I am trying to import data using the manifest option and am having difficulties with the absolute file path. I have read similar posts and tried what they tried, but with no success. I am running Qiime2 2019.4 on a Mac, installed via miniconda.
My fastq files are each in a different folder for each sample:
My manifest file is formatted like this:
And when I run this command:
(qiime2-2019.4) elisescsperslab:elf-16s-analysis elisehickman$ qiime tools import \
–type ‘SampleData[SequencesWithQuality]’ \
–input-path elfmanifestfile.tsv \
–output-path single-end-demux.qza \
There was a problem importing elfmanifestfile.tsv:
elfmanifestfile.tsv is not a(n) SingleEndFastqManifestPhred33V2 file:
Filepath on line 1 and column “absolute-filepath” could not be found (/MacintoshHD/Users/elisehickman/elf-16s-analysis/sequencingfiles/SA001V3L/fastqjoin.join.fastq) for sample “SA001V3L”.
Any other ideas?