cont

Author: lindenb

docs/Biostar9462889.md

@@ -114,4 +114,38 @@ The current reference is:
 
 ##Example
 
+```
+$ java -jar dist/biostar9462889.jar --manifest jeter.mf -o TMP --regex '^(RF[0-9]+)_' src/test/resources/S1.bam
+WARNING: BAM index file /home/lindenb/src/jvarkit/src/test/resources/S1.bam.bai is older than BAM /home/lindenb/src/jvarkit/src/test/resources/S1.bam
+[INFO][Biostar9462889]Creating output for "RF01" N=1
+[INFO][Biostar9462889]Creating output for "RF02" N=2
+[INFO][Biostar9462889]Creating output for "RF03" N=3
+[INFO][Biostar9462889]Creating output for "RF04" N=4
+[INFO][Biostar9462889]Creating output for "RF05" N=5
+[INFO][Biostar9462889]Creating output for "RF06" N=6
+[INFO][Biostar9462889]Creating output for "RF07" N=7
+[INFO][Biostar9462889]Creating output for "RF08" N=8
+[INFO][Biostar9462889]Creating output for "RF09" N=9
+[INFO][Biostar9462889]Creating output for "RF10" N=10
+[INFO][Biostar9462889]Creating output for "RF11" N=11
+[WARN][Biostar9462889]0 read(s) where lost because the regex '^(RF[0-9]+)_' failed.
+
+$ ls TMP/*.bam
+TMP/split.000001.bam  TMP/split.000004.bam  TMP/split.000007.bam  TMP/split.000010.bam
+TMP/split.000002.bam  TMP/split.000005.bam  TMP/split.000008.bam  TMP/split.000011.bam
+TMP/split.000003.bam  TMP/split.000006.bam  TMP/split.000009.bam
+
+$ cat jeter.mf
+RF01	TMP/split.000001.bam
+RF02	TMP/split.000002.bam
+RF03	TMP/split.000003.bam
+RF04	TMP/split.000004.bam
+RF05	TMP/split.000005.bam
+RF06	TMP/split.000006.bam
+RF07	TMP/split.000007.bam
+RF08	TMP/split.000008.bam
+RF09	TMP/split.000009.bam
+RF10	TMP/split.000010.bam
+RF11	TMP/split.000011.bam
+```
 

src/main/java/com/github/lindenb/jvarkit/tools/biostar/Biostar9462889.java

@@ -54,6 +54,7 @@ of this software and associated documentation files (the "Software"), to deal
 
 
 /**
+
 BEGIN_DOC
 
 ##Example