Hi, Leo,<div><br></div><div>You are right. I would ask our sys admin with the firewall issues. Meanwhile I am able to retrieve the database through wget (somehow it does not work for my browsers). Thanks very much for your help!</div>
<div><br></div><div>Thanks,</div><div>Stacy<br><br><div class="gmail_quote">On Thu, Nov 3, 2011 at 5:09 PM, Leonor Palmeira <span dir="ltr"><<a href="mailto:mlpalmeira@ulg.ac.be">mlpalmeira@ulg.ac.be</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;"><div class="im">On 03/11/11 09:53, stacy xu wrote:<br>
</div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div class="im">
Hi, Leo,<br>
<br>
Thanks very much for quick reply! I checked with my colleague, I rerun<br>
the program with "verbose=TRUE", and below is the output：<br>
# Verbose mode is on, parameter values are:<br>
# bank = NA<br></div>
# host = "<a href="http://pbil.univ-lyon1.fr" target="_blank">pbil.univ-lyon1.fr</a> <<a href="http://pbil.univ-lyon1.fr" target="_blank">http://pbil.univ-lyon1.fr</a>>"<div class="im"><br>
# port = 5558<br>
# timeout = 5 seconds<br>
# infobank = FALSE<br>
# tagbank = NA<br>
# I'm ckecking that sockets are available on this build of R...<br>
# ... yes, sockets are available on this build of R.<br>
# I'm trying to open the socket connection...<br>
# Error in socketConnection(host = host, port = port, server = server,<br>
blocking = blocking, :<br>
# cannot open the connection<br>
# In addition: Warning message:<br>
# In socketConnection(host = host, port = port, server = server,<br>
blocking = blocking, :<br></div><div class="im">
# <a href="http://pbil.univ-lyon1.fr:5558" target="_blank">pbil.univ-lyon1.fr:5558</a> <<a href="http://pbil.univ-lyon1.fr:5558" target="_blank">http://pbil.univ-lyon1.fr:<u></u>5558</a>> cannot be opened<br></div>
<div class="im">
# Error in choosebank(verbose = TRUE) :<br>
# I wasn't able to open the socket connection:<br>
# o Check that your are connected to the internet.<br>
# o Check that port 5558 is not closed by a firewall.<br>
# o Try to increase timeout value (current is 5 seconds).<br>
<br>
I think you are right that the port 5558 may be disabled on my computer.<br>
Can you kindly suggest how to open it?<br>
</div></blockquote>
<br>
Dear Stacy,<br>
<br>
I am answering to the list again, in order to archive the thread. This might help people experiencing the same problem.<br>
<br>
You should check with your system administrator if the 5558 port is closed on your machine only or if it comes from the firewall configuration (which is much more likely). I suspect you are not running a Linux system, so I will not be able to help you more than this, but your system administrator should :-)<div class="im">
<br>
<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
By the way, I also saw on SeqinR<br>
manual that I can set up the database from my own sever without<br>
connecting to the internet. However, I could not connect to<br>
<a href="ftp://pbil.univ-lyon1.fr/pub/seqinr/demoacnuc/acnucdatabase.tar.Z" target="_blank">ftp://pbil.univ-lyon1.fr/pub/<u></u>seqinr/demoacnuc/<u></u>acnucdatabase.tar.Z</a> as<br>
well. Is the address correct for the database download? Thanks!<br>
</blockquote>
<br></div>
The address is correct and the server is up and running, so there is no problem on our side.<br>
Could you check this again?<br>
<br>
Best,<br>
Leo.<div><div></div><div class="h5"><br>
<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
Thanks,<br>
Stacy<br>
</blockquote>
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