Hi everyone !
I just began in Bioinformatic and I have to deal with my raw data. I want to use Trimmomatic to trim my sequences to 240bp. For that I use this command but I have an error message that I can't solve !
Here it is my code:
java -jar /Users/myname/Trimmomatic-0.36/trimmomatic-0.36.jar SE 1R1.fastq 1R1CUT.fastq CROP:240 TrimmomaticSE: Started with arguments: 1R1.fastq 1R1CUT.fastq CROP:240 Automatically using 4 threads Exception in thread "main" java.io.FileNotFoundException: 1R1.fastq (No such file or directory) at java.base/java.io.FileInputStream.open0(Native Method) at java.base/java.io.FileInputStream.open(FileInputStream.java:196) at java.base/java.io.FileInputStream.<init>(FileInputStream.java:139) at org.usadellab.trimmomatic.fastq.FastqParser.parse(FastqParser.java:135) 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)
Do you have any ideas what is going on ? :)
Thank you a lot!