MaxQtoMSstatsTMTFormat fails

[gprosales]

Hi, when running:
MaxQtoMSstatsTMTFormat(evidence = raw.mq, proteinGroups = proteinGroups.mq, annotation = annotation.mq,allow.cartesian=TRUE)

I get the below error. I rerun with "allow.cartesian=TRUE", but the error persists.
Any advice on this? Attached is my annotation file.
annotation_towers.txt

Help appreciated.
GPR

Error in vecseq(f__, len__, if (allow.cartesian || notjoin || !anyDuplicated(f__, : Join results in 1854844 rows; more than 1650276 = nrow(x)+nrow(i). Check for duplicate key values in i each of which join to the same group in x over and over again. If that's ok, try by=.EACHI to run j for each group to avoid the large allocation. If you are sure you wish to proceed, rerun with allow.cartesian=TRUE. Otherwise, please search for this error message in the FAQ, Wiki, Stack Overflow and data.table issue tracker for advice.

[devonjkohler]

Hey @gprosales,

I think what is happening here is a mismatch between your annotation and MaxQ output, but it is hard to tell with just the annotation file. Can you post a subset of you MaxQ output?

Devon