diff options
| -rw-r--r-- | var/spack/repos/builtin/packages/ncbi-toolkit/package.py | 15 |
1 files changed, 15 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/ncbi-toolkit/package.py b/var/spack/repos/builtin/packages/ncbi-toolkit/package.py index 471c95a566..b05530be1c 100644 --- a/var/spack/repos/builtin/packages/ncbi-toolkit/package.py +++ b/var/spack/repos/builtin/packages/ncbi-toolkit/package.py @@ -14,6 +14,13 @@ class NcbiToolkit(AutotoolsPackage): homepage = "https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/" url = "ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools++/CURRENT/ncbi_cxx--22_0_0.tar.gz" + # Per https://ncbi.github.io/cxx-toolkit/pages/ch_getcode_svn#ch_getcode_svn.external + # New versions are released on github + version( + "26_0_1", + sha256="aba79da5c8d0407ffc92b7831f4f8f8a8096a15e47a016ada81b6568f9d280cc", + url="https://github.com/ncbi/ncbi-cxx-toolkit-public/archive/refs/tags/release-26.0.1.tar.gz", + ) version( "25_2_0", sha256="9f824a92750e64e7b9be98d82b84414ab4f7e5d73392dadbb87c94ff5ccf9111", @@ -34,6 +41,8 @@ class NcbiToolkit(AutotoolsPackage): depends_on("boost@1.35.0:+test+log") depends_on("bzip2") + depends_on("cpio", type="build") + depends_on("diffutils", type="build") depends_on("jpeg") depends_on("libpng") depends_on("libtiff") @@ -46,6 +55,7 @@ class NcbiToolkit(AutotoolsPackage): depends_on("zlib") depends_on("samtools") depends_on("bamtools") + depends_on("berkeley-db") def configure_args(self): args = ["--without-sybase", "--without-fastcgi"] @@ -88,6 +98,11 @@ class NcbiToolkit(AutotoolsPackage): ) filter_file(r"(log_build_info\(ostr)\)", r"\1, true)", file_) + with working_dir(join_path("scripts", "common", "impl")): + files = ["if_diff.sh", "update_configurable.sh"] + for file in files: + filter_file("PATH=/bin:/usr/bin", "", file) + def build(self, spec, prefix): with working_dir(join_path(glob("*MT64")[0], "build")): make("all_r") |