Bugfix: lenient mode did not report i7/i5 flips

remiolsen · remiolsen · commit 68302fccca47 · 2024-05-15T15:15:00.000+02:00
diff --git a/anglerfish/anglerfish.py b/anglerfish/anglerfish.py
@@ -186,6 +186,7 @@ def run_demux(args):
                     f" Lenient mode: Reverse complementing {best_flip} index for adaptor {adaptor_name} found at least {args.lenient_factor} times more matches"
                 )
                 no_matches, matches = flipped[best_flip]
+                flipped_i7, flipped_i5 = flips[best_flip].values()
             else:
                 log.info(
                     f" Lenient mode: using original index orientation for {adaptor_name}"

Original file line number	Diff line number	Diff line change
`@@ -186,6 +186,7 @@ def run_demux(args):`
`186`	`186`	`f" Lenient mode: Reverse complementing {best_flip} index for adaptor {adaptor_name} found at least {args.lenient_factor} times more matches"`
`187`	`187`	`)`
`188`	`188`	`no_matches, matches = flipped[best_flip]`
	`189`	`+ flipped_i7, flipped_i5 = flips[best_flip].values()`
`189`	`190`	`else:`
`190`	`191`	`log.info(`
`191`	`192`	`f" Lenient mode: using original index orientation for {adaptor_name}"`