I am trying to generate a FASTA file from a FASTQ file that was generated on an Illumina MiSeq. The data is a 16SRibosomal data, so it does not fall just one genome. When I try to upload these FASTQ sequences to my account so that I can use the FASTA conversion tool, it errors out as "FAILED: Upload content incomplete". Can you please assist? Thank you. -D
Try using the FTP method to load fastq data. My guess is that it is over 2 GB in size, which will always fail with a direct browsed-file upload. Once loaded, the datatype cannot simply be "fastq" for the tool to recognize the dataset.
Next, go forward and ensure/test that the data is in fastqsanger format, then assign the type directly or use the Fastq Groomer to set the datatype. Most tools will require fastqsanger as a datatype - if assigned incorrectly, odd tool errors can occur.
How to for both:
Thanks, Jen, Galaxy team