X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=extractRef.cpp;h=2d2b17cea4fde25be35e6c9ab6925ba404144a74;hb=58d504aaf36ae486b1dba6d03e0e9f1c25855037;hp=1a56cc15e8c615f02e14c7cd15f4e8c787e5a172;hpb=a1dc3c6c442d288c7f4218cbb8b7a54f08e9d980;p=rsem.git

diff --git a/extractRef.cpp b/extractRef.cpp
index 1a56cc1..2d2b17c 100644
--- a/extractRef.cpp
+++ b/extractRef.cpp
@@ -304,8 +304,8 @@ int main(int argc, char* argv[]) {
 	for (int i = 1; i <= M; i++) {
 		if (seqs[i] == "") {
 			const Transcript& transcript = transcripts.getTranscriptAt(i);
-			fprintf(stderr, "Cannot extract transcript %s's sequence from chromosome %s, whose information might not be provided! Please check if the chromosome directory is set correctly or the list of chromosome files is complete.\n", \
-					transcript.getTranscriptID().c_str(), transcript.getSeqName().c_str());
+			fprintf(stderr, "Cannot extract transcript %s's sequence from chromosome %s! Loading chromosome %s's sequence is failed. Please check if 1) the chromosome directory is set correctly; 2) the list of chromosome files is complete; 3) the FASTA files containing chromosome sequences are not truncated or having wrong format.\n", \
+				transcript.getTranscriptID().c_str(), transcript.getSeqName().c_str(), transcript.getSeqName().c_str());
 			exit(-1);
 		}
 	}