index out of range error

[billgreenwald]

index out of range error

[billgreenwald]

Could you paste the full error you are receiving, and the command you run?

[dmcalli2]

Thanks for the quick reply!
Some of the error has gone of the top of my terminal, so I cant paste the full list.
However, here is an example of the output for a successful and unsuccessful PMID.
** fetching reprint using the 'generic citation labelled' finder...
** fetching of reprint 24481874 succeeded
Trying to fetch pmid 25282519
Trying genericCitationLabelled
Trying pubmed_central
Trying acsPublications
Trying uchicagoPress
** fetching of reprint 25282519 failed from error list index out of range

The command was:-
python2.7 fetch_pdfs.py -pmf mypmf.txt

I am running Python 2.7 in Ubuntu from within Windows Subsystem for Linux (WSL).

[billgreenwald]

I had a typo from some debugging left, it would seem. I believe i fixed it, and 25282519 downloaded fine as a test. Let me know if the new version works.

[dmcalli2]

Works perfectly.
Thanks very much, and thanks for sharing your code.

[nmehra222]

Hi Bill,
Thanks so much for making this tool. I am also having the index out of range error. I am able to download about 7 of the 50 papers I am intending to, with roughly half of the papers receiving this error. Here's an example of the error message I'm getting:
Trying to fetch pmid 29930241
Trying genericCitationLabelled
Trying pubmed_central_v1
Trying acsPublications
Trying uchicagoPress
Trying nejm
Trying futureMedicine
Trying science_direct
** fetching of reprint 29930241 failed from error list index out of range

I am working with a pmf and am not sure where the error is coming from.
Thanks!

[billgreenwald]

Hey @nmehra222, sorry for the slow response. I tried to get your example PMID and got a "bad handshake" error from the site instead; it could be because I am out of the country and thus have some, though I don't think that is why. Can you post or send a link to your pmf file so that I can try using it for error checking? Thanks!

[nmehra222]

I actually tried again, and was able to download the paper without a problem. Thanks for your help!