[Bioc-devel] Issue importing bigwig files with rtracklayer from Amazon Cloud Drive
Leonardo Collado Torres
lcollado at jhu.edu
Thu May 5 23:01:50 CEST 2016
I have a use case that is similar to
https://support.bioconductor.org/p/81267/#82142 and looks to me like
it might need some changes in rtracklayer to work. That's why I'm
posting it here this time.
Basically, I'm trying to use rtracklayer to import a bigwig file over
the web which is in a different type of url than before. Using
utils::download.file() with the defaults doesn't work, I have to use
method = 'curl' and extra = '-L'.
More specifically, the original url
http://duffel.rail.bio/recount/DRP000366/bw/DRR000897.bw has an
effective url https://content-na.drive.amazonaws.com/cdproxy/templink/i_aQAPZJkJ9d9lN1NO5DJJtlbpvAdgbNuc1SkqSTHFouFiZq5
Now, using the second url with utils::download.file() and default
methods also doesn't work. It does on the browser though.
As you can see, downloading the file doesn't work out of the box.
Which I guess that it's not surprising that using rtracklayer I get
In seqinfo(ranges) :
No openssl available in netConnectHttps for
content-na.drive.amazonaws.com : 443
You can find further details (code and log file) at
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