File: fix_ungap

package info (click to toggle)
snpomatic 1.0-6
  • links: PTS, VCS
  • area: main
  • in suites: bookworm
  • size: 428 kB
  • sloc: cpp: 3,491; makefile: 45; sh: 16
file content (18 lines) | stat: -rw-r--r-- 676 bytes parent folder | download | duplicates (5)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
Description: Fix wrong function parameters in ungap tool
 This missing parameter in a function call was likely missed as the ungap
 tool is not built if simply 'make' is run.
Author: Sascha Steinbiss <sascha@steinbiss.name>
--- a/src/ungap.cpp
+++ b/src/ungap.cpp
@@ -258,9 +258,9 @@
 		ca.using_bins = true ;
 	}
 */
-	ca.align_solexa_paired ( fastq_file , pair_length , fragment_length , variance ) ;
+	ca.align_solexa_paired ( genome_file, fastq_file , pair_length , fragment_length , variance ) ;
 //	ca.assemble_leftovers ( 2 ) ;
-	
+
 	string fasta_output = name + ".fasta" ;
 	fstream filestr;
 	filestr.open ( fasta_output.c_str() , fstream::out ); //| fstream::app);