Deprecate R packages for spatial analysis (#38158)

* Deprecate R packages for spatial analysis

* [@spackbot] updating style on behalf of adamjstewart

---------

Co-authored-by: adamjstewart <adamjstewart@users.noreply.github.com>

3 files changed, 110 insertions, 22 deletions

diff --git a/var/spack/repos/builtin/packages/r-maptools/package.py b/var/spack/repos/builtin/packages/r-maptools/package.py
index 61df1868b2..f16bb171d5 100644
--- a/var/spack/repos/builtin/packages/r-maptools/package.py
+++ b/var/spack/repos/builtin/packages/r-maptools/package.py
@@ -17,14 +17,46 @@ class RMaptools(RPackage):
 
     cran = "maptools"
 
-    version("1.1-6", sha256="d6a5df52db03b2231f21921b693c67f85df3c3b376181aa13ef4f21710f69308")
-    version("1.1-5", sha256="3cd9bd95d3a1cb4aae3a350e0582319dacc25f070af6995061b85e68042f25dc")
-    version("1.1-4", sha256="f3ee25f9787d97c8373dac3651c6a198c932948eb3a6006b8618c91c6344fdc9")
-    version("1.1-2", sha256="3995c96e8472cd6717fe3cbd3506358ff460b6c2cf92dbe4b00f75f507514439")
-    version("1.0-2", sha256="daac6da5817cf0cff17b9e7d4a7cdc7c329574249bd9b1bafdb6c9431e1fee49")
-    version("0.9-5", sha256="5d9511f09fb49d57a51f28495b02239800596a4fcfad7b03ee1074d793657bdd")
-    version("0.9-4", sha256="930875f598a516f0f9049fa2fae7391bc9bdf7e3e5db696059ab4ec2fc9ba39c")
-    version("0.8-39", sha256="4b81e313e45dbb75e0fbb180b02985d1c34aaa5669e483283b632788e6a67dd2")
+    version(
+        "1.1-6",
+        sha256="d6a5df52db03b2231f21921b693c67f85df3c3b376181aa13ef4f21710f69308",
+        deprecated=True,
+    )
+    version(
+        "1.1-5",
+        sha256="3cd9bd95d3a1cb4aae3a350e0582319dacc25f070af6995061b85e68042f25dc",
+        deprecated=True,
+    )
+    version(
+        "1.1-4",
+        sha256="f3ee25f9787d97c8373dac3651c6a198c932948eb3a6006b8618c91c6344fdc9",
+        deprecated=True,
+    )
+    version(
+        "1.1-2",
+        sha256="3995c96e8472cd6717fe3cbd3506358ff460b6c2cf92dbe4b00f75f507514439",
+        deprecated=True,
+    )
+    version(
+        "1.0-2",
+        sha256="daac6da5817cf0cff17b9e7d4a7cdc7c329574249bd9b1bafdb6c9431e1fee49",
+        deprecated=True,
+    )
+    version(
+        "0.9-5",
+        sha256="5d9511f09fb49d57a51f28495b02239800596a4fcfad7b03ee1074d793657bdd",
+        deprecated=True,
+    )
+    version(
+        "0.9-4",
+        sha256="930875f598a516f0f9049fa2fae7391bc9bdf7e3e5db696059ab4ec2fc9ba39c",
+        deprecated=True,
+    )
+    version(
+        "0.8-39",
+        sha256="4b81e313e45dbb75e0fbb180b02985d1c34aaa5669e483283b632788e6a67dd2",
+        deprecated=True,
+    )
 
     depends_on("r@2.10:", type=("build", "run"))
     depends_on("r-sp@1.0-11:", type=("build", "run"))
diff --git a/var/spack/repos/builtin/packages/r-rgdal/package.py b/var/spack/repos/builtin/packages/r-rgdal/package.py
index 74386f0f9a..343ed8195c 100644
--- a/var/spack/repos/builtin/packages/r-rgdal/package.py
+++ b/var/spack/repos/builtin/packages/r-rgdal/package.py
@@ -23,15 +23,51 @@ class RRgdal(RPackage):
 
     cran = "rgdal"
 
-    version("1.6-6", sha256="d742d7aadfc004771e61cac28a1faffeb4dbda981dea19115be11c541087399a")
-    version("1.6-2", sha256="7eab4b0adaa788b985cd33da214799d562a943f5788631ebd1301dfc69ca033d")
-    version("1.5-32", sha256="4583a4e187492eb936b59bc6bfeefea687b115bc3ae25172e0ed348b38f473ed")
-    version("1.5-28", sha256="7f54432cfa8c0db463f68e8856c3ca0a90671dc841ac5203af049eb318e261a2")
-    version("1.5-19", sha256="6fbfd71b19e7b8d9dbddc91cb1eef8890c74a1e2bf8f619da165ff51bf1231b2")
-    version("1.5-18", sha256="53467c19bc93d8ea311458eaa281c8c456168ab75e84d76ef5cc6c00f53122df")
-    version("1.4-4", sha256="2532e76e0af27d145f799d70006a5dbecb2d3be698e3d0bbf580f4c41a34c5d7")
-    version("1.3-9", sha256="3e44f88d09894be4c0abd8874d00b40a4a5f4542b75250d098ffbb3ba41e2654")
-    version("1.2-16", sha256="017fefea4f9a6d4540d128c707197b7025b55e4aff98fc763065366b025b03c9")
+    version(
+        "1.6-6",
+        sha256="d742d7aadfc004771e61cac28a1faffeb4dbda981dea19115be11c541087399a",
+        deprecated=True,
+    )
+    version(
+        "1.6-2",
+        sha256="7eab4b0adaa788b985cd33da214799d562a943f5788631ebd1301dfc69ca033d",
+        deprecated=True,
+    )
+    version(
+        "1.5-32",
+        sha256="4583a4e187492eb936b59bc6bfeefea687b115bc3ae25172e0ed348b38f473ed",
+        deprecated=True,
+    )
+    version(
+        "1.5-28",
+        sha256="7f54432cfa8c0db463f68e8856c3ca0a90671dc841ac5203af049eb318e261a2",
+        deprecated=True,
+    )
+    version(
+        "1.5-19",
+        sha256="6fbfd71b19e7b8d9dbddc91cb1eef8890c74a1e2bf8f619da165ff51bf1231b2",
+        deprecated=True,
+    )
+    version(
+        "1.5-18",
+        sha256="53467c19bc93d8ea311458eaa281c8c456168ab75e84d76ef5cc6c00f53122df",
+        deprecated=True,
+    )
+    version(
+        "1.4-4",
+        sha256="2532e76e0af27d145f799d70006a5dbecb2d3be698e3d0bbf580f4c41a34c5d7",
+        deprecated=True,
+    )
+    version(
+        "1.3-9",
+        sha256="3e44f88d09894be4c0abd8874d00b40a4a5f4542b75250d098ffbb3ba41e2654",
+        deprecated=True,
+    )
+    version(
+        "1.2-16",
+        sha256="017fefea4f9a6d4540d128c707197b7025b55e4aff98fc763065366b025b03c9",
+        deprecated=True,
+    )
 
     depends_on("r@3.3.0:", type=("build", "run"))
     depends_on("r@3.5.0:", type=("build", "run"), when="@1.5:")
diff --git a/var/spack/repos/builtin/packages/r-rgeos/package.py b/var/spack/repos/builtin/packages/r-rgeos/package.py
index 88025ad7ee..9a33f8aa3f 100644
--- a/var/spack/repos/builtin/packages/r-rgeos/package.py
+++ b/var/spack/repos/builtin/packages/r-rgeos/package.py
@@ -30,11 +30,31 @@ class RRgeos(RPackage):
 
     cran = "rgeos"
 
-    version("0.6-2", sha256="2ee2bb8b0c20d7908ac55d4d1cf8292c624ab836e02599ce1871a249a59fe0af")
-    version("0.5-9", sha256="ab90cbfe6a3680a9d2eed5e655064a075adc66788e304468969ab7cc2df0e3d4")
-    version("0.5-5", sha256="4baa0dfe6ff76e87ddb67a030fc14fe963d28b518485a4d71058923b2606d420")
-    version("0.5-1", sha256="8408973e7fe5648e39aa53f3d4bfe800638021a146a4e06f86496c0132e05488")
-    version("0.3-26", sha256="98524a0b8113abe6c3d0ecc1f2f66e7ab6d40c783a76158cfc017e1ab1e3f433")
+    version(
+        "0.6-2",
+        sha256="2ee2bb8b0c20d7908ac55d4d1cf8292c624ab836e02599ce1871a249a59fe0af",
+        deprecated=True,
+    )
+    version(
+        "0.5-9",
+        sha256="ab90cbfe6a3680a9d2eed5e655064a075adc66788e304468969ab7cc2df0e3d4",
+        deprecated=True,
+    )
+    version(
+        "0.5-5",
+        sha256="4baa0dfe6ff76e87ddb67a030fc14fe963d28b518485a4d71058923b2606d420",
+        deprecated=True,
+    )
+    version(
+        "0.5-1",
+        sha256="8408973e7fe5648e39aa53f3d4bfe800638021a146a4e06f86496c0132e05488",
+        deprecated=True,
+    )
+    version(
+        "0.3-26",
+        sha256="98524a0b8113abe6c3d0ecc1f2f66e7ab6d40c783a76158cfc017e1ab1e3f433",
+        deprecated=True,
+    )
 
     depends_on("r@3.3.0:", type=("build", "run"))
     depends_on("r-sp@1.1-0:", type=("build", "run"))