Add getter for SILVA (#69)

---------

Co-authored-by: Charles Tapley Hoyt <cthoyt@gmail.com>

Author: jplfaria

pyproject.toml

@@ -63,7 +63,7 @@ dependencies = [
     "more_click",
     "pyyaml",
     "tqdm",
-    "bioregistry[align]>=0.10.0",
+    "bioregistry[align]>=0.11.35",
     "lxml",
     "pydantic>=2.0",
     "psycopg2-binary",

src/bioversions/sources/__init__.py

@@ -64,6 +64,7 @@
 from .rxnorm import RxNormGetter
 from .sgd import SgdGetter
 from .signor import SignorGetter
+from .silva import SILVAGetter
 from .slm import SwissLipidGetter
 from .stringdb import StringDBGetter
 from .umls import UMLSGetter
@@ -142,6 +143,7 @@ def get_getters() -> list[type[Getter]]:
         ICD11Getter,
         CiVICGetter,
         GTDBGetter,
+        SILVAGetter,
         SignorGetter,
     ]
     getters.extend(iter_obo_getters())

src/bioversions/sources/silva.py

@@ -0,0 +1,41 @@
+"""A getter for SILVA."""
+
+from datetime import datetime
+
+import requests
+
+from bioversions.utils import Getter, VersionType
+
+__all__ = [
+    "SILVAGetter",
+]
+
+URL = "https://www.arb-silva.de/fileadmin/silva_databases/current/VERSION.txt"
+HEADER_FMT = "%a, %d %b %Y %H:%M:%S %Z"
+
+
+class SILVAGetter(Getter):
+    """A getter for the SILVA."""
+
+    bioregistry_id = "silva.taxon"
+    name = "SILVA ribosomal RNA database"
+    version_type = VersionType.sequential
+    homepage_fmt = "https://www.arb-silva.de/"
+
+    def get(self):
+        """Get the latest SILVA version number from VERSION.txt."""
+        res = requests.get(URL, timeout=15)
+
+        # Get version from the content
+        rv = {"version": res.text.strip()}
+
+        # Get date from the Last-Modified header
+        date_str = res.headers.get("Last-Modified")
+        if date_str:
+            rv["date"] = datetime.strptime(date_str, HEADER_FMT)
+
+        return rv
+
+
+if __name__ == "__main__":
+    SILVAGetter.print()