fix numexpr problem with Pandas series vs. numpy arrays

Hoeze · Hoeze · commit 03137b38d2f8 · 2020-06-24T02:09:08.000+02:00
diff --git a/kipoiseq/extractors/gtf.py b/kipoiseq/extractors/gtf.py
@@ -61,7 +61,7 @@ def _filter_biotype_proteincoding(gtf_df):
 
 def _filter_tag(gtf_df, regex_contains):
     return gtf_df.query(
-        "tag.notnull() & tag.str.contains('{}')".format(regex_contains)
+        "tag.notnull().values & tag.str.contains('{}').values".format(regex_contains)
     )
 
 

Original file line number	Diff line number	Diff line change
`@@ -61,7 +61,7 @@ def _filter_biotype_proteincoding(gtf_df):`
`61`	`61`
`62`	`62`	`def _filter_tag(gtf_df, regex_contains):`
`63`	`63`	`return gtf_df.query(`
`64`		`- "tag.notnull() & tag.str.contains('{}')".format(regex_contains)`
	`64`	`+ "tag.notnull().values & tag.str.contains('{}').values".format(regex_contains)`
`65`	`65`	`)`
`66`	`66`
`67`	`67`