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Maniphest T227415

Cite for PubMed article URLs or IDs triggers HTTP 400 error for ncbi.nlm.nih.gov
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Description

I know for a fact that automatic citing used to work with URLs of articles hosted on https://ncbi.nlm.nih.gov, but now it no longer seems to, not even for the root website itself or any of its subdomains.
The last time I remember it working was no earlier than June 2019.

This issue also seems to extend to both PMIDs and PMCIDs.

Steps to Reproduce:

  1. Locate a medical article (or indeed any page) hosted on https://ncbi.nlm.nih.gov, such as PubMed articles.
  2. Edit a Wikipedia article then click the "Cite" button and paste the URL or PMC/PMID into the "Automatic" section.
  3. Click generate.

Actual Results:

The dialogue box returns the error "We couldn't make a citation for you. You can create one manually using the "Manual" tab above."

Expected Results:

It should generate the citation as normal, as it did before about June 2019.

Note:

DOIs and titles of articles hosted on https://ncbi.nlm.nih.gov still work to retrieve the article's citation.

Details

SubjectRepoBranchLines +/-
Disable DNSSEC for pdns-recursor in prod as welloperations/puppetproduction+1 -1
Customize query in gerrit

Related Objects

Event Timeline

SUM1 created this task.Jul 7 2019, 6:24 PM
Restricted Application added a subscriber: Aklapper. · View Herald TranscriptJul 7 2019, 6:24 PM
SUM1 updated the task description. (Show Details)Jul 7 2019, 6:32 PM
Aklapper added a comment.Jul 7 2019, 6:43 PM

Edit a Wikipedia article then click the "Cite" button

Which Wikipedia? Any link to an example article? Which editor is used?

SUM1 added a comment.Jul 7 2019, 7:47 PM
In T227415#5311693, @Aklapper wrote:

Edit a Wikipedia article then click the "Cite" button

Which Wikipedia? Any link to an example article? Which editor is used?

All Wikipedias, all articles, and both editors.

Aklapper added a project: Citoid.Jul 7 2019, 8:23 PM

As no example URL was provided, I pasted https://ncbi.nlm.nih.gov/ - https://en.wikipedia.org/api/rest_v1/data/citation/mediawiki/https://ncbi.nlm.nih.gov/?action=query&format=json provides an HTTP 400 error.

Aklapper added a comment.Jul 7 2019, 8:24 PM

See the reply in https://www.mediawiki.org/w/index.php?title=Topic:V2pf99neqh2qupud&topic_showPostId=v2sd70b9r9165l32#flow-post-v2sd70b9r9165l32

Aklapper renamed this task from Automatic cite no longer works with PubMed article URLS or IDs? to Cite for PubMed article URLs or IDs triggers HTTP 400 error for ncbi.nlm.nih.gov.Jul 7 2019, 8:25 PM
Mvolz subscribed.EditedJul 7 2019, 8:40 PM
In T227415#5311732, @Aklapper wrote:

See the reply in https://www.mediawiki.org/w/index.php?title=Topic:V2pf99neqh2qupud&topic_showPostId=v2sd70b9r9165l32#flow-post-v2sd70b9r9165l32

Ah, but that's a separate issue; the URLs not working just (probably) means they've blocked us again (which has happened in the past.)

Mvolz added a comment.Jul 8 2019, 11:21 AM

Which is to say, my response there on that thread was to the first comment, but not to the later report of the all of pubmed being down, as these are two separate issues- I should have read the whole thread instead of just the first message! Thanks for tagging this @Aklapper so it reached my attention again, definitely not good.

MichalSobkowski subscribed.Jul 8 2019, 11:48 AM
MichalSobkowski added a comment.Jul 8 2019, 11:50 AM
In T227415#5311725, @Aklapper wrote:

As no example URL was provided, I pasted https://ncbi.nlm.nih.gov/ - https://en.wikipedia.org/api/rest_v1/data/citation/mediawiki/https://ncbi.nlm.nih.gov/?action=query&format=json provides an HTTP 400 error.

Here are examples:
URL from NCBI: https://www.ncbi.nlm.nih.gov/pubmed/4517936 (does not work)
PMID: 4517936 (does not work)
PMC: 427120 (does not work)
DOI: 10.1073/pnas.70.10.2837 (works)
URL from the publisher: https://www.pnas.org/content/70/10/2837 (works)

Mvolz added a comment.EditedJul 10 2019, 11:00 AM

Probably same problem as: T226088

Mvolz mentioned this in T226088: DNS lookups for nih.gov hosts failing from Cloud VPS/Toolforge, services (citoid).Jul 10 2019, 11:09 AM
gerritbot added a comment.Jul 10 2019, 6:27 PM

Change 521921 had a related patch set uploaded (by BBlack; owner: BBlack):
[operations/puppet@production] Disable DNSSEC for pdns-recursor in prod as well

https://gerrit.wikimedia.org/r/521921

gerritbot added a project: Patch-For-Review.Jul 10 2019, 6:27 PM
gerritbot added a comment.Jul 10 2019, 6:32 PM

Change 521921 merged by BBlack:
[operations/puppet@production] Disable DNSSEC for pdns-recursor in prod as well

https://gerrit.wikimedia.org/r/521921

Maintenance_bot removed a project: Patch-For-Review.Jul 10 2019, 7:10 PM
TheDJ closed this task as a duplicate of T226088: DNS lookups for nih.gov hosts failing from Cloud VPS/Toolforge, services (citoid).Jul 10 2019, 10:35 PM
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