I am fairly new to qiime. I am at the step of taxonomy classification with blast. I know that first I need to import the sequences from silva.
I looked on the forum and saw a similar issue:
#ran this first just to make sure all letters were capitalized as recommended in other post
cat silva132_99.fna | tr ‘acgt’ ‘ACGT’ > seqs.fna
I followed the instructions and ran the following code:
qiime tools import
--type 'FeatureData[Sequences]'
--input-path /path/silva_132_99_16S.fna
--output-path /path/silva_132_99_16S.qza
File used is located in ./Silva_132_release\SILVA_132_QIIME_release\rep_set\rep_set_16S_only\99\silva_132_99_16S.fna
After, I receive the following error for both FeatureData[Sequences] and SampleData[Sequences].
'TypeError: Semantic type FeatureData[Sequences] does not have a compatible directory format.
An unexpected error has occurred:
Semantic type FeatureData[Sequences] does not have a compatible directory format.'
This error occurs whether or not I include the file name in the --input-path option.
I was able to upload the taxonomy data using the code below with no issue:
qiime tools import
--type 'FeatureData[Taxonomy]'
--input-format HeaderlessTSVTaxonomyFormat
--input-path /path/majority_taxonomy_7_levels.txt
--output-path majority_taxonomy_7_levels.qza
I was also able to upload my sequence data without issue. What am I doing wrong?
Thank you!