Trimmomatic help

[Neuls]

Hello,

I am trying to trim low quality bases from a .fq archive using Trimmomatic but I get the following error:

Comand:

java -jar trimmomatic-0.36.jar SE -phred33 ORD0908_Forward.fq try.fq LEADING:3 TRAILING:3

Output:

TrimmomaticSE: Started with arguments:
 -phred33 ORD.fq try.fq LEADING:3 TRAILING:3
Automatically using 2 threads
Exception in thread "main" java.lang.RuntimeException: Invalid FASTQ name line: >ORD
	at org.usadellab.trimmomatic.fastq.FastqParser.parseOne(FastqParser.java:68)
	at org.usadellab.trimmomatic.fastq.FastqParser.parse(FastqParser.java:164)
	at org.usadellab.trimmomatic.TrimmomaticSE.process(TrimmomaticSE.java:197)
	at org.usadellab.trimmomatic.TrimmomaticSE.run(TrimmomaticSE.java:306)
	at org.usadellab.trimmomatic.Trimmomatic.main(Trimmomatic.java:85)
marta@martapc:~/Trimmomatic-0.36$

It seems there's something wrong with first line..

Thank you for helping

[atcghelix]

Looks like you're trying to trim a FASTA file (with sequence names starting with >), instead of a FASTQ file (with sequence names starting with @, and 4 lines per sequence): https://en.wikipedia.org/wiki/FASTQ_format