X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=Transcript.h;h=90f6e6797b17f949b38e4776fcff7eacb8ace2ce;hb=52f1bd6f44f9b2630b839f192fb9ece18581983b;hp=ea621f3072b98ca16c7b6d6f4e195f10e8ebb624;hpb=a95154919f950f86de9104b2b9dcf1f0c7e83387;p=rsem.git

diff --git a/Transcript.h b/Transcript.h
index ea621f3..90f6e67 100644
--- a/Transcript.h
+++ b/Transcript.h
@@ -49,7 +49,7 @@ public:
 	}
 
 	bool operator< (const Transcript& o) const {
-		return gene_id < o.gene_id || gene_id == o.gene_id && transcript_id < o.transcript_id;
+	  return gene_id < o.gene_id || (gene_id == o.gene_id && transcript_id < o.transcript_id);
 	}
 
 	const std::string& getTranscriptID() const { return transcript_id; }
@@ -113,7 +113,10 @@ void Transcript::read(std::ifstream& fin) {
 	int s;
 	std::string tmp;
 
-	fin>>transcript_id>>gene_id>>seqname>>tmp>>length;
+	getline(fin, transcript_id);
+	getline(fin, gene_id);
+	getline(fin, seqname);
+	fin>>tmp>>length;
 	assert(tmp.length() == 1 && (tmp[0] == '+' || tmp[0] == '-'));
 	strand = tmp[0];
 	structure.clear();
@@ -130,7 +133,10 @@ void Transcript::read(std::ifstream& fin) {
 void Transcript::write(std::ofstream& fout) {
 	int s = structure.size();
 
-	fout<<transcript_id<<" "<<gene_id<<" "<<seqname<<" "<<strand<<" "<<length<<" ";
+	fout<<transcript_id<<std::endl;
+	fout<<gene_id<<std::endl;
+	fout<<seqname<<std::endl;
+	fout<<strand<<" "<<length<<std::endl;
 	fout<<s;
 	for (int i = 0; i < s; i++) fout<<" "<<structure[i].start<<" "<<structure[i].end;
 	fout<<std::endl;