| Previous changeset 10:41faa653d86c (2025-08-13) Next changeset 12:52c601d961b6 (2025-09-18) |
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Commit message:
planemo upload for repository https://github.com/open2c/pairtools commit a7612b0f2c0575d6a78fb24dc87192d44817178a |
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modified:
macros.xml |
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added:
test-data/output_parsed_pairs_sam.sorted.pairs test-data/output_parsed_pairs_sam_assemblyname.sorted.pairs test-data/output_parsed_pairs_sam_assemblyname.sorted.pairs.gz test-data/output_parsed_pairs_sam_mapq.sorted.pairs |
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| diff -r 41faa653d86c -r 7a2b37ae4a50 macros.xml --- a/macros.xml Wed Aug 13 20:05:12 2025 +0000 +++ b/macros.xml Thu Aug 28 17:59:53 2025 +0000 |
| b |
| @@ -1,6 +1,6 @@ <macros> <token name="@TOOL_VERSION@">1.1.3</token> - <token name="@SUFFIX_VERSION@">3</token> + <token name="@SUFFIX_VERSION@">4</token> <token name="@PROFILE_VERSION@">25.0</token> <xml name="edam_ontology"> <edam_datas> |
| b |
| diff -r 41faa653d86c -r 7a2b37ae4a50 test-data/output_parsed_pairs_sam.sorted.pairs --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/output_parsed_pairs_sam.sorted.pairs Thu Aug 28 17:59:53 2025 +0000 |
| b |
| b'@@ -0,0 +1,602 @@\n+## pairs format v1.0.0\n+#sorted: chr1-chr2-pos1-pos2\n+#shape: upper triangle\n+#genome_assembly: unknown\n+#chromsize: Test_seq 450060\n+#samheader: @SQ\tSN:Test_seq\tLN:450060\n+#samheader: @PG\tID:bwa-mem2\tPN:bwa-mem2\tVN:2.2.1\tCL:bwa-mem2 mem -5SP -T0 -t 8 test test_hic_reads_1.fq test_hic_reads_2.fq\n+#samheader: @PG\tID:pairtools_parse\tPN:pairtools_parse\tCL:/usr/local/bin/pairtools parse /tmp/tmprvti6kw7/files/9/8/8/dataset_988a4d9d-9695-43af-830e-80c6375afe07.dat -c /tmp/tmprvti6kw7/files/1/e/2/dataset_1e224097-dd1a-40f1-bb9b-4234ec9f8cb7.dat -o /tmp/tmprvti6kw7/job_working_directory/000/3/outputs/dataset_bbc176bc-490b-4d30-b0e8-7f401863a12e.dat --min-mapq 1 --max-molecule-size 750 --walks-policy mask --max-inter-align-gap 20 --nproc-in 1 --nproc-out 1\tPP:bwa-mem2\tVN:1.1.0\n+#samheader: @PG\tID:pairtools_sort\tPN:pairtools_sort\tCL:/home/pks5769/miniconda3/envs/pairtools/bin/pairtools sort output_parsed_pairs_sam.pairs -o output_parsed_pairs_sam.sorted.pairs\tPP:pairtools_parse\tVN:1.1.3\n+#columns: readID chrom1 pos1 chrom2 pos2 strand1 strand2 pair_type sam1 sam2\n+A00126:224:H7HMWDSX3:3:1101:32398:33238\t!\t0\t!\t0\t-\t-\tMM\tA00126:224:H7HMWDSX3:3:1101:32398:33238\x1981\x19Test_seq\x19449330\x190\x1959M\x19=\x19383985\x19-65404\x19TCCTGGCTGAAAGCAGAGAATACCAGAAAGATGTTTACCTGTGTTTTATTGACTATGCA\x19F,F:FFFFFFFFFF:FFFF,:FFFFFF,FFFFFF:FFFFFFFFFFFFF::FFFF:FFFF\x19NM:i:1\x19MD:Z:18C40\x19MC:Z:59M\x19AS:i:54\x19XS:i:54\x19Yt:Z:MM\tA00126:224:H7HMWDSX3:3:1101:32398:33238\x19161\x19Test_seq\x19383985\x190\x1959M\x19=\x19449330\x1965404\x19TTCTGGCTGAAAGCAGAGAATACCAGAAAGATGTGTACCTGTGTTGTCATGACTATGCA\x19FFFFFFFFFFFFFFFFFFF:FFFFF,F::FFFF::FFFFFFFFF:,F,,FFFFFFFFF,\x19NM:i:6\x19MD:Z:1C26G5T10T1A0T10\x19MC:Z:59M\x19AS:i:33\x19XS:i:33\x19XA:Z:Test_seq,-333519,59M,6;Test_seq,-116683,56M3S,5;Test_seq,-316244,10M2I47M,7;\x19Yt:Z:MM\n+A00126:224:H7HMWDSX3:3:1107:3414:7122\t!\t0\t!\t0\t-\t-\tMM\tA00126:224:H7HMWDSX3:3:1107:3414:7122\x1965\x19Test_seq\x19140816\x190\x1952M\x19=\x19384324\x19243509\x19TCCTCTTCACTTTCAGCAAGCAAGGTTGTGTCATCTGCATAATGCAGGTTGT\x19FFFFFFFF:FFFFFFFFFF::FFF:FF::FFFFFFFFFFFFFFFFFFFF:FF\x19NM:i:1\x19MD:Z:32T19\x19MC:Z:52M\x19AS:i:47\x19XS:i:47\x19XA:Z:Test_seq,+333187,52M,1;Test_seq,-384324,52M,1;Test_seq,-366380,50M2S,1;Test_seq,-17092,42M10S,0;\x19Yt:Z:MM\tA00126:224:H7HMWDSX3:3:1107:3414:7122\x19129\x19Test_seq\x19384324\x190\x1952M\x19=\x19140816\x19-243509\x19ACAACCTGTGTTATGCAGGTGACACAATCTTGCTTGCTGAAAGTGAAGAGGA\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFF\x19NM:i:3\x19MD:Z:8C9A8C24\x19MC:Z:52M\x19AS:i:37\x19XS:i:37\x19XA:Z:Test_seq,-333187,52M,3;Test_seq,-315912,52M,4;\x19Yt:Z:MM\n+A00126:224:H7HMWDSX3:3:1110:15130:6151\t!\t0\t!\t0\t-\t-\tMM\tA00126:224:H7HMWDSX3:3:1110:15130:6151\x1965\x19Test_seq\x19333515\x190\x1962M\x19=\x19383986\x1950472\x19CCTTTGCATAGTCAATAAAACACAGGTAAACATCCTTCTGGTATTCTCTGCCTTCAGCCAGG\x19FFFFFFF:FFFFF:FFFFFFFFFFFFFFFFFFFFF:FFFF,F::FFFFFFFFF:FF,F,:,F\x19NM:i:1\x19MD:Z:51T10\x19MC:Z:62M\x19AS:i:57\x19XS:i:57\x19XA:Z:Test_seq,-383986,62M,1;Test_seq,+15151,62M,2;Test_seq,+316240,19M2I41M,3;\x19Yt:Z:MM\tA00126:224:H7HMWDSX3:3:1110:15130:6151\x19129\x19Test_seq\x19383986\x190\x1962M\x19=\x19333515\x19-50472\x19CCTGGCTGAAGGCAGAGAATACCAGAAGGATGTTTACCTGTGTTTTATTGACTATGCAAAGG\x19FFFFFF:FFFFFFFFFFFFFFFF:FFFFF:FF:FFFFF,FFFF::FFFFFF,F:FFF:F:FF\x19NM:i:1\x19MD:Z:10A51\x19MC:Z:62M\x19AS:i:57\x19XS:i:57\x19XA:Z:Test_seq,-333515,62M,1;Test_seq,-15151,62M,2;Test_seq,-316240,19M2I41M,3;Test_seq,+449331,62M,4;\x19Yt:Z:MM\n+A00126:224:H7HMWDSX3:3:1110:2636:18176\t!\t0\t!\t0\t-\t-\tMM\tA00126:224:H7HMWDSX3:3:1110:2636:18176\x1997\x19Test_seq\x19167381\x190\x1973M\x19=\x19167381\x1973\x19CTCTTTTGGAGAAGTCTTTAGATGAGCATAGGTGTTTGATTTTTAGGAGCTCCCAGTTATCTGGTTTCTCTTC\x19FF:FFF:,FFF:F,FF,:F:F:F,::F:FF:::,FFFFFFFFFFF,:F,FF,FFFFF:FF:FFFFFFFFFFF:\x19NM:i:1\x19MD:Z:9T63\x19MC:Z:73M\x19AS:i:68\x19XS:i:68\x19XA:Z:Test_seq,-213581,73M,1;\x19Yt:Z:MM\tA00126:224:H7HMWDSX3:3:1110:2636:18176\x19145\x19Test_seq\x19167381\x190\x1973M\x19=\x19167381\x19-73\x19CTCTTTTGGAGAAGTATTTAGTTGAGCATAGGTGTTTGATTTTTAGGAGCTCCCAGTTATCTGGTTTCTCTTC\x19FF,FFFF:F,FFFFF,FFF:,,FFF,F:FFFFFF,FFFFFFFFFF:FFFFF,:FFFFFFF,FF:FFFFFFFF,\x19NM:i:3\x19MD:Z:9T5C5A51\x19MC:Z:73M\x19AS:i:58\x19XS:i:58\x19XA:Z:Test_seq,+213581,73M,3;\x19Yt:Z:MM\n+A00126:224:H7HMWDSX3:3:1104:25093:3615\t!\t0\tTest_seq\t16111\t-\t+\tNR\tA00126:224:H7HMWDSX3:3:1104:25093:3615\x1981\x19Test_seq\x1916333\x1960\x19127M24S\x19=\x1916111\x19-349\x19TGTAATC'..b'FFFFFFFFFF,,FF,FFFF:FF\x19NM:i:0\x19MD:Z:151\x19MC:Z:151M\x19AS:i:151\x19XS:i:0\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1114:22453:9032\x19145\x19Test_seq\x19414303\x1960\x19151M\x19=\x19414176\x19-278\x19TCCACTGACAGCATTCTCCCCTCAATCACCATCGACTCGCATTAAGCCCCATTTAGTTCCATTTCCCTTTCAATCCATCTCTTCACAGCAGCCAGGGTGATTTAAAAAAATATATAAATTACAGCACATCACTCTGGTGTGTGGCCCACTG\x19FFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:151M\x19AS:i:151\x19XS:i:0\x19Yt:Z:UU\n+A00126:224:H7HMWDSX3:3:1111:24777:34413\tTest_seq\t417145\tTest_seq\t417607\t+\t-\tUU\tA00126:224:H7HMWDSX3:3:1111:24777:34413\x1997\x19Test_seq\x19417145\x1960\x19151M\x19=\x19417457\x19463\x19CATCTTTCTTACATTTCAAAGTCTGCTCCCTGGTTAAAGGAAGTGGAAATAAAGCGTGGGATTTGGGGATTAAATCAGTGGGATTCCAAATTAGGCTTATTTTTTTGTGGTGGTTATTCAATTACATAAATCTGTACTCTTGATCTTCTCA\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:151M\x19AS:i:151\x19XS:i:0\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1111:24777:34413\x19145\x19Test_seq\x19417457\x1960\x19151M\x19=\x19417145\x19-463\x19TTCCAAAATCCAGAAGTTCTGGAAAAGAGATTTTTTTCTCGGCAGCCCCAAAATCCAAAAAATTTTTGGAGGAAAAAAAAAGTCCTTTGTAAGGTTGGCACCAAAACTTAGTCGACTGCAAAAACCTGACTTGAACTGATGTTCACACTTA\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFF,FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF\x19NM:i:1\x19MD:Z:46T104\x19MC:Z:151M\x19AS:i:146\x19XS:i:0\x19Yt:Z:UU\n+A00126:224:H7HMWDSX3:3:1113:12644:7701\tTest_seq\t424202\tTest_seq\t424540\t+\t-\tUU\tA00126:224:H7HMWDSX3:3:1113:12644:7701\x1997\x19Test_seq\x19424202\x1960\x19151M\x19=\x19424407\x19339\x19TGGGGCAGAAGACTGCTGTTTTTCACACTTAGAGAATAAGACCTTTTCAAACTCAACATGTCCACTTGGATGTCTAATAGACATCTTAAACTTAATATATTTAAAACAATATTTGGCCCCAAAGCTGCCCTATTTTGTGTCAGCTGATGGC\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFF:FFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF,FFFFFFFFFFFFFFFF,FFFFFFFFFFFFFF:FF:FFFFFFFFFFFFFFFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:134M17S\x19AS:i:151\x19XS:i:0\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1113:12644:7701\x19145\x19Test_seq\x19424407\x1960\x19134M17S\x19=\x19424202\x19-339\x19ATATCCAATCCTTCAGGAAATCCTTTAGAATATCTCCAGACTCTGACCATCTTGCGCTTCCTCTGCTGTCACCATCCTGGGTCAAGCCCATCATCTCTCACCTGAACTCCTGCTCATAATCTCCTCCCAGATCTAAACTACACAGTATCTA\x19FF:FFFFFFFFFFFFFF:FFFFFFFFFF:FF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFF:FF:FFFFFFFFF\x19NM:i:0\x19MD:Z:134\x19MC:Z:151M\x19AS:i:134\x19XS:i:0\x19Yt:Z:UU\n+A00126:224:H7HMWDSX3:3:1114:26268:3333\tTest_seq\t435684\tTest_seq\t436086\t+\t-\tUU\tA00126:224:H7HMWDSX3:3:1114:26268:3333\x19161\x19Test_seq\x19435684\x1960\x19151M\x19=\x19435936\x19403\x19CTGAGCAATAATCACCGCCCATGGGGCAGTTCTGCTCTGCCCTATAGGGTTGCTATGAGTCGGAATCAACTCCAGGGCAATAGGGTTTTTTTGGTTTTACCATCACCTTGAATCAGAAACAACTAGACAGCAATAGCAAATAGCTAAAAGT\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:151M\x19AS:i:151\x19XS:i:31\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1114:26268:3333\x1981\x19Test_seq\x19435936\x1960\x19151M\x19=\x19435684\x19-403\x19TTATCGCAGTTGTAAATACCTTTTCTCTCTTTTTCAGGACAGACTGGCAAATCTTTGAATGTCTAATGTACACCTATGTATGATAATCTCTTTTCCTCCAGGAAAAAATTTCTGCCTTGAAAAAGCAAGCGAATCATATTGTCCAGCAGGC\x19FFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFF:FFFFFFFFFFFFFFF:FFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:151M\x19AS:i:151\x19XS:i:0\x19Yt:Z:UU\n+A00126:224:H7HMWDSX3:3:1101:9344:5306\tTest_seq\t449503\tTest_seq\t449562\t+\t-\tUU\tA00126:224:H7HMWDSX3:3:1101:9344:5306\x1997\x19Test_seq\x19449503\x197\x1960M\x19=\x19449503\x1960\x19GTTCGGACAGAACAAGGGGATACTGATTGGTTTAAAGTCAGGAAAGGTATGAGTCAGTGT\x19,FFFF,FFF:FF,FF:FF:FF:F:,F::,FF:,FFFFFFFF::FF,,:FFF,FFF::,F,\x19NM:i:4\x19MD:Z:3T44G2C5G2\x19MC:Z:60M\x19AS:i:44\x19XS:i:40\x19XA:Z:Test_seq,+16926,60M,5;\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1101:9344:5306\x19145\x19Test_seq\x19449503\x1912\x1960M\x19=\x19449503\x19-60\x19GTTTGGACAGAACAAGGGGATACTGATTGGTTTAAAGTCAGGAAAGGTGTGCGCCAGGGT\x19FFFFFFFFF:F::FF,FFFFFFFFFFFFFFFFFF,FFFFFFFFFFFFFFFFFF:F:FFFF\x19NM:i:1\x19MD:Z:53T6\x19MC:Z:60M\x19AS:i:55\x19XS:i:50\x19XA:Z:Test_seq,-16926,60M,2;\x19Yt:Z:UU\n' 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| b |
| diff -r 41faa653d86c -r 7a2b37ae4a50 test-data/output_parsed_pairs_sam_assemblyname.sorted.pairs --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/output_parsed_pairs_sam_assemblyname.sorted.pairs Thu Aug 28 17:59:53 2025 +0000 |
| b |
| b'@@ -0,0 +1,602 @@\n+## pairs format v1.0.0\n+#sorted: chr1-chr2-pos1-pos2\n+#shape: upper triangle\n+#genome_assembly: test_assembly\n+#chromsize: Test_seq 450060\n+#samheader: @SQ\tSN:Test_seq\tLN:450060\n+#samheader: @PG\tID:bwa-mem2\tPN:bwa-mem2\tVN:2.2.1\tCL:bwa-mem2 mem -5SP -T0 -t 8 test test_hic_reads_1.fq test_hic_reads_2.fq\n+#samheader: @PG\tID:pairtools_parse\tPN:pairtools_parse\tCL:/usr/local/bin/pairtools parse /tmp/tmprvti6kw7/files/6/0/0/dataset_600103a3-0dfd-425e-9758-fd74483e7fba.dat -c /tmp/tmprvti6kw7/files/9/4/6/dataset_946e6de4-4d3a-422e-a73b-b8f7646b510d.dat --assembly test_assembly -o /tmp/tmprvti6kw7/job_working_directory/000/28/outputs/dataset_65c0af76-60c7-4aac-b926-a405b8e6f3cf.dat --min-mapq 1 --max-molecule-size 750 --walks-policy mask --max-inter-align-gap 20 --nproc-in 1 --nproc-out 1\tPP:bwa-mem2\tVN:1.1.0\n+#samheader: @PG\tID:pairtools_sort\tPN:pairtools_sort\tCL:/home/pks5769/miniconda3/envs/pairtools/bin/pairtools sort output_parsed_pairs_sam_assemblyname.pairs -o output_parsed_pairs_sam_assemblyname.sorted.pairs\tPP:pairtools_parse\tVN:1.1.3\n+#columns: readID chrom1 pos1 chrom2 pos2 strand1 strand2 pair_type sam1 sam2\n+A00126:224:H7HMWDSX3:3:1101:32398:33238\t!\t0\t!\t0\t-\t-\tMM\tA00126:224:H7HMWDSX3:3:1101:32398:33238\x1981\x19Test_seq\x19449330\x190\x1959M\x19=\x19383985\x19-65404\x19TCCTGGCTGAAAGCAGAGAATACCAGAAAGATGTTTACCTGTGTTTTATTGACTATGCA\x19F,F:FFFFFFFFFF:FFFF,:FFFFFF,FFFFFF:FFFFFFFFFFFFF::FFFF:FFFF\x19NM:i:1\x19MD:Z:18C40\x19MC:Z:59M\x19AS:i:54\x19XS:i:54\x19Yt:Z:MM\tA00126:224:H7HMWDSX3:3:1101:32398:33238\x19161\x19Test_seq\x19383985\x190\x1959M\x19=\x19449330\x1965404\x19TTCTGGCTGAAAGCAGAGAATACCAGAAAGATGTGTACCTGTGTTGTCATGACTATGCA\x19FFFFFFFFFFFFFFFFFFF:FFFFF,F::FFFF::FFFFFFFFF:,F,,FFFFFFFFF,\x19NM:i:6\x19MD:Z:1C26G5T10T1A0T10\x19MC:Z:59M\x19AS:i:33\x19XS:i:33\x19XA:Z:Test_seq,-333519,59M,6;Test_seq,-116683,56M3S,5;Test_seq,-316244,10M2I47M,7;\x19Yt:Z:MM\n+A00126:224:H7HMWDSX3:3:1107:3414:7122\t!\t0\t!\t0\t-\t-\tMM\tA00126:224:H7HMWDSX3:3:1107:3414:7122\x1965\x19Test_seq\x19140816\x190\x1952M\x19=\x19384324\x19243509\x19TCCTCTTCACTTTCAGCAAGCAAGGTTGTGTCATCTGCATAATGCAGGTTGT\x19FFFFFFFF:FFFFFFFFFF::FFF:FF::FFFFFFFFFFFFFFFFFFFF:FF\x19NM:i:1\x19MD:Z:32T19\x19MC:Z:52M\x19AS:i:47\x19XS:i:47\x19XA:Z:Test_seq,+333187,52M,1;Test_seq,-384324,52M,1;Test_seq,-366380,50M2S,1;Test_seq,-17092,42M10S,0;\x19Yt:Z:MM\tA00126:224:H7HMWDSX3:3:1107:3414:7122\x19129\x19Test_seq\x19384324\x190\x1952M\x19=\x19140816\x19-243509\x19ACAACCTGTGTTATGCAGGTGACACAATCTTGCTTGCTGAAAGTGAAGAGGA\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFF\x19NM:i:3\x19MD:Z:8C9A8C24\x19MC:Z:52M\x19AS:i:37\x19XS:i:37\x19XA:Z:Test_seq,-333187,52M,3;Test_seq,-315912,52M,4;\x19Yt:Z:MM\n+A00126:224:H7HMWDSX3:3:1110:15130:6151\t!\t0\t!\t0\t-\t-\tMM\tA00126:224:H7HMWDSX3:3:1110:15130:6151\x1965\x19Test_seq\x19333515\x190\x1962M\x19=\x19383986\x1950472\x19CCTTTGCATAGTCAATAAAACACAGGTAAACATCCTTCTGGTATTCTCTGCCTTCAGCCAGG\x19FFFFFFF:FFFFF:FFFFFFFFFFFFFFFFFFFFF:FFFF,F::FFFFFFFFF:FF,F,:,F\x19NM:i:1\x19MD:Z:51T10\x19MC:Z:62M\x19AS:i:57\x19XS:i:57\x19XA:Z:Test_seq,-383986,62M,1;Test_seq,+15151,62M,2;Test_seq,+316240,19M2I41M,3;\x19Yt:Z:MM\tA00126:224:H7HMWDSX3:3:1110:15130:6151\x19129\x19Test_seq\x19383986\x190\x1962M\x19=\x19333515\x19-50472\x19CCTGGCTGAAGGCAGAGAATACCAGAAGGATGTTTACCTGTGTTTTATTGACTATGCAAAGG\x19FFFFFF:FFFFFFFFFFFFFFFF:FFFFF:FF:FFFFF,FFFF::FFFFFF,F:FFF:F:FF\x19NM:i:1\x19MD:Z:10A51\x19MC:Z:62M\x19AS:i:57\x19XS:i:57\x19XA:Z:Test_seq,-333515,62M,1;Test_seq,-15151,62M,2;Test_seq,-316240,19M2I41M,3;Test_seq,+449331,62M,4;\x19Yt:Z:MM\n+A00126:224:H7HMWDSX3:3:1110:2636:18176\t!\t0\t!\t0\t-\t-\tMM\tA00126:224:H7HMWDSX3:3:1110:2636:18176\x1997\x19Test_seq\x19167381\x190\x1973M\x19=\x19167381\x1973\x19CTCTTTTGGAGAAGTCTTTAGATGAGCATAGGTGTTTGATTTTTAGGAGCTCCCAGTTATCTGGTTTCTCTTC\x19FF:FFF:,FFF:F,FF,:F:F:F,::F:FF:::,FFFFFFFFFFF,:F,FF,FFFFF:FF:FFFFFFFFFFF:\x19NM:i:1\x19MD:Z:9T63\x19MC:Z:73M\x19AS:i:68\x19XS:i:68\x19XA:Z:Test_seq,-213581,73M,1;\x19Yt:Z:MM\tA00126:224:H7HMWDSX3:3:1110:2636:18176\x19145\x19Test_seq\x19167381\x190\x1973M\x19=\x19167381\x19-73\x19CTCTTTTGGAGAAGTATTTAGTTGAGCATAGGTGTTTGATTTTTAGGAGCTCCCAGTTATCTGGTTTCTCTTC\x19FF,FFFF:F,FFFFF,FFF:,,FFF,F:FFFFFF,FFFFFFFFFF:FFFFF,:FFFFFFF,FF:FFFFFFFF,\x19NM:i:3\x19MD:Z:9T5C5A51\x19MC:Z:73M\x19AS:i:58\x19XS:i:58\x19XA:Z:Test_seq,+213581,73M,3;\x19Yt:Z:MM\n+A00126:224:H7HMWDSX3:3:1104:25093:3615\t!\t0\tTest_seq\t16111\t-\t+\tNR\tA00126:224:H7HMWDSX3:3:1104:25'..b'FFFFFFFFFF,,FF,FFFF:FF\x19NM:i:0\x19MD:Z:151\x19MC:Z:151M\x19AS:i:151\x19XS:i:0\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1114:22453:9032\x19145\x19Test_seq\x19414303\x1960\x19151M\x19=\x19414176\x19-278\x19TCCACTGACAGCATTCTCCCCTCAATCACCATCGACTCGCATTAAGCCCCATTTAGTTCCATTTCCCTTTCAATCCATCTCTTCACAGCAGCCAGGGTGATTTAAAAAAATATATAAATTACAGCACATCACTCTGGTGTGTGGCCCACTG\x19FFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:151M\x19AS:i:151\x19XS:i:0\x19Yt:Z:UU\n+A00126:224:H7HMWDSX3:3:1111:24777:34413\tTest_seq\t417145\tTest_seq\t417607\t+\t-\tUU\tA00126:224:H7HMWDSX3:3:1111:24777:34413\x1997\x19Test_seq\x19417145\x1960\x19151M\x19=\x19417457\x19463\x19CATCTTTCTTACATTTCAAAGTCTGCTCCCTGGTTAAAGGAAGTGGAAATAAAGCGTGGGATTTGGGGATTAAATCAGTGGGATTCCAAATTAGGCTTATTTTTTTGTGGTGGTTATTCAATTACATAAATCTGTACTCTTGATCTTCTCA\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:151M\x19AS:i:151\x19XS:i:0\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1111:24777:34413\x19145\x19Test_seq\x19417457\x1960\x19151M\x19=\x19417145\x19-463\x19TTCCAAAATCCAGAAGTTCTGGAAAAGAGATTTTTTTCTCGGCAGCCCCAAAATCCAAAAAATTTTTGGAGGAAAAAAAAAGTCCTTTGTAAGGTTGGCACCAAAACTTAGTCGACTGCAAAAACCTGACTTGAACTGATGTTCACACTTA\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFF,FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF\x19NM:i:1\x19MD:Z:46T104\x19MC:Z:151M\x19AS:i:146\x19XS:i:0\x19Yt:Z:UU\n+A00126:224:H7HMWDSX3:3:1113:12644:7701\tTest_seq\t424202\tTest_seq\t424540\t+\t-\tUU\tA00126:224:H7HMWDSX3:3:1113:12644:7701\x1997\x19Test_seq\x19424202\x1960\x19151M\x19=\x19424407\x19339\x19TGGGGCAGAAGACTGCTGTTTTTCACACTTAGAGAATAAGACCTTTTCAAACTCAACATGTCCACTTGGATGTCTAATAGACATCTTAAACTTAATATATTTAAAACAATATTTGGCCCCAAAGCTGCCCTATTTTGTGTCAGCTGATGGC\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFF:FFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF,FFFFFFFFFFFFFFFF,FFFFFFFFFFFFFF:FF:FFFFFFFFFFFFFFFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:134M17S\x19AS:i:151\x19XS:i:0\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1113:12644:7701\x19145\x19Test_seq\x19424407\x1960\x19134M17S\x19=\x19424202\x19-339\x19ATATCCAATCCTTCAGGAAATCCTTTAGAATATCTCCAGACTCTGACCATCTTGCGCTTCCTCTGCTGTCACCATCCTGGGTCAAGCCCATCATCTCTCACCTGAACTCCTGCTCATAATCTCCTCCCAGATCTAAACTACACAGTATCTA\x19FF:FFFFFFFFFFFFFF:FFFFFFFFFF:FF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFF:FF:FFFFFFFFF\x19NM:i:0\x19MD:Z:134\x19MC:Z:151M\x19AS:i:134\x19XS:i:0\x19Yt:Z:UU\n+A00126:224:H7HMWDSX3:3:1114:26268:3333\tTest_seq\t435684\tTest_seq\t436086\t+\t-\tUU\tA00126:224:H7HMWDSX3:3:1114:26268:3333\x19161\x19Test_seq\x19435684\x1960\x19151M\x19=\x19435936\x19403\x19CTGAGCAATAATCACCGCCCATGGGGCAGTTCTGCTCTGCCCTATAGGGTTGCTATGAGTCGGAATCAACTCCAGGGCAATAGGGTTTTTTTGGTTTTACCATCACCTTGAATCAGAAACAACTAGACAGCAATAGCAAATAGCTAAAAGT\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:151M\x19AS:i:151\x19XS:i:31\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1114:26268:3333\x1981\x19Test_seq\x19435936\x1960\x19151M\x19=\x19435684\x19-403\x19TTATCGCAGTTGTAAATACCTTTTCTCTCTTTTTCAGGACAGACTGGCAAATCTTTGAATGTCTAATGTACACCTATGTATGATAATCTCTTTTCCTCCAGGAAAAAATTTCTGCCTTGAAAAAGCAAGCGAATCATATTGTCCAGCAGGC\x19FFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFF:FFFFFFFFFFFFFFF:FFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:151M\x19AS:i:151\x19XS:i:0\x19Yt:Z:UU\n+A00126:224:H7HMWDSX3:3:1101:9344:5306\tTest_seq\t449503\tTest_seq\t449562\t+\t-\tUU\tA00126:224:H7HMWDSX3:3:1101:9344:5306\x1997\x19Test_seq\x19449503\x197\x1960M\x19=\x19449503\x1960\x19GTTCGGACAGAACAAGGGGATACTGATTGGTTTAAAGTCAGGAAAGGTATGAGTCAGTGT\x19,FFFF,FFF:FF,FF:FF:FF:F:,F::,FF:,FFFFFFFF::FF,,:FFF,FFF::,F,\x19NM:i:4\x19MD:Z:3T44G2C5G2\x19MC:Z:60M\x19AS:i:44\x19XS:i:40\x19XA:Z:Test_seq,+16926,60M,5;\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1101:9344:5306\x19145\x19Test_seq\x19449503\x1912\x1960M\x19=\x19449503\x19-60\x19GTTTGGACAGAACAAGGGGATACTGATTGGTTTAAAGTCAGGAAAGGTGTGCGCCAGGGT\x19FFFFFFFFF:F::FF,FFFFFFFFFFFFFFFFFF,FFFFFFFFFFFFFFFFFF:F:FFFF\x19NM:i:1\x19MD:Z:53T6\x19MC:Z:60M\x19AS:i:55\x19XS:i:50\x19XA:Z:Test_seq,-16926,60M,2;\x19Yt:Z:UU\n' |
| b |
| diff -r 41faa653d86c -r 7a2b37ae4a50 test-data/output_parsed_pairs_sam_assemblyname.sorted.pairs.gz |
| b |
| Binary file test-data/output_parsed_pairs_sam_assemblyname.sorted.pairs.gz has changed |
| b |
| diff -r 41faa653d86c -r 7a2b37ae4a50 test-data/output_parsed_pairs_sam_mapq.sorted.pairs --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/output_parsed_pairs_sam_mapq.sorted.pairs Thu Aug 28 17:59:53 2025 +0000 |
| b |
| b'@@ -0,0 +1,602 @@\n+## pairs format v1.0.0\n+#sorted: chr1-chr2-pos1-pos2\n+#shape: upper triangle\n+#genome_assembly: unknown\n+#chromsize: Test_seq 450060\n+#samheader: @SQ\tSN:Test_seq\tLN:450060\n+#samheader: @PG\tID:bwa-mem2\tPN:bwa-mem2\tVN:2.2.1\tCL:bwa-mem2 mem -5SP -T0 -t 8 test test_hic_reads_1.fq test_hic_reads_2.fq\n+#samheader: @PG\tID:pairtools_parse\tPN:pairtools_parse\tCL:/usr/local/bin/pairtools parse /tmp/tmpu2wbua_3/files/c/8/8/dataset_c88eeb08-5a4e-41bc-84ac-fe34bb7e42f9.dat -c /tmp/tmpu2wbua_3/files/2/8/b/dataset_28bb6843-f06e-45f9-b608-6c75c7408162.dat -o /tmp/tmpu2wbua_3/job_working_directory/000/31/outputs/dataset_0a810c2e-9b60-4852-b164-7a4b14ffcdac.dat --min-mapq 1 --max-molecule-size 750 --add-columns mapq,seq --walks-policy mask --max-inter-align-gap 20 --nproc-in 1 --nproc-out 1\tPP:bwa-mem2\tVN:1.1.3\n+#samheader: @PG\tID:pairtools_sort\tPN:pairtools_sort\tCL:/home/pks5769/miniconda3/envs/pairtools/bin/pairtools sort output_parsed_pairs_sam_mapq.pairs -o output_parsed_pairs_sam_mapq.sorted.pairs\tPP:pairtools_parse\tVN:1.1.3\n+#columns: readID chrom1 pos1 chrom2 pos2 strand1 strand2 pair_type sam1 sam2 mapq1 mapq2 seq1 seq2\n+A00126:224:H7HMWDSX3:3:1101:32398:33238\t!\t0\t!\t0\t-\t-\tMM\tA00126:224:H7HMWDSX3:3:1101:32398:33238\x1981\x19Test_seq\x19449330\x190\x1959M\x19=\x19383985\x19-65404\x19TCCTGGCTGAAAGCAGAGAATACCAGAAAGATGTTTACCTGTGTTTTATTGACTATGCA\x19F,F:FFFFFFFFFF:FFFF,:FFFFFF,FFFFFF:FFFFFFFFFFFFF::FFFF:FFFF\x19NM:i:1\x19MD:Z:18C40\x19MC:Z:59M\x19AS:i:54\x19XS:i:54\x19Yt:Z:MM\tA00126:224:H7HMWDSX3:3:1101:32398:33238\x19161\x19Test_seq\x19383985\x190\x1959M\x19=\x19449330\x1965404\x19TTCTGGCTGAAAGCAGAGAATACCAGAAAGATGTGTACCTGTGTTGTCATGACTATGCA\x19FFFFFFFFFFFFFFFFFFF:FFFFF,F::FFFF::FFFFFFFFF:,F,,FFFFFFFFF,\x19NM:i:6\x19MD:Z:1C26G5T10T1A0T10\x19MC:Z:59M\x19AS:i:33\x19XS:i:33\x19XA:Z:Test_seq,-333519,59M,6;Test_seq,-116683,56M3S,5;Test_seq,-316244,10M2I47M,7;\x19Yt:Z:MM\t0\t0\tTCCTGGCTGAAAGCAGAGAATACCAGAAAGATGTTTACCTGTGTTTTATTGACTATGCA\tTTCTGGCTGAAAGCAGAGAATACCAGAAAGATGTGTACCTGTGTTGTCATGACTATGCA\n+A00126:224:H7HMWDSX3:3:1107:3414:7122\t!\t0\t!\t0\t-\t-\tMM\tA00126:224:H7HMWDSX3:3:1107:3414:7122\x1965\x19Test_seq\x19140816\x190\x1952M\x19=\x19384324\x19243509\x19TCCTCTTCACTTTCAGCAAGCAAGGTTGTGTCATCTGCATAATGCAGGTTGT\x19FFFFFFFF:FFFFFFFFFF::FFF:FF::FFFFFFFFFFFFFFFFFFFF:FF\x19NM:i:1\x19MD:Z:32T19\x19MC:Z:52M\x19AS:i:47\x19XS:i:47\x19XA:Z:Test_seq,+333187,52M,1;Test_seq,-384324,52M,1;Test_seq,-366380,50M2S,1;Test_seq,-17092,42M10S,0;\x19Yt:Z:MM\tA00126:224:H7HMWDSX3:3:1107:3414:7122\x19129\x19Test_seq\x19384324\x190\x1952M\x19=\x19140816\x19-243509\x19ACAACCTGTGTTATGCAGGTGACACAATCTTGCTTGCTGAAAGTGAAGAGGA\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFF\x19NM:i:3\x19MD:Z:8C9A8C24\x19MC:Z:52M\x19AS:i:37\x19XS:i:37\x19XA:Z:Test_seq,-333187,52M,3;Test_seq,-315912,52M,4;\x19Yt:Z:MM\t0\t0\tTCCTCTTCACTTTCAGCAAGCAAGGTTGTGTCATCTGCATAATGCAGGTTGT\tACAACCTGTGTTATGCAGGTGACACAATCTTGCTTGCTGAAAGTGAAGAGGA\n+A00126:224:H7HMWDSX3:3:1110:15130:6151\t!\t0\t!\t0\t-\t-\tMM\tA00126:224:H7HMWDSX3:3:1110:15130:6151\x1965\x19Test_seq\x19333515\x190\x1962M\x19=\x19383986\x1950472\x19CCTTTGCATAGTCAATAAAACACAGGTAAACATCCTTCTGGTATTCTCTGCCTTCAGCCAGG\x19FFFFFFF:FFFFF:FFFFFFFFFFFFFFFFFFFFF:FFFF,F::FFFFFFFFF:FF,F,:,F\x19NM:i:1\x19MD:Z:51T10\x19MC:Z:62M\x19AS:i:57\x19XS:i:57\x19XA:Z:Test_seq,-383986,62M,1;Test_seq,+15151,62M,2;Test_seq,+316240,19M2I41M,3;\x19Yt:Z:MM\tA00126:224:H7HMWDSX3:3:1110:15130:6151\x19129\x19Test_seq\x19383986\x190\x1962M\x19=\x19333515\x19-50472\x19CCTGGCTGAAGGCAGAGAATACCAGAAGGATGTTTACCTGTGTTTTATTGACTATGCAAAGG\x19FFFFFF:FFFFFFFFFFFFFFFF:FFFFF:FF:FFFFF,FFFF::FFFFFF,F:FFF:F:FF\x19NM:i:1\x19MD:Z:10A51\x19MC:Z:62M\x19AS:i:57\x19XS:i:57\x19XA:Z:Test_seq,-333515,62M,1;Test_seq,-15151,62M,2;Test_seq,-316240,19M2I41M,3;Test_seq,+449331,62M,4;\x19Yt:Z:MM\t0\t0\tCCTTTGCATAGTCAATAAAACACAGGTAAACATCCTTCTGGTATTCTCTGCCTTCAGCCAGG\tCCTGGCTGAAGGCAGAGAATACCAGAAGGATGTTTACCTGTGTTTTATTGACTATGCAAAGG\n+A00126:224:H7HMWDSX3:3:1110:2636:18176\t!\t0\t!\t0\t-\t-\tMM\tA00126:224:H7HMWDSX3:3:1110:2636:18176\x1997\x19Test_seq\x19167381\x190\x1973M\x19=\x19167381\x1973\x19CTCTTTTGGAGAAGTCTTTAGATGAGCATAGGTGTTTGATTTTTAGGAGCTCCCAGTTATCTGGTTTCTCTTC\x19FF:FFF:,FFF:F,FF,:F:F:F,::F:FF:::,FFFFFFFFFFF,:F,FF,FFFFF:FF:FFFFFFFFFFF:\x19NM:i:1\x19MD:Z:9T63\x19MC:Z:73M\x19AS:i:68\x19XS:i:68\x19XA:Z:Test_seq,-213581,73M,1;\x19Yt:Z:MM\tA00126:224:H7HMWDSX3:3:1110:2636:18176\x19145\x19'..b'4413\x19145\x19Test_seq\x19417457\x1960\x19151M\x19=\x19417145\x19-463\x19TTCCAAAATCCAGAAGTTCTGGAAAAGAGATTTTTTTCTCGGCAGCCCCAAAATCCAAAAAATTTTTGGAGGAAAAAAAAAGTCCTTTGTAAGGTTGGCACCAAAACTTAGTCGACTGCAAAAACCTGACTTGAACTGATGTTCACACTTA\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFF,FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF\x19NM:i:1\x19MD:Z:46T104\x19MC:Z:151M\x19AS:i:146\x19XS:i:0\x19Yt:Z:UU\t60\t60\tCATCTTTCTTACATTTCAAAGTCTGCTCCCTGGTTAAAGGAAGTGGAAATAAAGCGTGGGATTTGGGGATTAAATCAGTGGGATTCCAAATTAGGCTTATTTTTTTGTGGTGGTTATTCAATTACATAAATCTGTACTCTTGATCTTCTCA\tTTCCAAAATCCAGAAGTTCTGGAAAAGAGATTTTTTTCTCGGCAGCCCCAAAATCCAAAAAATTTTTGGAGGAAAAAAAAAGTCCTTTGTAAGGTTGGCACCAAAACTTAGTCGACTGCAAAAACCTGACTTGAACTGATGTTCACACTTA\n+A00126:224:H7HMWDSX3:3:1113:12644:7701\tTest_seq\t424202\tTest_seq\t424540\t+\t-\tUU\tA00126:224:H7HMWDSX3:3:1113:12644:7701\x1997\x19Test_seq\x19424202\x1960\x19151M\x19=\x19424407\x19339\x19TGGGGCAGAAGACTGCTGTTTTTCACACTTAGAGAATAAGACCTTTTCAAACTCAACATGTCCACTTGGATGTCTAATAGACATCTTAAACTTAATATATTTAAAACAATATTTGGCCCCAAAGCTGCCCTATTTTGTGTCAGCTGATGGC\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFF:FFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF,FFFFFFFFFFFFFFFF,FFFFFFFFFFFFFF:FF:FFFFFFFFFFFFFFFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:134M17S\x19AS:i:151\x19XS:i:0\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1113:12644:7701\x19145\x19Test_seq\x19424407\x1960\x19134M17S\x19=\x19424202\x19-339\x19ATATCCAATCCTTCAGGAAATCCTTTAGAATATCTCCAGACTCTGACCATCTTGCGCTTCCTCTGCTGTCACCATCCTGGGTCAAGCCCATCATCTCTCACCTGAACTCCTGCTCATAATCTCCTCCCAGATCTAAACTACACAGTATCTA\x19FF:FFFFFFFFFFFFFF:FFFFFFFFFF:FF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFF:FF:FFFFFFFFF\x19NM:i:0\x19MD:Z:134\x19MC:Z:151M\x19AS:i:134\x19XS:i:0\x19Yt:Z:UU\t60\t60\tTGGGGCAGAAGACTGCTGTTTTTCACACTTAGAGAATAAGACCTTTTCAAACTCAACATGTCCACTTGGATGTCTAATAGACATCTTAAACTTAATATATTTAAAACAATATTTGGCCCCAAAGCTGCCCTATTTTGTGTCAGCTGATGGC\tATATCCAATCCTTCAGGAAATCCTTTAGAATATCTCCAGACTCTGACCATCTTGCGCTTCCTCTGCTGTCACCATCCTGGGTCAAGCCCATCATCTCTCACCTGAACTCCTGCTCATAATCTCCTCCCAGATCTAAACTACACAGTATCTA\n+A00126:224:H7HMWDSX3:3:1114:26268:3333\tTest_seq\t435684\tTest_seq\t436086\t+\t-\tUU\tA00126:224:H7HMWDSX3:3:1114:26268:3333\x19161\x19Test_seq\x19435684\x1960\x19151M\x19=\x19435936\x19403\x19CTGAGCAATAATCACCGCCCATGGGGCAGTTCTGCTCTGCCCTATAGGGTTGCTATGAGTCGGAATCAACTCCAGGGCAATAGGGTTTTTTTGGTTTTACCATCACCTTGAATCAGAAACAACTAGACAGCAATAGCAAATAGCTAAAAGT\x19FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:151M\x19AS:i:151\x19XS:i:31\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1114:26268:3333\x1981\x19Test_seq\x19435936\x1960\x19151M\x19=\x19435684\x19-403\x19TTATCGCAGTTGTAAATACCTTTTCTCTCTTTTTCAGGACAGACTGGCAAATCTTTGAATGTCTAATGTACACCTATGTATGATAATCTCTTTTCCTCCAGGAAAAAATTTCTGCCTTGAAAAAGCAAGCGAATCATATTGTCCAGCAGGC\x19FFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFF:FFFFFFFFFFFFFFF:FFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF\x19NM:i:0\x19MD:Z:151\x19MC:Z:151M\x19AS:i:151\x19XS:i:0\x19Yt:Z:UU\t60\t60\tCTGAGCAATAATCACCGCCCATGGGGCAGTTCTGCTCTGCCCTATAGGGTTGCTATGAGTCGGAATCAACTCCAGGGCAATAGGGTTTTTTTGGTTTTACCATCACCTTGAATCAGAAACAACTAGACAGCAATAGCAAATAGCTAAAAGT\tTTATCGCAGTTGTAAATACCTTTTCTCTCTTTTTCAGGACAGACTGGCAAATCTTTGAATGTCTAATGTACACCTATGTATGATAATCTCTTTTCCTCCAGGAAAAAATTTCTGCCTTGAAAAAGCAAGCGAATCATATTGTCCAGCAGGC\n+A00126:224:H7HMWDSX3:3:1101:9344:5306\tTest_seq\t449503\tTest_seq\t449562\t+\t-\tUU\tA00126:224:H7HMWDSX3:3:1101:9344:5306\x1997\x19Test_seq\x19449503\x197\x1960M\x19=\x19449503\x1960\x19GTTCGGACAGAACAAGGGGATACTGATTGGTTTAAAGTCAGGAAAGGTATGAGTCAGTGT\x19,FFFF,FFF:FF,FF:FF:FF:F:,F::,FF:,FFFFFFFF::FF,,:FFF,FFF::,F,\x19NM:i:4\x19MD:Z:3T44G2C5G2\x19MC:Z:60M\x19AS:i:44\x19XS:i:40\x19XA:Z:Test_seq,+16926,60M,5;\x19Yt:Z:UU\tA00126:224:H7HMWDSX3:3:1101:9344:5306\x19145\x19Test_seq\x19449503\x1912\x1960M\x19=\x19449503\x19-60\x19GTTTGGACAGAACAAGGGGATACTGATTGGTTTAAAGTCAGGAAAGGTGTGCGCCAGGGT\x19FFFFFFFFF:F::FF,FFFFFFFFFFFFFFFFFF,FFFFFFFFFFFFFFFFFF:F:FFFF\x19NM:i:1\x19MD:Z:53T6\x19MC:Z:60M\x19AS:i:55\x19XS:i:50\x19XA:Z:Test_seq,-16926,60M,2;\x19Yt:Z:UU\t7\t12\tGTTCGGACAGAACAAGGGGATACTGATTGGTTTAAAGTCAGGAAAGGTATGAGTCAGTGT\tGTTTGGACAGAACAAGGGGATACTGATTGGTTTAAAGTCAGGAAAGGTGTGCGCCAGGGT\n' 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