[pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

tests/conftest.py

@@ -95,6 +95,7 @@ def sig_save_extension_abund(request):
 def abspath_or_relpath(request):
     return request.param
 
+
 # this will fail if subdirs used; see #3008. but ths ensures v4 behavior of
 # sig collect/sig check works, where manifest paths interpreted relative
 # to cwd.

tests/test_cmd_signature_collect.py

@@ -19,7 +19,15 @@ def test_sig_collect_0_nothing(runtmp, manifest_db_format, abspath_relpath_v4):
     if manifest_db_format != "sql":
         return
 
-    runtmp.sourmash("sig", "collect", "-o", f"mf.{ext}", "-F", manifest_db_format, abspath_relpath_v4)
+    runtmp.sourmash(
+        "sig",
+        "collect",
+        "-o",
+        f"mf.{ext}",
+        "-F",
+        manifest_db_format,
+        abspath_relpath_v4,
+    )
 
     manifest_fn = runtmp.output(f"mf.{ext}")
     manifest = BaseCollectionManifest.load_from_filename(manifest_fn)
@@ -34,7 +42,14 @@ def test_sig_collect_1_zipfile(runtmp, manifest_db_format, abspath_relpath_v4):
     ext = "sqlmf" if manifest_db_format == "sql" else "csv"
 
     runtmp.sourmash(
-        "sig", "collect", protzip, "-o", f"mf.{ext}", "-F", manifest_db_format, abspath_relpath_v4
+        "sig",
+        "collect",
+        protzip,
+        "-o",
+        f"mf.{ext}",
+        "-F",
+        manifest_db_format,
+        abspath_relpath_v4,
     )
 
     manifest_fn = runtmp.output(f"mf.{ext}")
@@ -50,7 +65,9 @@ def test_sig_collect_1_zipfile_csv_gz(runtmp, abspath_relpath_v4):
     # collect a manifest from a .zip file, save to csv.gz
     protzip = utils.get_test_data("prot/protein.zip")
 
-    runtmp.sourmash("sig", "collect", protzip, "-o", "mf.csv.gz", "-F", "csv", abspath_relpath_v4)
+    runtmp.sourmash(
+        "sig", "collect", protzip, "-o", "mf.csv.gz", "-F", "csv", abspath_relpath_v4
+    )
 
     manifest_fn = runtmp.output("mf.csv.gz")
 
@@ -71,7 +88,9 @@ def test_sig_collect_1_zipfile_csv_gz_roundtrip(runtmp, abspath_relpath_v4):
     # collect a manifest from a .zip file, save to csv.gz; then load again
     protzip = utils.get_test_data("prot/protein.zip")
 
-    runtmp.sourmash("sig", "collect", protzip, "-o", "mf.csv.gz", "-F", "csv", abspath_relpath_v4)
+    runtmp.sourmash(
+        "sig", "collect", protzip, "-o", "mf.csv.gz", "-F", "csv", abspath_relpath_v4
+    )
 
     manifest_fn = runtmp.output("mf.csv.gz")
 
@@ -133,7 +152,14 @@ def test_sig_collect_2_exists_merge(runtmp, manifest_db_format, abspath_relpath_
     ext = "sqlmf" if manifest_db_format == "sql" else "csv"
 
     runtmp.sourmash(
-        "sig", "collect", protzip, "-o", f"mf.{ext}", "-F", manifest_db_format, abspath_relpath_v4,
+        "sig",
+        "collect",
+        protzip,
+        "-o",
+        f"mf.{ext}",
+        "-F",
+        manifest_db_format,
+        abspath_relpath_v4,
     )
 
     manifest_fn = runtmp.output(f"mf.{ext}")
@@ -215,7 +241,15 @@ def test_sig_collect_2_no_exists_merge(runtmp, manifest_db_format, abspath_relpa
 
     # run with --merge but no previous:
     runtmp.sourmash(
-        "sig", "collect", allzip, "-o", manifest_fn, "-F", manifest_db_format, "--merge", abspath_relpath_v4,
+        "sig",
+        "collect",
+        allzip,
+        "-o",
+        manifest_fn,
+        "-F",
+        manifest_db_format,
+        "--merge",
+        abspath_relpath_v4,
     )
 
     manifest = BaseCollectionManifest.load_from_filename(manifest_fn)
@@ -424,7 +458,9 @@ def test_sig_collect_5_no_manifest_sbt_fail(runtmp, manifest_db_format):
         )
 
 
-def test_sig_collect_5_no_manifest_sbt_succeed(runtmp, manifest_db_format, abspath_relpath_v4):
+def test_sig_collect_5_no_manifest_sbt_succeed(
+    runtmp, manifest_db_format, abspath_relpath_v4
+):
     # generate a manifest from files that don't have one when --no-require
     sbt_zip = utils.get_test_data("v6.sbt.zip")
 
@@ -439,7 +475,7 @@ def test_sig_collect_5_no_manifest_sbt_succeed(runtmp, manifest_db_format, abspa
         f"mf.{ext}",
         "-F",
         manifest_db_format,
-        abspath_relpath_v4
+        abspath_relpath_v4,
     )
 
     manifest_fn = runtmp.output(f"mf.{ext}")