Fixed bedmaker bed format

databio · Feb 21, 2024 · 71f5ebf · 71f5ebf
1 parent 3b3eab1
commit 71f5ebf
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Showing 3 changed files with 12 additions and 3 deletions.
diff --git a/bedboss/bedmaker/bedmaker.py b/bedboss/bedmaker/bedmaker.py
@@ -180,10 +180,10 @@ def make(self) -> dict:
         # converting to bed.gz if needed
         self.make_bed()
         try:
-            bed_type, file_type = get_bed_type(self.input_file)
+            bed_type, format_type = get_bed_type(self.input_file)
         except Exception:
             # we need this exception to catch the case when the input file is not a bed file
-            bed_type, file_type = get_bed_type(self.output_bed)
+            bed_type, format_type = get_bed_type(self.output_bed)
         if self.check_qc:
             bedqc(
                 self.output_bed,

diff --git a/bedboss/bedstat/models.py b/bedboss/bedstat/models.py
@@ -0,0 +1,9 @@
+# from pydantic import BaseModel, ConfigDict, Field
+#
+#
+# class BEDSTAT_RETURN(BaseModel):
+#     """
+#     Model of single namespace search result
+#     """
+#
+#     ...
diff --git a/bedboss/models.py b/bedboss/models.py
@@ -12,7 +12,7 @@ class FILE_TYPE(str, Enum):
 class BedMetadata(BaseModel):
     sample_name: str
     genome: str
-    file_type: FILE_TYPE = FILE_TYPE.BED
+    format_type: FILE_TYPE = FILE_TYPE.BED
     bed_type: str = Field(
         default="bed3", pattern="^bed(?:[3-9]|1[0-5])(?:\+|$)[0-9]?+$"
     )