<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hello,<div><br></div><div>I am new to seqinr, I discovered the package through a colleague and hope to use it to download sequences for a list of species. I am trying to write a script in the hope to teach myself to use seqinr, but have all too quickly run into a problem. I think it may have to do with the configuration of my machine, I am using Mac OS X 10.6.2. The problem I have is with the connection to the ACNUC databases using choosebank(). I tried several times, with different databases and kept getting the following message: Error in if (res[1] != "0") { : argument is of length zero</div><div>I tried again using verbose = TRUE in the choosebank command and got the following:</div><div><br></div><div><div>Verbose mode is on, parameter values are:</div><div> bank = "genbank" </div><div> host = "<a href="http://pbil.univ-lyon1.fr">pbil.univ-lyon1.fr</a>" </div><div> port = 5558 </div><div> timeout = 45 seconds </div><div> infobank = FALSE </div><div> tagbank = NA </div><div>I'm ckecking that sockets are available on this build of R...</div><div>... yes, sockets are available on this build of R.</div><div>I'm trying to open the socket connection...</div><div>... yes, I was able to open the socket connection.</div><div>I'm trying to read answer from server...</div><div>... answer from server is: </div><div>clientid(): sending clientid&id=seqinr_2.0-7 </div><div>... answer from server is: </div><div>parser.socket received: --><--</div><div>character(0) detected returning NULL</div><div>Error in if (res[1] != "0") { : argument is of length zero</div><div><br></div><div>I did not have the firewall turned on at the time in my machine but I am trying to do all this from our research centre.</div><div><br></div><div>Any assistance would be appreciated.</div><div><br></div><div>Thank you,</div><div><br></div><div>Alejandro</div><div>
<div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-size: medium; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-size: medium; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform: none; 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color: rgb(0, 0, 0); font-family: Helvetica; font-size: medium; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-size: medium; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-size: medium; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-size: medium; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><div><div>__________________________________</div><div><br></div><div><font class="Apple-style-span" size="3"><span class="Apple-style-span" style="font-size: 12px; ">Alejandro Gonzalez Voyer</span></font></div><div><font class="Apple-style-span" size="3"><span class="Apple-style-span" style="font-size: 12px; ">Post-doc</span></font></div><div><br></div><div><font class="Apple-style-span" color="#E01717"><font class="Apple-style-span" size="3"><span class="Apple-style-span" style="font-size: 11px; "><b>NEW ADDRESS & NEW E-MAIL</b></span></font></font></div><div><br></div><div><font class="Apple-style-span" size="3"><span class="Apple-style-span" style="font-size: 12px; ">Estación Biológica de Doñana (CSIC)</span></font></div><div><font class="Apple-style-span" size="3"><span class="Apple-style-span" style="font-size: 12px; ">Avenida Américo Vespucio s/n</span></font></div><div><font class="Apple-style-span" size="3"><span class="Apple-style-span" style="font-size: 12px; ">41092 Sevilla </span></font></div><div><font class="Apple-style-span" size="3"><span class="Apple-style-span" style="font-size: 12px; ">Spain</span></font></div><div><font class="Apple-style-span" size="3"><span class="Apple-style-span" style="font-size: 12px; "><br></span></font></div><div><font class="Apple-style-span" size="3"><span class="Apple-style-span" style="font-size: 12px; ">E-mail: <a href="mailto:alejandro.gonzalez@ebd.csic.es">alejandro.gonzalez@ebd.csic.es</a></span></font></div><div><font class="Apple-style-span" size="3"><span class="Apple-style-span" style="font-size: 12px; "><br></span></font></div><div><font class="Apple-style-span" size="3"><span class="Apple-style-span" style="font-size: 12px; ">Tel: +34- 954 466700, ext 1749</span></font></div><div><font class="Apple-style-span" size="2"><span class="Apple-style-span" style="font-size: 10px; "><br></span></font></div></div></div></span></div></span></div></span></div></span></div></span></div></span><br class="Apple-interchange-newline"></div></span><br class="Apple-interchange-newline"></div><br class="Apple-interchange-newline"><br class="Apple-interchange-newline">
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