[EP-tech] Import Items error - Pubmed XML
Ulf Laube
ulf.laube at ontochem.com
Fri Mar 16 15:04:43 GMT 2012
Hi all,
if I try to import a pubmed xml paste data and uploading file occurs same
error:
unexpected tag: expected <> found <PubmedArticleSet>
xml sample file attached.
settings:
eprints r7487
opensuse 12.1 x86
kernel 3.2.9
apache2-prefork-2.2.21
apache2-mod_perl-2.0.5
mysql-community-server-5.5.16
perl-5.14.2
libxml2 2.7.8
perl-XML-LibXML 1.95
perl-libxml-perl 0.08
error_log:
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/XML/LibXML.pm
line 877
XML::LibXML::parse_fh('XML::LibXML=HASH(0xba1043f8)', 'File::Temp=GLOB(0xba122d38)')
called
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/XML/LibXML/SAX.pm
line 99
eval {...} called
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/XML/LibXML/SAX.pm
line 98
XML::LibXML::SAX::_parse('XML::LibXML::SAX=HASH(0xba12ed30)') called
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/XML/LibXML/SAX.pm
line 54
XML::LibXML::SAX::_parse_bytestream('XML::LibXML::SAX=HASH(0xba12ed30)', 'File::Temp=GLOB(0xba122d38)')
called at /opt/eprints3/perl_lib/XML/SAX/Base.pm line 2602
XML::SAX::Base::parse('XML::LibXML::SAX=HASH(0xba12ed30)', 'HASH(0xba130008)')
called at /opt/eprints3/perl_lib/XML/SAX/Base.pm line 2631
XML::SAX::Base::parse_file('XML::LibXML::SAX=HASH(0xba12ed30)', 'File::Temp=GLOB(0xba122d38)')
called at /opt/eprints3/perl_lib/EPrints/XML/LibXML.pm line 131
EPrints::XML::event_parse('File::Temp=GLOB(0xba122d38)', 'EPrints::Plugin::Import::DefaultXML::DOMHandler=HASH(0xb7f0f5b0)')
called at /opt/eprints3/perl_lib/EPrints/Plugin/Import/DefaultXML.pm line 81
eval {...} called
at /opt/eprints3/perl_lib/EPrints/Plugin/Import/DefaultXML.pm line 81
EPrints::Plugin::Import::DefaultXML::input_fh('EPrints::Plugin::Import::PubMedXML=HASH(0xba1306b8)', 'dataset', 'EPrints::DataSet=HASH(0xb8b91860)', 'fh', 'File::Temp=GLOB(0xba122d38)', 'user', 'EPrints::DataObj::User=HASH(0xba128c20)', 'filename',
undef, ...) called at /opt/eprints3/perl_lib/EPrints/Plugin/Screen/Import.pm
line 298
eval {...} called
at /opt/eprints3/perl_lib/EPrints/Plugin/Screen/Import.pm line 297
EPrints::Plugin::Screen::Import::run_import('EPrints::Plugin::Screen::Import=HASH(0xba11ed80)',
1, 0, 'File::Temp=GLOB(0xba122d38)') called
at /opt/eprints3/perl_lib/EPrints/Plugin/Screen/Import.pm line 146
EPrints::Plugin::Screen::Import::action_test_data('EPrints::Plugin::Screen::Import=HASH(0xba11ed80)')
called at /opt/eprints3/perl_lib/EPrints/Plugin/Screen.pm line 240
EPrints::Plugin::Screen::from('EPrints::Plugin::Screen::Import=HASH(0xba11ed80)')
called at /opt/eprints3/perl_lib/EPrints/ScreenProcessor.pm line 310
EPrints::ScreenProcessor::process('EPrints::ScreenProcessor', 'session', 'EPrints::Repository=HASH(0xb9dfcef0)', 'template',
undef, 'url', '/cgi/users/home') called at /opt/eprints3/cgi/users/home line
40
ModPerl::ROOT::ModPerl::Registry::opt_eprints3_cgi_users_home::handler('Apache2::RequestRec=SCALAR(0xb9ba57a8)')
called
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/ModPerl/RegistryCooker.pm
line 204
eval {...} called
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/ModPerl/RegistryCooker.pm
line 204
ModPerl::RegistryCooker::run('ModPerl::Registry=HASH(0xb9acc980)') called
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/ModPerl/RegistryCooker.pm
line 170
ModPerl::RegistryCooker::default_handler('ModPerl::Registry=HASH(0xb9acc980)')
called
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/ModPerl/Registry.pm
line 31
ModPerl::Registry::handler('ModPerl::Registry', 'Apache2::RequestRec=SCALAR(0xb9ba57a8)')
called at -e line 0
eval {...} called at -e line 0
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/XML/LibXML/SAX.pm
line 109
XML::LibXML::SAX::_parse('XML::LibXML::SAX=HASH(0xba12ed30)') called
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/XML/LibXML/SAX.pm
line 54
XML::LibXML::SAX::_parse_bytestream('XML::LibXML::SAX=HASH(0xba12ed30)', 'File::Temp=GLOB(0xba122d38)')
called at /opt/eprints3/perl_lib/XML/SAX/Base.pm line 2602
XML::SAX::Base::parse('XML::LibXML::SAX=HASH(0xba12ed30)', 'HASH(0xba130008)')
called at /opt/eprints3/perl_lib/XML/SAX/Base.pm line 2631
XML::SAX::Base::parse_file('XML::LibXML::SAX=HASH(0xba12ed30)', 'File::Temp=GLOB(0xba122d38)')
called at /opt/eprints3/perl_lib/EPrints/XML/LibXML.pm line 131
EPrints::XML::event_parse('File::Temp=GLOB(0xba122d38)', 'EPrints::Plugin::Import::DefaultXML::DOMHandler=HASH(0xb7f0f5b0)')
called at /opt/eprints3/perl_lib/EPrints/Plugin/Import/DefaultXML.pm line 81
eval {...} called
at /opt/eprints3/perl_lib/EPrints/Plugin/Import/DefaultXML.pm line 81
EPrints::Plugin::Import::DefaultXML::input_fh('EPrints::Plugin::Import::PubMedXML=HASH(0xba1306b8)', 'dataset', 'EPrints::DataSet=HASH(0xb8b91860)', 'fh', 'File::Temp=GLOB(0xba122d38)', 'user', 'EPrints::DataObj::User=HASH(0xba128c20)', 'filename',
undef, ...) called at /opt/eprints3/perl_lib/EPrints/Plugin/Screen/Import.pm
line 298
eval {...} called
at /opt/eprints3/perl_lib/EPrints/Plugin/Screen/Import.pm line 297
EPrints::Plugin::Screen::Import::run_import('EPrints::Plugin::Screen::Import=HASH(0xba11ed80)',
1, 0, 'File::Temp=GLOB(0xba122d38)') called
at /opt/eprints3/perl_lib/EPrints/Plugin/Screen/Import.pm line 146
EPrints::Plugin::Screen::Import::action_test_data('EPrints::Plugin::Screen::Import=HASH(0xba11ed80)')
called at /opt/eprints3/perl_lib/EPrints/Plugin/Screen.pm line 240
EPrints::Plugin::Screen::from('EPrints::Plugin::Screen::Import=HASH(0xba11ed80)')
called at /opt/eprints3/perl_lib/EPrints/ScreenProcessor.pm line 310
EPrints::ScreenProcessor::process('EPrints::ScreenProcessor', 'session', 'EPrints::Repository=HASH(0xb9dfcef0)', 'template',
undef, 'url', '/cgi/users/home') called at /opt/eprints3/cgi/users/home line
40
ModPerl::ROOT::ModPerl::Registry::opt_eprints3_cgi_users_home::handler('Apache2::RequestRec=SCALAR(0xb9ba57a8)')
called
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/ModPerl/RegistryCooker.pm
line 204
eval {...} called
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/ModPerl/RegistryCooker.pm
line 204
ModPerl::RegistryCooker::run('ModPerl::Registry=HASH(0xb9acc980)') called
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/ModPerl/RegistryCooker.pm
line 170
ModPerl::RegistryCooker::default_handler('ModPerl::Registry=HASH(0xb9acc980)')
called
at /usr/lib/perl5/vendor_perl/5.14.2/i586-linux-thread-multi/ModPerl/Registry.pm
line 31
ModPerl::Registry::handler('ModPerl::Registry', 'Apache2::RequestRec=SCALAR(0xb9ba57a8)')
called at -e line 0
eval {...} called at -e line 0
best regards
ulf
--
OntoChem GmbH
Heinrich-Damerow-Str. 4
06120 Halle (Saale)
Germany
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