| /dports/biology/iolib/io_lib-io_lib-1-14-10/progs/ |
| H A D | scram_flagstat.c | 113 int start, end, ignore_md5 = 0; in main() local
161 ignore_md5 = 1; in main()
213 if (ignore_md5) { in main()
214 if (scram_set_option(in, CRAM_OPT_IGNORE_MD5, ignore_md5)) in main()
216 if (scram_set_option(in, CRAM_OPT_IGNORE_CHKSUM, ignore_md5)) in main()
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| H A D | scramble.c | 148 int s_opt = 0, S_opt = 0, embed_ref = 0, ignore_md5 = 0, decode_md = 0; in main() local
264 ignore_md5 = 1; in main()
509 if (ignore_md5) { in main()
510 if (scram_set_option(in, CRAM_OPT_IGNORE_MD5, ignore_md5)) in main()
512 if (scram_set_option(in, CRAM_OPT_IGNORE_CHKSUM, ignore_md5)) in main()
514 if (scram_set_option(out, CRAM_OPT_IGNORE_CHKSUM, ignore_md5)) in main()
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| H A D | scram_test.c | 113 int start, end, ignore_md5 = 0; in main() local
159 ignore_md5 = 1; in main()
214 if (ignore_md5) in main()
215 if (scram_set_option(in, CRAM_OPT_IGNORE_MD5, ignore_md5)) in main()
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| H A D | cram_filter.c | 774 int drop_qs = 0, ignore_md5 = 0; in main() local
803 case '!': ignore_md5 = 1; break; in main()
887 if (ignore_md5) { in main()
888 if (cram_set_option(fd_in, CRAM_OPT_IGNORE_MD5, ignore_md5)) in main()
890 if (cram_set_option(fd_in, CRAM_OPT_IGNORE_CHKSUM, ignore_md5)) in main()
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| /dports/biology/vt/vt-0.57721/lib/htslib/cram/ |
| H A D | cram_structs.h | 721 int ignore_md5; member
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| H A D | cram_io.c | 4133 fd->ignore_md5 = 0; in cram_dopen()
4430 fd->ignore_md5 = va_arg(args, int); in cram_set_voption()
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| H A D | cram_decode.c | 2325 && !fd->ignore_md5 in cram_decode_slice()
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| /dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/cram/ |
| H A D | cram_structs.h | 728 int ignore_md5; member
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| H A D | cram_io.c | 977 b->crc32_checked = fd->ignore_md5; in cram_read_block()
4504 fd->ignore_md5 = 0; in cram_dopen()
4810 fd->ignore_md5 = va_arg(args, int); in cram_set_voption()
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| H A D | cram_decode.c | 2270 && !fd->ignore_md5 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 | 721 int ignore_md5; member
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| H A D | cram_io.c | 4155 fd->ignore_md5 = 0; in cram_dopen()
4452 fd->ignore_md5 = va_arg(args, int); in cram_set_voption()
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| H A D | cram_decode.c | 2325 && !fd->ignore_md5 in cram_decode_slice()
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| /dports/biology/stacks/stacks-2.4/htslib/cram/ |
| H A D | cram_structs.h | 714 int ignore_md5; member
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| H A D | cram_io.c | 4083 fd->ignore_md5 = 0; in cram_dopen()
4369 fd->ignore_md5 = va_arg(args, int); in cram_set_voption()
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| H A D | cram_decode.c | 2327 && !fd->ignore_md5 in cram_decode_slice()
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| /dports/biology/kallisto/kallisto-0.46.1/ext/htslib/cram/ |
| H A D | cram_structs.h | 715 int ignore_md5; member
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| H A D | cram_io.c | 4082 fd->ignore_md5 = 0; in cram_dopen()
4368 fd->ignore_md5 = va_arg(args, int); in cram_set_voption()
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| H A D | cram_decode.c | 2327 && !fd->ignore_md5 in cram_decode_slice()
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| /dports/biology/py-pysam/pysam-0.18.0/htslib/cram/ |
| H A D | cram_structs.h | 816 int ignore_md5; member
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| H A D | cram_io.c | 1460 b->crc32_checked = fd->ignore_md5; in cram_read_block()
5247 fd->ignore_md5 = 0; in cram_dopen()
5627 fd->ignore_md5 = va_arg(args, int); in cram_set_voption()
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| /dports/biology/htslib/htslib-1.14/cram/ |
| H A D | cram_structs.h | 816 int ignore_md5; member
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| H A D | cram_io.c | 1460 b->crc32_checked = fd->ignore_md5; in cram_read_block()
5247 fd->ignore_md5 = 0; in cram_dopen()
5627 fd->ignore_md5 = va_arg(args, int); in cram_set_voption()
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| /dports/biology/iolib/io_lib-io_lib-1-14-10/io_lib/ |
| H A D | cram_structs.h | 805 int ignore_md5; member
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| H A D | cram_io.c | 1613 b->crc32_checked = fd->ignore_md5; in cram_read_block()
3695 if (!fd->ignore_md5 && crc != c->crc32) { in cram_read_container()
5048 fd->ignore_md5 = 0; in cram_open()
5155 fd->ignore_md5 = 0; in cram_open_by_callbacks()
5281 fd->ignore_md5 = 0; in cram_openw_by_callbacks()
5600 fd->ignore_md5 = va_arg(args, int); in cram_set_voption()
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