/dports/biology/vt/vt-0.57721/lib/htslib/cram/ |
H A D | cram_structs.h | 766 CRAM_BF = 0x00000001, enumerator 805 CRAM_SC | CRAM_HC | CRAM_PD | CRAM_RS | CRAM_RL | CRAM_BF)
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H A D | cram_decode.c | 702 s->data_series |= CRAM_BF; in cram_dependent_data_series() 705 s->data_series |= CRAM_RI | CRAM_BF; in cram_dependent_data_series() 708 s->data_series |= CRAM_AP | CRAM_BF; in cram_dependent_data_series() 717 s->data_series |= CRAM_CF | CRAM_NF | CRAM_RI | CRAM_NS |CRAM_BF; in cram_dependent_data_series() 720 s->data_series |= CRAM_CF | CRAM_NF | CRAM_AP | CRAM_NP | CRAM_BF; in cram_dependent_data_series() 724 CRAM_BF | CRAM_MF | CRAM_RI | CRAM_CIGAR; in cram_dependent_data_series() 740 s->data_series |= CRAM_RG | CRAM_BF; in cram_dependent_data_series() 788 if (s->data_series & CRAM_MQ) s->data_series |= CRAM_BF; in cram_dependent_data_series() 795 s->data_series |= CRAM_BF | CRAM_CF | CRAM_RL; in cram_dependent_data_series() 2397 if (ds & CRAM_BF) { in cram_decode_slice()
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/dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/cram/ |
H A D | cram_structs.h | 779 CRAM_BF = 0x00000001, enumerator 818 CRAM_SC | CRAM_HC | CRAM_PD | CRAM_RS | CRAM_RL | CRAM_BF)
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H A D | cram_decode.c | 585 s->data_series |= CRAM_BF; in cram_dependent_data_series() 588 s->data_series |= CRAM_RI | CRAM_BF; in cram_dependent_data_series() 591 s->data_series |= CRAM_AP | CRAM_BF; in cram_dependent_data_series() 600 s->data_series |= CRAM_CF | CRAM_NF | CRAM_RI | CRAM_NS |CRAM_BF; in cram_dependent_data_series() 603 s->data_series |= CRAM_CF | CRAM_NF | CRAM_AP | CRAM_NP | CRAM_BF; in cram_dependent_data_series() 607 CRAM_BF | CRAM_MF | CRAM_RI | CRAM_CIGAR; in cram_dependent_data_series() 623 s->data_series |= CRAM_RG | CRAM_BF; in cram_dependent_data_series() 671 if (s->data_series & CRAM_MQ) s->data_series |= CRAM_BF; in cram_dependent_data_series() 678 s->data_series |= CRAM_BF | CRAM_CF | CRAM_RL; in cram_dependent_data_series() 2344 if (ds & CRAM_BF) { in cram_decode_slice()
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/dports/biology/bedtools/bedtools2-2.30.0/src/utils/htslib/cram/ |
H A D | cram_structs.h | 766 CRAM_BF = 0x00000001, enumerator 805 CRAM_SC | CRAM_HC | CRAM_PD | CRAM_RS | CRAM_RL | CRAM_BF)
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H A D | cram_decode.c | 702 s->data_series |= CRAM_BF; in cram_dependent_data_series() 705 s->data_series |= CRAM_RI | CRAM_BF; in cram_dependent_data_series() 708 s->data_series |= CRAM_AP | CRAM_BF; in cram_dependent_data_series() 717 s->data_series |= CRAM_CF | CRAM_NF | CRAM_RI | CRAM_NS |CRAM_BF; in cram_dependent_data_series() 720 s->data_series |= CRAM_CF | CRAM_NF | CRAM_AP | CRAM_NP | CRAM_BF; in cram_dependent_data_series() 724 CRAM_BF | CRAM_MF | CRAM_RI | CRAM_CIGAR; in cram_dependent_data_series() 740 s->data_series |= CRAM_RG | CRAM_BF; in cram_dependent_data_series() 788 if (s->data_series & CRAM_MQ) s->data_series |= CRAM_BF; in cram_dependent_data_series() 795 s->data_series |= CRAM_BF | CRAM_CF | CRAM_RL; in cram_dependent_data_series() 2397 if (ds & CRAM_BF) { in cram_decode_slice()
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/dports/biology/stacks/stacks-2.4/htslib/cram/ |
H A D | cram_structs.h | 756 CRAM_BF = 0x00000001, enumerator 795 CRAM_SC | CRAM_HC | CRAM_PD | CRAM_RS | CRAM_RL | CRAM_BF)
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H A D | cram_decode.c | 702 hdr->data_series |= CRAM_BF; in cram_dependent_data_series() 705 hdr->data_series |= CRAM_RI | CRAM_BF; in cram_dependent_data_series() 708 hdr->data_series |= CRAM_AP | CRAM_BF; in cram_dependent_data_series() 717 hdr->data_series |= CRAM_CF | CRAM_NF | CRAM_RI | CRAM_NS |CRAM_BF; in cram_dependent_data_series() 720 hdr->data_series |= CRAM_CF | CRAM_NF | CRAM_AP | CRAM_NP | CRAM_BF; in cram_dependent_data_series() 724 CRAM_BF | CRAM_MF | CRAM_RI | CRAM_CIGAR; in cram_dependent_data_series() 740 hdr->data_series |= CRAM_RG | CRAM_BF; in cram_dependent_data_series() 788 if (hdr->data_series & CRAM_MQ) hdr->data_series |= CRAM_BF; in cram_dependent_data_series() 795 hdr->data_series |= CRAM_BF | CRAM_CF | CRAM_RL; in cram_dependent_data_series() 2399 if (ds & CRAM_BF) { in cram_decode_slice()
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/dports/biology/kallisto/kallisto-0.46.1/ext/htslib/cram/ |
H A D | cram_structs.h | 757 CRAM_BF = 0x00000001, enumerator 796 CRAM_SC | CRAM_HC | CRAM_PD | CRAM_RS | CRAM_RL | CRAM_BF)
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H A D | cram_decode.c | 702 hdr->data_series |= CRAM_BF; in cram_dependent_data_series() 705 hdr->data_series |= CRAM_RI | CRAM_BF; in cram_dependent_data_series() 708 hdr->data_series |= CRAM_AP | CRAM_BF; in cram_dependent_data_series() 717 hdr->data_series |= CRAM_CF | CRAM_NF | CRAM_RI | CRAM_NS |CRAM_BF; in cram_dependent_data_series() 720 hdr->data_series |= CRAM_CF | CRAM_NF | CRAM_AP | CRAM_NP | CRAM_BF; in cram_dependent_data_series() 724 CRAM_BF | CRAM_MF | CRAM_RI | CRAM_CIGAR; in cram_dependent_data_series() 740 hdr->data_series |= CRAM_RG | CRAM_BF; in cram_dependent_data_series() 788 if (hdr->data_series & CRAM_MQ) hdr->data_series |= CRAM_BF; in cram_dependent_data_series() 795 hdr->data_series |= CRAM_BF | CRAM_CF | CRAM_RL; in cram_dependent_data_series() 2399 if (ds & CRAM_BF) { in cram_decode_slice()
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/dports/biology/py-pysam/pysam-0.18.0/htslib/cram/ |
H A D | cram_structs.h | 880 CRAM_BF = 0x00000001, enumerator 919 CRAM_SC | CRAM_HC | CRAM_PD | CRAM_RS | CRAM_RL | CRAM_BF)
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H A D | cram_decode.c | 577 s->data_series |= CRAM_BF; in cram_dependent_data_series() 580 s->data_series |= CRAM_RI | CRAM_BF; in cram_dependent_data_series() 583 s->data_series |= CRAM_AP | CRAM_BF; in cram_dependent_data_series() 592 s->data_series |= CRAM_CF | CRAM_NF | CRAM_RI | CRAM_NS |CRAM_BF; in cram_dependent_data_series() 595 s->data_series |= CRAM_CF | CRAM_NF | CRAM_AP | CRAM_NP | CRAM_BF; in cram_dependent_data_series() 599 CRAM_BF | CRAM_MF | CRAM_RI | CRAM_CIGAR; in cram_dependent_data_series() 615 s->data_series |= CRAM_RG | CRAM_BF; in cram_dependent_data_series() 663 if (s->data_series & CRAM_MQ) s->data_series |= CRAM_BF; in cram_dependent_data_series() 670 s->data_series |= CRAM_BF | CRAM_CF | CRAM_RL; in cram_dependent_data_series() 2454 if (ds & CRAM_BF) { in cram_decode_slice()
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/dports/biology/htslib/htslib-1.14/cram/ |
H A D | cram_structs.h | 880 CRAM_BF = 0x00000001, enumerator 919 CRAM_SC | CRAM_HC | CRAM_PD | CRAM_RS | CRAM_RL | CRAM_BF)
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H A D | cram_decode.c | 577 s->data_series |= CRAM_BF; in cram_dependent_data_series() 580 s->data_series |= CRAM_RI | CRAM_BF; in cram_dependent_data_series() 583 s->data_series |= CRAM_AP | CRAM_BF; in cram_dependent_data_series() 592 s->data_series |= CRAM_CF | CRAM_NF | CRAM_RI | CRAM_NS |CRAM_BF; in cram_dependent_data_series() 595 s->data_series |= CRAM_CF | CRAM_NF | CRAM_AP | CRAM_NP | CRAM_BF; in cram_dependent_data_series() 599 CRAM_BF | CRAM_MF | CRAM_RI | CRAM_CIGAR; in cram_dependent_data_series() 615 s->data_series |= CRAM_RG | CRAM_BF; in cram_dependent_data_series() 663 if (s->data_series & CRAM_MQ) s->data_series |= CRAM_BF; in cram_dependent_data_series() 670 s->data_series |= CRAM_BF | CRAM_CF | CRAM_RL; in cram_dependent_data_series() 2454 if (ds & CRAM_BF) { in cram_decode_slice()
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/dports/biology/iolib/io_lib-io_lib-1-14-10/io_lib/ |
H A D | cram_decode.c | 663 s->data_series |= CRAM_BF; in cram_dependent_data_series() 666 s->data_series |= CRAM_RI | CRAM_BF; in cram_dependent_data_series() 669 s->data_series |= CRAM_AP | CRAM_BF; in cram_dependent_data_series() 678 s->data_series |= CRAM_CF | CRAM_NF | CRAM_RI | CRAM_NS |CRAM_BF; in cram_dependent_data_series() 681 s->data_series |= CRAM_CF | CRAM_NF | CRAM_AP | CRAM_NP | CRAM_BF; in cram_dependent_data_series() 685 CRAM_BF | CRAM_MF | CRAM_RI | CRAM_CIGAR; in cram_dependent_data_series() 697 s->data_series |= CRAM_BF; in cram_dependent_data_series() 704 s->data_series |= CRAM_RG | CRAM_BF; in cram_dependent_data_series() 752 if (s->data_series & CRAM_MQ) s->data_series |= CRAM_BF; in cram_dependent_data_series() 759 s->data_series |= CRAM_BF | CRAM_CF | CRAM_RL; in cram_dependent_data_series() [all …]
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H A D | cram_structs.h | 898 CRAM_BF = 0x00000001, enumerator 937 CRAM_SC | CRAM_HC | CRAM_PD | CRAM_RS | CRAM_RL | CRAM_BF)
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