Fix phyloseq input #1266

Job	Run time
Choose nextflow versions to test against depending on target branch	1s
nf-test (latest-everything, test, docker)	14m 47s
nf-test (latest-everything, test_single, docker)	4m 50s
nf-test (latest-everything, test_fasta, docker)	2m 54s
nf-test (latest-everything, test_failed, docker)	14m 42s
nf-test (latest-everything, test_multi, docker)	9m 20s
nf-test (latest-everything, test_reftaxcustom, docker)	5m 14s
nf-test (latest-everything, test_doubleprimers, docker)	9m 9s
nf-test (latest-everything, test_iontorrent, docker)	5m 31s
nf-test (latest-everything, test_novaseq, docker)	3m 50s
nf-test (latest-everything, test_pacbio_its, docker)	8m 15s
nf-test (latest-everything, test_sintax, docker)	14m 53s
nf-test (latest-everything, test_pplace, docker)	11m 22s
	1h 44m 48s

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