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[EP-tech] Eprints 3.4.3 RIOXX2 plugin issue
CAUTION: This e-mail originated outside the University of Southampton.
Hi John
Thanks for the reply, I haven?t changed the workflow during the upgrade but have in the past. It looks like the multiple fields within the component were added during the upgrade as they?re not in the workflow on the eprints 3.3.12 system. I?ve removed the two problematic components and the workflow now displays as it should
Thanks for your help ? much appreciated
Lee
From: John Salter <J.Salter at leeds.ac.uk>
Date: Wednesday, 12 January 2022 at 17:14
To: "eprints-tech at ecs.soton.ac.uk" <eprints-tech at ecs.soton.ac.uk>, David R Newman <drn at ecs.soton.ac.uk>, Lee Paton <patonl at cardiff.ac.uk>
Subject: RE: [EP-tech] Eprints 3.4.3 RIOXX2 plugin issue
Hi Lee,
The XML from the workflow does not match what it supplied by the RIOXX2 plugin.
You (somehow) have one <component type="Field::RIOXX2"..> element, with multiple <field>s specified.
The RIOXX plugin has a component for each field:
https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Feprintsug%2Frioxx2%2Fblob%2Fmaster%2Flib%2Fworkflows%2Feprint%2Frioxx2.xml&data=04%7C01%7Ceprints-tech%40ecs.soton.ac.uk%7C36d938ff162a4a1cc53c08d9d69837c9%7C4a5378f929f44d3ebe89669d03ada9d8%7C0%7C0%7C637776772244346297%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=V1nvMGGjgcz0WOn6CQfwWhS%2FxOqftQYGd18F%2Fun%2BXlg%3D&reserved=0
The error is generated by this:
https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Feprintsug%2Frioxx2%2Fblob%2Fmaster%2Flib%2Fplugins%2FEPrints%2FPlugin%2FInputForm%2FComponent%2FField%2FRIOXX2.pm%23L24&data=04%7C01%7Ceprints-tech%40ecs.soton.ac.uk%7C36d938ff162a4a1cc53c08d9d69837c9%7C4a5378f929f44d3ebe89669d03ada9d8%7C0%7C0%7C637776772244346297%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=ovBQhILFuLI9BycW0BA93em3EXpSnGv5Zh%2F7p%2FwTxuQ%3D&reserved=0<https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Feprintsug%2Frioxx2%2Fblob%2Fmaster%2Flib%2Fplugins%2FEPrints%2FPlugin%2FInputForm%2FComponent%2FField%2FRIOXX2.pm%23L24&data=04%7C01%7Ceprints-tech%40ecs.soton.ac.uk%7C36d938ff162a4a1cc53c08d9d69837c9%7C4a5378f929f44d3ebe89669d03ada9d8%7C0%7C0%7C637776772244346297%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=ovBQhILFuLI9BycW0BA93em3EXpSnGv5Zh%2F7p%2FwTxuQ%3D&reserved=0> - which results in a call to this:
https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Feprints%2Feprints3.4%2Fblob%2F6d2274c9ae7af5417d8ebaed609c2029ad83cd74%2Fperl_lib%2FEPrints%2FPlugin%2FInputForm%2FComponent%2FField.pm%23L33-L38&data=04%7C01%7Ceprints-tech%40ecs.soton.ac.uk%7C36d938ff162a4a1cc53c08d9d69837c9%7C4a5378f929f44d3ebe89669d03ada9d8%7C0%7C0%7C637776772244346297%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=4NKBSCfLGrwWQHz4pkTiAokFH%2FMdNH8SxrTlsYRqrAE%3D&reserved=0<https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Feprints%2Feprints3.4%2Fblob%2F6d2274c9ae7af5417d8ebaed609c2029ad83cd74%2Fperl_lib%2FEPrints%2FPlugin%2FInputForm%2FComponent%2FField.pm%23L33-L38&data=04%7C01%7Ceprints-tech%40ecs.soton.ac.uk%7C36d938ff162a4a1cc53c08d9d69837c9%7C4a5378f929f44d3ebe89669d03ada9d8%7C0%7C0%7C637776772244346297%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=4NKBSCfLGrwWQHz4pkTiAokFH%2FMdNH8SxrTlsYRqrAE%3D&reserved=0>
which checks for one (no more, no less) fields as a child element of the <component>.
Was your ~/archives/[ARCHIVEID]/cfg/workflow/eprints/default.xml file hand-crafted at any point in your 3.4 journey?
If you change the RIOXX stage in there to match the one supplied with the RIOXX plugin, it will hopefully work!
Cheers,
John
From: eprints-tech-bounces at ecs.soton.ac.uk [mailto:eprints-tech-bounces at ecs.soton.ac.uk] On Behalf Of David R Newman via Eprints-tech
Sent: 12 January 2022 17:01
To: Lee Paton <patonl at cardiff.ac.uk>; eprints-tech at ecs.soton.ac.uk
Subject: Re: [EP-tech] Eprints 3.4.3 RIOXX2 plugin issue
Hi Lee,
I have not been able to reproduce the same issues as you reported when tying to edit an item. I did initially get some errors in the apache log relating to not having the Generic Reporting Framework plugin installed but this did not give a 500 error in my web browser and was easily remedied by installing this plugin through the Bazaar.
One issue may be the versions of the RIOXX2 and Generic Reporting Framework plugin you are running. I have just installed the following versions:
reports=3.1
rioxx2=1.0.5
Which versions do you have installed? You can check this most easily by going to the /cgi/counter page for your repository in a web browser.
Looking at the first line of your errors, it reports a problem with calling isa method on an undefined value on line 8. I have grepped through the code and found that this could relate to some new as of 3.4.3 configuration code that was added to ensure local passwords are no longer than a certain length, (in this case 200 characters), which was identified as a potential vector of attack.
It is possible that in line 8 of lib/cfg.d/user_password_maxlength.pl there is no user defined so this generates this first error message. However, I am not sure how this could have anything to do with the RIOXX2 plugin. My advice would be to modify line 8 of the file from:
return unless $user->isa( "EPrints::DataObj::User" ) && $field->type eq "secret";
to:
return unless defined $user && $user->isa( "EPrints::DataObj::User" ) && $field->type eq "secret";
And see if that remedies your issue. I am not sure how this trigger could be called without $user (or more generally a dataobj that might be a user) being defined. However, it is the only place I could find the isa method called on line 8 of a file.
Regards
David Newman
On 12/01/2022 16:36, Lee Paton wrote:
CAUTION: This e-mail originated outside the University of Southampton.
Hi David
Thanks for your quick reply
I haven?t modified any of the rioxx2 plugin files they should all be default versions, I?ll double check the local changes I?ve made to the configuration ? unfortunately there are some from several years ago that are under /lib and /perl_lib but I don?t think they would touch anything rioxx related
I?ve massaged some URLs from our preproduction system to use the development system and can access the workflow of the rioxx tab where I see the following errors:
Field component is missing field element in
<component type="Field::RIOXX2" id="c63"><field ref="rioxx2_type"/>
<field ref="rioxx2_coverage" required_by="rioxx2"/>
<field ref="rioxx2_language" required_by="rioxx2"/>
<field ref="rioxx2_dateAccepted" required_by="rioxx2"/>
<field ref="rioxx2_free_to_read" required_by="rioxx2"/>
<field ref="rioxx2_license_ref" required_by="rioxx2"/>
<field ref="rioxx2_apc" required_by="rioxx2"/>
<field ref="rioxx2_author" required_by="rioxx2"/>
<field ref="rioxx2_project" required_by="rioxx2"/>
<field ref="rioxx2_publication_date" required_by="rioxx2"/>
<field ref="rioxx2_version" required_by="rioxx2"/>
</component>
Field component is missing field element in
<component type="Field::RIOXX2" id="c64">
<field ref="rioxx2_coverage"/>
<field ref="rioxx2_type" required_by="rioxx2"/>
</component>
When it?s trying to render the rioxx2_type and rioxx2_coverage fields
Thanks again
Lee
From: <eprints-tech-bounces at ecs.soton.ac.uk><mailto:eprints-tech-bounces at ecs.soton.ac.uk> on behalf of David R Newman via Eprints-tech <eprints-tech at ecs.soton.ac.uk><mailto:eprints-tech at ecs.soton.ac.uk>
Reply to: "eprints-tech at ecs.soton.ac.uk"<mailto:eprints-tech at ecs.soton.ac.uk> <eprints-tech at ecs.soton.ac.uk><mailto:eprints-tech at ecs.soton.ac.uk>, David R Newman <drn at ecs.soton.ac.uk><mailto:drn at ecs.soton.ac.uk>
Date: Wednesday, 12 January 2022 at 12:14
To: Lee Paton via Eprints-tech <eprints-tech at ecs.soton.ac.uk><mailto:eprints-tech at ecs.soton.ac.uk>
Subject: Re: [EP-tech] Eprints 3.4.3 RIOXX2 plugin issue
External email to Cardiff University - Take care when replying/opening attachments or links.
Nid ebost mewnol o Brifysgol Caerdydd yw hwn - Cymerwch ofal wrth ateb/agor atodiadau neu ddolenni.
Hi Lee,
I have not observed any specific issues with the RIOXX2 plugin on EPrints 3.4.3, certainly if you have applied the appropriate patches for known issues in 3.4.3. As you are upgrading from 3.3 to 3.4 it is likely to be an issue related to this rather than a specific 3.4.3 issue.
Have you modified any of the RIOXX2 plugin configuration files (e.g. zz_rioxx2.pl)? I will try a quick test to see whether I can reproduce the problem you are seeing on a 3.4.3 instance, (that was 3.4.3 from its inception rather than upgraded from an earlier version). It is possible that a change to your configuration could hit an unknown bug in 3.4.3 that was not a problem in earlier versions of EPrints. Therefore, this issue would likely only effect you.
I can see in the error message reference to EPrints::Config::orca, which presumably is the name of your repository. This further suggests it may be an issue somewhere in your configuration. I will need to look further through the apache error log listing you provided. So I can zero in on where the problem is likely to be.
Regards
David Newman
On 12/01/2022 12:01, Lee Paton via Eprints-tech wrote:
CAUTION: This e-mail originated outside the University of Southampton.
Hi
I?ve just upgraded our development repository from eprints 3.3.12 to 3.4.3 using the rpm (and default flavours tar file) migrating the changes across as in https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwiki.eprints.org%2Fw%2FUpgrading_3.3.12%252B_to_3.4&data=04%7C01%7Ceprints-tech%40ecs.soton.ac.uk%7C36d938ff162a4a1cc53c08d9d69837c9%7C4a5378f929f44d3ebe89669d03ada9d8%7C0%7C0%7C637776772244346297%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=pwJSAsrjrupKzaqyy96sgYb83R4ydYbC0HwnWhuCm4Y%3D&reserved=0<https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwiki.eprints.org%2Fw%2FUpgrading_3.3.12%252B_to_3.4&data=04%7C01%7Ceprints-tech%40ecs.soton.ac.uk%7C36d938ff162a4a1cc53c08d9d69837c9%7C4a5378f929f44d3ebe89669d03ada9d8%7C0%7C0%7C637776772244346297%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=pwJSAsrjrupKzaqyy96sgYb83R4ydYbC0HwnWhuCm4Y%3D&reserved=0> and applying patches/changes as described at https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwiki.eprints.org%2Fw%2FEPrints_3.4.3%23Known_Issues&data=04%7C01%7Ceprints-tech%40ecs.soton.ac.uk%7C36d938ff162a4a1cc53c08d9d69837c9%7C4a5378f929f44d3ebe89669d03ada9d8%7C0%7C0%7C637776772244346297%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=mW96EsYIh%2BqREJleFav4LR9ClJQeAghiTD2Qi65%2FIKE%3D&reserved=0<https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwiki.eprints.org%2Fw%2FEPrints_3.4.3%23Known_Issues&data=04%7C01%7Ceprints-tech%40ecs.soton.ac.uk%7C36d938ff162a4a1cc53c08d9d69837c9%7C4a5378f929f44d3ebe89669d03ada9d8%7C0%7C0%7C637776772244346297%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=mW96EsYIh%2BqREJleFav4LR9ClJQeAghiTD2Qi65%2FIKE%3D&reserved=0>. I?ve hit an issue with the RIOXX2 plugin, whenever I try to edit an item I get a ?500 internal server error? before anything is rendered in the browser. The apache log shows
[Tue Jan 11 16:34:41.454113 2022] [:error] [pid 2830] Can't call method "isa" on an undefined value at (eval 222) line 8.\n at (eval 222) line 8.\n\t
EPrints::Config::orca::__ANON__('repository', 'EPrints::Repository=HASH(0x5556a03f2fd0)', 'value', 'en', 'dataobj', undef, 'problems', 'ARRAY(0x55569c19d238)', 'field', ...) called at /usr/share/eprints/perl_lib/EPrints/Repository.pm line 1800\n\t
EPrints::Repository::run_trigger('EPrints::Repository=HASH(0x5556a03f2fd0)', 14, 'field', 'EPrints::MetaField::RIOXX2=HASH(0x5556a37d26a8)', 'dataobj', undef, 'value', 'en', 'problems', ...) called at /usr/share/eprints/perl_lib/EPrints/MetaField.pm line 2647\n\t
EPrints::MetaField::validate('EPrints::MetaField::RIOXX2=HASH(0x5556a37d26a8)', 'EPrints::Repository=HASH(0x5556a03f2fd0)', 'en', undef) called at /usr/share/eprints/lib/plugins/EPrints/MetaField/RIOXX2.pm line 55\n\t
EPrints::MetaField::RIOXX2::validate('EPrints::MetaField::RIOXX2=HASH(0x5556a37d26a8)', 'EPrints::Repository=HASH(0x5556a03f2fd0)', 'en') called at /usr/share/eprints/lib/plugins/EPrints/Plugin/InputForm/Component/Field/RIOXX2.pm line 99\n\t
EPrints::Plugin::InputForm::Component::Field::RIOXX2::validate('EPrints::Plugin::InputForm::Component::Field::RIOXX2=HASH(0x5...') called at /usr/share/eprints/perl_lib/EPrints/Workflow/Stage.pm line 206\n\t
EPrints::Workflow::Stage::validate('EPrints::Workflow::Stage=HASH(0x5556a37aac50)', 'EPrints::ScreenProcessor=HASH(0x5556a37c37d0)') called at /usr/share/eprints/perl_lib/EPrints/Plugin/Screen/EPrint/Details.pm line 302\n\t
EPrints::Plugin::Screen::EPrint::Details::render('EPrints::Plugin::Screen::EPrint::Details=HASH(0x55569e6d7640)', 'ep_eprint_view_0') called at /usr/share/eprints/perl_lib/EPrints/Plugin/Screen/EPrint/View.pm line 199\n\t
EPrints::Plugin::Screen::EPrint::View::render('EPrints::Plugin::Screen::EPrint::View=HASH(0x5556a37c86a0)') called at /usr/share/eprints/perl_lib/EPrints/ScreenProcessor.pm line 420\n\t
EPrints::ScreenProcessor::process('EPrints::ScreenProcessor', 'session', 'EPrints::Repository=HASH(0x5556a03f2fd0)', 'template', undef, 'url', '/cgi/users/home') called at /usr/share/eprints/cgi/users/home line 43\n\t
ModPerl::ROOT::ModPerl::Registry::usr_share_eprints_cgi_users_home::handler('Apache2::RequestRec=SCALAR(0x5556a3800c70)') called at /usr/lib64/perl5/vendor_perl/ModPerl/RegistryCooker.pm line 207\n\t
eval {...} called at /usr/lib64/perl5/vendor_perl/ModPerl/RegistryCooker.pm line 207\n\t
ModPerl::RegistryCooker::run('ModPerl::Registry=HASH(0x5556a37d4928)') called at /usr/lib64/perl5/vendor_perl/ModPerl/RegistryCooker.pm line 173\n\t
ModPerl::RegistryCooker::default_handler('ModPerl::Registry=HASH(0x5556a37d4928)') called at /usr/lib64/perl5/vendor_perl/ModPerl/Registry.pm line 32\n\t
ModPerl::Registry::handler('ModPerl::Registry', 'Apache2::RequestRec=SCALAR(0x5556a3800c70)') called at -e line 0\n\teval {...} called at -e line 0\n
If I disable the plugin the page renders successfully without the rioxx2 tab, if I disable the following:
$c->{plugins}{'InputForm::Component::Field::RIOXX2'}{params}{disable} = 1;
in my local archives zz_rioxx2.pl the edit item page displayed but links to License ref field, Accepted Date and Project are only rendered as text and not a full link, I?ve checked that all the plugin files are where they should be and have even removed and reinstalled the RIOXX2 plugin and the internal server error still happens
Has anyone come across something like this before?
Thanks
Lee
Lee Paton
Senior Server Engineer / Uwch Beiriannydd Gweinyddion
University IT Service / Gwasanaeth TG y Brifysgol
Cardiff University / Prifysgol Caerdydd
39-45 Park Place / 39-45 Plas y Parc
Cardiff / Caerdydd
CF10 3BB
Tel / Ff?n: +44 (0)29 2087 0440
Email / E-bost: PatonL at cardiff.ac.uk<mailto:PatonL at cardiff.ac.uk>
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