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ncbi-toolkit: adding version 26_0_1 (#33061)

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snehring 2022-10-06 14:26:25 -05:00 committed by GitHub
parent a520a7ef28
commit f43887dd4e
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1 changed files with 15 additions and 0 deletions
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var/spack/repos/builtin/packages/ncbi-toolkit/package.py
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@ -14,6 +14,13 @@ class NcbiToolkit(AutotoolsPackage):
homepage = "https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/" 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" 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( version(
"25_2_0", "25_2_0",
sha256="9f824a92750e64e7b9be98d82b84414ab4f7e5d73392dadbb87c94ff5ccf9111", sha256="9f824a92750e64e7b9be98d82b84414ab4f7e5d73392dadbb87c94ff5ccf9111",
@ -34,6 +41,8 @@ class NcbiToolkit(AutotoolsPackage):
depends_on("boost@1.35.0:+test+log") depends_on("boost@1.35.0:+test+log")
depends_on("bzip2") depends_on("bzip2")
depends_on("cpio", type="build")
depends_on("diffutils", type="build")
depends_on("jpeg") depends_on("jpeg")
depends_on("libpng") depends_on("libpng")
depends_on("libtiff") depends_on("libtiff")
@ -46,6 +55,7 @@ class NcbiToolkit(AutotoolsPackage):
depends_on("zlib") depends_on("zlib")
depends_on("samtools") depends_on("samtools")
depends_on("bamtools") depends_on("bamtools")
depends_on("berkeley-db")
def configure_args(self): def configure_args(self):
args = ["--without-sybase", "--without-fastcgi"] args = ["--without-sybase", "--without-fastcgi"]
@ -88,6 +98,11 @@ def patch(self):
) )
filter_file(r"(log_build_info\(ostr)\)", r"\1, true)", file_) 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): def build(self, spec, prefix):
with working_dir(join_path(glob("*MT64")[0], "build")): with working_dir(join_path(glob("*MT64")[0], "build")):
make("all_r") make("all_r")