Ah, I think your import step is the problem! You will need to use this section of the importing tutorial since they are already demultiplexed but not Casava formatted. Download both files somewhere, create the TSV manifest file(use Google Sheets or Excel), then run a command like this:
qiime tools import \ keeganevans@Keegans-MBP
--type 'SampleData[PairedEndSequencesWithQuality]' \
--input-path ./manifest.tsv \
--output-path paired-end-demux.qza \
--input-format PairedEndFastqManifestPhred33V2
Then try running quality-filter
again!