| /dports/biology/gmap/gmap-2020-09-12/src/ |
| H A D | indexdb-write.h | 19 Indexdb_count_offsets (FILE *sequence_fp, Univ_IIT_T chromosome_iit,
29 Indexdb_write_offsets (char *destdir, char interval_char, FILE *sequence_fp, Univ_IIT_T chromosome_…
39 Indexdb_write_offsets_huge (char *destdir, char interval_char, FILE *sequence_fp, Univ_IIT_T chromo…
72 FILE *sequence_fp, Univ_IIT_T chromosome_iit,
84 FILE *sequence_fp, Univ_IIT_T chromosome_iit,
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| H A D | indexdb-write.c | 328 c = Compress_get_char(sequence_fp,position,genome_lc_p); in Indexdb_count_offsets()
558 c = Compress_get_char(sequence_fp,position,genome_lc_p); in Indexdb_write_offsets()
1384 FILE *sequence_fp, Univ_IIT_T chromosome_iit,
1907 FILE *sequence_fp, Univ_IIT_T chromosome_iit, in compute_positions() argument
2179 FILE *sequence_fp, Univ_IIT_T chromosome_iit, in compute_positions_huge_offsets() argument
2451 FILE *sequence_fp, Univ_IIT_T chromosome_iit, in Indexdb_write_positions() argument
2598 sequence_fp,chromosome_iit,index1part_aa,watsonp, in Indexdb_write_positions()
2604 sequence_fp,chromosome_iit,index1part, in Indexdb_write_positions()
2699 sequence_fp,chromosome_iit, in Indexdb_write_positions()
2705 sequence_fp,chromosome_iit, in Indexdb_write_positions()
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| H A D | regiondb-write.h | 19 Regiondb_write (char *destdir, char interval_char, FILE *sequence_fp, Univ_IIT_T chromosome_iit,
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| H A D | compress-write.h | 12 Compress_get_char (FILE *sequence_fp, Univcoord_T position, bool uncompressedp);
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| H A D | atoiindex.c | 976 FILE *sequence_fp; in main() local
1111 if ((sequence_fp = fopen(filename,"rb")) == NULL) { in main()
1117 Regiondb_write(destdir,/*region_interval_char*/'1',sequence_fp,chromosome_iit, in main()
1121 fclose(sequence_fp); in main()
1157 if ((sequence_fp = fopen(filename,"rb")) == NULL) { in main()
1163 Regiondb_write(destdir,/*region_interval_char*/'1',sequence_fp,chromosome_iit, in main()
1167 fclose(sequence_fp); in main()
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| H A D | cmetindex.c | 1116 FILE *sequence_fp; in main() local
1251 if ((sequence_fp = fopen(filename,"rb")) == NULL) { in main()
1257 Regiondb_write(destdir,/*region_interval_char*/'1',sequence_fp,chromosome_iit, in main()
1261 fclose(sequence_fp); in main()
1297 if ((sequence_fp = fopen(filename,"rb")) == NULL) { in main()
1303 Regiondb_write(destdir,/*region_interval_char*/'1',sequence_fp,chromosome_iit, in main()
1307 fclose(sequence_fp); in main()
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| H A D | compress-write.c | 100 Compress_get_char (FILE *sequence_fp, Univcoord_T position, bool uncompressedp) { in Compress_get_char() argument
106 while ((c = fgetc(sequence_fp)) != EOF && isspace(c)) { in Compress_get_char()
114 if (FREAD_UINT(&high,sequence_fp) <= 0 || in Compress_get_char()
115 FREAD_UINT(&low,sequence_fp) <= 0 || in Compress_get_char()
116 FREAD_UINT(&flags,sequence_fp) <= 0) { in Compress_get_char()
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| H A D | regiondb-write.c | 90 Regiondb_write (char *destdir, char interval_char, FILE *sequence_fp, Univ_IIT_T chromosome_iit, in Regiondb_write() argument
203 c = Compress_get_char(sequence_fp,position,genome_lc_p); in Regiondb_write()
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