search for: assembly_reports

Hi, > url <- "ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_000001405.13.assembly.txt" > download.file(url, tempfile()) trying URL 'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_000001405.13.assembly.txt' Error in download.file(url, tempfile()) : cannot open URL 'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS...

...Saturday, August 8, 2015 3:57:34 PM > Subject: Re: [Rd] download.file() on ftp URL fails in windows with default download method > > > > On 08.08.2015 01:11, Dan Tenenbaum wrote: > > Hi, > > > >> url <- > >> "ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_000001405.13.assembly.txt" > >> download.file(url, tempfile()) > > trying URL > > 'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_000001405.13.assembly.txt' > > Error in download.file(url, tempfile()) : > > cannot open URL > &...

...e: [Rd] download.file() on ftp URL fails in windows with > > default download method > > > > > > > > On 08.08.2015 01:11, Dan Tenenbaum wrote: > > > Hi, > > > > > >> url <- > > >> "ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_000001405.13.assembly.txt" > > >> download.file(url, tempfile()) > > > trying URL > > > 'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_000001405.13.assembly.txt' > > > Error in download.file(url, tempfile()) : > > >...

On 08.08.2015 01:11, Dan Tenenbaum wrote: > Hi, > >> url <- "ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_000001405.13.assembly.txt" >> download.file(url, tempfile()) > trying URL 'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_000001405.13.assembly.txt' > Error in download.file(url, tempfile()) : > cannot open URL 'ftp://ftp.ncbi.nlm.nih.gov/geno...

...n AWS machine, the machine thinks of itself as having one IP address, but that is a private address that is valid inside AWS only). Here's a curl command line that gets around this by sending the correct address (or hostname): curl --ftp-port myhostname.com ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_000001405.13.assembly.txt Curl normally uses passive mode which is why it works, but the --ftp-port switch tells it to use active mode with the specified ip address or hostname. So I'm not sure where we go from here. One easy fix is just to add the INTERNET_FLAG_PASSIVE flag as descri...

...Re: [Rd] download.file() on ftp URL fails in windows with > > default download method > > > > > > > > On 08.08.2015 01:11, Dan Tenenbaum wrote: > > > Hi, > > > > > >> url <- > > >> "ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_000001405.13.assembly.txt" > > >> download.file(url, tempfile()) > > > trying URL > > > 'ftp://ftp.ncbi.nlm.nih.gov/genomes/ASSEMBLY_REPORTS/All/GCF_000001405.13.assembly.txt' > > > Error in download.file(url, tempfile()) : > > >...