Closed HaniJieunKim closed 3 years ago
Hi,
As you can read in the log, one of your input fastq files is incomplete/faulty.
pigz: skipping: /home/data/data2/Smart-seq3/raw/HCA.R2.fastq.gz: corrupted -- incomplete deflate data
Best, C
Thanks Christoph, I have downloaded the fastq files again because, and I don’t get any obvious errors when downloading..
Is there a way I could troubleshoot? When I look at the fastq files, there isn’t anything that is obviously wrong (i've included images below).
Thank you very much.
Best regards,
Hani
HCA.R1.fastq.gz
HCA.R1.fastq.gz
HCA.I1.fastq.gz
HCA.I2.fastq.gz
for example, you can count the number of reads in each of the files that you download to confirm they all match. I'm sure ArrayExpress also has md5 checksums to verify your download.
Closing this issue as it is not related to zUMIs.
Great!
Thank you very much.
Hi!
Thank you very much for creating and maintaining zUMIs. I have been successful at running the test data and also the fibroblast data from the original Smart-seq3 paper. However when I try running HCA, I get an error (see below for YAML file and log). I would be much grateful for you help!
These are the FASTQ files downloaded.
Many thanks for you time and help!
Best regards,
Hani