DADA2 Classification

Results generated by running the recipe.

Parameters used during the run:

  • BioProject Number:SRP135886
  • Number of runs per project:5
  • Number of reads per run:2000
File List
Files created by the recipe run:
Output Messages
Messages printed to the standard output stream:
Read 2000 spots for SRR6848065
Written 2000 spots for SRR6848065
Read 2000 spots for SRR6848056
Written 2000 spots for SRR6848056
Read 2000 spots for SRR6848054
Written 2000 spots for SRR6848054
Read 2000 spots for SRR6848033
Written 2000 spots for SRR6848033
Read 2000 spots for SRR6848055
Written 2000 spots for SRR6848055
Other Messages
Messages printed to the standard error stream:
+ SRA=/export/sra
+ PRJN=SRP135886
+ RUNS=5
+ READS=2000
+ esearch -db sra -query SRP135886
+ efetch -format runinfo
+ cat runinfo.csv
+ grep SRR
+ cut -f 1 -d ,
+ head -5
+ cat runids.txt
+ parallel fastq-dump --split-files -X 2000 --outdir /export/sra '{}'
+ mkdir -p fastqc
+ fastqc -o fastqc 'reads/*.fastq'
Skipping 'reads/*.fastq' which didn't exist, or couldn't be read
+ rm -f 'fastqc/*.zip'

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