Hi
I have recently started a bioinformatics project, i.e de novo assembly of reads generated from Novaseq 6000. I have been using universal sequencing Tell-Seq software package for the purpose. As of now, I am at the stage where it generates linked-reads using "Tell-read" pipelines. This is supposed to generate files such as, run190530_I1_T503.fastq.gz.corrected.fastq.err_barcode_removed.fastq.gz, run190530_R1_T503.fastq.gz.corrected.fastq.err_barcode_removed.fastq.gz, and run190530_R2_T503.fastq.gz.corrected.fastq.err_barcode_removed.fastq.gz.
These files have been generated but they are of size 0 bytes; additionally, another file titled, "Result_I1_T500.fastq.gz.erroneous.fastq", of size 23 GB, has been created. I am supposed to use the former three files for further downstream processes. Can someone provide insights into this problem? I here with attach the "Tell-read" commands provided.
sudo docker load -i docker-tellread
sudo chmod g+s /path/to/directory/
sudo setfacl -d -m g::rwx /path/to/directory/
sudo setfacl -d -m o::rwx /path/to/directory/
sudo tellread_rerun_tellread_fq.sh \ -i1 SVA-1_S1_I1_001.fastq.gz \ -r1 SVA-1_S1_R1_001.fastq.gz \ -r2 SVA-1_S1_R3_001.fastq.gz \ -o /path/to/output_folder \ -g NONE
