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<div>Hi Guido,</div>
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<div>For support please keep the bioperl list included (I have cc’d it). </div>
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<div>I haven’t extensively tested the proxy settings but this hasn’t popped up before. Is this is a fairly recent change? I know that HTTP is no longer supported by NCBI; you must use HTTPS (the last release should address this). Otherwise, can you file this
as a bug report?</div>
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<div><a href="https://github.com/bioperl/Bio-EUtilities/issues">https://github.com/bioperl/Bio-EUtilities/issues</a></div>
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<div>Thanks,</div>
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<div>chris</div>
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<span style="font-weight:bold">From: </span>"<a href="mailto:Guido.Laucke@uksh.de">Guido.Laucke@uksh.de</a>" <<a href="mailto:Guido.Laucke@uksh.de">Guido.Laucke@uksh.de</a>><br>
<span style="font-weight:bold">Date: </span>Friday, November 4, 2016 at 1:46 AM<br>
<span style="font-weight:bold">To: </span>Chris Fields <<a href="mailto:cjfields@illinois.edu">cjfields@illinois.edu</a>><br>
<span style="font-weight:bold">Subject: </span>Eutilities<br>
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<p class="MsoNormal">Hi Christopher,<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><span lang="EN-GB">I have a problem to retrieve entrez by your tool.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">I think I have problems with the proxy settings.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">When I use LWP::UserAgent it works.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">How to set the proxy with your pm?<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">Thanks in advance.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">Guido from old germany<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">#!perl<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">use Bio::DB::EUtilities;<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">use LWP::UserAgent;<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">use strict;<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">use warnings;<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">my $ua = LWP::UserAgent -> new (env_proxy => 1,<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"> keep_alive => 1,<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"> timeout => 30);<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">#$ua->proxy(['http','ftp'], '<a href="http://proxyhl:9090">http://proxyhl:9090</a>' );<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">#my $response = $ua -> get('<a href="http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?retmode=text&rettype=gb&db=nucleotide&tool=bioperl&id=gb%7CAL022723&usehistory=n'">http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?retmode=text&rettype=gb&db=nucleotide&tool=bioperl&id=gb%7CAL022723&usehistory=n'</a>);<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">#my $text = $response -> as_string;<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">#print substr($text,0,1000) , "\n";<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">my @ids = qw(1621261 89318838 68536103 20807972 730439);<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">my $factory = Bio::DB::EUtilities->new(<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"> -eutil => 'efetch',<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"> -email =>
<a href="mailto:'mymail@foo.bar">'mymail@foo.bar</a>',<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"> -db => 'pubmed',<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"> -retmode => 'xml',<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"> -id => \@ids);<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">$factory ->proxy(['http','ftp'], '<a href="http://proxyhl:9090">http://proxyhl:9090</a>' );
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">print $factory -> get_Response->content;<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal" style="line-height:12.05pt;text-autospace:none"><span style="font-size: 10pt; font-family: Arial, sans-serif; color: black;">Mit freundlichen Grüßen
</span><span style="font-size: 10pt; font-family: Arial, sans-serif;"><o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:12.05pt;text-autospace:none"><span style="font-size: 10pt; font-family: Arial, sans-serif; color: black;">Dr. Guido Laucke</span><span style="font-size: 10pt; font-family: Arial, sans-serif;"><o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:12.05pt;text-autospace:none"><span style="font-size:8.5pt;color:black;mso-fareast-language:DE"> </span><span style="mso-fareast-language:DE"><o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:12.05pt;text-autospace:none"><b><span style="font-size: 8.5pt; font-family: Arial, sans-serif; color: rgb(0, 55, 100);">UKSH Gesellschaft für IT Services mbH</span></b><span style="color:#003764;mso-fareast-language:DE"><o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:12.05pt;text-autospace:none"><b><span style="font-size: 8.5pt; font-family: Arial, sans-serif; color: rgb(0, 55, 100);">Dr. Guido Laucke</span></b><span style="color:#003764;mso-fareast-language:DE"><o:p></o:p></span></p>
<p class="MsoNormal"><b><span style="font-size: 8.5pt; font-family: Arial, sans-serif; color: rgb(0, 55, 100);">Projektleiter / Bereich Klinische Verfahren</span></b><span style="color:#003764;mso-fareast-language:DE"><o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-family: Arial, sans-serif; color: rgb(0, 55, 100);"> </span><span style="color:#003764;mso-fareast-language:DE"><o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:12.05pt;text-autospace:none"><span style="font-size: 8.5pt; font-family: Arial, sans-serif; color: rgb(0, 55, 100);">Ratzeburger Allee 160 | 23538 Lübeck</span><span style="color:#003764;mso-fareast-language:DE"><o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size: 8.5pt; font-family: Arial, sans-serif; color: rgb(0, 55, 100);">Tel.: 0451 500-</span><span style="font-size: 8.5pt; font-family: Arial, sans-serif; color: rgb(0, 32, 96);">92976</span><span style="font-size: 8.5pt; font-family: Arial, sans-serif; color: rgb(0, 55, 100);">,
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<p class="MsoNormal" style="text-autospace:none"><span style="font-size: 8.5pt; font-family: Arial, sans-serif; color: black;">Maria-Goeppert-Straße 7 | MFC IV | 23562 Lübeck</span><span style="mso-fareast-language:DE"><o:p></o:p></span></p>
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<p class="MsoNormal" style="text-align:justify"><span style="font-size: 8.5pt; font-family: Arial, sans-serif; color: black;">UKSH Gesellschaft für IT Services mbH
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<p class="MsoNormal" style="text-align:justify"><span style="font-size: 8.5pt; font-family: Arial, sans-serif; color: black;">Sitz der Gesellschaft: Lübeck</span><span style="mso-fareast-language:DE"><o:p></o:p></span></p>
<p class="MsoNormal" style="text-align:justify"><span style="font-size: 8.5pt; font-family: Arial, sans-serif; color: black;">Geschäftsführer: Prof. Dr. Jens Scholz, Uta Knöchel, Dr. Ralf Gieseke</span><span style="mso-fareast-language:DE"><o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size: 8.5pt; font-family: Arial, sans-serif; color: black;">Handelsregister: HRB 10061 HL Amtsgericht Lübeck</span><span style="mso-fareast-language:DE"><o:p></o:p></span></p>
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<p class="MsoNormal" style="margin-right:-59.4pt"><b><span style="font-size:8.0pt;
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