Hi Pat
I'm still working on getting the nanopore reads through mothur. Pre.clustering seems to work but then get this error? I thought that maybe it crashed with not enough mem so reran with 50gb and got the same thing? The accnos is made from the input fasta, so not sure how none of the seqs in the accnos are found in the fasta?
Total number of sequences before precluster was 2407937.
pre.cluster removed 412487 sequences.
/******************************************/
[WARNING]: oct23nanoporeRecall.pcr.good.unique.filter.fasta does not contain any sequence from the .accnos file.
Selected 0 sequences from oct23nanoporeRecall.pcr.good.unique.filter.fasta.
Output File Names:
oct23nanoporeRecall.pcr.good.unique.filter.precluster.fasta
/******************************************/
Done.
It took 3155 secs to cluster 2407937 sequences.
Using 1 processors.
Output File Names:
oct23nanoporeRecall.pcr.good.unique.filter.precluster.fasta
oct23nanoporeRecall.pcr.good.unique.filter.precluster.count_table
oct23nanoporeRecall.pcr.good.unique.filter.precluster.map
mothur >
summary.seqs(fasta=current, count=current, processors=32)
Using oct23nanoporeRecall.pcr.good.unique.filter.precluster.count_table as input file for the count parameter.
Using oct23nanoporeRecall.pcr.good.unique.filter.precluster.fasta as input file for the fasta parameter.
[ERROR]: oct23nanoporeRecall.pcr.good.unique.filter.precluster.fasta is blank, aborting.
Using oct23nanoporeRecall.pcr.good.unique.filter.precluster.fasta as input file for the fasta parameter.
Using 32 processors.
[ERROR]: oct23nanoporeRecall.pcr.good.unique.filter.precluster.fasta is blank. Please correct.
Error in reading your fastafile, at position -1. Blank name.
Hi Pat
I'm still working on getting the nanopore reads through mothur. Pre.clustering seems to work but then get this error? I thought that maybe it crashed with not enough mem so reran with 50gb and got the same thing? The accnos is made from the input fasta, so not sure how none of the seqs in the accnos are found in the fasta?