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gbouras13 · Nov 22, 2024 · c516810 · c516810
1 parent df04122
commit c516810
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Showing 4 changed files with 16 additions and 7 deletions.
diff --git a/src/dnaapler/utils/all.py b/src/dnaapler/utils/all.py
@@ -62,8 +62,11 @@ def all_process_MMseqs2_output_and_reorient(
     # read in the dataframe from MMseqs2
     try:
         MMseqs2_df = pd.read_csv(
-            MMseqs2_file, delimiter="\t", index_col=False, names=col_list,
-            dtype={"qseqid": "object"}
+            MMseqs2_file,
+            delimiter="\t",
+            index_col=False,
+            names=col_list,
+            dtype={"qseqid": "object"},
         )
 
     except Exception:

diff --git a/src/dnaapler/utils/bulk.py b/src/dnaapler/utils/bulk.py
@@ -153,8 +153,11 @@ def bulk_process_MMseqs2_output_and_reorient(
     # read in the dataframe from MMseqs2
     try:
         MMseqs2_df = pd.read_csv(
-            MMseqs2_file, delimiter="\t", index_col=False, names=col_list,
-            dtype={"qseqid": "object"}
+            MMseqs2_file,
+            delimiter="\t",
+            index_col=False,
+            names=col_list,
+            dtype={"qseqid": "object"},
         )
 
     except Exception:

diff --git a/src/dnaapler/utils/processing.py b/src/dnaapler/utils/processing.py
@@ -50,8 +50,11 @@ def process_MMseqs2_output_and_reorient(
     # read in the dataframe from MMseqs2
     try:
         MMseqs2_df = pd.read_csv(
-            MMseqs2_file, delimiter="\t", index_col=False, names=col_list,
-            dtype={"qseqid": "object"}
+            MMseqs2_file,
+            delimiter="\t",
+            index_col=False,
+            names=col_list,
+            dtype={"qseqid": "object"},
         )
     except Exception:
         logger.error("There was an issue with parsing the MMseqs2 output file.")

diff --git a/src/dnaapler/utils/util.py b/src/dnaapler/utils/util.py
@@ -131,7 +131,7 @@ def check_mmseqs2_version():
 
         # The pre-built binary on GitHub reports its version using the commit hash instead of
         # a version number.
-        if mmseqs_version.startswith('45111b6'):
+        if mmseqs_version.startswith("45111b6"):
             logger.info(f"MMseqs2 version found is {mmseqs_version}")
 
         else: