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Searched refs:SamBam_fopen (Results 1 – 12 of 12) sorted by relevance

/dports/biology/subread/subread-2.0.2-source/src/
H A Dsubtools.c93 SamBam_FILE * in_fp = SamBam_fopen(in_name,in_SAM?SAMBAM_FILE_SAM:SAMBAM_FILE_BAM); in main()
174 in_fp = SamBam_fopen(in_name,SAMBAM_FILE_SAM); in main()
H A DsamMappedBases.c49 SamBam_FILE * in_fp = SamBam_fopen(fn,context->is_BAM?SAMBAM_FILE_BAM:SAMBAM_FILE_SAM); in countBases()
H A Dpropmapped.c134 …SamBam_FILE * in_fp = SamBam_fopen(context -> input_file_name ,context -> is_BAM_input?SAMBAM_FIL… in propMapped()
329 …SamBam_FILE * in_fp = SamBam_fopen(context -> input_file_name ,context -> is_BAM_input?SAMBAM_FIL… in split_PE_sambam()
H A DqualityScores.c278 …qs_context -> sambam_reader = SamBam_fopen(qs_context->input_name, (qs_context -> input_file_type … in rewind_qs_file()
309 …qs_context -> sambam_reader = SamBam_fopen(qs_context->input_name, (qs_context -> input_file_type … in start_qs_context()
H A Dsambam-file.h170 SamBam_FILE * SamBam_fopen(char * fname , int file_type);
H A DremoveDupReads.c159 …SamBam_FILE * fp = SamBam_fopen(in_SAM_file, input_file_type==FILE_TYPE_BAM?SAMBAM_FILE_BAM:SAMBAM… in report_remainder()
H A Dcoverage_calc.c162 SamBam_FILE * in_fp = SamBam_fopen(input_file_name, is_BAM_input?SAMBAM_FILE_BAM:SAMBAM_FILE_SAM); in covCalc()
H A Dsambam-file.c99 sambam_reader = SamBam_fopen(fn, is_bam?SAMBAM_FILE_BAM:SAMBAM_FILE_SAM); in is_paired_end_BAM()
111 SamBam_FILE * SamBam_fopen(char * fname , int file_type) in SamBam_fopen() function
1080 SamBam_FILE * fp = SamBam_fopen(argv[1], SAMBAM_FILE_BAM); in test_bamview()
H A Dglobal-reassembly.c408 reader = SamBam_fopen(global_context -> input_file_name, in GRA_trim_reads()
H A Dinput-files.c1597 SamBam_FILE * fp = SamBam_fopen(in_SAM_file,is_BAM?SAMBAM_FILE_BAM:SAMBAM_FILE_SAM); in get_known_chromosomes()
1843 sambam_reader = SamBam_fopen(in_SAM_file, is_BAM_file?SAMBAM_FILE_BAM:SAMBAM_FILE_SAM); in break_SAM_file()
6691 … SamBam_FILE * tpfp = SamBam_fopen(fname, (FILE_TYPE_BAM == ret)?SAMBAM_FILE_BAM:SAMBAM_FILE_SAM); in probe_file_type_EX()
H A Dcore.c938 sambam_reader = SamBam_fopen(fname, is_bam?SAMBAM_FILE_BAM:SAMBAM_FILE_SAM);
984 sambam_reader = SamBam_fopen(fname, is_bam?SAMBAM_FILE_BAM: SAMBAM_FILE_SAM);
H A DHelperFunctions.c721 …SamBam_FILE * bamfp = SamBam_fopen("/usr/local/work/liao/arena/Rsubread_Paper_OCT2016/RNAseq-SimHG… in test_bam_reader()