import picrust2 failed: "cannot open compressed file"

[azahorik]

I'm trying to import picrust2 output. I have a tab-delimited text metadata file with two columns: SampleID and SampleType. I have the KO prediction files (pred_metagenome_unstrat.tsv.gz and pred_metagenome_unstrat_descrip.tsv.gz). I have set the working directory in R to the directory where all of these files are located.

I ran the following commands:

sam_tab <- system.file(
"extdata", "metadata.txt",
package = "microbiomeMarker")

annual_KO_tab <- system.file(
"extdata",
"annual_KO_pred_metagenome_unstrat.tsv.gz",
package = "microbiomeMarker"
)

annual.ko <-
import_picrust2(
annual_KO_tab,
sam_tab,
trait = "KO"
)

And got the following error:

Error in open.connection(file, "rt") : cannot open the connection
In addition: Warning message:
In open.connection(file, "rt") :
cannot open compressed file '', probable reason 'Invalid argument'

I have tried:

• Specifying the full filepath.
• Using the gzipped and unzipped versions of the prediction files.
• Using the versions with and without the added description column.
• Because I had renamed the files to specify traits and experiment, I reverted to the original filenames.

Regardless, I keep getting the same error. I can't see what I'm doing wrong here. Please advise. I've attached my metadata file and one of the picrust2 output files.

Note: The picrust2 output file was in tsv/tsv.gz format for this, but I had to convert to tab delimited .txt in order to upload it to github. This wasn't the format used in R.
annual_KO_pred_metagenome_unstrat.txt
metadata.txt

[azahorik]

Further note: I am using R 4.2.2 in RStudio in Windows 10. I am running RStudio as administrator. (Since sometimes Windows can be weird about write perms.)