Disable SequenceFile.indexed and MSAFile.indexed on Windows as seeking is unavailable

Author: althonos

src/pyhmmer/easel.pyx

@@ -6774,20 +6774,21 @@ cdef class MSAFile:
             raise err
 
         # open index, if any
-        if index is not None:
-            self.index = index
-            self._msaf.ssi = self.index._ssi
-        elif self._reader is None:
-            try:
-                ssiname = f"{self.name}.ssi"
-                self.index = SSIReader(ssiname)
-            except FileNotFoundError:
-                self.index = None
-            except Exception as err:
-                PyErr_WarnFormat(RuntimeWarning, 1, "%S", <PyObject*> err)
-                self.index = None
-            else:
+        if TARGET_SYSTEM != "Windows":
+            if index is not None:
+                self.index = index
                 self._msaf.ssi = self.index._ssi
+            elif self._reader is None:
+                try:
+                    ssiname = f"{self.name}.ssi"
+                    self.index = SSIReader(ssiname)
+                except FileNotFoundError:
+                    self.index = None
+                except Exception as err:
+                    PyErr_WarnFormat(RuntimeWarning, 1, "%S", <PyObject*> err)
+                    self.index = None
+                else:
+                    self._msaf.ssi = self.index._ssi
 
     def __dealloc__(self):
         if self._msaf != NULL:
@@ -9293,7 +9294,7 @@ cdef class SequenceFile:
             raise err
 
         # open index, if any
-        if self._sqfp.format != libeasel.sqio.eslSQFILE_NCBI:
+        if self._sqfp.format != libeasel.sqio.eslSQFILE_NCBI and TARGET_SYSTEM != "Windows":
             if index is not None:
                 self.index = index
                 self._sqfp.data.ascii.ssi = self.index._ssi

src/pyhmmer/tests/test_easel/test_msafile.py

@@ -82,6 +82,7 @@ def test_secondary_structure(self):
         self.assertEqual(msa.secondary_structure, "......>>>>+>> ^^^^ <<<<<<......")
 
     @unittest.skipUnless(resource_files, "importlib.resources.files not available")
+    @unittest.skipIf(platform.system() == "Windows", "unsupported on Windows")
     def test_msa_index_path_format_error(self):
         luxc = resource_files("pyhmmer.tests").joinpath("data", "msa", "LuxC.sto")
         if not os.path.exists(luxc):
@@ -95,6 +96,7 @@ def test_msa_index_path_format_error(self):
                 msa = msa_file.indexed['LuxC']
 
     @unittest.skipUnless(resource_files, "importlib.resources.files not available")
+    @unittest.skipIf(platform.system() == "Windows", "unsupported on Windows")
     def test_msa_index_path(self):
         luxc = resource_files("pyhmmer.tests").joinpath("data", "msa", "LuxC.sto")
         if not os.path.exists(luxc):
@@ -116,6 +118,7 @@ def test_msa_index_path(self):
                 msa = msa_file.indexed['does not exist']
 
     @unittest.skipUnless(resource_files, "importlib.resources.files not available")
+    @unittest.skipIf(platform.system() == "Windows", "unsupported on Windows")
     def test_msa_index_fileobj(self):
         luxc = resource_files("pyhmmer.tests").joinpath("data", "msa", "LuxC.sto")
         if not os.path.exists(luxc):

src/pyhmmer/tests/test_easel/test_sequencefile.py

@@ -85,6 +85,7 @@ def test_ignore_gaps(self):
             self.assertEqual(len(sequences), 13)
 
     @unittest.skipUnless(resource_files, "importlib.resources.files not available")
+    @unittest.skipIf(platform.system() == "Windows", "unsupported on Windows")
     def test_sequence_index_path(self):
         luxc = resource_files("pyhmmer.tests").joinpath("data", "seqs", "938293.PRJEB85.HG003687.faa")
         if not os.path.exists(luxc):
@@ -107,6 +108,7 @@ def test_sequence_index_path(self):
                 seq = seq_file.indexed['does not exist']
 
     @unittest.skipUnless(resource_files, "importlib.resources.files not available")
+    @unittest.skipIf(platform.system() == "Windows", "unsupported on Windows")
     def test_sequence_index_path_format_error(self):
         luxc = resource_files("pyhmmer.tests").joinpath("data", "seqs", "938293.PRJEB85.HG003687.faa")
         if not os.path.exists(luxc):
@@ -120,6 +122,7 @@ def test_sequence_index_path_format_error(self):
                 seq = seq_file.indexed['938293.PRJEB85.HG003684_1']
 
     @unittest.skipUnless(resource_files, "importlib.resources.files not available")
+    @unittest.skipIf(platform.system() == "Windows", "unsupported on Windows")
     def test_sequence_index_fileobj(self):
         luxc = resource_files("pyhmmer.tests").joinpath("data", "seqs", "938293.PRJEB85.HG003687.faa")
         if not os.path.exists(luxc):