Question: trimmomatic 0.36 error
0
gravatar for mahjabeen.khan
8 months ago by
mahjabeen.khan0 wrote:

Hi everyone i am doing my analysis m very new to it.. i am trimming my sequence but error comes jar file cannot be accessed. i tried every solution provided before can someone help?

tool gene • 292 views
ADD COMMENTlink modified 7 months ago by agoel30 • written 8 months ago by mahjabeen.khan0
1

I have updated the category from TOOL to QUESTION. can you please add the command you ran, trimmomatic version along with the exact error message ?

ADD REPLYlink written 8 months ago by lakhujanivijay4.2k

Thanks so much vijay the exact error is unable to access jarfile trimmomatic-0.36.jar

the command is

java -jar trimmomatic-0.36.jar PE -phred33 "/home/z5045473/workingdir/PA123_S13_R1_001.fastq.gz" "/home/z5045473/workingdir/PA123_S13_R2_001.fastq.gz" PA123_S13_f_P.fq.gz PA123_S13_f_U.fq.gz PA123_S13_r_P.fq.gz PA123_S13_r_U.fq.gz ILLUMINACLIP:TrueSeq3-PE.fa:2:30:10 LEADING:3 TRAILING:3 SLIDINGWINDOW:4:15 MINLEN:36
ADD REPLYlink modified 7 months ago by genomax70k • written 8 months ago by mahjabeen.khan0
0
gravatar for agoel
7 months ago by
agoel30
UK
agoel30 wrote:

Is there a file in your current working directory named "trimmomatic-0.36.jar"? If not, you need to provide the full path to that .jar file.

ADD COMMENTlink written 7 months ago by agoel30
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