I am getting a following error when importing my data.
There was a problem importing MANIFESTSheet1.tsv:
MANIFESTSheet1.tsv is not a(n) PairedEndFastqManifestPhred33V2 file:
'forward-absolute-filepath' is not a column in the metadata. Available columns: 'absolute-filepath''
I have 3 samples AC, NC and BS (each with R1 and R2 reads) with no barcode sequences. my sample reads are named as follows
AC1_R1.fq.gz
AC2_R2.fq.gz
BS1_R1.fq.gz
BS2_R2.fq.gz
NC1_R1.fq.gz
NC2_R2.fq.gz
Is there a issue in my manifest file. manifest file is in tsv format.
sample-id absolute-filepath
AC1 /root/Data/reads/AC1_R1.fq.gz
AC2 /root/Data/reads/AC2_R2.fq.gz
BS1 /root/Data/reads/BS1_R1.fq.gz
BS2 /root/Data/reads/BS2_R2.fq.gz
NC1 /root/Data/reads/NC1_R1.fq.gz
NC2 /root/Data/reads/NC2_R2.fq.gz
import command used are
qiime tools import
--type 'SampleData[PairedEndSequencesWithQuality]'
--input-path MANIFESTSheet1.tsv
--output-path paired-end-demux.qza
--input-format PairedEndFastqManifestPhred33V2
As the error suggest, the format of the manifest file you using is not what qiime2 expects for a ManifestPhred33V2. Your manifest it is more similar the old ManifestPhred33.
Both manifests are discussed in the following thread, which may help you in solve your problem: