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Keywords {🔍}

cutadapt, generate, files, file, marcelm, sign, demultiplexing, output, issue, grelot, filebarcodetxt, adapter, behaviour, option, detected, reads, empty, times, question, navigation, pull, requests, actions, security, closed, fine, dont, wanted, normal, case, trimmed, changed, title, theyre, fastq, input, commented, react, aace, github, labels, projects, milestone, footer, skip, content, menu, product, solutions, resources,

Topics {✒️}

personal information demultiplexing indels --discard-untrimmed /results/03_demultiplexing/01_demultiplexed/ comment metadata assignees output files cutadapt generates cutadapt behaviour missing files 9a9ace6 sign empty file conda run normal behaviour reverse-complemented normal behavior simply disappear multiple cores assigned labels labels projects projects milestone milestone relationships works fine github txt file cutadapt cutadapt 3 fastq fastq detected adapter file 0 times detected adapter === adapter fine generate sign txt` skip jump python 3 8 installed 20 --revcomp barcode reads produce wanted prefer case accgcata tatgcggt

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DiscussionForumPosting:
      context:https://schema.org
      headline:Demultiplexing should always generate all possible output files
      articleBody:- Cutadapt 2.8 and Python 3.8 - installed with conda run this command ``` cutadapt -m 20 --revcomp --no-indels --discard-untrimmed -g file:barcode.txt file.fastq -o {name}.fastq ``` It works fine but it seems that when an adapter is not detected on any reads, cutadapt don't produce a file. I wanted to know if it's the normal behaviour of cutadapt. I will prefer that cutadapt generates an empty file in this case. ``` === Adapter ../results/03_demultiplexing/01_demultiplexed/Other/teleo/SPY856 === Sequence: ACCGCATA...TATGCGGT; Type: linked; Length: 8+8; 5' trimmed: 0 times; 3' trimmed: 0 times ; Reverse-complemented: 0 times ```
      author:
         url:https://github.com/Grelot
         type:Person
         name:Grelot
      datePublished:2020-09-07T14:22:13.000Z
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      url:https://github.com/478/cutadapt/issues/478
      context:https://schema.org
      headline:Demultiplexing should always generate all possible output files
      articleBody:- Cutadapt 2.8 and Python 3.8 - installed with conda run this command ``` cutadapt -m 20 --revcomp --no-indels --discard-untrimmed -g file:barcode.txt file.fastq -o {name}.fastq ``` It works fine but it seems that when an adapter is not detected on any reads, cutadapt don't produce a file. I wanted to know if it's the normal behaviour of cutadapt. I will prefer that cutadapt generates an empty file in this case. ``` === Adapter ../results/03_demultiplexing/01_demultiplexed/Other/teleo/SPY856 === Sequence: ACCGCATA...TATGCGGT; Type: linked; Length: 8+8; 5' trimmed: 0 times; 3' trimmed: 0 times ; Reverse-complemented: 0 times ```
      author:
         url:https://github.com/Grelot
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      datePublished:2020-09-07T14:22:13.000Z
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      url:https://github.com/478/cutadapt/issues/478
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