| /dports/biology/py-biopython/biopython-1.79/Bio/SeqUtils/ |
| H A D | MeltingTemp.py | 950 tmp_seq = seq
961 tmp_seq = "." * shift + seq
964 if len(tmp_cseq) > len(tmp_seq):
965 tmp_seq += (len(tmp_cseq) - len(tmp_seq)) * "."
966 if len(tmp_cseq) < len(tmp_seq):
970 tmp_seq = tmp_seq[1:]
973 tmp_seq = tmp_seq[:-1]
983 tmp_seq = tmp_seq[1:]
992 tmp_seq = tmp_seq[:-1]
1000 tmp_seq = tmp_seq[1:]
[all …]
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| /dports/net/freeswitch/freeswitch-1.10.3.-release/libs/libzrtp/test/ |
| H A D | srtp_replay_test.c | 110 uint32_t tmp_seq; in srtp_replay_test() local
132 tmp_seq = rp_node->rtp_rp.seq; in srtp_replay_test()
137 delta = tmp_seq-ZRTP_SRTP_WINDOW_WIDTH + 1; in srtp_replay_test()
140 ZRTP_LOG(3, (_ZTU_,"inside wnd: [%i;%i]\n", tmp_seq, delta)); in srtp_replay_test()
143 ZRTP_LOG(3, (_ZTU_,"inside wnd: [%i;0]\n", tmp_seq)); in srtp_replay_test()
146 ZRTP_LOG(3, (_ZTU_,"before wnd: [%i;%i)\n", TEST_MAP_WIDTH-1, tmp_seq)); in srtp_replay_test()
205 } else if (i <= (int)tmp_seq && i >= delta) { in srtp_replay_test()
210 if (1 == zrtp_bitmap_get_bit(tmp_window, i - (tmp_seq-ZRTP_SRTP_WINDOW_WIDTH) - 1)) { in srtp_replay_test()
217 !zrtp_bitmap_get_bit(tmp_window, i - (tmp_seq-ZRTP_SRTP_WINDOW_WIDTH) - 1)) { in srtp_replay_test()
|
| /dports/biology/samtools/samtools-1.14/misc/ |
| H A D | wgsim.c | 241 uint8_t *tmp_seq[2]; in wgsim_core() local
253 tmp_seq[0] = (uint8_t*)calloc(l+2, 1); in wgsim_core()
254 tmp_seq[1] = (uint8_t*)calloc(l+2, 1); in wgsim_core()
324 tmp_seq[0][k++] = c & 0xf; in wgsim_core()
329 tmp_seq[0][k++] = c & 0xf; in wgsim_core()
345 tmp_seq[1][k++] = c & 0xf; in wgsim_core()
352 tmp_seq[1][k++] = c & 0xf; in wgsim_core()
359 … for (k = 0; k < s[1]; ++k) tmp_seq[1][k] = tmp_seq[1][k] < 4? 3 - tmp_seq[1][k] : 4; // complement in wgsim_core()
369 int c = tmp_seq[j][i]; in wgsim_core()
378 tmp_seq[j][i] = c; in wgsim_core()
[all …]
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| /dports/biology/seqan1/seqan-1.3.1/lib/samtools/misc/ |
| H A D | wgsim.c | 295 uint8_t *tmp_seq[2]; in wgsim_core() local
303 tmp_seq[0] = (uint8_t*)calloc(l+2, 1); in wgsim_core()
304 tmp_seq[1] = (uint8_t*)calloc(l+2, 1); in wgsim_core()
364 tmp_seq[x][k++] = c & 0xf; \ in wgsim_core()
380 … for (k = 0; k < s[1]; ++k) tmp_seq[1][k] = tmp_seq[1][k] < 4? 3 - tmp_seq[1][k] : 4; // complement in wgsim_core()
394 c1 = tmp_seq[j][0]; in wgsim_core()
396 c2 = tmp_seq[j][i]; in wgsim_core()
398 tmp_seq[j][i-1] = c; in wgsim_core()
412 int c = tmp_seq[j][i]; in wgsim_core()
418 tmp_seq[j][i] = c; in wgsim_core()
[all …]
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| /dports/biology/rainbow/rainbow_2.0.4/ |
| H A D | ezmsim.c | 325 uint8_t *tmp_seq[2], c; in ezmsim_LR_core() local
371 tmp_seq[0][j] = c; in ezmsim_LR_core()
380 tmp_seq[1][j] = c < 4?3-c:4; in ezmsim_LR_core()
479 uint8_t *tmp_seq[2], c; in ezmsim_EF_core() local
545 tmp_seq[0][j++] = c&0xf; in ezmsim_EF_core()
555 tmp_seq[0][j++] = c&0xf; in ezmsim_EF_core()
561 tmp_seq[1][j++] = c&0xf; in ezmsim_EF_core()
572 c = tmp_seq[0][j]; in ezmsim_EF_core()
578 tmp_seq[0][j] = c; in ezmsim_EF_core()
582 c = tmp_seq[1][j]; in ezmsim_EF_core()
[all …]
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| /dports/biology/py-pywgsim/pywgsim-0.5.2/pywgsim/src/ |
| H A D | wgsim_mod.c | 277 uint8_t *tmp_seq[2]; in wgsim_core() local
283 tmp_seq[0] = (uint8_t*)calloc(l+2, 1); in wgsim_core()
284 tmp_seq[1] = (uint8_t*)calloc(l+2, 1); in wgsim_core()
366 tmp_seq[x][k++] = c & 0xf; \ in wgsim_core()
371 tmp_seq[x][k++] = c & 0xf; \ in wgsim_core()
373 tmp_seq[x][k++] = ins & 0x3; \ in wgsim_core()
381 … for (k = 0; k < s[1]; ++k) tmp_seq[1][k] = tmp_seq[1][k] < 4? 3 - tmp_seq[1][k] : 4; // complement in wgsim_core()
391 int c = tmp_seq[j][i]; in wgsim_core()
400 tmp_seq[j][i] = c; in wgsim_core()
417 fputc("ACGTN"[(int)tmp_seq[j][i]], fpo[j]); in wgsim_core()
[all …]
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| /dports/databases/mariadb105-client/mariadb-10.5.15/sql/ |
| H A D | ha_sequence.cc | 209 sequence_definition tmp_seq; in write_row() local
229 tmp_seq.read_fields(table); in write_row()
230 if (tmp_seq.check_and_adjust(0)) in write_row()
232 sequence->copy(&tmp_seq); in write_row()
260 tmp_seq.read_fields(table); in write_row()
261 if (tmp_seq.check_and_adjust(0)) in write_row()
285 sequence->copy(&tmp_seq); in write_row()
|
| /dports/databases/mariadb104-server/mariadb-10.4.24/sql/ |
| H A D | ha_sequence.cc | 204 sequence_definition tmp_seq; in write_row() local
220 tmp_seq.read_fields(table); in write_row()
221 if (tmp_seq.check_and_adjust(0)) in write_row()
223 sequence->copy(&tmp_seq); in write_row()
250 tmp_seq.read_fields(table); in write_row()
251 if (tmp_seq.check_and_adjust(0)) in write_row()
275 sequence->copy(&tmp_seq); in write_row()
|
| /dports/databases/mariadb104-client/mariadb-10.4.24/sql/ |
| H A D | ha_sequence.cc | 204 sequence_definition tmp_seq; in write_row() local
220 tmp_seq.read_fields(table); in write_row()
221 if (tmp_seq.check_and_adjust(0)) in write_row()
223 sequence->copy(&tmp_seq); in write_row()
250 tmp_seq.read_fields(table); in write_row()
251 if (tmp_seq.check_and_adjust(0)) in write_row()
275 sequence->copy(&tmp_seq); in write_row()
|
| /dports/databases/mariadb103-client/mariadb-10.3.34/sql/ |
| H A D | ha_sequence.cc | 200 sequence_definition tmp_seq; in write_row() local
215 tmp_seq.read_fields(table); in write_row()
216 if (tmp_seq.check_and_adjust(0)) in write_row()
218 sequence->copy(&tmp_seq); in write_row()
247 tmp_seq.read_fields(table); in write_row()
248 if (tmp_seq.check_and_adjust(0)) in write_row()
262 sequence->copy(&tmp_seq); in write_row()
|
| /dports/databases/mariadb103-server/mariadb-10.3.34/sql/ |
| H A D | ha_sequence.cc | 200 sequence_definition tmp_seq;
215 tmp_seq.read_fields(table);
216 if (tmp_seq.check_and_adjust(0))
218 sequence->copy(&tmp_seq);
247 tmp_seq.read_fields(table);
248 if (tmp_seq.check_and_adjust(0))
262 sequence->copy(&tmp_seq);
|
| /dports/databases/mariadb105-server/mariadb-10.5.15/sql/ |
| H A D | ha_sequence.cc | 209 sequence_definition tmp_seq; in write_row() local
229 tmp_seq.read_fields(table); in write_row()
230 if (tmp_seq.check_and_adjust(0)) in write_row()
232 sequence->copy(&tmp_seq); in write_row()
260 tmp_seq.read_fields(table); in write_row()
261 if (tmp_seq.check_and_adjust(0)) in write_row()
285 sequence->copy(&tmp_seq); in write_row()
|
| /dports/devel/glib20/glib-2.70.4/glib/ |
| H A D | gsequence.c | 952 GSequence *seq, *tmp_seq; in g_sequence_sort_changed_iter() local
980 tmp_seq->real_sequence = seq; in g_sequence_sort_changed_iter()
988 g_sequence_free (tmp_seq); in g_sequence_sort_changed_iter()
1024 GSequence *tmp_seq; in g_sequence_insert_sorted_iter() local
1046 tmp_seq->real_sequence = seq; in g_sequence_insert_sorted_iter()
1053 g_sequence_free (tmp_seq); in g_sequence_insert_sorted_iter()
1095 GSequence *tmp_seq; in g_sequence_search_iter() local
1104 tmp_seq->real_sequence = seq; in g_sequence_search_iter()
1111 g_sequence_free (tmp_seq); in g_sequence_search_iter()
1150 GSequence *tmp_seq; in g_sequence_lookup_iter() local
[all …]
|
| /dports/devel/cutter/cutter-1.2.6/glib-compatible/ |
| H A D | gsequence.c | 774 GSequence *seq, *tmp_seq; in g_sequence_sort_changed_iter() local
800 tmp_seq = g_sequence_new (NULL); in g_sequence_sort_changed_iter()
801 tmp_seq->real_sequence = seq; in g_sequence_sort_changed_iter()
809 g_sequence_free (tmp_seq); in g_sequence_sort_changed_iter()
840 GSequence *tmp_seq; in g_sequence_insert_sorted_iter() local
861 tmp_seq = g_sequence_new (NULL); in g_sequence_insert_sorted_iter()
862 tmp_seq->real_sequence = seq; in g_sequence_insert_sorted_iter()
869 g_sequence_free (tmp_seq); in g_sequence_insert_sorted_iter()
904 GSequence *tmp_seq; in g_sequence_search_iter() local
913 tmp_seq->real_sequence = seq; in g_sequence_search_iter()
[all …]
|
| /dports/biology/viennarna/ViennaRNA-2.4.18/src/ViennaRNA/io/ |
| H A D | file_formats_msa.c | 617 char *tmp_seq = (char *)vrna_alloc(sizeof(char) * (n + 1)); in parse_stockholm_alignment() local
618 if (sscanf(line, "%s %s", tmp_name, tmp_seq) == 2) { in parse_stockholm_alignment()
619 for (i = 0; i < strlen(tmp_seq); i++) in parse_stockholm_alignment()
620 if (tmp_seq[i] == '.') /* replace '.' gaps with '-' */ in parse_stockholm_alignment()
621 tmp_seq[i] = '-'; in parse_stockholm_alignment()
625 add_sequence(tmp_name, tmp_seq, in parse_stockholm_alignment()
637 free(tmp_seq); in parse_stockholm_alignment()
640 unsigned int tmp_seq_len = strlen(tmp_seq); in parse_stockholm_alignment()
648 tmp_seq, in parse_stockholm_alignment()
660 free(tmp_seq); in parse_stockholm_alignment()
|
| /dports/multimedia/mpgtx/mpgtx-1.3.1/ |
| H A D | commandline.cxx | 322 int tmp_seq; in main() local
443 tmp_seq = -1; in main()
444 sscanf(&(argv[i][2]),"%d",&tmp_seq); in main()
445 if ((tmp_seq < 0 ) || (tmp_seq > 15)) in main()
447 fprintf(stderr,"invalid Value for aspect correction %d, exit!\n",tmp_seq); in main()
450 forced_sequence_header = tmp_seq << 4; in main()
|
| /dports/multimedia/librist/librist-5c1f4a06ab46e16e6bba42fe7381d8353020a1fd/src/ |
| H A D | udp.c | 712 uint32_t last_seq, tmp_seq; in rist_receiver_send_nacks() local
714 uint32_t boundary = tmp_seq +16; in rist_receiver_send_nacks()
719 tmp_seq = seq_array[i]; in rist_receiver_send_nacks()
720 if (last_seq < tmp_seq && tmp_seq <= boundary) { in rist_receiver_send_nacks()
729 last_seq = tmp_seq; in rist_receiver_send_nacks()
730 boundary = tmp_seq + 16; in rist_receiver_send_nacks()
745 uint16_t last_seq = tmp_seq; in rist_receiver_send_nacks()
746 rec->start = htons(tmp_seq); in rist_receiver_send_nacks()
755 rec->start = htons(tmp_seq); in rist_receiver_send_nacks()
763 rec->start = htons(tmp_seq); in rist_receiver_send_nacks()
[all …]
|
| /dports/biology/checkm/CheckM-1.0.18/checkm/ |
| H A D | genomicSignatures.py | 134 tmp_seq = seq.upper()
136 numMers = len(tmp_seq) - self.K + 1
139 kmerIndex = self.kmerToCanonicalIndex[tmp_seq[i:i + self.K]]
|
| /dports/net/frr7-pythontools/frr-frr-7.5.1/zebra/ |
| H A D | zebra_evpn_mac.c | 1358 uint32_t tmp_seq; in zebra_evpn_mac_is_bgp_seq_ok() local
1361 tmp_seq = mac->loc_seq; in zebra_evpn_mac_is_bgp_seq_ok()
1363 tmp_seq = mac->rem_seq; in zebra_evpn_mac_is_bgp_seq_ok()
1365 if (seq < tmp_seq) { in zebra_evpn_mac_is_bgp_seq_ok()
1382 tmp_seq, mac->flags); in zebra_evpn_mac_is_bgp_seq_ok()
1396 tmp_seq, mac->flags); in zebra_evpn_mac_is_bgp_seq_ok()
1414 uint32_t tmp_seq; in zebra_evpn_proc_sync_mac_update() local
1559 mac->loc_seq = tmp_seq; in zebra_evpn_proc_sync_mac_update()
1725 uint32_t tmp_seq; in process_mac_remote_macip_add() local
1796 tmp_seq = mac->loc_seq; in process_mac_remote_macip_add()
[all …]
|
| H A D | zebra_evpn_neigh.c | 536 uint32_t tmp_seq; in zebra_evpn_neigh_is_bgp_seq_ok() local
539 tmp_seq = n->loc_seq; in zebra_evpn_neigh_is_bgp_seq_ok()
541 tmp_seq = n->rem_seq; in zebra_evpn_neigh_is_bgp_seq_ok()
543 if (seq < tmp_seq) { in zebra_evpn_neigh_is_bgp_seq_ok()
558 tmp_seq, n->flags); in zebra_evpn_neigh_is_bgp_seq_ok()
568 tmp_seq, n->flags); in zebra_evpn_neigh_is_bgp_seq_ok()
662 uint32_t tmp_seq; in zebra_evpn_proc_sync_neigh_update() local
813 n->loc_seq = tmp_seq; in zebra_evpn_proc_sync_neigh_update()
2109 uint32_t tmp_seq; in process_neigh_remote_macip_add() local
2163 if (seq < tmp_seq) { in process_neigh_remote_macip_add()
[all …]
|
| /dports/net/frr7/frr-frr-7.5.1/zebra/ |
| H A D | zebra_evpn_mac.c | 1358 uint32_t tmp_seq; in zebra_evpn_mac_is_bgp_seq_ok() local
1361 tmp_seq = mac->loc_seq; in zebra_evpn_mac_is_bgp_seq_ok()
1363 tmp_seq = mac->rem_seq; in zebra_evpn_mac_is_bgp_seq_ok()
1365 if (seq < tmp_seq) { in zebra_evpn_mac_is_bgp_seq_ok()
1382 tmp_seq, mac->flags); in zebra_evpn_mac_is_bgp_seq_ok()
1396 tmp_seq, mac->flags); in zebra_evpn_mac_is_bgp_seq_ok()
1414 uint32_t tmp_seq; in zebra_evpn_proc_sync_mac_update() local
1559 mac->loc_seq = tmp_seq; in zebra_evpn_proc_sync_mac_update()
1725 uint32_t tmp_seq; in process_mac_remote_macip_add() local
1796 tmp_seq = mac->loc_seq; in process_mac_remote_macip_add()
[all …]
|
| H A D | zebra_evpn_neigh.c | 536 uint32_t tmp_seq; in zebra_evpn_neigh_is_bgp_seq_ok() local
539 tmp_seq = n->loc_seq; in zebra_evpn_neigh_is_bgp_seq_ok()
541 tmp_seq = n->rem_seq; in zebra_evpn_neigh_is_bgp_seq_ok()
543 if (seq < tmp_seq) { in zebra_evpn_neigh_is_bgp_seq_ok()
558 tmp_seq, n->flags); in zebra_evpn_neigh_is_bgp_seq_ok()
568 tmp_seq, n->flags); in zebra_evpn_neigh_is_bgp_seq_ok()
662 uint32_t tmp_seq; in zebra_evpn_proc_sync_neigh_update() local
813 n->loc_seq = tmp_seq; in zebra_evpn_proc_sync_neigh_update()
2109 uint32_t tmp_seq; in process_neigh_remote_macip_add() local
2163 if (seq < tmp_seq) { in process_neigh_remote_macip_add()
[all …]
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| /dports/devel/zpu-gcc/zpu-toolchain-1.0/toolchain/binutils/ld/ |
| H A D | pe-dll.c | 1457 static int tmp_seq; variable
1571 sprintf (oname, "d%06d.o", tmp_seq); in make_head()
1572 tmp_seq++; in make_head()
1644 sprintf (oname, "d%06d.o", tmp_seq); in make_tail()
1645 tmp_seq++; in make_tail()
1769 sprintf (oname, "d%06d.o", tmp_seq); in make_one()
1770 tmp_seq++; in make_one()
1927 tmp_seq++; in make_singleton_name_thunk()
2027 tmp_seq++; in make_import_fixup_entry()
2082 tmp_seq++; in make_runtime_pseudo_reloc()
[all …]
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| /dports/devel/tigcc/tigcc-0.96.b8_10/gnu/binutils-2.16.1/ld/ |
| H A D | pe-dll.c | 1454 static int tmp_seq; variable
1568 sprintf (oname, "d%06d.o", tmp_seq); in make_head()
1569 tmp_seq++; in make_head()
1641 sprintf (oname, "d%06d.o", tmp_seq); in make_tail()
1642 tmp_seq++; in make_tail()
1766 sprintf (oname, "d%06d.o", tmp_seq); in make_one()
1767 tmp_seq++; in make_one()
1924 tmp_seq++; in make_singleton_name_thunk()
2024 tmp_seq++; in make_import_fixup_entry()
2076 tmp_seq++; in make_runtime_pseudo_reloc()
[all …]
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| /dports/devel/zpu-binutils/zpu-toolchain-1.0/toolchain/binutils/ld/ |
| H A D | pe-dll.c | 1457 static int tmp_seq; variable
1571 sprintf (oname, "d%06d.o", tmp_seq); in make_head()
1572 tmp_seq++; in make_head()
1644 sprintf (oname, "d%06d.o", tmp_seq); in make_tail()
1645 tmp_seq++; in make_tail()
1769 sprintf (oname, "d%06d.o", tmp_seq); in make_one()
1770 tmp_seq++; in make_one()
1927 tmp_seq++; in make_singleton_name_thunk()
2027 tmp_seq++; in make_import_fixup_entry()
2082 tmp_seq++; in make_runtime_pseudo_reloc()
[all …]
|