| Previous changeset 1:c26130696a4e (2023-03-06) Next changeset 3:073c867c5244 (2023-06-20) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/krakentools commit 92c58a65005708fbd56b27b86969c01a1258ddb9 |
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added:
test-data/extract_kraken_reads/R1.fq.gz test-data/extract_kraken_reads/R2.fq.gz test-data/extract_kraken_reads/kraken1.report test-data/extract_kraken_reads/kraken1.results test-data/extract_kraken_reads/kraken2.report test-data/extract_kraken_reads/kraken2.results test-data/extract_kraken_reads/krakenU.report test-data/extract_kraken_reads/krona.k2.int.tsv test-data/extract_kraken_reads/krona.k2.noint.tsv test-data/extract_kraken_reads/out1.k1.11176.children.fa test-data/extract_kraken_reads/out1.k1.11176.fa test-data/extract_kraken_reads/out1.k1.e10386.children.fa test-data/extract_kraken_reads/out1.k2.11176.fa test-data/extract_kraken_reads/out1.k2.11176.fq test-data/extract_kraken_reads/out1.k2.11176.max2.fa test-data/extract_kraken_reads/out1.k2.11176.parents.fa test-data/extract_kraken_reads/out1.k2.exclude_both.fa test-data/extract_kraken_reads/out2.k1.11176.children.fa test-data/extract_kraken_reads/out2.k1.11176.fa test-data/extract_kraken_reads/out2.k1.e10386.children.fa test-data/extract_kraken_reads/out2.k2.11176.fa test-data/extract_kraken_reads/out2.k2.11176.max2.fa test-data/extract_kraken_reads/out2.k2.11176.parents.fa test-data/extract_kraken_reads/out2.k2.exclude_both.fa test-data/extract_kraken_reads/read1.fastq test-data/extract_kraken_reads/read2.fastq |
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| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/R1.fq.gz |
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| Binary file test-data/extract_kraken_reads/R1.fq.gz has changed |
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| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/R2.fq.gz |
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| Binary file test-data/extract_kraken_reads/R2.fq.gz has changed |
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| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/kraken1.report --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/kraken1.report Wed Mar 15 18:18:07 2023 +0000 |
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| @@ -0,0 +1,18 @@ + 6.79 38 38 U 0 unclassified + 93.21 522 0 - 1 root + 93.21 522 0 D 10239 Viruses + 88.75 497 0 - 35237 dsDNA viruses, no RNA stage + 88.75 497 0 O 548681 Herpesvirales + 88.75 497 0 F 10292 Herpesviridae + 88.75 497 0 - 10293 Alphaherpesvirinae + 88.75 497 0 G 180255 Iltovirus + 88.75 497 497 S 10386 Gallid herpesvirus 1 + 4.46 25 0 - 439488 ssRNA viruses + 4.46 25 0 - 35301 ssRNA negative-strand viruses + 4.46 25 0 O 11157 Mononegavirales + 4.46 25 0 F 11158 Paramyxoviridae + 4.46 25 0 G 260963 Avulavirus + 3.57 20 0 - 336096 unclassified Avulavirus + 3.57 20 20 S 204987 Goose paramyxovirus SF02 + 0.89 5 0 S 11176 Newcastle disease virus + 0.89 5 5 - 139270 Newcastle disease virus B1 |
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| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/kraken1.results --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/kraken1.results Wed Mar 15 18:18:07 2023 +0000 |
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10386:57\n+C\tHQ630064-23\t10386\t301\t0:26 10386:35 0:31 10386:28 A:31 0:23 10386:97\n+C\tHQ630064-21\t10386\t301\t0:25 10386:95 A:31 0:28 10386:40 0:31 10386:21\n+C\tHQ630064-19\t10386\t301\t0:32 10386:88 A:31 0:22 10386:98\n+C\tHQ630064-17\t10386\t301\t0:32 10386:88 A:31 0:26 10386:16 0:31 10386:47\n+C\tHQ630064-15\t10386\t301\t0:59 10386:61 A:31 0:21 10386:21 0:39 10386:39\n+C\tHQ630064-13\t10386\t301\t0:33 10386:87 A:31 0:35 10386:85\n+U\tHQ630064-11\t0\t301\t0:120 A:31 0:120\n+C\tHQ630064-9\t10386\t301\t0:22 10386:98 A:31 0:33 10386:1 0:31 10386:55\n+C\tHQ630064-7\t10386\t301\t0:30 10386:90 A:31 0:63 10386:57\n+C\tHQ630064-5\t10386\t301\t0:15 10386:47 0:58 A:31 0:14 10386:28 0:31 10386:4 0:43\n+U\tHQ630064-3\t0\t301\t0:120 A:31 0:120\n+C\tHQ630064-1\t10386\t301\t0:45 10386:31 0:44 A:31 0:120\n' |
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| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/kraken2.report --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/kraken2.report Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,73 @@ + 4.29 24 24 U 0 unclassified + 95.71 536 0 R 1 root + 95.00 532 0 D 10239 Viruses + 88.75 497 0 D1 2731341 Duplodnaviria + 88.75 497 0 D2 2731360 Heunggongvirae + 88.75 497 0 P 2731361 Peploviricota + 88.75 497 0 C 2731363 Herviviricetes + 88.75 497 0 O 548681 Herpesvirales + 88.75 497 0 F 10292 Herpesviridae + 88.75 497 0 F1 10293 Alphaherpesvirinae + 88.75 497 0 G 180255 Iltovirus + 88.75 497 497 S 10386 Gallid alphaherpesvirus 1 + 6.25 35 0 D1 2559587 Riboviria + 6.25 35 0 K 2732396 Orthornavirae + 6.25 35 0 P 2497569 Negarnaviricota + 6.25 35 0 P1 2497570 Haploviricotina + 6.25 35 0 C 2497574 Monjiviricetes + 6.25 35 0 O 11157 Mononegavirales + 6.25 35 0 F 11158 Paramyxoviridae + 6.25 35 12 G 260963 Avulavirus + 2.68 15 0 G1 336096 unclassified Avulavirus + 2.68 15 15 S 204987 Goose paramyxovirus SF02 + 1.25 7 7 S 11176 Avian avulavirus 1 + 0.18 1 1 S 1305716 Avian avulavirus 12 + 0.71 4 0 R1 131567 cellular organisms + 0.36 2 0 D 2 Bacteria + 0.36 2 0 P 1224 Proteobacteria + 0.36 2 0 C 1236 Gammaproteobacteria + 0.36 2 0 O 72274 Pseudomonadales + 0.36 2 0 F 468 Moraxellaceae + 0.36 2 0 G 469 Acinetobacter + 0.36 2 0 G1 909768 Acinetobacter calcoaceticus/baumannii complex + 0.36 2 2 S 470 Acinetobacter baumannii + 0.36 2 0 D 2759 Eukaryota + 0.18 1 0 D1 33154 Opisthokonta + 0.18 1 0 K 33208 Metazoa + 0.18 1 0 K1 6072 Eumetazoa + 0.18 1 0 K2 33213 Bilateria + 0.18 1 0 K3 33511 Deuterostomia + 0.18 1 0 P 7711 Chordata + 0.18 1 0 P1 89593 Craniata + 0.18 1 0 P2 7742 Vertebrata + 0.18 1 0 P3 7776 Gnathostomata + 0.18 1 0 P4 117570 Teleostomi + 0.18 1 0 P5 117571 Euteleostomi + 0.18 1 0 P6 8287 Sarcopterygii + 0.18 1 0 P7 1338369 Dipnotetrapodomorpha + 0.18 1 0 P8 32523 Tetrapoda + 0.18 1 0 P9 32524 Amniota + 0.18 1 0 C 40674 Mammalia + 0.18 1 0 C1 32525 Theria + 0.18 1 0 C2 9347 Eutheria + 0.18 1 0 C3 1437010 Boreoeutheria + 0.18 1 0 C4 314146 Euarchontoglires + 0.18 1 0 O 9443 Primates + 0.18 1 0 O1 376913 Haplorrhini + 0.18 1 0 O2 314293 Simiiformes + 0.18 1 0 O3 9526 Catarrhini + 0.18 1 0 O4 314295 Hominoidea + 0.18 1 0 F 9604 Hominidae + 0.18 1 0 F1 207598 Homininae + 0.18 1 0 G 9605 Homo + 0.18 1 1 S 9606 Homo sapiens + 0.18 1 0 D1 2698737 Sar + 0.18 1 0 D2 33630 Alveolata + 0.18 1 0 P 5794 Apicomplexa + 0.18 1 0 C 422676 Aconoidasida + 0.18 1 0 O 5819 Haemosporida + 0.18 1 0 F 1639119 Plasmodiidae + 0.18 1 0 G 5820 Plasmodium + 0.18 1 0 G1 418103 Plasmodium (Plasmodium) + 0.18 1 0 S 5850 Plasmodium knowlesi + 0.18 1 1 S1 5851 Plasmodium knowlesi strain H |
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| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/kraken2.results --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/kraken2.results Wed Mar 15 18:18:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,560 @@\n+C\tC_II_XVIIIb-101\t5851\t150|150\t0:116 |:| 0:17 5851:5 0:94\n+C\tC_II_XVIIIb-99\t260963\t150|150\t0:40 260963:5 0:71 |:| 0:116\n+C\tC_II_XVIIIb-97\t260963\t150|150\t0:116 |:| 0:75 260963:1 0:40\n+C\tC_II_XVIIIb-95\t204987\t150|150\t0:63 260963:3 0:21 204987:20 0:9 |:| 0:116\n+C\tC_II_XVIIIb-93\t260963\t150|150\t0:116 |:| 0:82 260963:3 0:31\n+C\tC_II_XVIIIb-91\t204987\t150|150\t0:65 260963:2 0:49 |:| 0:18 204987:2 0:96\n+C\tC_II_XVIIIb-89\t204987\t150|150\t0:11 204987:5 0:38 260963:3 0:59 |:| 0:56 260963:5 0:55\n+C\tC_II_XVIIIb-87\t260963\t150|150\t0:23 260963:4 0:58 260963:2 0:1 260963:5 0:23 |:| 0:116\n+C\tC_II_XVIIIb-85\t260963\t150|150\t0:42 260963:3 0:3 260963:5 0:1 260963:5 0:57 |:| 0:116\n+U\tC_II_XVIIIb-83\t0\t150|150\t0:116 |:| 0:116\n+U\tC_II_XVIIIb-81\t0\t150|150\t0:116 |:| 0:116\n+U\tC_II_XVIIIb-79\t0\t150|150\t0:116 |:| 0:116\n+U\tC_II_XVIIIb-77\t0\t150|150\t0:116 |:| 0:116\n+C\tC_II_XVIIIb-75\t260963\t150|150\t0:59 260963:1 0:7 260963:3 0:7 260963:3 0:36 |:| 0:52 260963:16 0:48\n+C\tC_II_XVIIIb-73\t1305716\t150|150\t0:116 |:| 0:53 1305716:4 0:59\n+U\tC_II_XVIIIb-71\t0\t150|150\t0:116 |:| 0:116\n+C\tC_II_XVIIIb-69\t204987\t150|150\t0:11 260963:2 0:67 204987:3 0:33 |:| 0:116\n+U\tC_II_XVIIIb-67\t0\t150|150\t0:116 |:| 0:116\n+C\tC_II_XVIIIb-65\t11176\t150|150\t0:103 11176:3 0:1 11176:2 0:7 |:| 0:31 260963:6 11176:5 0:5 11176:4 260963:1 11176:5 0:8 11176:2 0:1 11176:3 0:45\n+C\tC_II_XVIIIb-63\t204987\t150|150\t0:39 260963:5 0:72 |:| 0:58 204987:12 0:1 204987:5 0:23 260963:3 0:14\n+C\tC_II_XVIIIb-61\t204987\t150|150\t0:45 260963:3 0:23 204987:18 0:27 |:| 0:108 204987:8\n+U\tC_II_XVIIIb-59\t0\t150|150\t0:116 |:| 0:116\n+C\tC_II_XVIIIb-57\t11176\t150|150\t0:31 260963:13 0:1 260963:6 0:16 11176:1 0:48 |:| 0:102 11176:1 0:13\n+C\tC_II_XVIIIb-55\t204987\t150|150\t0:67 204987:6 0:43 |:| 0:113 204987:3\n+C\tC_II_XVIIIb-53\t204987\t150|150\t0:55 260963:5 0:10 260963:2 204987:5 0:7 260963:5 0:27 |:| 0:28 260963:1 0:65 260963:5 0:17\n+C\tC_II_XVIIIb-51\t204987\t150|150\t0:8 204987:13 0:95 |:| 0:21 260963:4 0:33 260963:3 0:7 260963:5 0:43\n+C\tC_II_XVIIIb-49\t11176\t150|150\t0:35 260963:1 0:80 |:| 0:30 11176:5 0:5 11176:3 0:73\n+U\tC_II_XVIIIb-47\t0\t150|150\t0:116 |:| 0:116\n+C\tC_II_XVIIIb-45\t11176\t150|150\t0:28 11176:1 0:35 260963:13 0:39 |:| 0:98 11176:7 0:1 260963:5 0:5\n+C\tC_II_XVIIIb-43\t260963\t150|150\t0:99 260963:12 0:5 |:| 0:20 260963:4 0:51 260963:2 0:21 260963:1 0:17\n+C\tC_II_XVIIIb-41\t204987\t150|150\t0:116 |:| 0:77 204987:6 0:33\n+U\tC_II_XVIIIb-39\t0\t150|150\t0:116 |:| 0:116\n+C\tC_II_XVIIIb-37\t204987\t150|150\t0:110 204987:5 0:1 |:| 0:116\n+C\tC_II_XVIIIb-35\t204987\t150|150\t0:48 204987:5 0:5 204987:1 0:42 260963:4 0:11 |:| 0:19 260963:7 0:17 260963:10 0:56 260963:4 0:3\n+C\tC_II_XVIIIb-33\t260963\t150|150\t0:32 260963:7 0:77 |:| 0:46 260963:16 0:54\n+C\tC_II_XVIIIb-31\t204987\t150|150\t0:113 204987:3 |:| 0:116\n+C\tC_II_XVIIIb-29\t260963\t150|150\t0:116 |:| 0:74 260963:16 0:6 260963:1 0:11 260963:5 0:3\n+U\tC_II_XVIIIb-27\t0\t150|150\t0:116 |:| 0:116\n+C\tC_II_XVIIIb-25\t204987\t150|150\t0:106 260963:5 0:5 |:| 0:61 204987:7 0:48\n+C\tC_II_XVIIIb-23\t204987\t150|150\t0:47 260963:5 0:31 260963:5 0:7 204987:5 260963:2 0:10 260963:4 |:| 0:57 260963:12 0:9 260963:1 0:37\n+U\tC_II_XVIIIb-21\t0\t150|150\t0:116 |:| 0:116\n+C\tC_II_XVIIIb-19\t260963\t150|150\t0:24 260963:1 0:6 260963:16 0:69 |:| 0:19 260963:15 0:82\n+C\tC_II_XVIIIb-17\t11176\t150|150\t0:116 |:| 0:79 11176:2 0:7 11176:12 260963:1 11176:6 0:9\n+U\tC_II_XVIIIb-15\t0\t150|150\t0:116 |:| 0:116\n+C\tC_II_XVIIIb-13\t470\t150|150\t0:116 |:| 0:22 470:2 0:5 470:2 0:37 470:5 0:42 470:1\n+C\tC_II_XVIIIb-11\t470\t150|150\t0:49 470:5 0:42 470:6 0:10 260963:1 0:3 |:| 0:116\n+C\tC_II_XVIIIb-9\t11176\t150|150\t0:116 |:| 0:25 11176:3 0:4 11176:8 0:76\n+U\tC_II_XVIIIb-7\t0\t150|150\t0:116 |:| 0:116\n+C\tC_II_XVIIIb-5\t260963\t150|150\t0:116 |:| 0:73 260963:32 0:11\n+C\tC_II_XVIIIb-3\t260963\t150|150\t0:33 260963:5 0:55 260963:1 0:22 |:| 0:108 260963:1 0:7\n+C\tC_II_XVIIIb-1\t11176\t150|150\t0:36 260963:5 0:11 204987:1 0:54 260963:4 0:5 |:| 0:38 11176:3 0:5 11176:5 0:51 260963:4 0:10\n+C\tHQ630064-1017\t10386\t150|150\t0:29 10386:87 |:| 0:26 10386:33 0:1 10386:5 0:9 10386:3 0:8 10386:31\n+C\tHQ630064'..b'86\t150|150\t0:32 10386:84 |:| 0:45 10386:5 0:1 10386:3 0:3 10386:59\n+C\tHQ630064-77\t10386\t150|150\t0:33 10386:83 |:| 10386:1 0:5 10386:2 0:27 10386:7 0:1 10386:73\n+C\tHQ630064-75\t10386\t150|150\t0:28 10386:88 |:| 0:28 10386:21 0:31 10386:5 0:5 10386:26\n+C\tHQ630064-73\t10386\t150|150\t0:10 10386:1 0:5 10386:20 0:23 10386:1 0:8 10386:48 |:| 10386:50 0:21 10386:11 0:3 10386:31\n+C\tHQ630064-71\t10386\t150|150\t0:28 10386:1 0:17 10386:70 |:| 0:18 10386:19 0:23 10386:3 0:7 10386:46\n+C\tHQ630064-69\t10386\t150|150\t0:31 10386:36 0:4 10386:2 0:28 10386:15 |:| 0:47 10386:69\n+C\tHQ630064-67\t10386\t150|150\t0:23 10386:93 |:| 0:3 10386:1 0:15 10386:7 0:4 10386:86\n+C\tHQ630064-65\t10386\t150|150\t0:16 10386:100 |:| 0:19 10386:5 0:9 10386:83\n+C\tHQ630064-63\t10386\t150|150\t0:23 10386:93 |:| 0:62 10386:20 0:2 10386:5 0:1 10386:5 0:17 10386:4\n+C\tHQ630064-61\t10386\t150|150\t0:7 10386:1 0:4 10386:104 |:| 0:23 10386:1 0:7 10386:1 0:12 10386:72\n+C\tHQ630064-59\t10386\t150|150\t0:19 10386:1 0:5 10386:91 |:| 0:27 10386:89\n+C\tHQ630064-57\t10386\t150|150\t0:31 10386:76 0:6 10386:3 |:| 0:4 10386:1 0:53 10386:26 0:3 10386:5 0:24\n+C\tHQ630064-55\t10386\t150|150\t0:29 10386:87 |:| 0:15 10386:3 0:5 10386:3 0:1 10386:89\n+C\tHQ630064-53\t10386\t150|150\t0:9 10386:1 0:16 10386:90 |:| 0:14 10386:1 0:3 10386:8 0:3 10386:1 0:1 10386:5 0:13 10386:5 0:3 10386:28 0:9 10386:5 0:9 10386:8\n+C\tHQ630064-51\t10386\t150|150\t0:25 10386:12 0:10 10386:1 0:13 10386:2 0:8 10386:45 |:| 0:27 10386:12 0:71 10386:6\n+C\tHQ630064-49\t10386\t150|150\t0:16 10386:5 0:12 10386:83 |:| 0:116\n+C\tHQ630064-47\t10386\t150|150\t0:16 10386:4 0:11 10386:27 0:3 10386:9 0:19 10386:27 |:| 0:19 10386:5 0:7 10386:48 0:31 10386:6\n+C\tHQ630064-45\t10386\t150|150\t0:20 10386:25 0:17 10386:22 0:32 |:| 0:26 10386:5 0:15 10386:1 0:11 10386:37 0:21\n+C\tHQ630064-43\t10386\t150|150\t0:27 10386:1 0:5 10386:28 0:8 10386:2 0:25 10386:2 0:11 10386:7 |:| 0:25 10386:30 0:20 10386:1 0:10 10386:30\n+C\tHQ630064-41\t10386\t150|150\t0:26 10386:15 0:21 10386:5 0:1 10386:48 |:| 0:31 10386:81 0:1 10386:3\n+C\tHQ630064-39\t10386\t150|150\t0:40 10386:76 |:| 0:14 10386:102\n+C\tHQ630064-37\t10386\t150|150\t0:20 10386:6 0:3 10386:87 |:| 0:46 10386:45 0:25\n+C\tHQ630064-35\t10386\t150|150\t0:33 10386:83 |:| 0:7 10386:109\n+C\tHQ630064-33\t10386\t150|150\t0:10 10386:5 0:4 10386:97 |:| 0:13 10386:5 0:33 10386:65\n+C\tHQ630064-31\t10386\t150|150\t0:13 10386:5 0:4 10386:13 0:12 10386:11 0:10 10386:12 0:7 10386:9 0:13 10386:1 0:4 10386:2 |:| 0:18 10386:1 0:4 10386:93\n+C\tHQ630064-29\t10386\t150|150\t0:23 10386:46 0:35 10386:12 |:| 0:12 10386:2 0:10 10386:53 0:1 10386:5 0:33\n+C\tHQ630064-27\t10386\t150|150\t0:24 10386:2 0:6 10386:4 0:17 10386:7 0:1 10386:1 0:1 10386:1 0:10 10386:42 |:| 0:19 10386:46 0:2 10386:5 0:12 10386:4 0:11 10386:13 0:4\n+C\tHQ630064-25\t10386\t150|150\t0:20 10386:2 0:8 10386:86 |:| 0:51 10386:1 0:5 10386:1 0:5 10386:53\n+C\tHQ630064-23\t10386\t150|150\t0:18 10386:5 0:1 10386:34 0:12 10386:1 0:5 10386:5 0:5 10386:5 0:1 10386:24 |:| 0:23 10386:93\n+C\tHQ630064-21\t10386\t150|150\t0:7 10386:1 0:12 10386:2 0:1 10386:93 |:| 0:20 10386:44 0:9 10386:1 0:7 10386:7 0:10 10386:18\n+C\tHQ630064-19\t10386\t150|150\t0:32 10386:84 |:| 0:19 10386:97\n+C\tHQ630064-17\t10386\t150|150\t0:28 10386:88 |:| 0:23 10386:15 0:5 10386:3 0:13 10386:5 0:5 10386:47\n+C\tHQ630064-15\t10386\t150|150\t0:43 10386:1 0:12 10386:60 |:| 0:6 10386:3 0:12 10386:21 0:7 10386:1 0:15 10386:1 0:3 10386:6 0:5 10386:36\n+C\tHQ630064-13\t10386\t150|150\t0:25 10386:1 0:1 10386:89 |:| 0:17 10386:1 0:1 10386:5 0:1 10386:1 0:1 10386:1 0:3 10386:85\n+U\tHQ630064-11\t0\t150|150\t0:116 |:| 0:116\n+C\tHQ630064-9\t10386\t150|150\t0:19 10386:97 |:| 0:15 10386:3 0:5 10386:1 0:1 10386:2 0:16 10386:11 0:9 10386:53\n+C\tHQ630064-7\t10386\t150|150\t0:15 10386:10 0:2 10386:89 |:| 0:35 10386:3 0:23 10386:55\n+C\tHQ630064-5\t10386\t150|150\t0:1 10386:1 0:5 10386:1 0:6 10386:48 0:29 10386:7 0:1 10386:7 0:7 10386:3 |:| 0:13 10386:25 0:5 10386:5 0:7 10386:7 0:1 10386:7 0:3 10386:2 0:28 10386:9 0:3 10386:1\n+U\tHQ630064-3\t0\t150|150\t0:116 |:| 0:116\n+C\tHQ630064-1\t10386\t150|150\t0:35 10386:5 0:5 10386:28 0:4 10386:3 0:36 |:| 0:116\n' |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/krakenU.report --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/krakenU.report Wed Mar 15 18:18:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,1305 @@\n+# KrakenUniq v0.5.8 DATE:2021-09-21T05:28:21Z DB:./db1 ./db2 ./db3 ./db4 ./db5 ./db6 ./db7 ./db8 ./db9 DB_SIZE:43487608 WD:/tmp/nxf.LS2KtRM0fv\n+# CL:perl /opt/conda/envs/nf/bin/krakenuniq --db db1 --db db2 --db db3 --db db4 --db db5 --db db6 --db db7 --db db8 --db db9 --threads 64 --report-file lowfilt.report.pre --output lowfilt.results --paired lowfilt.qfilt.R1_val_1.rmspikein.fq lowfilt.qfilt.R2_val_2.rmspikein.fq\n+\n+%\treads\ttaxReads\tkmers\tdup\tcov\ttaxID\trank\ttaxName\n+2.18\t1681\t1681\t12617084\t1.2\tNA\t0\tno rank\tunclassified\n+97.82\t75426\t277\t1886797\t1.23\t7.482e-05\t1\tno rank\troot\n+95.62\t73730\t29\t1742828\t1.21\t7.188e-05\t131567\tno rank\t cellular organisms\n+93.26\t71908\t380\t1704354\t1.21\t9.69e-05\t2\tsuperkingdom\t Bacteria\n+44.5\t34310\t59\t797434\t1.21\t0.0001228\t1783272\tclade\t Terrabacteria group\n+29.93\t23076\t82\t557233\t1.2\t0.0002134\t1239\tphylum\t Firmicutes\n+20.77\t16015\t73\t379200\t1.22\t0.0003627\t91061\tclass\t Bacilli\n+12.81\t9880\t45\t253369\t1.19\t0.0003098\t1385\torder\t Bacillales\n+4.103\t3164\t10\t102496\t1.16\t0.00027\t186817\tfamily\t Bacillaceae\n+4.088\t3152\t963\t100677\t1.16\t0.001024\t1386\tgenus\t Bacillus\n+2.521\t1944\t1944\t46683\t1.13\t0.07898\t1963032\tspecies\t Bacillus intestinalis\n+0.284\t219\t150\t4091\t1.26\t0.0002188\t86661\tspecies group\t Bacillus cereus group\n+0.05447\t42\t42\t1083\t1.29\t0.001994\t2026186\tspecies\t Bacillus paranthracis\n+0.009078\t7\t7\t226\t1.29\t0.0004816\t2026188\tspecies\t Bacillus tropicus\n+0.007781\t6\t6\t208\t1.21\t0.00036\t2026190\tspecies\t Bacillus mobilis\n+0.005188\t4\t4\t170\t1.21\t4.36e-05\t1396\tspecies\t Bacillus cereus\n+0.003891\t3\t3\t75\t1.29\t0.0001177\t2026189\tspecies\t Bacillus albus\n+0.002594\t2\t2\t56\t1.16\t0.0001006\t2026193\tspecies\t Bacillus nitratireducens\n+0.002594\t2\t2\t62\t1.27\t0.0002833\t1392\tspecies\t Bacillus anthracis\n+0.001297\t1\t1\t44\t1.27\t0.0001063\t2026191\tspecies\t Bacillus luti\n+0.001297\t1\t1\t66\t1.26\t8.275e-05\t1890302\tspecies\t Bacillus wiedmannii\n+0.001297\t1\t1\t70\t1.19\t5.253e-05\t1428\tspecies\t Bacillus thuringiensis\n+0.01816\t14\t0\t1824\t1.22\t5.778e-05\t185979\tno rank\t unclassified Bacillus (in: Bacteria)\n+0.01167\t9\t9\t1141\t1.25\t0.002064\t2597270\tspecies\t Bacillus sp. P16(2019)\n+0.006484\t5\t5\t681\t1.19\t4.507e-05\t1409\tspecies\t Bacillus sp. (in: Bacteria)\n+0.01038\t8\t6\t3457\t1.41\t0.0003944\t653685\tspecies group\t Bacillus subtilis group\n+0.002594\t2\t2\t1721\t1.15\t0.002671\t483913\tspecies\t Bacillus inaquosorum\n+0.002594\t2\t2\t119\t1.18\t0.0002753\t230954\tspecies\t Bacillus thermozeamaize\n+0.001297\t1\t1\t179\t1.23\t0.0004264\t408580\tspecies\t Bacillus coahuilensis\n+0.001297\t1\t1\t61\t1.36\t0.000156\t2039284\tspecies\t Bacillus fungorum\n+0.001297\t1\t0\t42\t1.17\t4.106e-06\t84406\tgenus\t Virgibacillus\n+0.001297\t1\t1\t37\t1.19\t6.655e-05\t1638645\tspecies\t Virgibacillus kapii\n+0.001297\t1\t0\t5\t1\t1.141e-06\t704093\tgenus\t Anaerobacillus\n+0.001297\t1\t0\t2\t1\t8.059e-07\t2625356\tno rank\t unclassified Anaerobacillus\n+0.001297\t1\t1\t2\t1\t8.059e-07\t1872506\tspecies\t Anaerobacillus sp.\n+3.84\t2961\t27\t58221\t1.28\t0.001726\t90964\tfamily\t Staphylococcaceae\n+3.803\t2932\t321\t56780\t1.27\t0.002658\t1279\tgenus\t Staphylococcus\n+1.935\t1492\t1492\t25704\t1.26\t0.07286\t1280\tspecies\t Staphylococcus aureus\n+1.414\t1090\t1090\t20177\t1.19\t0.06293\t1282\tspecies\t Staphylococcus epidermidis\n+0.01038\t8\t8\t231\t1.31\t0.0002607\t1283\tspecies\t Staphylococcus haemolyticus\n+0.007781\t6\t6\t92\t1.54\t0.0002367\t29388\tspecies\t Staphylococcus capitis\n+0.005188\t4\t4\t121\t1.34\t0.0001435\t246432\tspecies\t Staphylococcus equorum\n+0.003891\t3\t3\t197\t1.42\t0.'..b'illevirus\n+0.001297\t1\t0\t8\t1\t3.411e-05\t2315196\tno rank\t unclassified Bastillevirus\n+0.001297\t1\t1\t8\t1\t0.0009028\t2282408\tspecies\t Bacillus phage Maceta\n+0.01167\t9\t0\t944\t1.61\t2.861e-05\t2731361\tphylum\t Peploviricota\n+0.01167\t9\t0\t944\t1.61\t2.861e-05\t2731363\tclass\t Herviviricetes\n+0.01167\t9\t0\t944\t1.61\t2.861e-05\t548681\torder\t Herpesvirales\n+0.01167\t9\t0\t944\t1.61\t3.27e-05\t10292\tfamily\t Herpesviridae\n+0.01167\t9\t0\t935\t1.62\t8.081e-05\t10357\tsubfamily\t Betaherpesvirinae\n+0.01167\t9\t0\t935\t1.62\t0.0001562\t10358\tgenus\t Cytomegalovirus\n+0.01038\t8\t8\t783\t1.65\t0.0003119\t10359\tspecies\t Human betaherpesvirus 5\n+0.001297\t1\t1\t152\t1.47\t0.0003854\t47929\tspecies\t Macacine betaherpesvirus 3\n+0.1945\t150\t53\t13859\t1.21\t0.0002668\t12333\tno rank\t unclassified bacterial viruses\n+0.05058\t39\t39\t3891\t1.28\t0.186\t2716355\tspecies\t Escherichia phage 503046\n+0.02334\t18\t18\t1490\t1.29\t0.05535\t2783517\tspecies\t Escherichia phage 204576\n+0.02334\t18\t18\t3311\t1.13\t0.1106\t129862\tspecies\t Phage Gifsy-2\n+0.02205\t17\t17\t1867\t1.24\t0.05953\t129861\tspecies\t Phage Gifsy-1\n+0.002594\t2\t2\t269\t1.07\t0.01331\t2859565\tspecies\t Enterococcus phage VEsP-2\n+0.001297\t1\t1\t22\t1\t0.01401\t356350\tspecies\t Phage 258-320\n+0.001297\t1\t1\t191\t1\t0.1322\t2558708\tspecies\t Streptococcus satellite phage Javan449\n+0.001297\t1\t1\t67\t1\t0.001649\t128975\tspecies\t Salmonella phage Fels-1\n+0.006484\t5\t0\t444\t1.01\t1.139e-05\t2731342\tclade\t Monodnaviria\n+0.006484\t5\t0\t431\t1\t0.0004848\t2732090\tkingdom\t Loebvirae\n+0.006484\t5\t0\t431\t1\t0.0004848\t2732410\tphylum\t Hofneiviricota\n+0.006484\t5\t0\t431\t1\t0.0004848\t2732411\tclass\t Faserviricetes\n+0.006484\t5\t0\t431\t1\t0.0004848\t2732094\torder\t Tubulavirales\n+0.006484\t5\t3\t431\t1\t0.0005104\t10860\tfamily\t Inoviridae\n+0.001297\t1\t0\t83\t1\t0.0001515\t456491\tno rank\t unclassified Inoviridae\n+0.001297\t1\t1\t83\t1\t0.01283\t2686285\tspecies\t Pseudomonas phage pf8_ST274-AUS411\n+0.001297\t1\t0\t77\t1\t0.00601\t2732875\tgenus\t Primolicivirus\n+0.001297\t1\t1\t77\t1\t0.00601\t2011081\tspecies\t Pseudomonas virus Pf1\n+0.005188\t4\t0\t210\t2.23\t4.643e-06\t12429\tno rank\t unclassified viruses\n+0.005188\t4\t0\t210\t2.23\t5.953e-06\t2204151\tno rank\t unclassified DNA viruses\n+0.005188\t4\t0\t210\t2.23\t0.0009295\t79205\tno rank\t unclassified dsDNA phages\n+0.005188\t4\t4\t210\t2.23\t0.01276\t320831\tspecies\t Staphylococcus phage PT1028\n+0.003891\t3\t0\t150\t1.22\t5.186e-07\t2559587\tclade\t Riboviria\n+0.003891\t3\t0\t144\t1.23\t6.207e-07\t2732396\tkingdom\t Orthornavirae\n+0.002594\t2\t0\t100\t1.12\t4.316e-06\t2732405\tphylum\t Duplornaviricota\n+0.002594\t2\t0\t83\t1.1\t2.868e-05\t2732458\tclass\t Chrymotiviricetes\n+0.002594\t2\t0\t83\t1.1\t2.868e-05\t2732540\torder\t Ghabrivirales\n+0.002594\t2\t0\t83\t1.1\t3.981e-05\t11006\tfamily\t Totiviridae\n+0.002594\t2\t0\t83\t1.1\t0.0002877\t11007\tgenus\t Totivirus\n+0.002594\t2\t2\t83\t1.1\t0.002982\t11008\tspecies\t Saccharomyces cerevisiae virus L-A\n+0.001297\t1\t0\t24\t1.71\t2.937e-07\t2732408\tphylum\t Pisuviricota\n+0.001297\t1\t0\t20\t1.85\t3.197e-07\t2732506\tclass\t Pisoniviricetes\n+0.001297\t1\t0\t20\t1.85\t5.285e-07\t464095\torder\t Picornavirales\n+0.001297\t1\t0\t20\t1.85\t9.652e-07\t12058\tfamily\t Picornaviridae\n+0.001297\t1\t0\t20\t1.85\t1.591e-06\t12059\tgenus\t Enterovirus\n+0.001297\t1\t1\t20\t1.85\t1.107e-05\t138950\tspecies\t Enterovirus C\n+0.001297\t1\t0\t63\t1.35\t3.295e-06\t186616\tno rank\t environmental samples\n+0.001297\t1\t1\t16\t1.69\t1.073e-05\t340016\tspecies\t uncultured virus\n+0.6575\t507\t0\t45700\t1.63\t0.006306\t2787854\tno rank\t other entries\n+0.6575\t507\t0\t45700\t1.63\t0.006306\t28384\tno rank\t other sequences\n+0.6575\t507\t0\t45700\t1.63\t0.006306\t81077\tno rank\t artificial sequences\n+0.6575\t507\t507\t45700\t1.63\t0.006306\t32630\tspecies\t synthetic construct\n' |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/krona.k2.int.tsv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/krona.k2.int.tsv Wed Mar 15 18:18:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,73 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rostomia\tp__Chordata\tx__Craniata\tx__Vertebrata\tx__Gnathostomata\tx__Teleostomi\tx__Euteleostomi\tx__Sarcopterygii\tx__Dipnotetrapodomorpha\tx__Tetrapoda\tx__Amniota\tc__Mammalia\tx__Theria\tx__Eutheria\tx__Boreoeutheria\tx__Euarchontoglires\to__Primates\tx__Haplorrhini\tx__Simiiformes\tx__Catarrhini\tx__Hominoidea\n+0\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Opisthokonta\tx__Metazoa\tx__Eumetazoa\tx__Bilateria\tx__Deuterostomia\tp__Chordata\tx__Craniata\tx__Vertebrata\tx__Gnathostomata\tx__Teleostomi\tx__Euteleostomi\tx__Sarcopterygii\tx__Dipnotetrapodomorpha\tx__Tetrapoda\tx__Amniota\tc__Mammalia\tx__Theria\tx__Eutheria\tx__Boreoeutheria\tx__Euarchontoglires\to__Primates\tx__Haplorrhini\tx__Simiiformes\tx__Catarrhini\tx__Hominoidea\tf__Hominidae\n+0\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Opisthokonta\tx__Metazoa\tx__Eumetazoa\tx__Bilateria\tx__Deuterostomia\tp__Chordata\tx__Craniata\tx__Vertebrata\tx__Gnathostomata\tx__Teleostomi\tx__Euteleostomi\tx__Sarcopterygii\tx__Dipnotetrapodomorpha\tx__Tetrapoda\tx__Amniota\tc__Mammalia\tx__Theria\tx__Eutheria\tx__Boreoeutheria\tx__Euarchontoglires\to__Primates\tx__Haplorrhini\tx__Simiiformes\tx__Catarrhini\tx__Hominoidea\tf__Hominidae\tx__Homininae\n+0\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Opisthokonta\tx__Metazoa\tx__Eumetazoa\tx__Bilateria\tx__Deuterostomia\tp__Chordata\tx__Craniata\tx__Vertebrata\tx__Gnathostomata\tx__Teleostomi\tx__Euteleostomi\tx__Sarcopterygii\tx__Dipnotetrapodomorpha\tx__Tetrapoda\tx__Amniota\tc__Mammalia\tx__Theria\tx__Eutheria\tx__Boreoeutheria\tx__Euarchontoglires\to__Primates\tx__Haplorrhini\tx__Simiiformes\tx__Catarrhini\tx__Hominoidea\tf__Hominidae\tx__Homininae\tg__Homo\n+1\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Opisthokonta\tx__Metazoa\tx__Eumetazoa\tx__Bilateria\tx__Deuterostomia\tp__Chordata\tx__Craniata\tx__Vertebrata\tx__Gnathostomata\tx__Teleostomi\tx__Euteleostomi\tx__Sarcopterygii\tx__Dipnotetrapodomorpha\tx__Tetrapoda\tx__Amniota\tc__Mammalia\tx__Theria\tx__Eutheria\tx__Boreoeutheria\tx__Euarchontoglires\to__Primates\tx__Haplorrhini\tx__Simiiformes\tx__Catarrhini\tx__Hominoidea\tf__Hominidae\tx__Homininae\tg__Homo\ts__Homo_sapiens\n+0\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Sar\n+0\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Sar\tx__Alveolata\n+0\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Sar\tx__Alveolata\tp__Apicomplexa\n+0\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Sar\tx__Alveolata\tp__Apicomplexa\tc__Aconoidasida\n+0\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Sar\tx__Alveolata\tp__Apicomplexa\tc__Aconoidasida\to__Haemosporida\n+0\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Sar\tx__Alveolata\tp__Apicomplexa\tc__Aconoidasida\to__Haemosporida\tf__Plasmodiidae\n+0\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Sar\tx__Alveolata\tp__Apicomplexa\tc__Aconoidasida\to__Haemosporida\tf__Plasmodiidae\tg__Plasmodium\n+0\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Sar\tx__Alveolata\tp__Apicomplexa\tc__Aconoidasida\to__Haemosporida\tf__Plasmodiidae\tg__Plasmodium\tx__Plasmodium_(Plasmodium)\n+0\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Sar\tx__Alveolata\tp__Apicomplexa\tc__Aconoidasida\to__Haemosporida\tf__Plasmodiidae\tg__Plasmodium\tx__Plasmodium_(Plasmodium)\ts__Plasmodium_knowlesi\n+1\tx__root\tx__cellular_organisms\tk__Eukaryota\tx__Sar\tx__Alveolata\tp__Apicomplexa\tc__Aconoidasida\to__Haemosporida\tf__Plasmodiidae\tg__Plasmodium\tx__Plasmodium_(Plasmodium)\ts__Plasmodium_knowlesi\tx__Plasmodium_knowlesi_strain_H\n' |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/krona.k2.noint.tsv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/krona.k2.noint.tsv Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,36 @@ +24 Unclassified +0 k__Viruses +0 k__Viruses p__Peploviricota +0 k__Viruses p__Peploviricota c__Herviviricetes +0 k__Viruses p__Peploviricota c__Herviviricetes o__Herpesvirales +0 k__Viruses p__Peploviricota c__Herviviricetes o__Herpesvirales f__Herpesviridae +0 k__Viruses p__Peploviricota c__Herviviricetes o__Herpesvirales f__Herpesviridae g__Iltovirus +497 k__Viruses p__Peploviricota c__Herviviricetes o__Herpesvirales f__Herpesviridae g__Iltovirus s__Gallid_alphaherpesvirus_1 +0 k__Viruses p__Negarnaviricota +0 k__Viruses p__Negarnaviricota c__Monjiviricetes +0 k__Viruses p__Negarnaviricota c__Monjiviricetes o__Mononegavirales +0 k__Viruses p__Negarnaviricota c__Monjiviricetes o__Mononegavirales f__Paramyxoviridae +12 k__Viruses p__Negarnaviricota c__Monjiviricetes o__Mononegavirales f__Paramyxoviridae g__Avulavirus +15 k__Viruses p__Negarnaviricota c__Monjiviricetes o__Mononegavirales f__Paramyxoviridae g__Avulavirus s__Goose_paramyxovirus_SF02 +7 k__Viruses p__Negarnaviricota c__Monjiviricetes o__Mononegavirales f__Paramyxoviridae g__Avulavirus s__Avian_avulavirus_1 +1 k__Viruses p__Negarnaviricota c__Monjiviricetes o__Mononegavirales f__Paramyxoviridae g__Avulavirus s__Avian_avulavirus_12 +0 k__Bacteria +0 k__Bacteria p__Proteobacteria +0 k__Bacteria p__Proteobacteria c__Gammaproteobacteria +0 k__Bacteria p__Proteobacteria c__Gammaproteobacteria o__Pseudomonadales +0 k__Bacteria p__Proteobacteria c__Gammaproteobacteria o__Pseudomonadales f__Moraxellaceae +0 k__Bacteria p__Proteobacteria c__Gammaproteobacteria o__Pseudomonadales f__Moraxellaceae g__Acinetobacter +2 k__Bacteria p__Proteobacteria c__Gammaproteobacteria o__Pseudomonadales f__Moraxellaceae g__Acinetobacter s__Acinetobacter_baumannii +0 k__Eukaryota +0 k__Eukaryota p__Chordata +0 k__Eukaryota p__Chordata c__Mammalia +0 k__Eukaryota p__Chordata c__Mammalia o__Primates +0 k__Eukaryota p__Chordata c__Mammalia o__Primates f__Hominidae +0 k__Eukaryota p__Chordata c__Mammalia o__Primates f__Hominidae g__Homo +1 k__Eukaryota p__Chordata c__Mammalia o__Primates f__Hominidae g__Homo s__Homo_sapiens +0 k__Eukaryota p__Apicomplexa +0 k__Eukaryota p__Apicomplexa c__Aconoidasida +0 k__Eukaryota p__Apicomplexa c__Aconoidasida o__Haemosporida +0 k__Eukaryota p__Apicomplexa c__Aconoidasida o__Haemosporida f__Plasmodiidae +0 k__Eukaryota p__Apicomplexa c__Aconoidasida o__Haemosporida f__Plasmodiidae g__Plasmodium +1 k__Eukaryota p__Apicomplexa c__Aconoidasida o__Haemosporida f__Plasmodiidae g__Plasmodium s__Plasmodium_knowlesi |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out1.k1.11176.children.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out1.k1.11176.children.fa Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,20 @@ +>C_II_XVIIIb-87/1 +TTTACCAAGAGTCCCAAATCATGATATATATATTGTCAGTGCTAGGGGGGGCATTGAGGG +ATTATGCCAGAAGCTATGGACAATGATCTCAATTGCTACAATCCAACTTGCTGCAGCAAG +ATCACACTGTCGTGTTGCCTGCATGGTACA +>C_II_XVIIIb-53/1 +CACTCGGATACCCTCATTTGATATGAGTACTACTCACTACTGTTATACTCACAATGTTAT +ACTATCTGGTTGTAGAGATCACTCACACTCACACCAATACTTAGCACTTGGTGTGCTTCG +GGTATCTGCGACAGGGAGGGTATTCTTTTC +>C_II_XVIIIb-37/1 +GGCTGCATTGTTGGCACATGACATAACAGTGTTTTCACTAAGGTCACCTGATATTAGCAC +TAATTTAGATGAGTTTTTGAGGACCTGACTGAGTATTGCTCCGTCTTTGAATATTCGTTT +GCTATATATGAAGAATGTGTCTGACCTGAT +>C_II_XVIIIb-25/1 +ACAAATTTCGGAAGATTGAAAGGAAGATTCAGAGTCACAATACAAGGTATGGAGAATTGT +TCACAAAGCTGTGCACACATATTGAAAAGAAATTGCTAGGATCATCTCGATCTAATAATG +TCCCACGGTCAGAAGAATTCAGTAGCATCC +>C_II_XVIIIb-23/1 +TCACACTGCTGGAGTTTCGATTTTGGGTGTCATCTAAATTGATAGAACGCAGAGTAGAAA +AGAATACCCTCCCTGTCGCAGATACCCGAAGCACACCAAGTGCTAAGTATTGGTGTGAGT +GTGAGTGATCTCTACAACCAGATAGTATAA |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out1.k1.e10386.children.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out1.k1.e10386.children.fa Wed Mar 15 18:18:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,252 @@\n+>C_II_XVIIIb-101/1\n+AGTGACATAGTAATGGGGGAGAGGAGGCGCATTACAGTCTTAGGAACGCAACTTACTTCC\n+TGAAGGGATTGTACTTAGCAATGGTATGTCTCTTCTCTATCTTAGTAGAGGTGACTTCAT\n+GATCAGCGGTCACTGCGACAGCGCGCTGAG\n+>C_II_XVIIIb-99/1\n+ATCCAATCACCCATTAGTCTGCTCTATTAAGTGTTCGCTGACGCTAGCAGACTATGCCCG\n+GAACAGAAGCTGGTCACCTTTGACAGGGGGTAGGAAGATACTAGGCGTATCTAATCCTGA\n+CACCATAGAACTTGTGGAAGGAGAGATTCT\n+>C_II_XVIIIb-97/1\n+TGAGTCATGCATAGAGTACGACCCCATTACCAATCTAAGCATGTTCTTAAAGGACAAGGC\n+AATCGCACATCCGAAAGATAACTGGCTCGCCTCATTCAGGCGGAACCTCCTCTCTGAGGA\n+CCAAAAGAAACAGATAAAAGAGGCGACCTC\n+>C_II_XVIIIb-95/1\n+GTCATATTCCACACTGGAGCTCATGAAAATTCTTTCAATCTCTAGCGGAAAGTTGATCGG\n+CCAATCAGTGGTTTCTTATGATGAAGATACCTCTATAAAGAATGATGCTATAATAGTGTA\n+TGACAACACACGAAATTGGATCAGTGAGGC\n+>C_II_XVIIIb-93/1\n+GTCGCAAGTTGATCTGATAGCCTTTGGTTCGACCCCGGAGGAATCTCAATGTCGCAATGC\n+AGTAATGCTACAGACCTGTGGGGCACTACAGATGTGATATATCCCACTGCTCTATCTGAA\n+GTCAGGTCGCTTTCTTCTGCATTCTCTCTC\n+>C_II_XVIIIb-91/1\n+CTTCGCCTGCCTTCCTGCATTACTATCTAACTTGGTAATAGTCTATCTTGATTGCTTATA\n+GCTAGTTCACCTGTCTATCTAATTAGAAAAAACACGGGTAGAAGAGTCTGGAACCTAACT\n+AGCACATTCTGAACGCAATATGGGCTCCAA\n+>C_II_XVIIIb-89/1\n+GGCTATTGCATGTCGGCCTGATATGGCAGTGGAGAAGGACACTGTCCGTGCATTAATCAC\n+CTCTCGCCCAATGCATCCAAGCTCCTCAGCTAAGCTCCTGAGCAAGCTGGATGCAGCCAG\n+GTCGATTGAAGAGATCAGGAAGATCAAACG\n+>C_II_XVIIIb-87/1\n+TTTACCAAGAGTCCCAAATCATGATATATATATTGTCAGTGCTAGGGGGGGCATTGAGGG\n+ATTATGCCAGAAGCTATGGACAATGATCTCAATTGCTACAATCCAACTTGCTGCAGCAAG\n+ATCACACTGTCGTGTTGCCTGCATGGTACA\n+>C_II_XVIIIb-85/1\n+TAGGTTGAACAAGCTGCAAGGGCACCCAGACGTCGGGGATGGAGAGACCCAATTCCTAGA\n+TTTTATGAGAGCAGTGGCGAACAGCGTGCGAGAAGCGTCAAATCCCGCACAAAACGTCAC\n+CCCTCTAGAGCCTCCCCCAACTCCTGGGCC\n+>C_II_XVIIIb-83/1\n+AGGTAGTTTCCCTTGGCAAGAATCAGCAAGATGCCCTAACTCATGCGTCACTGGAGTCTA\n+TACTGATCCGTATCCCTTAGTCTTCAATCGGAATCATACCCTACGAGGGGTATTCGGGAC\n+AATGCTTGATGATGGACAGGCAAGACTCAA\n+>C_II_XVIIIb-81/1\n+GGCCGCCGGCCCACTGAGTGGGGCCGCCTTCTCGGGTGCGGACGGCTGTTTGTCTGGTCT\n+GGCTTGTTGGTCGGGGGCGTCCTGGCCGGCATTTGATTGGACACTCCCGTGCTTCTCCCA\n+TGCAGTGCTCAGAGCCTTGGTCTTGCCTTG\n+>C_II_XVIIIb-79/1\n+GCTTGTAAAGCATGGACAGAAGATAGTTGCTTGCTCCGGTATTGAGCTGTATGTCGCCGG\n+CCTCGCCTGCAGCCTGGGTGGGAGAGGACTCGGTGGATGTGGCCGGCGGGTCACTGTGTT\n+GGGCCGCCTGCTCGGGTGCGGACGGCTGTT\n+>C_II_XVIIIb-77/1\n+TGCTAGGAAGATGAAAGCACGTAACCTTCTCATCTCCACTGTCACACTTTGTGCACCCTC\n+CACTGACACTGAGAATCTCTCCTTCCACAAGTTCTATGGTGTCAGGATTAGATACGCCTA\n+GTATCTTCCTACCCCCTGTCAAAGGTGACC\n+>C_II_XVIIIb-75/1\n+CAATCTGGATGATAACGGACTAGCGCCCGGAGATGACTTAAGGATGAAATGTTGGCGCAA\n+CCGGGGTCCAGAATTTTCATCATGCCTAAGTTGGCTTCCATGATCGCAACAGATGTTTTA\n+AGCTGTTGGATTTCAGACCGCATCATAGGG\n+>C_II_XVIIIb-73/1\n+CAGACGCGGAATGCTCAGCAGTCACTCAATACCTATTGTCGGATGCTGTGAGACCATTGC\n+TTAGGTCGGAACAAGTGAACTCTATCATATCTCCCAACATAATCACATTTCCCGCCAATC\n+TATATTACATGTCCAGGAAGAGTCTTAATC\n+>C_II_XVIIIb-71/1\n+GGGTTAACTCTGAGGCTCAGGGGAGAATGTGATGCAACTTATCAAAAGGATATCTCAATA\n+TTAGATTCTCAAGTCATCGTGACCGGCAATCTCGTTATATCAACTGAGCTTGGAAATGTC\n+AACAATTCAATAAGCAATGCCTTGGATAAG\n+>C_II_XVIIIb-69/1\n+CTTAAAGCTAGTTCACCTGTCTATCTAATTAGAAAAAACACGGGTAGAAGAGTCTGGAAC\n+CTAACTAGCACATTCTGAACGCAATATGGGCTCCAAACCTTCTACCAGGATTCCAGTACC\n+TCTGATGCTGATCATTCGGACTATGCTGAT\n+>C_II_XVIIIb-67/1\n+CTATCTCGGCATCTGTAGCGGTGGCCATCTTCACACTAATCTACTAGGTAGAAGAGAGAA\n+CAGAGACTTTGGTGACTCGTCCTGGTCTCCAGGTGTCTCCCTTCTACCCGTATTTTTTTC\n+TAATACCTCGGGCTCTGAGTGGATTGTTGG\n+>C_II_XVIIIb-65/1\n+ACCCCCACCTGTTGAGTAGGAATATCCATGCAGCCAATTTCTTCAGACACTCGTTGGGCA\n+GCAGCCGCCAGACCTCTCCTTGCTGCCGGAGTCAGTTTTAGTTCAGCAGCCATGTCTTCA\n+TTGATGCTACTTCCCTGAGCCTGAGCATAC\n+>C_II_XVIIIb-63/1\n+GTATGATCCTAGGCCTACGTCAGAAAAGGATCGTGCAAGATTCGACTTAGCTATCTTCAA\n+GAGTTATGAGCTTAATTTGGAGTCATATTCCACACTGGAGCTGATGAACATTCTTTCAAT\n+CTCTAGCGGAAAGTTGATCGGCCAATCAGT\n+>C_II_XVIIIb-61/1\n+GCTGATGAACATTTTGACAATCCCTATCGGAACGTTGATCGGCCAATCAGTGGTTTCTTA\n+TGATGAAGATCCCTCTATAAAGAATGATGCTATAATAGTGTATGACAACACACGAAATTG\n+GATCAGTGAGGCCCAGAATTCAGATGTGGT\n+>C_II_XVIIIb-59/1\n+TACCACAAGAGTTCATCTGCCCTCGAATTTGAGACATGCATAGAGTATGACCCCGTTACC\n+AATCTAAGCATGTTCTTAAAGGACAAGGCAATCGCACATCCGAAAGATAACTGGCTCGCC\n+TCATTCAGGCGGAACCTCCTCTCTGAGGAC\n+>C_II_XVIIIb-57/1\n+CGGGAGCCCAGTTAATTTCCAGTAATAGAGCAACTTGTGCTTGACCAATGGAGAGGATAG\n+ATGTGACTCTGGTAGGATAATCTGGTGCTCTGCCCTTTCGGGACCAGA'..b'TATAA\n+>C_II_XVIIIb-21/1\n+TTCTCTGAACGTTCGACCCGTAGATTGCTGCTTAGTTTCTTATACCCGTCAGTTTTTTCT\n+TGAGTTTTCGATCTGACAGGCTGTCAGAATTGACATACAGGCTGCTGCTGTATGTGCATC\n+CAATTCTCATTTGCGGTCATGCTCTTGTAT\n+>C_II_XVIIIb-19/1\n+GGCACAGACGCGAACAGAGCTTGTCATGGACTATGGAAGGAGTCACAACCATCAGCTGGT\n+GCAACCCCTCATGTGCCCCAGTCAGGGCAGAACCAAGACAATACTCCTGCACCTGTGGAT\n+CATGTCCAGCTACCTGTCGACTTTGTGCAA\n+>C_II_XVIIIb-17/1\n+GAATTTGAATCTGTGAGGCCCAGAATTCAGATGTGGTCCGCTTATTCGAATATGCGGCAC\n+TCGAGGTGCTCCTTGACTGTTCTTACCAACTCTACTATCTGAGAGTGAGAGGCCTAAACA\n+ACATCGTCTTATACATGAGTGACCTATACA\n+>C_II_XVIIIb-15/1\n+TGAGCCGCGATCTTAAAAGCCGAGGATAAGTTCACGACTTTGCTCAGTTCTAGCCAAGAT\n+GTGACAGATAGGATATATAAACAGGTGGCTCTTGAATCTCCGCTAGCGCTACTAAACACC\n+GAATCTATAATTATGAATGCAATAACATCC\n+>C_II_XVIIIb-13/1\n+CCTCACAGTAGCGTCTTGTGAACGACATTCTATCCAGTCCCCTACCGAGGCTGATGAAGT\n+TCTTGGGAGAAAATATTGATGCTGCACTGATCGCAGCAGGGGGACAGCCCGTCCGTCCCT\n+TTTGTGCAGAAAGTTTGGTGAGCACACTAA\n+>C_II_XVIIIb-11/1\n+TGTGCACGGTTTAATTGACGTCATCTTTTTCCCGTCTGTAGAGAGGTTATAAGGAGTAAA\n+TAAGAATACTGTGTCAGCAAGGTCCCCCTCGGCATCCATGTAGATCACAGATCTAATGAC\n+TGTGTCAATGTGGCTGGCAATTATCTGAGT\n+>C_II_XVIIIb-9/1\n+GACTAATCATGTCAGTGTCGTTAGACTGTGCCTACCCGGCAGCACGGGATCTGGGCTTGT\n+GTTGATATTCAGTTTGACTCTTGGCATCGCGAAAGATATTCAGTGCCACATCATTCTTCC\n+AGCCGTCCTATGGCTGACTCAATTGGCTGG\n+>C_II_XVIIIb-7/1\n+GCCATGGTGATTAAGCAGTTCCTAATCCTCTGAACAAGTATCGTACTAAGTAATCTTCCT\n+TTGGGTTTGGTAGTGTGTGCTCGGGGCAAATCTCGCTAAGCGTAAATGCATCATACCTTG\n+CTGGAGCAGTCAAATCTAGCTCTTGTATAA\n+>C_II_XVIIIb-5/1\n+TAGAAACTATTATAGCATCATTGTTTTTATAGGTATCTTCATCATAAGAAACCACTGATT\n+GGCCGATCAACTTTCCGCTAGAGATTGAAAGAATGTTCATCAGCTCCAGTGTGGAATATG\n+ACTCCAAATTAAGCTCATAACTCTTGAAGA\n+>C_II_XVIIIb-3/1\n+CAGATAAAAGAGACGACCCTAACTTATCGCCTCTTGATTGAGTTTTTAGAATCAAATGAT\n+TTTGATCCATACAAGGAGATGGAATACTTGACAACCCTTGAGTACCTAAGAGATGACAGT\n+GTGGCAGTATCATATTCACTTAAAGAGAAG\n+>C_II_XVIIIb-1/1\n+CTTGCTCATTGGCTCATGATTGCGGTTTGTGGAAACTCTCTCTTTGCAGTCGGTGATACG\n+TTTCTTATTGCTGTTGAAGGACAGTTGACTCATTGCCAACATACTCTTAGTCAAGGATAT\n+GCTATCTTGAATGACCCCATTTCCTTGGAA\n+>HQ630064-957/1\n+CAAAGCAAATTTTGTAGCTTAAGATAAAGGGGGCCCTAAAGAAGAAGCAACATCGTCTCG\n+GGCTGTGTTTCCGACGTTGGGGTGCATTATGCGATTTTACTACCAGTGTTTGGTGTGGTG\n+TGGTAAGGGGAAATGAGACGAGAATTTTTC\n+>HQ630064-665/1\n+CCCCGGGAGCTTTTTAGCGCGGCGTCACGTATAAATGCACAGAAGCTTCGTCAGTAACGA\n+AGCGCCTCTGCCAGAGTTATTAACATTAGGACTCGAGAGAGTCTCGAGAAGAGACTTCCC\n+AAAGAGAGTGCCGCTTTGATCTCCAGATCA\n+>HQ630064-403/1\n+TGTCTACCTGTCTGTCAAATTGTGACTACCACGTACCAACTCCTCCCCAAAGTTCTACCC\n+TTTTCCTTAAAAACACATTTAAAATGTCAAAATACCGATCCTTATATTTGTGTGTTATGT\n+TTTCTTTTGCCTTCTAGGATTGATTGAATT\n+>HQ630064-343/1\n+ACGAAAGAAAGAAAGGAAAAGGCCTCAAAGTTAATTTTGTAGCTTAAAAAAGAGGGGGCC\n+CTAAAGAAGAAGCAACATCGTCTCGGGCTGTGTTTCCGACGTTGGGGTGCATTATGCGAT\n+TTTACTACCAGTGTTTGGTGTGGTGTGGTA\n+>HQ630064-307/1\n+TCGTGTGTTTGCTCGCGTGCTTTGGATGTTGGGATGAGGCCTTGGTGTTGCCAGGCTCCG\n+GTTTCTTAAAGGTTATCCGAGGGGGAAGTTCCACGTGTTCTTTTAGCTTTTCTCCATATT\n+CCGGTCTACGGGTACAAATGTCCTCTGGAT\n+>HQ630064-241/1\n+CGTGACCTCATTTACAAGATGTCGGTGGCACCCAGCTACGTCACGTTCGCACCGAGGGTC\n+CAACATTTTCCTAAAATGGCAAAGCGGGACTTGGGTCCGTGGGTAAATTTTCTAATTTTT\n+TCCCACGGTCTGTCGCAAGAGCGTATTCTC\n+>HQ630064-217/1\n+AACTTTGGGGAGGAATTGGTACGTGGTAGACACAATTTGACAGACAGGTAGACAGACAAC\n+GAATTACAAGCGGCCTAGGGTAATAGCGCTGAGCCCATGATGTGTCCGTGCATATGAGAC\n+GACTAATAAGGTAGTCACGTAAACCCCCGT\n+>HQ630064-199/1\n+AGAAGCAGTATTGTGATCTTTCTCTCTTTCGCATGAATCGCTAGGAAGAGGAATTTTGGA\n+AGCATCTGGATACCTTACAGGAGATTTAGAAATCTCGGTAGTTATGACATGTTCATCAGA\n+TGAGGAAGATAGCAAGCGTGACGGTGTTTT\n+>HQ630064-111/1\n+GTGTCTCCGAGTTGTGCTCTCTCGAAACTCACTTTGCCCTCACTTGTTGGCTTTATGGAG\n+GTCGTAATGATCATCGATGGAGTACTTATATAATATTGTGCTCTGCCGGCCATCTCTCCG\n+TGGTCGCAGAACTCCAACACCTTGTTGGCG\n+>HQ630064-105/1\n+AGTTTAAACTTTGTCCGCGCGCCAATCTTGAAGTGATATTAGGACATAGTCAACCAACCG\n+ACGTACGTTGAACCATTTGCGGGCAGCGCTGAGGGAAGACGAGATGTATGGACAACACAA\n+CGACCGGAGAAGAGGGCGTAAAGAACATCA\n+>HQ630064-11/1\n+GAAAGAAAGAAAGGAAAAGGCCTCAAAGCAAATTTTGTAGCTTAAAAAAGAGGGGGCCCT\n+AAAGAAGAAGCAACATCGTCTCGGGCTGTGTTTCCGACGTTGGGGTGCATTATGCGATTT\n+TACTACCAGTGTTTGGTGTGGTGTGGTAAG\n+>HQ630064-3/1\n+AGGACTGTCGCTCATATCTTGCGTACTGTGTCTTATTTACTCGTGTTGTCTTTCCGCAGG\n+GAATGCGCGGTTCGAGTAGGCCGTGGTTTGCGGCCGTTCTCGGATAAGCACAAAATATCG\n+CCCTACTCGTGTGTCAAAAAGGAAAAGTCT\n' |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out1.k2.11176.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out1.k2.11176.fa Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,28 @@ +>C_II_XVIIIb-65/1 +ACCCCCACCTGTTGAGTAGGAATATCCATGCAGCCAATTTCTTCAGACACTCGTTGGGCA +GCAGCCGCCAGACCTCTCCTTGCTGCCGGAGTCAGTTTTAGTTCAGCAGCCATGTCTTCA +TTGATGCTACTTCCCTGAGCCTGAGCATAC +>C_II_XVIIIb-57/1 +CGGGAGCCCAGTTAATTTCCAGTAATAGAGCAACTTGTGCTTGACCAATGGAGAGGATAG +ATGTGACTCTGGTAGGATAATCTGGTGCTCTGCCCTTTCGGGACCAGAGCCTGCCATGTC +CTACCCGTGCTTTCTTTTGTGTGTTGGTTT +>C_II_XVIIIb-49/1 +ATTTAGATCCATACAATGAGATGGAATCTTTGACAACCCTTGAGTACCTAAGAGATGACA +GTGTGGCAGTATCATATTCACTTAAAGAGAAGGAGGTGAAAGTGAATGGGCGAATTTTTG +CTAAGTTGACAAAGAAGCTAAGGAACTGCC +>C_II_XVIIIb-45/1 +GAGAAGATAGTTGATTGGTGTGTGATTGCCTGTAAGAGTCATTGTTACTGTAATATCCCT +TTGCTGCATTACCTATGGTTTTCATGTAGAATTTTTGTTGAGCACGAGTTAAATAGAGTG +AAGAGGTATCTGTAAATATTTCTTTGAGTT +>C_II_XVIIIb-17/1 +GAATTTGAATCTGTGAGGCCCAGAATTCAGATGTGGTCCGCTTATTCGAATATGCGGCAC +TCGAGGTGCTCCTTGACTGTTCTTACCAACTCTACTATCTGAGAGTGAGAGGCCTAAACA +ACATCGTCTTATACATGAGTGACCTATACA +>C_II_XVIIIb-9/1 +GACTAATCATGTCAGTGTCGTTAGACTGTGCCTACCCGGCAGCACGGGATCTGGGCTTGT +GTTGATATTCAGTTTGACTCTTGGCATCGCGAAAGATATTCAGTGCCACATCATTCTTCC +AGCCGTCCTATGGCTGACTCAATTGGCTGG +>C_II_XVIIIb-1/1 +CTTGCTCATTGGCTCATGATTGCGGTTTGTGGAAACTCTCTCTTTGCAGTCGGTGATACG +TTTCTTATTGCTGTTGAAGGACAGTTGACTCATTGCCAACATACTCTTAGTCAAGGATAT +GCTATCTTGAATGACCCCATTTCCTTGGAA |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out1.k2.11176.fq --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out1.k2.11176.fq Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,28 @@ +@C_II_XVIIIb-65/1 +ACCCCCACCTGTTGAGTAGGAATATCCATGCAGCCAATTTCTTCAGACACTCGTTGGGCAGCAGCCGCCAGACCTCTCCTTGCTGCCGGAGTCAGTTTTAGTTCAGCAGCCATGTCTTCATTGATGCTACTTCCCTGAGCCTGAGCATAC ++ +G9;G*GGG3GGG*GGF+G#GFG*<G#GD,EB#GGGGFGGGGC8GCG:FGDGFC5G7AGGFGGGGFEGGGGCGDE@G>DGGGGFGGGGGG77FGGG,GGGGFGCGGFG>GGGGCFGGAGGG7GGGGGGGGGGGEGGEGGF<EFGGGF,GFG +@C_II_XVIIIb-57/1 +CGGGAGCCCAGTTAATTTCCAGTAATAGAGCAACTTGTGCTTGACCAATGGAGAGGATAGATGTGACTCTGGTAGGATAATCTGGTGCTCTGCCCTTTCGGGACCAGAGCCTGCCATGTCCTACCCGTGCTTTCTTTTGTGTGTTGGTTT ++ +FGGGF#GFEGGGG,FE,GGGFGCGGGEG+FCGE#?G:EEGA9FGEGDGGCDFGGGGFF<GGGC:GGGGGD7GFGGGFG*A7EGGGFG@GGGFGGGGEFGGGGGGGGFGGFGGGCGFGGGGGGGGGGGGGGGGGG:GGGGGGGGGGGFGGG +@C_II_XVIIIb-49/1 +ATTTAGATCCATACAATGAGATGGAATCTTTGACAACCCTTGAGTACCTAAGAGATGACAGTGTGGCAGTATCATATTCACTTAAAGAGAAGGAGGTGAAAGTGAATGGGCGAATTTTTGCTAAGTTGACAAAGAAGCTAAGGAACTGCC ++ +CGG9#G<:AG:GG?G@#0E#6:EGGGF##G=GGGGGG=GG<CFGGGDGCGGGG9GGGGGG7CFGGCEGFCFGFGFGGGGGD+C9=CGGGGGGGGFGGGFFGGGGCGGGG9GG<GGCGGGFGGGEEC,EGGG@GCGGCGGGGGGGGCGFGG +@C_II_XVIIIb-45/1 +GAGAAGATAGTTGATTGGTGTGTGATTGCCTGTAAGAGTCATTGTTACTGTAATATCCCTTTGCTGCATTACCTATGGTTTTCATGTAGAATTTTTGTTGAGCACGAGTTAAATAGAGTGAAGAGGTATCTGTAAATATTTCTTTGAGTT ++ +GGGGFGFDG>:FGFF*;GCGG#?GGEGFEGC#G<G<GEGGGGFGFGGGGGFGGGFG1C+G9FGGGFGGGGFECGGGGCGC+GGGG9G+DGGFGGGGGGGGCCDFGGGCGGFG:GG4*F8EGGGGGG7GDGGG7GGGGFGGGCGG=E,=G< +@C_II_XVIIIb-17/1 +GAATTTGAATCTGTGAGGCCCAGAATTCAGATGTGGTCCGCTTATTCGAATATGCGGCACTCGAGGTGCTCCTTGACTGTTCTTACCAACTCTACTATCTGAGAGTGAGAGGCCTAAACAACATCGTCTTATACATGAGTGACCTATACA ++ +GEG#*#F#GGG*G=EG9GG*FGE#GGGGCFGCGFE9GGCGG+GFF5EGG*GDG@EGGGEGG6FFGGGGGGGEG?GGCGGGGF<GGFGGFGGGGFACGG@GCGGGGFGG4FGGGGGGGGGGGG9C?CFGGGGGGEGGGGFGGGF:GGGGGG +@C_II_XVIIIb-9/1 +GACTAATCATGTCAGTGTCGTTAGACTGTGCCTACCCGGCAGCACGGGATCTGGGCTTGTGTTGATATTCAGTTTGACTCTTGGCATCGCGAAAGATATTCAGTGCCACATCATTCTTCCAGCCGTCCTATGGCTGACTCAATTGGCTGG ++ +ECGGGF1CG:5GCG?)G>#GG6EFE#GG58#GGGFGGGGCGCGFBCGGGGGFGDG@FGGGGGCFGGGCFGFD8CGDFGDGGGACDGFGFGGGG:FGG>GGGG>GGGCFGG4GGCBGGGGFFGEGGGGGGGGGGGGGGGGGGGG:GGGGGG +@C_II_XVIIIb-1/1 +CTTGCTCATTGGCTCATGATTGCGGTTTGTGGAAACTCTCTCTTTGCAGTCGGTGATACGTTTCTTATTGCTGTTGAAGGACAGTTGACTCATTGCCAACATACTCTTAGTCAAGGATATGCTATCTTGAATGACCCCATTTCCTTGGAA ++ +GFFGG@G#G#GG#GGGC;EGGGGGGE#FG#+GGGGG*GGGGDGGGFCFGG8CCGG1FGGEGGGFGGGGGF*GGGCGGFGGGGG/GF:EGGGGFF@GGG*GE+DGGGFGGCGGGGGGGG@GDGGGGG,GF,CG4FFGGGGFGGGGCFGGGG |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out1.k2.11176.max2.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out1.k2.11176.max2.fa Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,8 @@ +>C_II_XVIIIb-65/1 +ACCCCCACCTGTTGAGTAGGAATATCCATGCAGCCAATTTCTTCAGACACTCGTTGGGCA +GCAGCCGCCAGACCTCTCCTTGCTGCCGGAGTCAGTTTTAGTTCAGCAGCCATGTCTTCA +TTGATGCTACTTCCCTGAGCCTGAGCATAC +>C_II_XVIIIb-57/1 +CGGGAGCCCAGTTAATTTCCAGTAATAGAGCAACTTGTGCTTGACCAATGGAGAGGATAG +ATGTGACTCTGGTAGGATAATCTGGTGCTCTGCCCTTTCGGGACCAGAGCCTGCCATGTC +CTACCCGTGCTTTCTTTTGTGTGTTGGTTT |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out1.k2.11176.parents.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out1.k2.11176.parents.fa Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,76 @@ +>C_II_XVIIIb-99/1 +ATCCAATCACCCATTAGTCTGCTCTATTAAGTGTTCGCTGACGCTAGCAGACTATGCCCG +GAACAGAAGCTGGTCACCTTTGACAGGGGGTAGGAAGATACTAGGCGTATCTAATCCTGA +CACCATAGAACTTGTGGAAGGAGAGATTCT +>C_II_XVIIIb-97/1 +TGAGTCATGCATAGAGTACGACCCCATTACCAATCTAAGCATGTTCTTAAAGGACAAGGC +AATCGCACATCCGAAAGATAACTGGCTCGCCTCATTCAGGCGGAACCTCCTCTCTGAGGA +CCAAAAGAAACAGATAAAAGAGGCGACCTC +>C_II_XVIIIb-93/1 +GTCGCAAGTTGATCTGATAGCCTTTGGTTCGACCCCGGAGGAATCTCAATGTCGCAATGC +AGTAATGCTACAGACCTGTGGGGCACTACAGATGTGATATATCCCACTGCTCTATCTGAA +GTCAGGTCGCTTTCTTCTGCATTCTCTCTC +>C_II_XVIIIb-87/1 +TTTACCAAGAGTCCCAAATCATGATATATATATTGTCAGTGCTAGGGGGGGCATTGAGGG +ATTATGCCAGAAGCTATGGACAATGATCTCAATTGCTACAATCCAACTTGCTGCAGCAAG +ATCACACTGTCGTGTTGCCTGCATGGTACA +>C_II_XVIIIb-85/1 +TAGGTTGAACAAGCTGCAAGGGCACCCAGACGTCGGGGATGGAGAGACCCAATTCCTAGA +TTTTATGAGAGCAGTGGCGAACAGCGTGCGAGAAGCGTCAAATCCCGCACAAAACGTCAC +CCCTCTAGAGCCTCCCCCAACTCCTGGGCC +>C_II_XVIIIb-75/1 +CAATCTGGATGATAACGGACTAGCGCCCGGAGATGACTTAAGGATGAAATGTTGGCGCAA +CCGGGGTCCAGAATTTTCATCATGCCTAAGTTGGCTTCCATGATCGCAACAGATGTTTTA +AGCTGTTGGATTTCAGACCGCATCATAGGG +>C_II_XVIIIb-65/1 +ACCCCCACCTGTTGAGTAGGAATATCCATGCAGCCAATTTCTTCAGACACTCGTTGGGCA +GCAGCCGCCAGACCTCTCCTTGCTGCCGGAGTCAGTTTTAGTTCAGCAGCCATGTCTTCA +TTGATGCTACTTCCCTGAGCCTGAGCATAC +>C_II_XVIIIb-57/1 +CGGGAGCCCAGTTAATTTCCAGTAATAGAGCAACTTGTGCTTGACCAATGGAGAGGATAG +ATGTGACTCTGGTAGGATAATCTGGTGCTCTGCCCTTTCGGGACCAGAGCCTGCCATGTC +CTACCCGTGCTTTCTTTTGTGTGTTGGTTT +>C_II_XVIIIb-49/1 +ATTTAGATCCATACAATGAGATGGAATCTTTGACAACCCTTGAGTACCTAAGAGATGACA +GTGTGGCAGTATCATATTCACTTAAAGAGAAGGAGGTGAAAGTGAATGGGCGAATTTTTG +CTAAGTTGACAAAGAAGCTAAGGAACTGCC +>C_II_XVIIIb-45/1 +GAGAAGATAGTTGATTGGTGTGTGATTGCCTGTAAGAGTCATTGTTACTGTAATATCCCT +TTGCTGCATTACCTATGGTTTTCATGTAGAATTTTTGTTGAGCACGAGTTAAATAGAGTG +AAGAGGTATCTGTAAATATTTCTTTGAGTT +>C_II_XVIIIb-43/1 +CCAGATAGTATAACATTGTGAGGATAACAGTAGTGAGTAGTACTCATATCAAATGAGGGT +ATCCGAGTGCAACCAGACCCTGTAGTAGGGGCCGGGATAAAATTCAAGTGTTCTTGATAT +GCGGAAGGATAAAATGATGTGACATCACTG +>C_II_XVIIIb-33/1 +TCCGAACCCAGCATATTCTGGAATATGGAAACAGTCACAACCATCAGCTGGTGCAACCCC +TCATGTGCCCCAGTCAGGGCAGAACCAAGACAATACTCCTGCACCTGTGGATCATGTCCA +GCTACCTGTCGACTTTGTGCAAATGATGAT +>C_II_XVIIIb-29/1 +TTTCCATGCTTGACAAGCTGAGCAATAATTCGTCCAATGCTAAAAAGGGCCCAAGGTCAG +GCCCCCAAGAAGGGCACCATCAACCTCCGGTCCCACAACAAGGGAACCAGCCGAGCCATG +GAAGCAACCAGGAAAGACCGCAGCACCAGG +>C_II_XVIIIb-19/1 +GGCACAGACGCGAACAGAGCTTGTCATGGACTATGGAAGGAGTCACAACCATCAGCTGGT +GCAACCCCTCATGTGCCCCAGTCAGGGCAGAACCAAGACAATACTCCTGCACCTGTGGAT +CATGTCCAGCTACCTGTCGACTTTGTGCAA +>C_II_XVIIIb-17/1 +GAATTTGAATCTGTGAGGCCCAGAATTCAGATGTGGTCCGCTTATTCGAATATGCGGCAC +TCGAGGTGCTCCTTGACTGTTCTTACCAACTCTACTATCTGAGAGTGAGAGGCCTAAACA +ACATCGTCTTATACATGAGTGACCTATACA +>C_II_XVIIIb-9/1 +GACTAATCATGTCAGTGTCGTTAGACTGTGCCTACCCGGCAGCACGGGATCTGGGCTTGT +GTTGATATTCAGTTTGACTCTTGGCATCGCGAAAGATATTCAGTGCCACATCATTCTTCC +AGCCGTCCTATGGCTGACTCAATTGGCTGG +>C_II_XVIIIb-5/1 +TAGAAACTATTATAGCATCATTGTTTTTATAGGTATCTTCATCATAAGAAACCACTGATT +GGCCGATCAACTTTCCGCTAGAGATTGAAAGAATGTTCATCAGCTCCAGTGTGGAATATG +ACTCCAAATTAAGCTCATAACTCTTGAAGA +>C_II_XVIIIb-3/1 +CAGATAAAAGAGACGACCCTAACTTATCGCCTCTTGATTGAGTTTTTAGAATCAAATGAT +TTTGATCCATACAAGGAGATGGAATACTTGACAACCCTTGAGTACCTAAGAGATGACAGT +GTGGCAGTATCATATTCACTTAAAGAGAAG +>C_II_XVIIIb-1/1 +CTTGCTCATTGGCTCATGATTGCGGTTTGTGGAAACTCTCTCTTTGCAGTCGGTGATACG +TTTCTTATTGCTGTTGAAGGACAGTTGACTCATTGCCAACATACTCTTAGTCAAGGATAT +GCTATCTTGAATGACCCCATTTCCTTGGAA |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out1.k2.exclude_both.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out1.k2.exclude_both.fa Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,176 @@ +>C_II_XVIIIb-101/1 +AGTGACATAGTAATGGGGGAGAGGAGGCGCATTACAGTCTTAGGAACGCAACTTACTTCC +TGAAGGGATTGTACTTAGCAATGGTATGTCTCTTCTCTATCTTAGTAGAGGTGACTTCAT +GATCAGCGGTCACTGCGACAGCGCGCTGAG +>C_II_XVIIIb-95/1 +GTCATATTCCACACTGGAGCTCATGAAAATTCTTTCAATCTCTAGCGGAAAGTTGATCGG +CCAATCAGTGGTTTCTTATGATGAAGATACCTCTATAAAGAATGATGCTATAATAGTGTA +TGACAACACACGAAATTGGATCAGTGAGGC +>C_II_XVIIIb-91/1 +CTTCGCCTGCCTTCCTGCATTACTATCTAACTTGGTAATAGTCTATCTTGATTGCTTATA +GCTAGTTCACCTGTCTATCTAATTAGAAAAAACACGGGTAGAAGAGTCTGGAACCTAACT +AGCACATTCTGAACGCAATATGGGCTCCAA +>C_II_XVIIIb-89/1 +GGCTATTGCATGTCGGCCTGATATGGCAGTGGAGAAGGACACTGTCCGTGCATTAATCAC +CTCTCGCCCAATGCATCCAAGCTCCTCAGCTAAGCTCCTGAGCAAGCTGGATGCAGCCAG +GTCGATTGAAGAGATCAGGAAGATCAAACG +>C_II_XVIIIb-83/1 +AGGTAGTTTCCCTTGGCAAGAATCAGCAAGATGCCCTAACTCATGCGTCACTGGAGTCTA +TACTGATCCGTATCCCTTAGTCTTCAATCGGAATCATACCCTACGAGGGGTATTCGGGAC +AATGCTTGATGATGGACAGGCAAGACTCAA +>C_II_XVIIIb-81/1 +GGCCGCCGGCCCACTGAGTGGGGCCGCCTTCTCGGGTGCGGACGGCTGTTTGTCTGGTCT +GGCTTGTTGGTCGGGGGCGTCCTGGCCGGCATTTGATTGGACACTCCCGTGCTTCTCCCA +TGCAGTGCTCAGAGCCTTGGTCTTGCCTTG +>C_II_XVIIIb-79/1 +GCTTGTAAAGCATGGACAGAAGATAGTTGCTTGCTCCGGTATTGAGCTGTATGTCGCCGG +CCTCGCCTGCAGCCTGGGTGGGAGAGGACTCGGTGGATGTGGCCGGCGGGTCACTGTGTT +GGGCCGCCTGCTCGGGTGCGGACGGCTGTT +>C_II_XVIIIb-77/1 +TGCTAGGAAGATGAAAGCACGTAACCTTCTCATCTCCACTGTCACACTTTGTGCACCCTC +CACTGACACTGAGAATCTCTCCTTCCACAAGTTCTATGGTGTCAGGATTAGATACGCCTA +GTATCTTCCTACCCCCTGTCAAAGGTGACC +>C_II_XVIIIb-73/1 +CAGACGCGGAATGCTCAGCAGTCACTCAATACCTATTGTCGGATGCTGTGAGACCATTGC +TTAGGTCGGAACAAGTGAACTCTATCATATCTCCCAACATAATCACATTTCCCGCCAATC +TATATTACATGTCCAGGAAGAGTCTTAATC +>C_II_XVIIIb-71/1 +GGGTTAACTCTGAGGCTCAGGGGAGAATGTGATGCAACTTATCAAAAGGATATCTCAATA +TTAGATTCTCAAGTCATCGTGACCGGCAATCTCGTTATATCAACTGAGCTTGGAAATGTC +AACAATTCAATAAGCAATGCCTTGGATAAG +>C_II_XVIIIb-69/1 +CTTAAAGCTAGTTCACCTGTCTATCTAATTAGAAAAAACACGGGTAGAAGAGTCTGGAAC +CTAACTAGCACATTCTGAACGCAATATGGGCTCCAAACCTTCTACCAGGATTCCAGTACC +TCTGATGCTGATCATTCGGACTATGCTGAT +>C_II_XVIIIb-67/1 +CTATCTCGGCATCTGTAGCGGTGGCCATCTTCACACTAATCTACTAGGTAGAAGAGAGAA +CAGAGACTTTGGTGACTCGTCCTGGTCTCCAGGTGTCTCCCTTCTACCCGTATTTTTTTC +TAATACCTCGGGCTCTGAGTGGATTGTTGG +>C_II_XVIIIb-63/1 +GTATGATCCTAGGCCTACGTCAGAAAAGGATCGTGCAAGATTCGACTTAGCTATCTTCAA +GAGTTATGAGCTTAATTTGGAGTCATATTCCACACTGGAGCTGATGAACATTCTTTCAAT +CTCTAGCGGAAAGTTGATCGGCCAATCAGT +>C_II_XVIIIb-61/1 +GCTGATGAACATTTTGACAATCCCTATCGGAACGTTGATCGGCCAATCAGTGGTTTCTTA +TGATGAAGATCCCTCTATAAAGAATGATGCTATAATAGTGTATGACAACACACGAAATTG +GATCAGTGAGGCCCAGAATTCAGATGTGGT +>C_II_XVIIIb-59/1 +TACCACAAGAGTTCATCTGCCCTCGAATTTGAGACATGCATAGAGTATGACCCCGTTACC +AATCTAAGCATGTTCTTAAAGGACAAGGCAATCGCACATCCGAAAGATAACTGGCTCGCC +TCATTCAGGCGGAACCTCCTCTCTGAGGAC +>C_II_XVIIIb-55/1 +AAGTGATCTCCGGGCGATAGTCCGATCTCATCAAGTTTTAATTTCGGGCCCTGGAGACCC +ATCTCCTTATGTGACACAAGGGGGTGAAATGACACTCAATAAACTCTCACAACCGGTACA +GCACCCTTCAGAGCTAGTTAAATCTGCTAC +>C_II_XVIIIb-53/1 +CACTCGGATACCCTCATTTGATATGAGTACTACTCACTACTGTTATACTCACAATGTTAT +ACTATCTGGTTGTAGAGATCACTCACACTCACACCAATACTTAGCACTTGGTGTGCTTCG +GGTATCTGCGACAGGGAGGGTATTCTTTTC +>C_II_XVIIIb-51/1 +GATCCGATCTCGTGTGTTGTCATACACTATTATAGCATCATTCTTTATAGAGGTATCTTC +ATCATAAGAGACCACTGATTGGCCGATCAACTTTCCGCTAGAGATTGAAAGAATGTTCAT +CAGCTCCAGTGTGGAATATGACTCCAAATT +>C_II_XVIIIb-47/1 +ATAACCTGTGGCTCTGCCCTGTCGGGACTAGAGCCTGCCATGTCCTACCCGTGCTTTCTT +TTGTGTGTTGGTTTCCTTTATATCTCAATGCTTTTTTTATTTTTTCTTAATAAAGTGGCC +AAAAACAGGACTCAGACTAATCATGTCAGT +>C_II_XVIIIb-41/1 +ACTTAGGCATGATGGAAAATCGCGACGCCGGCGGCGCCAACATTTCATCCTTAAGTGATC +TCCGGGCGGTAGCCCGATCTCATCCAGTTTTAATTTCGGGCCCTGGAGACCCATCTCCTT +ATGTGACACAAGGGGGTGAAATGACACTCA +>C_II_XVIIIb-39/1 +TCCTCAGGGAGGAGGTTTCGCCTGAATGAGGCGAGCCAGTTATCTTTCGGATGTGCGATT +GCCTTGTCCTTTAAGAACATGCTTAGATTGGTAACGGGGTCATACTCTATGCATGGCTCA +AATTCGAGGGCAGATAAACTCTTGTACTCT +>C_II_XVIIIb-37/1 +GGCTGCATTGTTGGCACATGACATAACAGTGTTTTCACTAAGGTCACCTGATATTAGCAC +TAATTTAGATGAGTTTTTGAGGACCTGACTGAGTATTGCTCCGTCTTTGAATATTCGTTT +GCTATATATGAAGAATGTGTCTGACCTGAT +>C_II_XVIIIb-35/1 +GCGCTAGGCCGAAGCTCGAATCTTAGGGCACCTTCTACCGATATGTTGTCTGTCTTCGAC +GAATACGAGCAGCTCCTCGCTGCCCAGACCCGTCCTAACGGAACTCACGGAGGAGGAGAG +AAAGGGAGCACTTTAAAAGTTGAAGTCCCA +>C_II_XVIIIb-31/1 +GCAGAAGTCAGGCGAATAGAAGAAGTGGGGGTGCTAAGTCCTAGTATTATGACCAACATC +TTAACTAGGCCACCAGGCAATGGAGACTGGGCCAGCCTGTGCAACGACCCTTATTCCTTT +AACTTTGAGACTGTTGCAAGCCCAAATATT +>C_II_XVIIIb-27/1 +CACAGAGACAGATTAGCAGCCAGCTGAGCTAATAGACTTTGGTTAGACCCCGGAGGAATC +TCAACGTCGCAATGCAGTAATGCTACAGACCTGTGGGGCACTACAGATGTGATATATCCC +ACTGCTCTATCTGAAGTCAGGTCGCTTTCT +>C_II_XVIIIb-25/1 +ACAAATTTCGGAAGATTGAAAGGAAGATTCAGAGTCACAATACAAGGTATGGAGAATTGT +TCACAAAGCTGTGCACACATATTGAAAAGAAATTGCTAGGATCATCTCGATCTAATAATG +TCCCACGGTCAGAAGAATTCAGTAGCATCC +>C_II_XVIIIb-23/1 +TCACACTGCTGGAGTTTCGATTTTGGGTGTCATCTAAATTGATAGAACGCAGAGTAGAAA +AGAATACCCTCCCTGTCGCAGATACCCGAAGCACACCAAGTGCTAAGTATTGGTGTGAGT +GTGAGTGATCTCTACAACCAGATAGTATAA +>C_II_XVIIIb-21/1 +TTCTCTGAACGTTCGACCCGTAGATTGCTGCTTAGTTTCTTATACCCGTCAGTTTTTTCT +TGAGTTTTCGATCTGACAGGCTGTCAGAATTGACATACAGGCTGCTGCTGTATGTGCATC +CAATTCTCATTTGCGGTCATGCTCTTGTAT +>C_II_XVIIIb-15/1 +TGAGCCGCGATCTTAAAAGCCGAGGATAAGTTCACGACTTTGCTCAGTTCTAGCCAAGAT +GTGACAGATAGGATATATAAACAGGTGGCTCTTGAATCTCCGCTAGCGCTACTAAACACC +GAATCTATAATTATGAATGCAATAACATCC +>C_II_XVIIIb-13/1 +CCTCACAGTAGCGTCTTGTGAACGACATTCTATCCAGTCCCCTACCGAGGCTGATGAAGT +TCTTGGGAGAAAATATTGATGCTGCACTGATCGCAGCAGGGGGACAGCCCGTCCGTCCCT +TTTGTGCAGAAAGTTTGGTGAGCACACTAA +>C_II_XVIIIb-11/1 +TGTGCACGGTTTAATTGACGTCATCTTTTTCCCGTCTGTAGAGAGGTTATAAGGAGTAAA +TAAGAATACTGTGTCAGCAAGGTCCCCCTCGGCATCCATGTAGATCACAGATCTAATGAC +TGTGTCAATGTGGCTGGCAATTATCTGAGT +>C_II_XVIIIb-7/1 +GCCATGGTGATTAAGCAGTTCCTAATCCTCTGAACAAGTATCGTACTAAGTAATCTTCCT +TTGGGTTTGGTAGTGTGTGCTCGGGGCAAATCTCGCTAAGCGTAAATGCATCATACCTTG +CTGGAGCAGTCAAATCTAGCTCTTGTATAA +>HQ630064-957/1 +CAAAGCAAATTTTGTAGCTTAAGATAAAGGGGGCCCTAAAGAAGAAGCAACATCGTCTCG +GGCTGTGTTTCCGACGTTGGGGTGCATTATGCGATTTTACTACCAGTGTTTGGTGTGGTG +TGGTAAGGGGAAATGAGACGAGAATTTTTC +>HQ630064-665/1 +CCCCGGGAGCTTTTTAGCGCGGCGTCACGTATAAATGCACAGAAGCTTCGTCAGTAACGA +AGCGCCTCTGCCAGAGTTATTAACATTAGGACTCGAGAGAGTCTCGAGAAGAGACTTCCC +AAAGAGAGTGCCGCTTTGATCTCCAGATCA +>HQ630064-403/1 +TGTCTACCTGTCTGTCAAATTGTGACTACCACGTACCAACTCCTCCCCAAAGTTCTACCC +TTTTCCTTAAAAACACATTTAAAATGTCAAAATACCGATCCTTATATTTGTGTGTTATGT +TTTCTTTTGCCTTCTAGGATTGATTGAATT +>HQ630064-343/1 +ACGAAAGAAAGAAAGGAAAAGGCCTCAAAGTTAATTTTGTAGCTTAAAAAAGAGGGGGCC +CTAAAGAAGAAGCAACATCGTCTCGGGCTGTGTTTCCGACGTTGGGGTGCATTATGCGAT +TTTACTACCAGTGTTTGGTGTGGTGTGGTA +>HQ630064-307/1 +TCGTGTGTTTGCTCGCGTGCTTTGGATGTTGGGATGAGGCCTTGGTGTTGCCAGGCTCCG +GTTTCTTAAAGGTTATCCGAGGGGGAAGTTCCACGTGTTCTTTTAGCTTTTCTCCATATT +CCGGTCTACGGGTACAAATGTCCTCTGGAT +>HQ630064-241/1 +CGTGACCTCATTTACAAGATGTCGGTGGCACCCAGCTACGTCACGTTCGCACCGAGGGTC +CAACATTTTCCTAAAATGGCAAAGCGGGACTTGGGTCCGTGGGTAAATTTTCTAATTTTT +TCCCACGGTCTGTCGCAAGAGCGTATTCTC +>HQ630064-217/1 +AACTTTGGGGAGGAATTGGTACGTGGTAGACACAATTTGACAGACAGGTAGACAGACAAC +GAATTACAAGCGGCCTAGGGTAATAGCGCTGAGCCCATGATGTGTCCGTGCATATGAGAC +GACTAATAAGGTAGTCACGTAAACCCCCGT +>HQ630064-199/1 +AGAAGCAGTATTGTGATCTTTCTCTCTTTCGCATGAATCGCTAGGAAGAGGAATTTTGGA +AGCATCTGGATACCTTACAGGAGATTTAGAAATCTCGGTAGTTATGACATGTTCATCAGA +TGAGGAAGATAGCAAGCGTGACGGTGTTTT +>HQ630064-111/1 +GTGTCTCCGAGTTGTGCTCTCTCGAAACTCACTTTGCCCTCACTTGTTGGCTTTATGGAG +GTCGTAATGATCATCGATGGAGTACTTATATAATATTGTGCTCTGCCGGCCATCTCTCCG +TGGTCGCAGAACTCCAACACCTTGTTGGCG +>HQ630064-105/1 +AGTTTAAACTTTGTCCGCGCGCCAATCTTGAAGTGATATTAGGACATAGTCAACCAACCG +ACGTACGTTGAACCATTTGCGGGCAGCGCTGAGGGAAGACGAGATGTATGGACAACACAA +CGACCGGAGAAGAGGGCGTAAAGAACATCA +>HQ630064-11/1 +GAAAGAAAGAAAGGAAAAGGCCTCAAAGCAAATTTTGTAGCTTAAAAAAGAGGGGGCCCT +AAAGAAGAAGCAACATCGTCTCGGGCTGTGTTTCCGACGTTGGGGTGCATTATGCGATTT +TACTACCAGTGTTTGGTGTGGTGTGGTAAG +>HQ630064-3/1 +AGGACTGTCGCTCATATCTTGCGTACTGTGTCTTATTTACTCGTGTTGTCTTTCCGCAGG +GAATGCGCGGTTCGAGTAGGCCGTGGTTTGCGGCCGTTCTCGGATAAGCACAAAATATCG +CCCTACTCGTGTGTCAAAAAGGAAAAGTCT |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out2.k1.11176.children.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out2.k1.11176.children.fa Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,20 @@ +>C_II_XVIIIb-87/2 +AGAAGTTGTCACAAACTTTGTGAAGCTAACTTATCACCATATCCGGAGAATCATCTGACC +TTACCTCTCTCGATACGGCTATTACTTGAATGTCACCTTGTACCATGCAGGCAAAACGAC +AGTGTGATCTTGCTGCAGCAAGTTGGATTG +>C_II_XVIIIb-53/2 +CTCTGAGACTTTAGTGCCCAGAACGTCACAACCTAAAGGAGTTGCACTCACACTGCAGGA +CTTCCGACTTTGGGTGTCATCTAAGTTGATAGAACGCAGAGTAGAAAAGAATACCCTCCC +TGTCGCAGATACCCGAAGCACACCAAGTGC +>C_II_XVIIIb-37/2 +GATAGGTAAGGTCTGATGATTCTGCGGATCTGGTGTTAACTCAGCTGCACCAAGCTAGGG +ATAACTTCTTTAAGGAATTAATTCATGTCAATCATCTGATTGGTCATAACTTGAAAGATC +GTGAAACCATCAGGTCAGACACATTCTTCA +>C_II_XVIIIb-25/2 +CAAAGACGTGGGGCATCTTATGAACTAACGTTACTAGCTTGGCGACTGCGGATCTTGTTC +TTGCTGCTACAATCAGATGCCTTTGGACCTGTTTTATATGGAGCCATGCAAACTTGGCTC +TGGACCACTTTGAGGGAAACCAGAATGCCG +>C_II_XVIIIb-23/2 +ATGACCAGCATTATATCCGAGGGCTAGGCCGAGAACTCATAGTAAACGACACCAGTGATG +TCACATCATTTTATCCTTCCGCATATCAAGAACACTTGAATTTTATCCCGGCGCCTTCTA +CAGGGTCTGGTTGCACTCGGATACCCTCAT |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out2.k1.e10386.children.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out2.k1.e10386.children.fa Wed Mar 15 18:18:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,252 @@\n+>C_II_XVIIIb-101/2\n+GGGACCGCGTGCTAGCCCATAGCAAATGCCTCTCCACAGGTTGCTAAGATACTCTGGAGC\n+CAAACCGCGCACCTGCGGAGCGTGAAAGTCATCATTCAAGCTGGCACCCAGCGCGCTGTC\n+GCAGTGACCGCTGATCATGAAGTCACCTCT\n+>C_II_XVIIIb-99/2\n+TAGTGTTATCAGTCAGCTCCATGTTCCTTGGAAGATGAAAGCAAGTAAACTGCTCATCTC\n+CACTGTCACACTTTGTGCACCCTCCACTGACACTGAGAATCTCTCCTTCCACAAGTTCTA\n+TGGTGTCAGGATTAGAGACGCCTAGTATCT\n+>C_II_XVIIIb-97/2\n+GTCCCTAGCGTCTTCGTCTACTGAGGAAATATTCGCCCATTCACTCTCACCTCCTTCTCT\n+TTAAGTGGATATGATACTGCCACACTGTCATCTCTTAGGTACTCAAGGGTTGTCAAGTAT\n+TCCATCTCCTTGTATGGATCAAAATCATTT\n+>C_II_XVIIIb-95/2\n+GTTCTTGTACAGTTCAGTCATGTATAGGACGGTGTTGTTTAGGCCTCTCACTCTCAGATA\n+GTAGAGTTGGTAAGAACAGTCAAGGAGCACCTCGAGTGCCGCATATTCGAATAAGCGGAC\n+CACATCTGAATTCTGGGCCTCACTGATCCA\n+>C_II_XVIIIb-93/2\n+TAAAATTCGCTTCTTTCGGATGAGATGAACCCGGCACGGCGACATTTCGGACCAACACCA\n+ACACAGTTTCTAAATTCGGTCGTCTATAGGAATCTACAAGCGGAAGTTCCATGTAAAGAA\n+GGATTTGTCCAGGAGTTCTACCCATTATGG\n+>C_II_XVIIIb-91/2\n+ATCAACAACATAGGTACGCGAAACCTGGTAGAAGGTTTGGAGCCCATATTGCGTTCATAA\n+TGTGCTAGTTAGGTTCCAGACTCTTCTACACGTGTTTTTTCTAATTAGATAGACAGGTGA\n+ACTAGCTATAAGCAATCAAGATAGACTATT\n+>C_II_XVIIIb-89/2\n+TGTGTGATTTTACAAGGGTGCGAGCCTGTAGAGGGTTGTGATGGCAATCAACCATTCAGT\n+GCAAGGCGTTTGATCTTCCTGATCTCTTCAATCTACCTGGCTGCATCCAGCTTGCTCAGG\n+AGCTTAGCTGAGGAGCTTGGATGCATTGGG\n+>C_II_XVIIIb-87/2\n+AGAAGTTGTCACAAACTTTGTGAAGCTAACTTATCACCATATCCGGAGAATCATCTGACC\n+TTACCTCTCTCGATACGGCTATTACTTGAATGTCACCTTGTACCATGCAGGCAAAACGAC\n+AGTGTGATCTTGCTGCAGCAAGTTGGATTG\n+>C_II_XVIIIb-85/2\n+GGAAGTGCACTTGTCGGCTAGGTTGTGCAGTGGGGTGGGTCGGGGAGCGTAGGAGAGTTC\n+TGGGAGGATGGTTTGGGGTGACCTTATGGGGGCAGGCTGGGTGTTGCCGTTCAGTACCCC\n+CAGTCAGTGTCATTATCTTGGGATGGCCCA\n+>C_II_XVIIIb-83/2\n+TTAAGGCATGTTGATGCCGTGTATGCTGCCTTGATGCTGCTTGAACTCACTGGGGTTACT\n+CGACTGCGGGATATGTTAACGAATACTGCAGACACGGGATTGAGTCTTGCCTGTCCATCA\n+TCAAGCATTGTCCCGAATACCCCTCGTAGG\n+>C_II_XVIIIb-81/2\n+ATTCAGCAGAGACCGCGTGAAGTATCGCAGTTCCACAAGGCAAGACCAAGGCACTGAGCA\n+CTGCATGGGAGAAGCACGGAAGTGTCCAATCAAATGTCGGCCAGGACGCCCCCGACCAAC\n+AAGCCAGACCAGACAAACAGCCGTCCGCAC\n+>C_II_XVIIIb-79/2\n+AGAAGCACGGGCGTGTCCAATCAAATGCAGGCCAGGACGCCCCCGACCAACAAGCCAGAC\n+CAGACAAACAGCCGTCCGCACCCGAGCAGGCGGCCCAACACAGTGACCCGCCGGCCACAT\n+CCACCGAGTCCTCTCCCGCCCAGGCTGCAG\n+>C_II_XVIIIb-77/2\n+GCAATTTTGTTCAGAGATGATGTTTTCTTGTCTAGTAGATCCAATCACCCATTAGTCTCC\n+TCTAATATGTGTTCGCTGACGCTAGCAGACTATGCCCGGAACAGAAGCTGGTTACCTTTG\n+ACAGGGGGTAGGAAGATACTAGGCGTATCT\n+>C_II_XVIIIb-75/2\n+CATTGCTTCTACACCTGTGGCTCATGTCCAGCTACCTGTCGACTTTGTGCAAATGATGAT\n+GTCTATGATGGAGGCATTATCACAGAAGGTAAGTAAAGTTGACTATCAACTAGATCTAGT\n+CTTAAAACAGACATCTTCTATCCCTATGAT\n+>C_II_XVIIIb-73/2\n+TACAGTCAAGGAACGGTACTTGAGGGAACAACGGTGCCAGGATAGTGTCTCTGTCCTCTC\n+TTTCCCTGATCAGATTAAGACTCTTCCTGGACATGTAATATAGATTGGCGGGAAATGTGA\n+TTATGTTGGGAGATATGATAGAGTTCACTT\n+>C_II_XVIIIb-71/2\n+GTAATAAGAGCAGATATGCCGGTCAGTCTTACATTGACTTTGTCTAGCTTGCTGTTACTT\n+TTTGCCAACTTATCCAAGGCATTGCTTATTGAATTGTTGACATTTCCAAGCTCAATTGAT\n+ATATCGAGATTGCCGGTCACGATGACTTGA\n+>C_II_XVIIIb-69/2\n+CGAGGTCTATATGTTGACTGCCTTATCTCCTGTTATTACAATCCCCGCAGCTGCAAGGGG\n+CCTGCCATCAAGGGAGTTTGTCAGACAGACGCAGCTTAATATCAGCATAGTCCGAATGAT\n+CAGCATCAGAGGTACTGGAATCCTGGTAGA\n+>C_II_XVIIIb-67/2\n+CCCTTTCACCTGCCTTCAGCCATGTAACCCCATCCGACCGAGCCAACACAGGCGTAACTC\n+GGTTCGCCAACAATCCACTCAGAGCCCGAGGTATTAGAAAAAAATACGGGTAGAAGGGAG\n+ACACCTGGAGACCAGGACGAGTCACCAAAG\n+>C_II_XVIIIb-65/2\n+GCAAATACCACTTTGCCAGGGCCTTTATGTGCACATCAGTCTGGAGGCTTGGAGTAGAGT\n+ATGCTCAGGCTCAGGGAAGTAGCATCAATGAAGACATGGCTGCTGAACTAAAACTGACTC\n+CGGCAGCAAGGAGAGGTCTGGCGGCTGCTG\n+>C_II_XVIIIb-63/2\n+CACCTCGATTTCCGCATATTCGAATAAGCAGACAACATCTGAATTCTGGGCCTCACTGAT\n+CCAATTTCGTGTGTTGTCATACACTATTATAGCATCATTCTTGATAGAGGTATCTTCATC\n+ATAAGAAACCACTGATTGGCCGATCAACTT\n+>C_II_XVIIIb-61/2\n+GTTAGTCCTCTGACTGTCCGATAGTAGAGTTGGTAAGAACAGTCAAGGAGCACCTCGAGT\n+GCCGCATATTCGAAAAAGCGGTCCACATCTGAATTCTGGGCCTCACTGATCCAATTTCGT\n+GTGTTGTCATACACTATTATAGCATCATTC\n+>C_II_XVIIIb-59/2\n+CCTTGTATGTATAAAAATCATTTGTTTCTAATATCTCAATCAAGAGGCGATTAGTTGAGG\n+TCGCCTCTTTTATCTGTTTCTTTTGGTCCTCAGAGAGGAGGTTCCGCCTGAATGAGGCGA\n+GCCAGTTATCTTTCGGATGTGCGATTGCCT\n+>C_II_XVIIIb-57/2\n+CTGGTATGGGCCACTTTATTAAGAAAAACTAAAAAAAGCATTGTAATATAAAGGAAACCA\n+ACACACAAAAGAAAGCACGGGTAGGACATGGCAGGCTCTGGTCCCGAA'..b'CTCAT\n+>C_II_XVIIIb-21/2\n+CACAAGCAAAACAAAACACATCACTAGGGCTCGGAAACAATACCCTTGATCAGATGAGGG\n+CCAATACAAGAGCATGACCTCAAATGAGAATTGGATGCACGTACAGCAGCAGCCTGTATG\n+TCAATTCTGACAGCCTGTCAGATCGAAAAC\n+>C_II_XVIIIb-19/2\n+ACTAGATCTAGTTGATAGTCAAGTTTACTTACCTTCTGTGATAATGCCTCCATCATAGAC\n+ATCATCATTTGCACAAAGCCGACAGGTAGCTGGACATGATCCACAGGTGCAGGAGTATTG\n+TCTTGGTTCTGCCCTGACTGGGGCACATGA\n+>C_II_XVIIIb-17/2\n+GTACATATTCCCTGGATATGAGCCTGAGACCACGGGTCTGGTGCATGAGACTAATAGTTT\n+CGCAGACATTTCGATGAAATCTATATCTGCCAGCTGGTGTGACCCGTCATGGTTAATTAG\n+GCCTACTGCATTCAACCTTGGGTGTATAAT\n+>C_II_XVIIIb-15/2\n+AACTGGCGCCCCACATCCACTAGTATTCACAGACCCGTTGATTTGATAAGAGAGGGATGT\n+TATTGCATTCATAATTATAGATTCGGTGTTTAGTAGCGCTAGCGGAGATTCAAGAGCCAC\n+CTGTTTATATATCCTATCTGTCACATCTTG\n+>C_II_XVIIIb-13/2\n+TGACCTCCAGGATCTGTAGTGTGCACTGTTTAAGTGATGTTCTCTTTTTCCCGTCTGTAG\n+AGAGGTTATAAGGAGTAAATAAGAATACTGTGTCAGCAAGGTCCCCCTCGGCATCCATGT\n+AGATCACAGATCTAATGACTGTGTCAATGT\n+>C_II_XVIIIb-11/2\n+CACCTCATGCCATCGTCGTGTCACGGAAATCCTATCTAGTCCCCTACCGAGGCTGATGAA\n+GTTCTTGGGAGAAAATATTGATGCTGCACTGATCGCAGCAGGGGGACAGCCCGTCCGTCC\n+CTTTTGTGCAGAAAGTTTGGTGAGCACACT\n+>C_II_XVIIIb-9/2\n+ACAATGCCCGGTTCGGGGGATTTAGAATCGTTCCATTACTAGTTGAGATCCTCAAGGATG\n+ATAGAGTTTAAGGGATTAGACCCAGGCAATTGAATCAGCCATAGGACGGCTGGAAGAATG\n+ATATGGCACTGAATATCTTTCGCGATGCCA\n+>C_II_XVIIIb-7/2\n+CTCATGAACCGTTGCTTGAGCTTCATCCAGTACAAGACATCGGTGCTCGGGTGAAAGACC\n+CGTTAACCCGACAACCTGCATCATTTATACAAGAGCTAGATTTGAGTGCTCCAGCAAGGT\n+ATGATGCATTTACGCTTAGCGAGATTTGCC\n+>C_II_XVIIIb-5/2\n+ATCTCCACAGCAATTTTTGCTTGTGTATCCGGGAAGCGCCTGTTGCGGTTCCTTTCGAGC\n+TACTTGGATTGGCACCAGAATTAAGGATGGTAACCTCAAATAAGTTCATGTATGATCCTA\n+GCCCTATATCAGAGAAGGATTTTGCAAGAC\n+>C_II_XVIIIb-3/2\n+TCAGCTTGTATCCGTTCTGCCATTACCTGGCGGGTCCTTAGCTTCTTTGTCAACTTAGCA\n+AAAATTCGCCCATTCACTTTCACCTCCTTCTCTTTAAGTGAATATGATACTGCCACACTG\n+TCATCTCTTAGGTACTCAAGGGTTGTCAAG\n+>C_II_XVIIIb-1/2\n+AAAAGTGAGGGGGCGAACTTTTGCTAAGTTTACACAGAAGCTAAGGAACTGCCAGGTAAT\n+GGCAGAAGGGATTCTAGCTGACCAGATTGCTCCTTTCTTCCAAGGAAATGGGGTCATTCA\n+AGATAGCATATCCTTGACTAAGAGTATGTT\n+>HQ630064-957/2\n+CTGATCCAGTGGCCCTTCGTTACTCACGAAGTATCTGTGCATTTATACGTGACGCCACGC\n+TAACAAGGAAGCGCCGCGCAATTTGCTCACGGTTGGGCGTAGCTCTGTGCTCGAGCGCAC\n+GCGAAAAATTCTCGTCTCATTTCCCCTTAC\n+>HQ630064-665/2\n+TCGAATAGGCCGTGGTTTGCGGCCGTACTCGTAGAAGCACAAAATATCGCCCTACTCGTG\n+TGTCAAAAAGGAAAAGTCTTAATGGGCTGTGAAGTGATCTGGAGATCAAAGCGGCACTCT\n+CTTTGAGAAGTCTCTTCTCGAGACTCTCTC\n+>HQ630064-403/2\n+TACGGTGGGGGTCACAACAATTTAACCAATGAAATGTTTCTTTATTATAAGAGCGGTATA\n+GCAGATTTAATAAAATACCTTTTTTGAAAAAATATTGACCTGTCTCGCGTTGTAGATTCT\n+TCGCATCCGCGTTCCGTCATAATTCCAAGA\n+>HQ630064-343/2\n+CTCCCGTGCATGTATACGTGACGCCACGCTAACAAGGAAGCGCCGCGCAATTTGCTCACG\n+GTTGGGCGTAGCTCTGTCCTCGAGCGCACGTGAAAAATTCTCGTCTCATTTCCCCTTACC\n+ACACCACACCAAACACTGGTAGTAAAACCG\n+>HQ630064-307/2\n+TTTTTCACAGACGGGGACGTTCTCATCTAACTTCGGGGATCCTGGGGATATATTTTATAG\n+CGATGTAGTAGGGGGAGATGGCCCAATATTCGAAGATCCAGAGGACATTTGTACCCGTAG\n+ACCGGAATATGGAGAAAAGCTAAAAGAACA\n+>HQ630064-241/2\n+CATAATCATTTACAAAACGCGGGACCTCGACAATATGCGGGAAAATCTAACAGCAATCTA\n+TCTTGGAGAATACGCTCTTCCGAAAGACCGTGGGAAAAAATTAGAAAATTTACCCACGGA\n+CCCAAGTCCCGCTTTGCCATTTTAGGAAAA\n+>HQ630064-217/2\n+AAATCGCATGTCACACCCCAGCGTCGGAAAAACCGCCCGAGACGAAGTTGCTTCTTCTTT\n+GGGGCCCCCTCTTTTTTAAGCTACAAAATTTGCTTTGAGGCCTTTTCCTTTCTTTCTTTC\n+TTTCGCGTGTGATTGACGGGGGTTTACGTG\n+>HQ630064-199/2\n+CCGTTAGCACTTAAGTAACCGGAGCTTGGCAACACCAAGGCCTCATCCCAACATCCAAAG\n+CACTCGAGCAAACGCAGGAGTAGCAAATCTCGCTATTTCAAAGCTTCAGAATCGTGTAAT\n+ACACCGTCACGCTTGCTATCTTTCTCATCT\n+>HQ630064-111/2\n+GAAACTTGAATAAGAGCTCCCCAACTACGCTGCTAGAACTAGCAAATTTTATGCTCGCCA\n+ACAAGGTGTTGGAGTTCTGCGACCACGGAGAGATGGCCGGCAGAGCACAATATTATATAA\n+GTACTCCATCGATGATCATTACGACCTCCA\n+>HQ630064-105/2\n+TTATTAAATTGTTATTTCCACCACCGCAGAGCAATACCGTGATGTTCTTTACGCCCTCTT\n+CTCCGGTCGTTGTGTTGTCCATACATCTCGTCTTCCCTCAGCGCTGCCCGCAAATGGTTC\n+AACGTATGTCGGTTGGTTGACTATGTCCTA\n+>HQ630064-11/2\n+TGGGCGTAGTTCTGTCCTCGAGCGCACGCGAAAAATTCTCGTCTCATTTCCCCTTACCAC\n+ACCACACCAAACACTGGTAGTAAAATCGCATAATGCACCCCAACGTCGGAAACACAGCCC\n+GAGACGATGTTGCTTCTTCTTTAGGGCCCC\n+>HQ630064-3/2\n+CCACAGTTATTTGCAATAGGACTCGAGTGAGTTTTAAGAAGAGACTTCTCAAAGAGAGAG\n+CCGCTTTGATCTCCAGATCACTTCACAGCCCATTAAGACTTTTCCTTTTTGACACACGAG\n+TAGGGCGATATTTTGTGCTTATCCGAGAAC\n' |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out2.k2.11176.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out2.k2.11176.fa Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,28 @@ +>C_II_XVIIIb-65/2 +GCAAATACCACTTTGCCAGGGCCTTTATGTGCACATCAGTCTGGAGGCTTGGAGTAGAGT +ATGCTCAGGCTCAGGGAAGTAGCATCAATGAAGACATGGCTGCTGAACTAAAACTGACTC +CGGCAGCAAGGAGAGGTCTGGCGGCTGCTG +>C_II_XVIIIb-57/2 +CTGGTATGGGCCACTTTATTAAGAAAAACTAAAAAAAGCATTGTAATATAAAGGAAACCA +ACACACAAAAGAAAGCACGGGTAGGACATGGCAGGCTCTGGTCCCGAAAGGGCAGAGCAC +CAGCTTATCCTACCAGAGTCACATCTATCC +>C_II_XVIIIb-49/2 +GACCCGATTTCCTTGGAAGAACGGTGCAATCTGTTCAGCTAGAATCCCTTCTGCCATTAC +CTGGCAGTTCCTTAGCTTCTTTGTCAACTTAGCAAAAATTCTCCCATTCACTTTCACCTC +CTTCTCGTTAAGTGAATAGGATACTGCCAC +>C_II_XVIIIb-45/2 +GATCTTGGATGTTACAATACTAGGGCCAAGAGTCAAAGATATCAACAAAATAGGTGATGT +AATTAGCCTAGTACTCAGAGGTAAGGTTTCCCTGGAGGACCTCATCCCACTAAGGACATA +CCTGAAGCGCAGTACCTGCCCTAAGTATCT +>C_II_XVIIIb-17/2 +GTACATATTCCCTGGATATGAGCCTGAGACCACGGGTCTGGTGCATGAGACTAATAGTTT +CGCAGACATTTCGATGAAATCTATATCTGCCAGCTGGTGTGACCCGTCATGGTTAATTAG +GCCTACTGCATTCAACCTTGGGTGTATAAT +>C_II_XVIIIb-9/2 +ACAATGCCCGGTTCGGGGGATTTAGAATCGTTCCATTACTAGTTGAGATCCTCAAGGATG +ATAGAGTTTAAGGGATTAGACCCAGGCAATTGAATCAGCCATAGGACGGCTGGAAGAATG +ATATGGCACTGAATATCTTTCGCGATGCCA +>C_II_XVIIIb-1/2 +AAAAGTGAGGGGGCGAACTTTTGCTAAGTTTACACAGAAGCTAAGGAACTGCCAGGTAAT +GGCAGAAGGGATTCTAGCTGACCAGATTGCTCCTTTCTTCCAAGGAAATGGGGTCATTCA +AGATAGCATATCCTTGACTAAGAGTATGTT |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out2.k2.11176.max2.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out2.k2.11176.max2.fa Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,8 @@ +>C_II_XVIIIb-65/2 +GCAAATACCACTTTGCCAGGGCCTTTATGTGCACATCAGTCTGGAGGCTTGGAGTAGAGT +ATGCTCAGGCTCAGGGAAGTAGCATCAATGAAGACATGGCTGCTGAACTAAAACTGACTC +CGGCAGCAAGGAGAGGTCTGGCGGCTGCTG +>C_II_XVIIIb-57/2 +CTGGTATGGGCCACTTTATTAAGAAAAACTAAAAAAAGCATTGTAATATAAAGGAAACCA +ACACACAAAAGAAAGCACGGGTAGGACATGGCAGGCTCTGGTCCCGAAAGGGCAGAGCAC +CAGCTTATCCTACCAGAGTCACATCTATCC |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out2.k2.11176.parents.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out2.k2.11176.parents.fa Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,76 @@ +>C_II_XVIIIb-99/2 +TAGTGTTATCAGTCAGCTCCATGTTCCTTGGAAGATGAAAGCAAGTAAACTGCTCATCTC +CACTGTCACACTTTGTGCACCCTCCACTGACACTGAGAATCTCTCCTTCCACAAGTTCTA +TGGTGTCAGGATTAGAGACGCCTAGTATCT +>C_II_XVIIIb-97/2 +GTCCCTAGCGTCTTCGTCTACTGAGGAAATATTCGCCCATTCACTCTCACCTCCTTCTCT +TTAAGTGGATATGATACTGCCACACTGTCATCTCTTAGGTACTCAAGGGTTGTCAAGTAT +TCCATCTCCTTGTATGGATCAAAATCATTT +>C_II_XVIIIb-93/2 +TAAAATTCGCTTCTTTCGGATGAGATGAACCCGGCACGGCGACATTTCGGACCAACACCA +ACACAGTTTCTAAATTCGGTCGTCTATAGGAATCTACAAGCGGAAGTTCCATGTAAAGAA +GGATTTGTCCAGGAGTTCTACCCATTATGG +>C_II_XVIIIb-87/2 +AGAAGTTGTCACAAACTTTGTGAAGCTAACTTATCACCATATCCGGAGAATCATCTGACC +TTACCTCTCTCGATACGGCTATTACTTGAATGTCACCTTGTACCATGCAGGCAAAACGAC +AGTGTGATCTTGCTGCAGCAAGTTGGATTG +>C_II_XVIIIb-85/2 +GGAAGTGCACTTGTCGGCTAGGTTGTGCAGTGGGGTGGGTCGGGGAGCGTAGGAGAGTTC +TGGGAGGATGGTTTGGGGTGACCTTATGGGGGCAGGCTGGGTGTTGCCGTTCAGTACCCC +CAGTCAGTGTCATTATCTTGGGATGGCCCA +>C_II_XVIIIb-75/2 +CATTGCTTCTACACCTGTGGCTCATGTCCAGCTACCTGTCGACTTTGTGCAAATGATGAT +GTCTATGATGGAGGCATTATCACAGAAGGTAAGTAAAGTTGACTATCAACTAGATCTAGT +CTTAAAACAGACATCTTCTATCCCTATGAT +>C_II_XVIIIb-65/2 +GCAAATACCACTTTGCCAGGGCCTTTATGTGCACATCAGTCTGGAGGCTTGGAGTAGAGT +ATGCTCAGGCTCAGGGAAGTAGCATCAATGAAGACATGGCTGCTGAACTAAAACTGACTC +CGGCAGCAAGGAGAGGTCTGGCGGCTGCTG +>C_II_XVIIIb-57/2 +CTGGTATGGGCCACTTTATTAAGAAAAACTAAAAAAAGCATTGTAATATAAAGGAAACCA +ACACACAAAAGAAAGCACGGGTAGGACATGGCAGGCTCTGGTCCCGAAAGGGCAGAGCAC +CAGCTTATCCTACCAGAGTCACATCTATCC +>C_II_XVIIIb-49/2 +GACCCGATTTCCTTGGAAGAACGGTGCAATCTGTTCAGCTAGAATCCCTTCTGCCATTAC +CTGGCAGTTCCTTAGCTTCTTTGTCAACTTAGCAAAAATTCTCCCATTCACTTTCACCTC +CTTCTCGTTAAGTGAATAGGATACTGCCAC +>C_II_XVIIIb-45/2 +GATCTTGGATGTTACAATACTAGGGCCAAGAGTCAAAGATATCAACAAAATAGGTGATGT +AATTAGCCTAGTACTCAGAGGTAAGGTTTCCCTGGAGGACCTCATCCCACTAAGGACATA +CCTGAAGCGCAGTACCTGCCCTAAGTATCT +>C_II_XVIIIb-43/2 +GGGGCAGCGAATGAGAGAGGATATGGGGCGCCTGTTCATGACCCAGATTATATCGGAGGG +ATAGGCAGAGAACTCATAGTAGACGACACCAGTGATGTCACATCATTTTATCCTTCCGCA +TATCAATAACACTTGAATTTTATCCCGGCG +>C_II_XVIIIb-33/2 +CATAGGGATAGAACATGTATGTTTTAAGACGAGATCTAGTTGATAGTCAACTTTACTTAC +CTTCTGTGATAATGCCTCCATCATAGACATCATCATTTGCACAAAGTCGACAGGTAGCTG +GACATGATCCACAGGTGCAGGAGCATTGTC +>C_II_XVIIIb-29/2 +CTCAGTTGCACAAACTCGACAGGTAGCTGCATATGATCCACAGGTGCAGGAGTATTGTCT +TGGTTCTGCCCTGACTGGGGCACATGAGGGGTTGCACCAGCTGATGGTTGTGACTCCTTC +CATAGTCCATGATATGCTGTGTTCGCGTCT +>C_II_XVIIIb-19/2 +ACTAGATCTAGTTGATAGTCAAGTTTACTTACCTTCTGTGATAATGCCTCCATCATAGAC +ATCATCATTTGCACAAAGCCGACAGGTAGCTGGACATGATCCACAGGTGCAGGAGTATTG +TCTTGGTTCTGCCCTGACTGGGGCACATGA +>C_II_XVIIIb-17/2 +GTACATATTCCCTGGATATGAGCCTGAGACCACGGGTCTGGTGCATGAGACTAATAGTTT +CGCAGACATTTCGATGAAATCTATATCTGCCAGCTGGTGTGACCCGTCATGGTTAATTAG +GCCTACTGCATTCAACCTTGGGTGTATAAT +>C_II_XVIIIb-9/2 +ACAATGCCCGGTTCGGGGGATTTAGAATCGTTCCATTACTAGTTGAGATCCTCAAGGATG +ATAGAGTTTAAGGGATTAGACCCAGGCAATTGAATCAGCCATAGGACGGCTGGAAGAATG +ATATGGCACTGAATATCTTTCGCGATGCCA +>C_II_XVIIIb-5/2 +ATCTCCACAGCAATTTTTGCTTGTGTATCCGGGAAGCGCCTGTTGCGGTTCCTTTCGAGC +TACTTGGATTGGCACCAGAATTAAGGATGGTAACCTCAAATAAGTTCATGTATGATCCTA +GCCCTATATCAGAGAAGGATTTTGCAAGAC +>C_II_XVIIIb-3/2 +TCAGCTTGTATCCGTTCTGCCATTACCTGGCGGGTCCTTAGCTTCTTTGTCAACTTAGCA +AAAATTCGCCCATTCACTTTCACCTCCTTCTCTTTAAGTGAATATGATACTGCCACACTG +TCATCTCTTAGGTACTCAAGGGTTGTCAAG +>C_II_XVIIIb-1/2 +AAAAGTGAGGGGGCGAACTTTTGCTAAGTTTACACAGAAGCTAAGGAACTGCCAGGTAAT +GGCAGAAGGGATTCTAGCTGACCAGATTGCTCCTTTCTTCCAAGGAAATGGGGTCATTCA +AGATAGCATATCCTTGACTAAGAGTATGTT |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/out2.k2.exclude_both.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/out2.k2.exclude_both.fa Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,176 @@ +>C_II_XVIIIb-101/2 +GGGACCGCGTGCTAGCCCATAGCAAATGCCTCTCCACAGGTTGCTAAGATACTCTGGAGC +CAAACCGCGCACCTGCGGAGCGTGAAAGTCATCATTCAAGCTGGCACCCAGCGCGCTGTC +GCAGTGACCGCTGATCATGAAGTCACCTCT +>C_II_XVIIIb-95/2 +GTTCTTGTACAGTTCAGTCATGTATAGGACGGTGTTGTTTAGGCCTCTCACTCTCAGATA +GTAGAGTTGGTAAGAACAGTCAAGGAGCACCTCGAGTGCCGCATATTCGAATAAGCGGAC +CACATCTGAATTCTGGGCCTCACTGATCCA +>C_II_XVIIIb-91/2 +ATCAACAACATAGGTACGCGAAACCTGGTAGAAGGTTTGGAGCCCATATTGCGTTCATAA +TGTGCTAGTTAGGTTCCAGACTCTTCTACACGTGTTTTTTCTAATTAGATAGACAGGTGA +ACTAGCTATAAGCAATCAAGATAGACTATT +>C_II_XVIIIb-89/2 +TGTGTGATTTTACAAGGGTGCGAGCCTGTAGAGGGTTGTGATGGCAATCAACCATTCAGT +GCAAGGCGTTTGATCTTCCTGATCTCTTCAATCTACCTGGCTGCATCCAGCTTGCTCAGG +AGCTTAGCTGAGGAGCTTGGATGCATTGGG +>C_II_XVIIIb-83/2 +TTAAGGCATGTTGATGCCGTGTATGCTGCCTTGATGCTGCTTGAACTCACTGGGGTTACT +CGACTGCGGGATATGTTAACGAATACTGCAGACACGGGATTGAGTCTTGCCTGTCCATCA +TCAAGCATTGTCCCGAATACCCCTCGTAGG +>C_II_XVIIIb-81/2 +ATTCAGCAGAGACCGCGTGAAGTATCGCAGTTCCACAAGGCAAGACCAAGGCACTGAGCA +CTGCATGGGAGAAGCACGGAAGTGTCCAATCAAATGTCGGCCAGGACGCCCCCGACCAAC +AAGCCAGACCAGACAAACAGCCGTCCGCAC +>C_II_XVIIIb-79/2 +AGAAGCACGGGCGTGTCCAATCAAATGCAGGCCAGGACGCCCCCGACCAACAAGCCAGAC +CAGACAAACAGCCGTCCGCACCCGAGCAGGCGGCCCAACACAGTGACCCGCCGGCCACAT +CCACCGAGTCCTCTCCCGCCCAGGCTGCAG +>C_II_XVIIIb-77/2 +GCAATTTTGTTCAGAGATGATGTTTTCTTGTCTAGTAGATCCAATCACCCATTAGTCTCC +TCTAATATGTGTTCGCTGACGCTAGCAGACTATGCCCGGAACAGAAGCTGGTTACCTTTG +ACAGGGGGTAGGAAGATACTAGGCGTATCT +>C_II_XVIIIb-73/2 +TACAGTCAAGGAACGGTACTTGAGGGAACAACGGTGCCAGGATAGTGTCTCTGTCCTCTC +TTTCCCTGATCAGATTAAGACTCTTCCTGGACATGTAATATAGATTGGCGGGAAATGTGA +TTATGTTGGGAGATATGATAGAGTTCACTT +>C_II_XVIIIb-71/2 +GTAATAAGAGCAGATATGCCGGTCAGTCTTACATTGACTTTGTCTAGCTTGCTGTTACTT +TTTGCCAACTTATCCAAGGCATTGCTTATTGAATTGTTGACATTTCCAAGCTCAATTGAT +ATATCGAGATTGCCGGTCACGATGACTTGA +>C_II_XVIIIb-69/2 +CGAGGTCTATATGTTGACTGCCTTATCTCCTGTTATTACAATCCCCGCAGCTGCAAGGGG +CCTGCCATCAAGGGAGTTTGTCAGACAGACGCAGCTTAATATCAGCATAGTCCGAATGAT +CAGCATCAGAGGTACTGGAATCCTGGTAGA +>C_II_XVIIIb-67/2 +CCCTTTCACCTGCCTTCAGCCATGTAACCCCATCCGACCGAGCCAACACAGGCGTAACTC +GGTTCGCCAACAATCCACTCAGAGCCCGAGGTATTAGAAAAAAATACGGGTAGAAGGGAG +ACACCTGGAGACCAGGACGAGTCACCAAAG +>C_II_XVIIIb-63/2 +CACCTCGATTTCCGCATATTCGAATAAGCAGACAACATCTGAATTCTGGGCCTCACTGAT +CCAATTTCGTGTGTTGTCATACACTATTATAGCATCATTCTTGATAGAGGTATCTTCATC +ATAAGAAACCACTGATTGGCCGATCAACTT +>C_II_XVIIIb-61/2 +GTTAGTCCTCTGACTGTCCGATAGTAGAGTTGGTAAGAACAGTCAAGGAGCACCTCGAGT +GCCGCATATTCGAAAAAGCGGTCCACATCTGAATTCTGGGCCTCACTGATCCAATTTCGT +GTGTTGTCATACACTATTATAGCATCATTC +>C_II_XVIIIb-59/2 +CCTTGTATGTATAAAAATCATTTGTTTCTAATATCTCAATCAAGAGGCGATTAGTTGAGG +TCGCCTCTTTTATCTGTTTCTTTTGGTCCTCAGAGAGGAGGTTCCGCCTGAATGAGGCGA +GCCAGTTATCTTTCGGATGTGCGATTGCCT +>C_II_XVIIIb-55/2 +ATGCAGTGGGCGGGAGGTGATTAATGCACGGGCCGTTTCCTTCTCCACTGCCATATCAGG +CCCACCTGCAGTAGCAGATTTAACTAGGTCTGAAGGCTGCTGTACCGGTTGTGAGAGTTT +ATTGAGTGTCATTTCACCCCCTTGTGTCAC +>C_II_XVIIIb-53/2 +CTCTGAGACTTTAGTGCCCAGAACGTCACAACCTAAAGGAGTTGCACTCACACTGCAGGA +CTTCCGACTTTGGGTGTCATCTAAGTTGATAGAACGCAGAGTAGAAAAGAATACCCTCCC +TGTCGCAGATACCCGAAGCACACCAAGTGC +>C_II_XVIIIb-51/2 +TTAAGGATGGTAACCTCAATTAAGTTCATGTATAATCCTAGCCCTATATCAGAGAAGGAT +TTTGCAAGACTCGACTTAGCTATCTTCAAGAGTTATGAGCTTAATTTGGAGTCATATTCC +ACACTGGAGCTGATGAACATTCTTTCAATC +>C_II_XVIIIb-47/2 +TCGCACTCAATATCTTTCGCGATGCCCGGTGTTAAACTGAATAACAACACAAGCCCAGAT +CCCGTGCTGCCGGGTAGCCACAATCTAACAACACTGACATGATTAGTCTGAGTCCTGTTT +TTGGCCACTTTAGTAAGAAAAAATAAAAAA +>C_II_XVIIIb-41/2 +GTCCTTCTCCACTGCCATATCAGGCCCACCTGCAGTAGCAGATTTAACTAGCTCTGAAGG +GTGCTGTACCGGTTGTGAGAGTTTATTGAGTGTCATTTCACCCCCTTGTGTCACATAAGG +AGATGGGTCTCCAGGGCCCGAAATTAAAAC +>C_II_XVIIIb-39/2 +AAGGCCGCGTGTCAAGGCCGCTACAATATGCGGGAAGGTCATTGGGCAGCTTCATGCCGA +TTCAGCGGAGATCTCACACGATGTCATGGTGAGAGAGTGCAAGAGTTTATCTGCCCTCGA +ATTTGAGCCATGCATAGAGTATGACCCCGT +>C_II_XVIIIb-37/2 +GATAGGTAAGGTCTGATGATTCTGCGGATCTGGTGTTAACTCAGCTGCACCAAGCTAGGG +ATAACTTCTTTAAGGAATTAATTCATGTCAATCATCTGATTGGTCATAACTTGAAAGATC +GTGAAACCATCAGGTCAGACACATTCTTCA +>C_II_XVIIIb-35/2 +CTGAGTGGTTCGTTAGCATCTTCGCTAACAGCAATCCGAAGACACAATACCGCAAAATTC +CATCTATCCTCTGGATCATCACTGTTAAGAGTAAATACTGGGACTTCAACTTTTAAAGTG +CTCCCTTTCTCTCCTCCTCCGTGAGTTCCG +>C_II_XVIIIb-31/2 +GTGCATCAATACTCGAATGAGTAAGGGTACAGCCAATGCTTTCTCCTCTGTCTCATTGTC +CTCCGTATGCACTCCGGATAATAAAGGGTTTGAACAAGTCTCAAATAAGACCTTTTGTGT +ATGCTTCTTGAGGACAATATTTGGGCTTGC +>C_II_XVIIIb-27/2 +TATAGGAATCTACAAGCGGAAGTGTAATGTAAATAAGGATTTGTCCAGGAGTTCTACCCA +TTATGGAGAGAGAATGCAGAAGAAAGCGACCTGACTTCAGATAGAGCAGTGGGATATATC +ACATCTGTAGTGCCCCACAGGTCTGTAGCA +>C_II_XVIIIb-25/2 +CAAAGACGTGGGGCATCTTATGAACTAACGTTACTAGCTTGGCGACTGCGGATCTTGTTC +TTGCTGCTACAATCAGATGCCTTTGGACCTGTTTTATATGGAGCCATGCAAACTTGGCTC +TGGACCACTTTGAGGGAAACCAGAATGCCG +>C_II_XVIIIb-23/2 +ATGACCAGCATTATATCCGAGGGCTAGGCCGAGAACTCATAGTAAACGACACCAGTGATG +TCACATCATTTTATCCTTCCGCATATCAAGAACACTTGAATTTTATCCCGGCGCCTTCTA +CAGGGTCTGGTTGCACTCGGATACCCTCAT +>C_II_XVIIIb-21/2 +CACAAGCAAAACAAAACACATCACTAGGGCTCGGAAACAATACCCTTGATCAGATGAGGG +CCAATACAAGAGCATGACCTCAAATGAGAATTGGATGCACGTACAGCAGCAGCCTGTATG +TCAATTCTGACAGCCTGTCAGATCGAAAAC +>C_II_XVIIIb-15/2 +AACTGGCGCCCCACATCCACTAGTATTCACAGACCCGTTGATTTGATAAGAGAGGGATGT +TATTGCATTCATAATTATAGATTCGGTGTTTAGTAGCGCTAGCGGAGATTCAAGAGCCAC +CTGTTTATATATCCTATCTGTCACATCTTG +>C_II_XVIIIb-13/2 +TGACCTCCAGGATCTGTAGTGTGCACTGTTTAAGTGATGTTCTCTTTTTCCCGTCTGTAG +AGAGGTTATAAGGAGTAAATAAGAATACTGTGTCAGCAAGGTCCCCCTCGGCATCCATGT +AGATCACAGATCTAATGACTGTGTCAATGT +>C_II_XVIIIb-11/2 +CACCTCATGCCATCGTCGTGTCACGGAAATCCTATCTAGTCCCCTACCGAGGCTGATGAA +GTTCTTGGGAGAAAATATTGATGCTGCACTGATCGCAGCAGGGGGACAGCCCGTCCGTCC +CTTTTGTGCAGAAAGTTTGGTGAGCACACT +>C_II_XVIIIb-7/2 +CTCATGAACCGTTGCTTGAGCTTCATCCAGTACAAGACATCGGTGCTCGGGTGAAAGACC +CGTTAACCCGACAACCTGCATCATTTATACAAGAGCTAGATTTGAGTGCTCCAGCAAGGT +ATGATGCATTTACGCTTAGCGAGATTTGCC +>HQ630064-957/2 +CTGATCCAGTGGCCCTTCGTTACTCACGAAGTATCTGTGCATTTATACGTGACGCCACGC +TAACAAGGAAGCGCCGCGCAATTTGCTCACGGTTGGGCGTAGCTCTGTGCTCGAGCGCAC +GCGAAAAATTCTCGTCTCATTTCCCCTTAC +>HQ630064-665/2 +TCGAATAGGCCGTGGTTTGCGGCCGTACTCGTAGAAGCACAAAATATCGCCCTACTCGTG +TGTCAAAAAGGAAAAGTCTTAATGGGCTGTGAAGTGATCTGGAGATCAAAGCGGCACTCT +CTTTGAGAAGTCTCTTCTCGAGACTCTCTC +>HQ630064-403/2 +TACGGTGGGGGTCACAACAATTTAACCAATGAAATGTTTCTTTATTATAAGAGCGGTATA +GCAGATTTAATAAAATACCTTTTTTGAAAAAATATTGACCTGTCTCGCGTTGTAGATTCT +TCGCATCCGCGTTCCGTCATAATTCCAAGA +>HQ630064-343/2 +CTCCCGTGCATGTATACGTGACGCCACGCTAACAAGGAAGCGCCGCGCAATTTGCTCACG +GTTGGGCGTAGCTCTGTCCTCGAGCGCACGTGAAAAATTCTCGTCTCATTTCCCCTTACC +ACACCACACCAAACACTGGTAGTAAAACCG +>HQ630064-307/2 +TTTTTCACAGACGGGGACGTTCTCATCTAACTTCGGGGATCCTGGGGATATATTTTATAG +CGATGTAGTAGGGGGAGATGGCCCAATATTCGAAGATCCAGAGGACATTTGTACCCGTAG +ACCGGAATATGGAGAAAAGCTAAAAGAACA +>HQ630064-241/2 +CATAATCATTTACAAAACGCGGGACCTCGACAATATGCGGGAAAATCTAACAGCAATCTA +TCTTGGAGAATACGCTCTTCCGAAAGACCGTGGGAAAAAATTAGAAAATTTACCCACGGA +CCCAAGTCCCGCTTTGCCATTTTAGGAAAA +>HQ630064-217/2 +AAATCGCATGTCACACCCCAGCGTCGGAAAAACCGCCCGAGACGAAGTTGCTTCTTCTTT +GGGGCCCCCTCTTTTTTAAGCTACAAAATTTGCTTTGAGGCCTTTTCCTTTCTTTCTTTC +TTTCGCGTGTGATTGACGGGGGTTTACGTG +>HQ630064-199/2 +CCGTTAGCACTTAAGTAACCGGAGCTTGGCAACACCAAGGCCTCATCCCAACATCCAAAG +CACTCGAGCAAACGCAGGAGTAGCAAATCTCGCTATTTCAAAGCTTCAGAATCGTGTAAT +ACACCGTCACGCTTGCTATCTTTCTCATCT +>HQ630064-111/2 +GAAACTTGAATAAGAGCTCCCCAACTACGCTGCTAGAACTAGCAAATTTTATGCTCGCCA +ACAAGGTGTTGGAGTTCTGCGACCACGGAGAGATGGCCGGCAGAGCACAATATTATATAA +GTACTCCATCGATGATCATTACGACCTCCA +>HQ630064-105/2 +TTATTAAATTGTTATTTCCACCACCGCAGAGCAATACCGTGATGTTCTTTACGCCCTCTT +CTCCGGTCGTTGTGTTGTCCATACATCTCGTCTTCCCTCAGCGCTGCCCGCAAATGGTTC +AACGTATGTCGGTTGGTTGACTATGTCCTA +>HQ630064-11/2 +TGGGCGTAGTTCTGTCCTCGAGCGCACGCGAAAAATTCTCGTCTCATTTCCCCTTACCAC +ACCACACCAAACACTGGTAGTAAAATCGCATAATGCACCCCAACGTCGGAAACACAGCCC +GAGACGATGTTGCTTCTTCTTTAGGGCCCC +>HQ630064-3/2 +CCACAGTTATTTGCAATAGGACTCGAGTGAGTTTTAAGAAGAGACTTCTCAAAGAGAGAG +CCGCTTTGATCTCCAGATCACTTCACAGCCCATTAAGACTTTTCCTTTTTGACACACGAG +TAGGGCGATATTTTGTGCTTATCCGAGAAC |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/read1.fastq --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/read1.fastq Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,16 @@ +@SRR5680996.16159603/1 +TGGGTCAAGCCTTGGACCCCAAACTCTTCGAAACTGACGGTCGTGGTTGCC ++ +@CCFDFFFHHHHHJJIJJJJJJJJJJJIJJJJIJIIGIIIIIIGIIGHIJJ +@SRR5680996.2860859/1 +GACTGCTGGCTTTTGTGGACTCTGGATTCCAGGCTTTGCAACCCTAGCGGC ++ +@<@DDDFFHHFFFHEFHIIGIIIIIEIIIIGHIHGGIIIIIIIGEIIIIII +@SRR5680996.18976829/1 +TAGAGAACAGGGCCCACCAGTCGTACTGGCTCCCCCAAAGGTCCCGACTGT ++ +CCCFFFFFHHHHHJJJJJJJIJJJIJJJJJIJJJJJEHJGIDGIJIJJIJC +@SRR5680996.16094632/1 +GCAATTGTGATAAAAACTGCATGGTACTGGTATAGAGACAGACCAGTAAAC ++ +CCCFFFFFHHHHGJJJJJJJJJJJHHHIJJHHIJJJJJJJJIIGHIHJJJJ \ No newline at end of file |
| b |
| diff -r c26130696a4e -r e0d3f5969458 test-data/extract_kraken_reads/read2.fastq --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/extract_kraken_reads/read2.fastq Wed Mar 15 18:18:07 2023 +0000 |
| b |
| @@ -0,0 +1,16 @@ +@SRR5680996.16159603/2 +CAATCTCTGGATAGATCTTGGGGGGTGCTGATGGGCTGGACTTTCCGGCTG ++ +CCCFFFFFHHFHFIIIJJJIJIIJD<BDDDDDDDDDDDDDDDDDDDDDDDD +@SRR5680996.2860859/2 +CTTTCAGACATGTGGGCCATCCACTAGCAACAGGATCTAATTTTTTTGACA ++ +;==D??:B:D??AE<<1;AA<ACF+CEGC@@E?8D3?FDG><F>BF:FFE= +@SRR5680996.18976829/2 +AGACTGACCAGACAGTCCTCTGTTCCTAGGGGCGGTAGGGAAGCCGAGGTA ++ +CCCFFFFFHHHHHJJJJJJJJJJJJJJJJJJJJJJ@EHHHHFFFFDCDD;@ +@SRR5680996.16094632/2 +ACTGGATGGTTTTAGGTCCCTTGTCGAAGATCAAGTGACCATAGGTGTGTG ++ +@CCFFDFFHDFHHIJJIJJJJJIIJJJJJIIJJJGFIIIJHIHIJDGFHFD \ No newline at end of file |