diff --git a/RGBEPP.d b/RGBEPP.d index 02b7389..5a5514c 100644 --- a/RGBEPP.d +++ b/RGBEPP.d @@ -259,6 +259,7 @@ void processVarCall(string[] ARG_L, string ARG_R, int ARG_T, string DirMap, stri } void processConSam(string[] ARG_L, string DirBam, string DirConsensus, string PathSamtools){ + writeln("Consensus::Start"); createDir(DirConsensus); foreach (string file; parallel(ARG_L,1)) { string baseName = getBaseName(file); @@ -267,6 +268,7 @@ void processConSam(string[] ARG_L, string DirBam, string DirConsensus, string Pa string [] cmdConsen1 = [PathSamtools, "consensus", "-f", "fasta", inputBam, "-o", outputFasta]; executeCommand(cmdConsen1); } + writeln("Consensus::End"); } void processCon(string[] ARG_G, string[] ARG_L, string ARG_R, int ARG_T, string DirMap, string DirVcf, string DirConsensus, string PathBcftools) {