fix sorting?

open2c · Mar 27, 2024 · a479398 · a479398
1 parent f3b1973
commit a479398
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diff --git a/pairtools/cli/sort.py b/pairtools/cli/sort.py
@@ -198,7 +198,7 @@ def sort_py(
     for col in columns:
         colindex = int(col) if col.isnumeric() else column_names.index(col) + 1
         cols.append(
-            f"-k {colindex},{colindex}{'n' if isinstance(pairsam_format.DTYPES_PAIRSAM.get(column_names[colindex-1], str), int) else ''}"
+            f"-k {colindex},{colindex}{'n' if issubclass(pairsam_format.DTYPES_PAIRSAM.get(column_names[colindex-1], str), int) else ''}"
         )
     cols = " ".join(cols)
     command = rf"""

diff --git a/tests/data/mock.pairsam b/tests/data/mock.pairsam
@@ -18,3 +18,5 @@ readid05	chr2	1	chr3	2	+	+	UU	readid05129chr2160101Mchr320CGFFXS:i:0
 readid06	!	0	chr1	3	-	+	NU	readid06129chr1160101Mchr130CGFFXS:i:0Yt:Z:NU	readid0665chr1360101Mchr110ATIIXS:i:0Yt:Z:NU
 readid07	!	0	chr1	3	-	+	MU	readid07129chr1160101Mchr130CGFFXS:i:0Yt:Z:NU	readid0765chr1360101Mchr110ATIIXS:i:0Yt:Z:NU
 readid08	!	0	!	0	-	-	WW	readid08129chr1160101Mchr130CGFFXS:i:0Yt:Z:WW	readid0865chr1360101Mchr110ATIIXS:i:0Yt:Z:WW
+readid09	chr1	120	chr1	121	+	+	UU	readid09129chr112060101Mchr11210CGFFXS:i:0Yt:Z:UU	readid0965chr112160101Mchr110ATIIXS:i:0Yt:Z:UU
+readid10	chr1	13	chr1	14	+	+	UU	readid10129chr11360101Mchr1130CGFFXS:i:0Yt:Z:UU	readid1065chr11360101Mchr110ATIIXS:i:0Yt:Z:UU