Trouble with Elsevier articles

[billgreenwald]

Trouble with Elsevier articles

[billgreenwald]

Edited: The backend to the pubmed api seems to be blocking requests, which breaks everything -- I'll investigate and try to fix when I can

[billgreenwald]

Ok I fixed it but had to migrate to python3 in order to get it to work. I need to update the yml, readme instructions, and then push everything, but you should be able to expect an update sometime tomorrow that resolves this issue.

[OgnjenMilicevic]

Your responsiveness and efficiency are just amazing! Thank you!

[billgreenwald]

the new version is live -- let me know if it works. You will need to install the new version of python, but I updated the .yml so you can use it to make a new conda environment easily. Let me know if it works or if you have other questions.

[OgnjenMilicevic]

Hi, thanks for the update, but unfortunately it doesn't work for me. I am not sure if I can help you debug this further in any way?
To specify, I have automatic access to Elsevier papers via my institution, and I can access them from the browser. The link for me for paper "30898248" is "https://www.sciencedirect.com/science/article/pii/S1936879818321319/pdfft?md5=5bd79a6cab6a0a842fe595eab73d8b8c&pid=1-s2.0-S1936879818321319-main.pdf".

Also, when I take this link and put it in a different browser, it asks me to select my institution:
"https://www.sciencedirect.com/user/chooseorg?targetURL=%2Fscience%2Farticle%2Fpii%2FS1936879818321319%2Fpdfft"

Could this be preventing the automated download? I only agree to it once per browser session, and afterwards I have no problem reading the pdfs in it.

[billgreenwald]

My university has access but we don't need to select our organization -- this is probably messing you up yes. What browser can you access them through without needing to select institution, and what browser do you need to select it in?

Also to help, can you try going via a browser to the site using the NCBI api? Use the URL

http://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pubmed&id={0}&retmode=ref&cmd=prlinks

but sub in the pmid where it says {0}

[billgreenwald]

I am closing this unless I hear something new