Searched refs:in_bams (Results 1 – 3 of 3) sorted by relevance
37 bool getNextSection(SamFile *in_bams, uint32_t numBams);
794 bool MergeBam::getNextSection(SamFile *in_bams, uint32_t numBams) in getNextSection() argument910 in_bams[i].SetReadSection(chr.c_str(), start, end); in getNextSection()
42 vector<string> in_bams; variable130 for (const string& in_bam : in_bams) in main()2937 in_bams.push_back(optarg); in parse_command_line()3111 size_t n_modes_given = !stacks_dir.empty() + !in_dir.empty() + !in_bams.empty(); in parse_command_line()3124 else if (!in_bams.empty()) in parse_command_line()3207 in_bams.push_back(stacks_dir + s + ".matches.bam"); in parse_command_line()3214 in_bams.push_back(stacks_dir + "catalog.bam"); in parse_command_line()3221 in_bams.push_back(in_dir + sample + suffix); in parse_command_line()3228 if (in_bams.empty()) in parse_command_line()3255 os << " Input files: " << in_bams.size() << ", e.g. '" << in_bams.front()<< "'\n" in parse_command_line()