I am currently using gtc2vcf tools to transform ~1800 GTC files into a single BCF file. I met a error report as below. However, when I tried small samples (like 20 samples) including the reported error sample 9479477122_R04C01.gtc , the pipeline could work with the correct bcf file produced. Is this a memory problem? Would you pls help me to figure this problem? Thank you very much for your help!
"Could not open 9479477122_R04C01.gtc: Too many open files
[E::bcf_hdr_read] Input is not detected as bcf or vcf format
Could not read VCF/BCF headers from -
Cleaning
Failed to read from standard input: unknown file type"
Hi,
I am currently using gtc2vcf tools to transform ~1800 GTC files into a single BCF file. I met a error report as below. However, when I tried small samples (like 20 samples) including the reported error sample 9479477122_R04C01.gtc , the pipeline could work with the correct bcf file produced. Is this a memory problem? Would you pls help me to figure this problem? Thank you very much for your help!
"Could not open 9479477122_R04C01.gtc: Too many open files
[E::bcf_hdr_read] Input is not detected as bcf or vcf format
Could not read VCF/BCF headers from - Cleaning Failed to read from standard input: unknown file type"
Best regards, Qidi