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[EP-tech] PubMed ID import Plugin
- To: "EPrints.org Technical List" <eprints-tech@ecs.soton.ac.uk>
- Subject: [EP-tech] PubMed ID import Plugin
- From: Yuri <yurj@alfa.it>
- Date: Wed, 25 Oct 2023 09:19:47 +0200
CAUTION: This e-mail originated outside the University of Southampton. Hi! Eprins 3.3.15. Is the PubMed ID import plugin working? The url is ok but something in the plugin make the data disappear, I get this error (I've added the url in the debug): url: https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Feutils.ncbi.nlm.nih.gov%2Fentrez%2Feutils%2Fefetch.fcgi%3Fdb%3Dpubmed%26retmode%3Dxml%26rettype%3Dfull%26id%3D37863056&data=05%7C01%7Ceprints-tech%40ecs.soton.ac.uk%7C833890423d864812e54008dbd52ac698%7C4a5378f929f44d3ebe89669d03ada9d8%7C0%7C0%7C638338151912470816%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=WY0VKmDC5BjPZBdnHIPJ9uvf9J1zrlaxR8IUSMqzif8%3D&reserved=0 "Error Unhandled exception in Import::PubMedID: Empty String at /usr/lib/x86_64-linux-↲ gnu/perl5/5.28/XML/LibXML.pm line 836. XML::LibXML::parse_string(XML::LibXML=HA↲ SH(0x5563bf0e8a68), undef) called at /usr/share/eprints3/perl_lib/EPrints/XML/L↲ ibXML.pm line 101 EPrints::XML::parse_xml_string(undef) called at /usr/share/ep↲ rints3/perl_lib/EPrints/XML.pm line 129 EPrints::XML::parse_string(undef) calle↲ d at /usr/share/eprints3/perl_lib/EPrints/Plugin/Import/PubMedID.pm line 62 EPr↲ ints::Plugin::Import::PubMedID::input_fh(EPrints::Plugin::Import::PubMedID=HASH↲ (0x5563c3b809b0), "dataset", EPrints::DataSet=HASH(0x5563bede14e0), "fh", File:↲ :Temp=GLOB(0x5563c3b874e8), "user", EPrints::DataObj::User=HASH(0x5563c3b90c08)↲ , "filename", ...) called at /usr/share/eprints3/perl_lib/EPrints/Plugin/Screen↲ /Import.pm line 312 eval {...} called at /usr/share/eprints3/perl_lib/EPrints/P↲ lugin/Screen/Import.pm line 303 EPrints::Plugin::Screen::Import::run_import(EPr↲ ints::Plugin::Screen::Import=HASH(0x5563c0936ed8), 1, 0, File::Temp=GLOB(0x5 ..." I've tried also to import from a file with the id but the error is the same. From command line: eprints@xxx:~$ ./bin/import --user admin repo eprint PubMedID /tmp/id.txt Warning! https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Feutils.ncbi.nlm.nih.gov%2Fentrez%2Feutils%2Fefetch.fcgi%3Fdb%3Dpubmed%26retmode%3Dxml%26rettype%3Dfull%26id%3D37863056&data=05%7C01%7Ceprints-tech%40ecs.soton.ac.uk%7C833890423d864812e54008dbd52ac698%7C4a5378f929f44d3ebe89669d03ada9d8%7C0%7C0%7C638338151912470816%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=WY0VKmDC5BjPZBdnHIPJ9uvf9J1zrlaxR8IUSMqzif8%3D&reserved=0 Warning! Error! Unhandled exception in Import::PubMedID: Empty String at /usr/share/eprints3/bin/../perl_lib/EPrints/XML/LibXML.pm line 101. How should this work?
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