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py-htseq: add 2.0.3, switch to PyPI (#37935)

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* py-htseq: add 0.12.3, switching over to new GitHub repo

* py-htseq: add 0.12.3, switching over to new GitHub repo

Style fixes

* py-htseq: add 2.0.3, switch to PyPI

* py-htseq: add 2.0.3, switch to PyPI

* Update package.py

* Update var/spack/repos/builtin/packages/py-htseq/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* Removing SWIG

---------

Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
This commit is contained in:
George Young 2023-06-04 23:55:16 +01:00 committed by GitHub
parent 606b7c7f16
commit 3368a98210
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GPG Key ID: 4AEE18F83AFDEB23
1 changed files with 19 additions and 7 deletions
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var/spack/repos/builtin/packages/py-htseq/package.py
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@ -10,15 +10,27 @@ class PyHtseq(PythonPackage):
"""HTSeq is a Python package that provides infrastructure to process
data from high-throughput sequencing assays."""
homepage = "https://htseq.readthedocs.io/en/release_0.9.1/overview.html"
url = "https://github.com/simon-anders/htseq/archive/release_0.9.1.tar.gz"
homepage = "https://htseq.readthedocs.io/en/master/index.html"
pypi = "HTSeq/HTSeq-2.0.3.tar.gz"
version("0.11.2", sha256="dfc707effa699d5ba9034e1bb9f13c0fb4e9bc60d31ede2444aa49c7e2fc71aa")
version("0.9.1", sha256="28b41d68aa233fce0d57699e649b69bb11957f8f1b9b7b82dfe3415849719534")
version("2.0.3", sha256="c7e7eb29bdc44e80d2d68e3599fa8a8f1d9d6475624dcf1b9644285a8a9c0fac")
version("0.11.2", sha256="65c4c13968506c7df92e97124df96fdd041c4476c12a548d67350ba8b436bcfc")
version("0.9.1", sha256="af5bba775e3fb45ed4cde64c691ebef36b0bf7a86efd35c884ad0734c27ad485")
variant("qa", default=True, description="Quality assessment")
variant("mtx", default=True, description="BigWig manipulation", when="@2:")
variant("mtx", default=True, description="mtx output files", when="@2:")
variant("h5ad", default=True, description="h5ad output files", when="@2:")
variant("loom", default=True, description="loom output files", when="@2:")
# build-only dependencies
depends_on("py-setuptools", type="build")
depends_on("py-cython@0.29.5:", type="build")
# run dependencies
depends_on("py-numpy", type=("build", "run"))
depends_on("py-pysam", type=("build", "run"))
depends_on("py-matplotlib", type=("build", "run"))
depends_on("py-cython", type=("build", "run"))
depends_on("swig", type=("build", "run"))
# variant dependencies
depends_on("py-matplotlib@1.4:", type=("build", "run"), when="+qa")
depends_on("py-scipy@1.5.0:", type=("build", "run"), when="+mtx")
depends_on("py-anndata", type=("build", "run"), when="+h5ad")
depends_on("py-loompy", type=("build", "run"), when="+loom")