cellranger: new manual download package @7.1.0 (#38486)

* cellranger: new manual download package @7.1.0
* cellranger: updating to @7.2.0
* updating website
* Adding license url

---------

Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>

1 files changed, 38 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/cellranger/package.py b/var/spack/repos/builtin/packages/cellranger/package.py
new file mode 100644
index 0000000000..31dded75e8
--- /dev/null
+++ b/var/spack/repos/builtin/packages/cellranger/package.py
@@ -0,0 +1,38 @@
+# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other
+# Spack Project Developers. See the top-level COPYRIGHT file for details.
+#
+# SPDX-License-Identifier: (Apache-2.0 OR MIT)
+
+import os
+
+from spack.package import *
+
+
+class Cellranger(Package):
+    """Cellranger is a set of analysis pipelines that process Chromium single cell data to
+    align reads, generate feature-barcode matrices, perform clustering and other secondary
+    analysis, and more.
+
+    This package requires the user to accept a license and to download the tarball manually.
+    Once downloaded, the file should be placed within a manual mirror or within the current
+    directory. For instructions on making a manual mirror, see
+    https://spack.readthedocs.io/en/latest/mirrors.html"""
+
+    homepage = "https://www.10xgenomics.com/support/software/cell-ranger/latest"
+    manual_download = True
+    license_url = "support.10xgenomics.com/license"
+
+    version("7.2.0", sha256="b092bd4e3ab585ad051a231fbdd8f3f0f5cbcd10f657eeab86bec98cd594502c")
+    version("7.1.0", sha256="5c4f9b142e3c30ad10ae15d25868df2b4fd05bdb3bbd47da0c83a7cc649b577e")
+
+    # cellranger is distributed as precompiled binaries that are not compatible with
+    # processors without the avx instruction set ...
+    conflicts("target=:k10")  # last AMD processor not to support avx
+    conflicts("target=:westmere")  # last Intel processor not to support avx
+    conflicts("target=:x86_64_v2")  # last generic architecture not to support avx
+
+    def url_for_version(self, version):
+        return "file://{0}/cellranger-{1}.tar.gz".format(os.getcwd(), version)
+
+    def install(self, spec, prefix):
+        install_tree(".", prefix)