Trimmomatics Error: M1 Mac
Was using trimmomatcs for ERR1465930 and received an error
Multiple cores found: Using 4 threads
Exception in thread "main" java.lang.RuntimeException: Unknown trimmer: LEADING
at org.usadellab.trimmomatic.trim.TrimmerFactory.makeTrimmer(TrimmerFactory.java:73)
at org.usadellab.trimmomatic.Trimmomatic.createTrimmers(Trimmomatic.java:59)
at org.usadellab.trimmomatic.TrimmomaticPE.run(TrimmomaticPE.java:552)
at org.usadellab.trimmomatic.Trimmomatic.main(Trimmomatic.java:80)"
I used the code
trimmomatic PE ERR1465930_2.fastq.gz ERR1465930_1.fastq.gz \ ERR1465930_1_paired.fastq.gz ERR1465930_1_unpaired.fastq.gz \ ERR1465930_2_paired.fastq.gz ERR1465930_2_unpaired.fastq.gz \ LEADING:10 TRAILING:10 SLIDINGWINDOW:5:20 MINLEN:250
What exactly was wrong?
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
When I run Trimmomatic, I continue to get an "unknown trimmer" error and cannot figure out how to f…
written by littlemicrobiologist •
-
Trimmomatic problem
written by sehriban.buyukkilic •
-
Exception in thread "main" java.lang.ArrayIndexOutOfBoundsException: Index 1 out of bounds for leng…
written by sam •
-
trimmomatic unknown trimmer
written by Xiaoyun •
-
Unknown trimmer, paired end, other solutions not working
written by Archan •
-
Issue with Trimmomatic "Unknown Trimmer"
written by Jake •
-
Trimmomatic Error (Exception in thread "main" java)
written by sohinibanerjee.rs •
-
Unknown trimmer, single end, i tried other solutions but not soved.
written by Adriel Rosa •
-
Trimmomatic error: Unknown trimmer: unpaired.fastq.gz
written by stardust •
-
error in execution of Trimmomatic 0.36
written by F.I.2011 •
Not sure if you had the
\in your actual command or you put them in while trying to format your command line. In either case they don't need to be there. Check the order of your file names.You also appear to be specifying R2 file before R1.