND}" +BDEPEND=" + app-alternatives/cpio + app-arch/unzip +" + +pkg_setup() { + use server && webapp_pkg_setup +} src_prepare() { default @@ -35,6 +43,8 @@ src_prepare() { # bug #708064 append-flags -fcommon + # bug #831491, bug #919200, bug #921261 + append-flags -std=gnu89 sed \ -e 's/-Werror//' \ @@ -64,10 +74,9 @@ src_compile() { export MYSQLLIBS="none" MYSQLINC="none" DOCUMENTROOT="none" CGI_BIN="none" - # TODO: Change ${EPREFIX} to ${ESYSROOT} in EAPI 7 - # (and ideally use pkg-config here) - use mysql && export MYSQLLIBS="-L${EPREFIX%/}/usr/$(get_libdir)/mysql/ -lmysqlclient -lz -lssl" \ - MYSQLINC="${EPREFIX%/}/usr/include/mysql" + # TODO: use pkg-config here + use mysql && export MYSQLLIBS="-L${ESYSROOT}/usr/$(get_libdir)/mysql/ -lmysqlclient -lz -lssl" \ + MYSQLINC="${ESYSROOT}/usr/include/mysql" use server && export DOCUMENTROOT="${WORKDIR}/destdir/${MY_HTDOCSDIR}" \ CGI_BIN="${WORKDIR}/destdir/${MY_HTDOCSDIR}/cgi-bin" |