fix

Yenaled · Yenaled · commit 40a2bf6c2a3c · 2024-03-14T06:15:27.000-07:00
diff --git a/src/ProcessReads.cpp b/src/ProcessReads.cpp
@@ -400,6 +400,7 @@ void MasterProcessor::writeOutput(std::vector<SplitCode::Results>& rv,
 }
 
 void MasterProcessor::writeBam(const std::string& ostr, int readNameLen, int readPair) {
+#ifndef NO_HTSLIB
   std::istringstream iss(ostr);
   std::string read_header;
   std::string read_sequence;
@@ -523,6 +524,7 @@ void MasterProcessor::writeBam(const std::string& ostr, int readNameLen, int rea
     std::cerr << "Error writing to BAM file... exiting" << std::endl;
     exit(1);
   }
+#endif
 }
 
 ReadProcessor::ReadProcessor(const ProgramOptions& opt, MasterProcessor& mp) : 

Original file line number	Diff line number	Diff line change
`@@ -400,6 +400,7 @@ void MasterProcessor::writeOutput(std::vector<SplitCode::Results>& rv,`
`400`	`400`	`}`
`401`	`401`
`402`	`402`	`void MasterProcessor::writeBam(const std::string& ostr, int readNameLen, int readPair) {`
	`403`	`+#ifndef NO_HTSLIB`
`403`	`404`	`std::istringstream iss(ostr);`
`404`	`405`	`std::string read_header;`
`405`	`406`	`std::string read_sequence;`
`@@ -523,6 +524,7 @@ void MasterProcessor::writeBam(const std::string& ostr, int readNameLen, int rea`
`523`	`524`	`std::cerr << "Error writing to BAM file... exiting" << std::endl;`
`524`	`525`	`exit(1);`
`525`	`526`	`}`
	`527`	`+#endif`
`526`	`528`	`}`
`527`	`529`
`528`	`530`	`ReadProcessor::ReadProcessor(const ProgramOptions& opt, MasterProcessor& mp) :`