diff options
| -rw-r--r-- | var/spack/repos/builtin/packages/kentutils/package.py | 37 |
1 files changed, 22 insertions, 15 deletions
diff --git a/var/spack/repos/builtin/packages/kentutils/package.py b/var/spack/repos/builtin/packages/kentutils/package.py index f1deffdcb6..7757320c72 100644 --- a/var/spack/repos/builtin/packages/kentutils/package.py +++ b/var/spack/repos/builtin/packages/kentutils/package.py @@ -9,26 +9,33 @@ from spack.package import * class Kentutils(MakefilePackage): """Jim Kent command line bioinformatic utilities""" - homepage = "https://github.com/ENCODE-DCC/kentUtils" - git = "https://github.com/ENCODE-DCC/kentUtils.git" - - version("302.1", commit="d8376c5d52a161f2267346ed3dc94b5dce74c2f9") + homepage = "https://genome.cse.ucsc.edu/" + url = "https://hgdownload.cse.ucsc.edu/admin/exe/userApps.archive/userApps.v453.src.tgz" + + version("459", sha256="0b6e89a183e6385c713cf010a7aeead9da6626d8d2f78c363a4f1bc56ccccebb") + # The above archive only goes back to v305. v302 is left for now but deprecated. Suggest + # this is dropped on next update (v302 is from 2014!) and the `requires()` removed. + version( + "302.1", + commit="d8376c5d52a161f2267346ed3dc94b5dce74c2f9", + git="https://github.com/ENCODE-DCC/kentUtils.git", + deprecated=True, + ) depends_on("libpng") depends_on("openssl") - - # Actually depends on mysql, but mariadb works for now until mysql is - # available + depends_on("libuuid") depends_on("mariadb") + depends_on("zlib-api") + depends_on("freetype") + depends_on("libiconv") + + requires("%gcc", when="@302.1") - conflicts("%cce") - conflicts("%apple-clang") - conflicts("%clang") - conflicts("%intel") - conflicts("%nag") - conflicts("%pgi") - conflicts("%xl") - conflicts("%xl_r") + def flag_handler(self, name, flags): + if name == "ldflags": + flags.append(f'{self.spec["libiconv"].libs.ld_flags}') + return (flags, None, None) def install(self, spec, prefix): install_tree("bin", prefix.bin) |