Error in repload when loading metadata file

[nkric]

I noticed a problem with the repload function when loading a metadata file. Everything works fine as long as just the "Sample" column in the metadata.txt file ist provided, such as

metaFiles <- as_tibble(data.frame(Sample= c("D15-2P10_TR_germ-pass", "D15-2P3_TR_germ-pass", "D15-2P7_TR_germ-pass", "D15-2P8_TR_germ-pass", "D15-3P10_TR_germ-pass", "D15-P7_TR_germ-pass",
"D15-P8_TR_germ-pass"), stringsAsFactors = FALSE)) write.table(metaFiles, file=paste0(PathtoData, "Sequence Tables\", paste("metadata.txt")), row.names=FALSE, col.names=TRUE, sep=" ")

But as soon as I try to pass more than one column:

metaFiles <- as_tibble(data.frame(Sample= c("D15-2P10_TR_germ-pass", "D15-2P3_TR_germ-pass", "D15-2P7_TR_germ-pass", "D15-2P8_TR_germ-pass", "D15-3P10_TR_germ-pass", "D15-P7_TR_germ-pass",
"D15-P8_TR_germ-pass"), Peptide= c("P10", "P3","P7", "P8", "P10","P7","P8"), Timepoint= c(2,2,2,2,3,1,1), stringsAsFactors = FALSE))

the repload function stops and throws following error:

Error in .process_batch(batches[[batch_i]], .format, .mode, .coding) :
No "Sample" column found in the metadata file. The "Sample" column with the names of samples without extensions (e.g., ".txt", ".tsv") is required. Please provide it and run the parsing again.

I am running R version 4.1.0 with immunarch version 0.6.7.

I would appreciate your help! Thank you

[MVolobueva]

Hello @nkric,

Thank you for contacting us!

I am sorry you had to deal with this inconvenience. Fixing it in the near future has been our priority.

I will get back to you with any updates.

Thank you so much for drawing our attention to this. Please contact us with any questions further along.

Best regards, Maria Samokhina

[vanessajmh]

Hello @nkric, I solved the problem by setting the sep argument to a tabulation likeso: write.table(metaFiles, file=paste0(PathtoData, "Sequence Tables", paste("metadata.txt")), row.names=FALSE, col.names=TRUE, sep="\t"). Hope this helps !

[nkric]

Hey @vanessajmh, Indeed that solved the issue! Thank you!