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Searched refs:md_lowercase_variant_p (Results 1 – 7 of 7) sorted by relevance

/dports/biology/gmap/gmap-2020-09-12/src/
H A Dmdprint.c42 int hardclip_low, int hardclip_high, bool md_lowercase_variant_p, bool lastp) { in print_md_string_plus() argument
82 } else if (md_lowercase_variant_p == false) { in print_md_string_plus()
167 int hardclip_low, int hardclip_high, bool md_lowercase_variant_p, bool lastp) { in print_md_string_minus() argument
210 } else if (md_lowercase_variant_p == false) { in print_md_string_minus()
293 int hardclip_low, int hardclip_high, bool md_lowercase_variant_p, in MD_print_substring() argument
303 hardclip_low,hardclip_high,md_lowercase_variant_p,lastp); in MD_print_substring()
310 hardclip_low,hardclip_high,md_lowercase_variant_p,lastp); in MD_print_substring()
320 hardclip_low,hardclip_high,md_lowercase_variant_p,lastp); in MD_print_substring()
329 hardclip_low,hardclip_high,md_lowercase_variant_p,lastp); in MD_print_substring()
341 hardclip_low,hardclip_high,md_lowercase_variant_p,lastp); in MD_print_substring()
H A Dmdprint.h12 int hardclip_low, int hardclip_high, bool md_lowercase_variant_p,
H A Dcigar.c54 static bool md_lowercase_variant_p; variable
68 md_lowercase_variant_p = md_lowercase_variant_p_in; in Cigar_setup()
370 } else if (md_lowercase_variant_p == false) { in print_extended_cigar()
487 } else if (md_lowercase_variant_p == false) { in print_extended_cigar()
1184 querylength,hardclip_low,hardclip_high,md_lowercase_variant_p, in print_substrings()
1224 querylength,hardclip_low,hardclip_high,md_lowercase_variant_p, in print_substrings()
1378 querylength,hardclip_low,hardclip_high,md_lowercase_variant_p, in print_substrings()
1436 querylength,hardclip_low,hardclip_high,md_lowercase_variant_p, in print_substrings()
1476 querylength,hardclip_low,hardclip_high,md_lowercase_variant_p, in print_substrings()
1823 querylength,hardclip_low,hardclip_high,md_lowercase_variant_p, in print_halfdonor()
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H A Dsimplepair.c53 static bool md_lowercase_variant_p; variable
1186 if (md_lowercase_variant_p && this->cdna == this->genomealt) { in compute_md_string()
1284 if (md_lowercase_variant_p && this->cdna == this->genomealt) { in compute_md_string()
1846 md_lowercase_variant_p = md_lowercase_variant_p_in; in Simplepair_setup()
H A Dgsnap.c496 static bool md_lowercase_variant_p = false; variable
2165 md_lowercase_variant_p = true; in parse_command_line()
3473 md_lowercase_variant_p,/*snps_p*/snps_iit ? true : false, in worker_setup()
3527 …gar_setup(genomecomp,sam_cigar_extended_p,hide_soft_clips_p,merge_samechr_p,md_lowercase_variant_p, in worker_setup()
H A Dpair.c151 static bool md_lowercase_variant_p; variable
174 md_lowercase_variant_p = md_lowercase_variant_p_in; in Pair_setup()
6070 if (md_lowercase_variant_p && this->cdna == this->genomealt) { in compute_md_string()
6168 if (md_lowercase_variant_p && this->cdna == this->genomealt) { in compute_md_string()
H A Dgmap.c442 static bool md_lowercase_variant_p = false; variable
5961 md_lowercase_variant_p = true; in parse_command_line()
7022 md_lowercase_variant_p,/*snps_p*/genomecomp_alt ? true : false, in main()