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scala> import org.biojava.nbio.adam.BiojavaAdamContext scala> val biojavaContext = new BiojavaAdamContext(sc) scala> val dna = sc.loadBiojavaFastaDna("../adam/adam-core/src/test/resources/HLA_DQB1_05_01_01_02.fa") scala> val dna = biojavaContext.loadBiojavaFastaDna("../adam/adam-core/src/test/resources/HLA_DQB1_05_01_01_02.fa") scala> dna.rdd.first res6: org.bdgenomics.formats.avro.Sequence = { "name": "HLA-DQB1*05:01:01:02\tHLA06615 7090 bp", "description": null, "alphabet": "DNA", "sequence": "TTCTAAGACCTTTGCTCTTCTCCCCAGGACTTAAGGCTCTTCAGCGTGTCTAAGACAACAGCAGTAAAAATTTCTGTGACAGCAATTTTCTCTCCCCTGAAATATGATCCCCACCTAATTTGCTTTATTAAAAATCCCAAGTATAATAACAACTGGTTTTTAACAATATTACAGAGATGTTTACTGTTGAATTGCATTTTTCTTTTGCCTCTCAAAATCCCTGAGGAATTTGTTCTTCAGCTCTTCTATAATCGAGAGGAAATTTTCACCTCAGATGTTCATCCAGTGCAATTGGAAGACGTCACAGTGCCAGGCACTGGATTGAGAACCTTCACAAAAAAAAATGTCTGCCCAGAGACAGATGAGGTCCTTCAGCTCCAGTGCTGATTGGTTCTTTTCCAAGCGACCATCCAATCCTGCCACGCACGGAAACATCCACAGGTTTTTATTCTTTCTGCCAGGTACATCAGATCCATCAGGTCTGAGCTGTGTTGACTACCACTACTTTTCCCTTCGTCTCAATTATGTCTTGGAAGAAGTCTTTGCGGATCCCCGGAGACCTTCGGGTAGCAACTGTCACCTTGATGCTGGCGATCCTGAGCTCCTCACTGGCTGAGGGCAGAGACTCTCCCGGTAAGTGCAGGAAAG... scala> val dna = biojavaContext.loadFastaDna("../adam/adam-core/src/test/resources/HLA_DQB1_05_01_01_02.fa") scala> dna.rdd.first res8: org.bdgenomics.formats.avro.Sequence = { "name": "HLA-DQB1*05:01:01:02", "description": "HLA06615 7090 bp", "alphabet": "DNA", "sequence": "TTCTAAGACCTTTGCTCTTCTCCCCAGGACTTAAGGCTCTTCAGCGTGTCTAAGACAACAGCAGTAAAAATTTCTGTGACAGCAATTTTCTCTCCCCTGAAATATGATCCCCACCTAATTTGCTTTATTAAAAATCCCAAGTATAATAACAACTGGTTTTTAACAATATTACAGAGATGTTTACTGTTGAATTGCATTTTTCTTTTGCCTCTCAAAATCCCTGAGGAATTTGTTCTTCAGCTCTTCTATAATCGAGAGGAAATTTTCACCTCAGATGTTCATCCAGTGCAATTGGAAGACGTCACAGTGCCAGGCACTGGATTGAGAACCTTCACAAAAAAAAATGTCTGCCCAGAGACAGATGAGGTCCTTCAGCTCCAGTGCTGATTGGTTCTTTTCCAAGCGACCATCCAATCCTGCCACGCACGGAAACATCCACAGGTTTTTATTCTTTCTGCCAGGTACATCAGATCCATCAGGTCTGAGCTGTGTTGACTACCACTACTTTTCCCTTCGTCTCAATTATGTCTTGGAAGAAGTCTTTGCGGATCCCCGGAGACCTTCGGGTAGCAACTGTCACCTTGATGCTGGCGATCCTGAGCTCCTCACTGGCTGAGGGCAGAGACTCTCCCGGTAAGTGCAGGAAAGCTGC...
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