Hi All,
I’m running DADA2 from QIIME2-2018.2 with this command line
nohup qiime dada2 denoise-paired \
--i-demultiplexed-seqs paried_alldata_paired-end-demux.qza \
--o-table table-dada2_paired_alldata.qza \
--o-representative-sequences rep-seqs-dada2_paired_alldata.qza \
--p-trunc-len-f 240 \
--p-trunc-len-r 240 \
--verbose \
--p-n-threads 0 > dada2.log &
but I always get this error
R version 3.4.1 (2017-06-30)
Loading required package: Rcpp
DADA2 R package version: 1.6.0
1) Filtering Error in filterAndTrim(unfiltsF, filtsF, unfiltsR, filtsR, truncLen = c(truncLenF, :
These are the errors (up to 5) encountered in individual cores...
Error in (function (fn, fout, maxN = c(0, 0), truncQ = c(2, 2), truncLen = c(0, :
Mismatched forward and reverse sequence files: 343, 15538.
Error in (function (fn, fout, maxN = c(0, 0), truncQ = c(2, 2), truncLen = c(0, :
Mismatched forward and reverse sequence files: 343, 15538.
Error in (function (fn, fout, maxN = c(0, 0), truncQ = c(2, 2), truncLen = c(0, :
Mismatched forward and reverse sequence files: 343, 15538.
Error in (function (fn, fout, maxN = c(0, 0), truncQ = c(2, 2), truncLen = c(0, :
Mismatched forward and reverse sequence files: 343, 15538.
Error in (function (fn, fout, maxN = c(0, 0), truncQ = c(2, 2), truncLen = c(0, :
Mismatched forward and reverse sequence files: 343, 15538.
Execution halted
Plugin error from dada2:
An error was encountered while running DADA2 in R (return code 1), please inspect stdout and stderr to learn more.
Running external command line application(s). This may print messages to stdout and/or stderr.
The command(s) being run are below. These commands cannot be manually re-run as they will depend on temporary files that no longer exist.
Command: run_dada_paired.R /tmp/tmp3dwh4cjv/forward /tmp/tmp3dwh4cjv/reverse /tmp/tmp3dwh4cjv/output.tsv.biom /tmp/tmp3dwh4cjv/filt_f /tmp/tmp3dwh4cjv/filt_r 240 240 0 0 2.0 2 consensus 1.0 0 1000000
Any help please with this error? I run DADA2 with smaller data set but I did not get this error. But with using trimming parameter which I avoid here.
Regards,