r414: reduced the default -L from 100 to 50

For consistency with the SV community
lh3 · Dec 20, 2020 · 98ff6c2 · 98ff6c2
1 parent bc1ea70
commit 98ff6c2
Show file tree

Hide file tree

Showing 3 changed files with 3 additions and 3 deletions.
diff --git a/minigraph.1 b/minigraph.1
@@ -175,7 +175,7 @@ Minimum chain length to consider [50k]
 Minimum chain length for depth calculation [10k]
 .TP
 .BI -L \ INT
-Minimum insertion length [250]
+Minimum insertion length [50]
 .TP
 .BI --gg-match-pen \ INT
 Penalty for a pair of matching anchors [5]. Larger value for more fragmented inserts.

diff --git a/minigraph.h b/minigraph.h
@@ -4,7 +4,7 @@
 #include <stdint.h>
 #include "gfa.h"
 
-#define MG_VERSION "0.13-r413-dirty"
+#define MG_VERSION "0.13-r414-dirty"
 
 #define MG_M_SPLICE       0x10
 #define MG_M_SR           0x20

diff --git a/options.c b/options.c
@@ -62,7 +62,7 @@ void mg_ggopt_init(mg_ggopt_t *go)
 	go->min_map_len = 100000;
 	go->min_depth_len = 10000;
 	go->min_mapq = 5;
-	go->min_var_len = 100;
+	go->min_var_len = 50;
 	go->match_pen = 10;
 	// for ggs
 	go->ggs_shrink_pen = 9;