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broadinstitute / ichorCNA

Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
GNU General Public License v3.0
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Failed to connect to ftp.ncbi.nlm.nih.gov #112

Open paulhtyang opened 1 year ago

paulhtyang commented 1 year ago

I got an error with a following message. I also tested the URL (ftp.ncbi.nlm.nih.gov) using chrome and everything looks good. Does anybody have the same problem here?

Error in function (type, msg, asError = TRUE) : Failed to connect to ftp.ncbi.nlm.nih.gov port 21 after 213691 ms: Connection timed out Calls: getSeqInfo ... list_ftp_dir -> getURL -> curlPerform -> -> fun Execution halted [1]+ Exit 1

Thanks so much for the further assistance. Paul

jeffsun905 commented 1 year ago

I also have the similar issue. When I run multiple samples, there are always some samples failed at this step. It appears happening randomly. Any suggestion is appreciated. Below is the error message:

Error in download.file(url, destfile, quiet = TRUE) : cannot open URL 'ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/001/405/GCF_000001405.25_GRCh37.p13/GCF_000001405.25_GRCh37.p1 Calls: getSeqInfo ... .fetch_assembly_report_from_url -> fetch_table_from_url