Question: Failed to write to file by trimgalore
0
gravatar for weronika.majer
2.1 years ago by
weronika.majer0 wrote:

I wanted to trimm by using trimglore but I'm doing something wrong and it doesn't work. this is my script:

/home/weronika/Downloads/trim_galore_v0.4.2/trim_galore --illumina -q 20 -e 0.2 -length 43 -phred33 /home/weronika/Downloads/cfDNA/Project_Weronika/Sample_205/205_CCGTCC_L004_R1_001.fastq -o /home/weronika/Downloads/cfDNA/Project_Weronika/trimgalor/205_CCGTCC_L004_R1_001.fastq

and I get the answer Path to Cutadapt set as: 'cutadapt' (default) 1.11 Cutadapt seems to be working fine (tested command 'cutadapt --version') Failed to write to file '205_CCGTCC_L004_R1_001.fastq_trimming_report.txt': No such file or directory

I really don't know what to do. Please help me. ruda2811 is online now Report Post Edit/Delete Message

next-gen • 1.6k views
ADD COMMENTlink modified 2.1 years ago • written 2.1 years ago by weronika.majer0

Hello weronika.majer!

It appears that your post has been cross-posted to another site: http://seqanswers.com/forums/showthread.php?t=72156

This is typically not recommended as it runs the risk of annoying people in both communities.

ADD REPLYlink written 2.1 years ago by WouterDeCoster35k

Thank you very much for your help.

ADD REPLYlink written 2.1 years ago by weronika.majer0

Please use ADD REPLY/ADD COMMENT when responding to existing posts on Biostars to keep the threads logically organized.

ADD REPLYlink written 2.1 years ago by genomax59k
1
gravatar for WouterDeCoster
2.1 years ago by
Belgium
WouterDeCoster35k wrote:

-o option should be a directory, not a file. The option can be omitted, in which case the current directory will be used.

ADD COMMENTlink modified 2.1 years ago • written 2.1 years ago by WouterDeCoster35k
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