From 0e5ce57fd5d7ceddf272e04f28fde28f9930c2c5 Mon Sep 17 00:00:00 2001
From: snehring <7978778+snehring@users.noreply.github.com>
Date: Wed, 13 Sep 2023 17:03:44 -0500
Subject: interproscan: adding new version and variant to include databases.
 (#40009)

---
 .../repos/builtin/packages/interproscan/package.py | 51 +++++++++++++++++++++-
 1 file changed, 50 insertions(+), 1 deletion(-)

(limited to 'var')

diff --git a/var/spack/repos/builtin/packages/interproscan/package.py b/var/spack/repos/builtin/packages/interproscan/package.py
index 4bd5956f14..82380135a7 100644
--- a/var/spack/repos/builtin/packages/interproscan/package.py
+++ b/var/spack/repos/builtin/packages/interproscan/package.py
@@ -10,12 +10,16 @@ class Interproscan(Package):
     """InterProScan is the software package that allows sequences
     (protein and nucleic) to be scanned against InterPro's signatures.
     Signatures are predictive models, provided by several different
-    databases, that make up the InterPro consortium."""
+    databases, that make up the InterPro consortium. By default this
+    does not download all the databases you likely want, you'll either
+    want to build with +databases or download the data archive for the
+    version you installed to a separate location and modify interproscan.properties"""
 
     homepage = "https://www.ebi.ac.uk/interpro/interproscan.html"
     url = "https://github.com/ebi-pf-team/interproscan/archive/5.36-75.0.tar.gz"
     maintainers("snehring")
 
+    version("5.63-95.0", sha256="3d7babd09e64da3d7104c58f1e5104a298d69425e3210952331bc3f1ddf89ca6")
     version("5.61-93.0", sha256="70aca3b14983733fe5119b6978cb707156d006d7f737aa60ce6c9addd6c288e4")
     version("5.56-89.0", sha256="75e6a8f86ca17356a2f77f75b07d6d8fb7b397c9575f6e9716b64983e490b230")
     version("5.38-76.0", sha256="cb191ff8eee275689b789167a57b368ea5c06bbcd36b4de23e8bbbbdc0fc7434")
@@ -26,6 +30,41 @@ class Interproscan(Package):
         url="ftp://ftp.ebi.ac.uk/pub/software/unix/iprscan/4/RELEASE/4.8/iprscan_v4.8.tar.gz",
     )
 
+    resource(
+        when="@5.63-95.0 +databases",
+        name="databases",
+        url="https://ftp.ebi.ac.uk/pub/databases/interpro/iprscan/5/5.63-95.0/alt/interproscan-data-5.63-95.0.tar.gz",
+        sha256="6048eabe2eeaa4630b7a6a0b34d8c5a1724b0d22bba318c04c43777368e16cc4",
+    )
+
+    resource(
+        when="@5.61-93.0 +databases",
+        name="databases",
+        url="https://ftp.ebi.ac.uk/pub/databases/interpro/iprscan/5/5.61-93.0/alt/interproscan-data-5.61-93.0.tar.gz",
+        sha256="064aa4b4c3b2e27b457298359087878e48fc785bff801c95691f090d1b83867d",
+    )
+
+    resource(
+        when="5.56-89.0 +databases",
+        name="databases",
+        url="https://ftp.ebi.ac.uk/pub/databases/interpro/iprscan/5/5.56-89.0/alt/interproscan-data-5.56-89.0.tar.gz",
+        sha256="49cd0c69711f9469f3b68857f4581b23ff12765ca2b12893d18e5a9a5cd8032d",
+    )
+
+    resource(
+        when="5.38-76.0 +databases",
+        name="databases",
+        url="https://ftp.ebi.ac.uk/pub/databases/interpro/iprscan/5/5.38-76.0/alt/interproscan-data-5.38-76.0.tar.gz",
+        sha256="e05e15d701037504f92ecf849c20317e70df28e78ff1945826b3c1e16d9b9cce",
+    )
+
+    resource(
+        when="5.36-75.0 +databases",
+        name="databases",
+        url="https://ftp.ebi.ac.uk/pub/databases/interpro/iprscan/5/5.36-75.0/alt/interproscan-data-5.36-75.0.tar.gz",
+        sha256="e9b1e6f2d1c20d06661a31a08c973bc8ddf039a4cf1e45ec4443200375e5d6a4",
+    )
+
     resource(
         when="@:4.8",
         name="binaries",
@@ -33,6 +72,12 @@ class Interproscan(Package):
         sha256="551610a4682b112522f3ded5268f76ba9a47399a72e726fafb17cc938a50e7ee",
     )
 
+    variant(
+        "databases",
+        default=False,
+        description="Fetch and include databases in the install. Greatly increases install size.",
+    )
+
     depends_on("java@8.0:8.9", type=("build", "run"), when="@5:5.36-99.0")
     depends_on("java@11", type=("build", "run"), when="@5.37-76.0:")
     depends_on("maven", type="build", when="@5:")
@@ -63,6 +108,10 @@ class Interproscan(Package):
         target = join_path("core", "jms-implementation", "target", "interproscan-5-dist")
         install_tree(target, prefix)
 
+        if spec.satisfies("+databases"):
+            remove_directory_contents(prefix.data)
+            install_tree(f"interproscan-{self.spec.version}/data", prefix.data)
+
         # link the main shell script into the PATH
         symlink(join_path(prefix, "interproscan.sh"), join_path(prefix.bin, "interproscan.sh"))
 
-- 
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