Does the Zoterro full install work with pdf ( I'm probably still blocked from their forum lol)?

I don't think I've ever seen this work with a pdf file,

https://zbib.org/

curious what they do with pdf files.

Most recently,  see "srcutl" below,   the cool thing here is that the pdf uses the
extended information to include a doi entry so you don't have to scrape it
from the text. Toobib looks for this, hopefully first but I may have the order screwed up
but that is the handler it used. I'm still surprised most publishers don't appear to
include this although I like my approach including a bibtex entry with as much fixed
info as possible. This could be extended for collected works and a collection of bibtex entries.
Not a lot of overhead for most works and its easier to delete junk that enter or find it :) 
I'd just also re-iterate that Zoterro seems obsessed with terse "clean" bibtex although
an original design objective IIRC was to make the records as comprehensive as possible which
Toobib does by default since it can't sort this out. 


$ toobib -clip
mjm>clip xxxx
./toobib.h588  cmd=clip p1=xxxx p2= flags=18 x.flag_to_string(flags,0)=show_trial paste_citation 
./mjm_med2bib_guesses.h997  uin=https://mro.massey.ac.nz/server/api/core/bitstreams/43bc48a5-4da3-43b0-ba34-5d571fc247d3/content dest=xxxx flags=18
./mjm_med2bib_guesses.h1125  handler get failed   headless_failed=1 fnsz=359 fn=/tmp/fileKAEj0o.outguesses StrTy(in.uin())<<" "<<"htmlfake="<<htmlfake=https://mro.massey.ac.nz/server/api/core/bitstreams/43bc48a5-4da3-43b0-ba34-5d571fc247d3/content htmlfake=1
./mjm_chromate.h1292  waiting for download no failure detect  url=https://mro.massey.ac.nz/server/api/core/bitstreams/43bc48a5-4da3-43b0-ba34-5d571fc247d3/content fn=/tmp/fileKAEj0o.outguesses
./mjm_med2bib_guesses.h1179 % mjmhandler: toobib handlepdfexif(crossref)
% date 2025-02-23:07:37:57 Sun 23 Feb 2025 07:37:57 AM EST
% srcurl: https://mro.massey.ac.nz/server/api/core/bitstreams/43bc48a5-4da3-43b0-ba34-5d571fc247d3/content
% citeurl: http://api.crossref.org/works/10.1002/ece3.9225

@article{Xu_Liu_Naren_Experimental_evolution_bacterial_2022,
X_TooBib = {date: 08/2022},
X_TooBib = {year: 2022,  infield_fix_dates },
X_TooBib = {month: 08,  infield_fix_dates },
X_TooBib = {urldate: FixBeKvp s= cmd=date "+%Y-%m-%d" d=2025-02-23 dn=urldate},
X_TooBib = {author: Xu , Feng and Liu , Sha and Naren , Naran and Li , Lily and Ma , Luyan Z. and Zhang , XueXian},
abbrvjrnl = {Ecology and Evolution},
abstract = {<jats:title>Abstract</jats:title><jats:p>Antimicrobial coppercontaining surface materials have a great potential of reducing the risks of healthcareassociated infections (HAIs), but their increased use in hospital facilities may select copperresistant strains, causing concerns to antimicrobial resistance management. Here, we describe a longterm bacterial evolution experiment wherein a nonpathogenic <jats:italic>Pseudomonas</jats:italic> strain was subjected to daily transfer in laboratory media with and without coppermediated contact killing. The copper treatment sequentially involved two surface materials differing in Cu content and thus contact killing effectiveness: first on brass (Cu 63.5%) and then on pure copper (Cu 99.9%). A gradual increase in bacterial survival rate (o
 r a decrease of killing effectiveness) was observed over time on the related copper surfaces. For the final evolved populations after 320 transfers, 37.8% cells of the copperevolved populat!
 ions were able to survive 60min on pure copper, whereas populations in the control lines remained sensitive with a survival rate of 0.09% under the same contact killing condition. Genome resequencing revealed ~540 mutations accumulated in the copper lines but only 71, on average, in the control lines (variant frequency\&gt;0.5). The mutagenic activities of Cu<jats:sup>+</jats:sup> ions were confirmed by measuring spontaneous mutation rate in a laboratory medium supplemented with copper sulfate at a noninhibitory concentration. The copperevolved populations have acquired increased resistance to Cu<jats:sup>+</jats:sup> ions and tobramycin (an aminoglycoside antibiotic), but showed decreased production of biofilm, exoprotein, and pyoverdine. Together, our data demonstrate the potential of b
 acteria to evolve prolonged survival on metallic copper, and the longterm impacts should be considered with increased copper usage in hospital environments.</jats:p>},
abstract_as_rcvd = {<jats:title>Abstract</jats:title><jats:p>Antimicrobial copper‐containing surface materials have a great potential of reducing the risks of healthcare‐associated infections (HAIs), but their increased use in hospital facilities may select copper‐resistant strains, causing concerns to antimicrobial resistance management. Here, we describe a long‐term bacterial evolution experiment wherein a non‐pathogenic <jats:italic>Pseudomonas</jats:italic> strain was subjected to daily transfer in laboratory media with and without copper‐mediated contact killing. The copper treatment sequentially involved two surface materials differing in Cu content and thus contact killing effectiveness: first on brass (Cu 63.5%) and then on pure copper (Cu 99.9%). A gradual increase in 
 bacterial survival rate (or a decrease of killing effectiveness) was observed over time on the related copper surfaces. For the final evolved populations after 320 transfers, 37.8% cells of!
  the copper‐evolved populations were able to survive 60 min on pure copper, whereas populations in the control lines remained sensitive with a survival rate of 0.09% under the same contact killing condition. Genome re‐sequencing revealed ~540 mutations accumulated in the copper lines but only 71, on average, in the control lines (variant frequency \&gt; 0.5). The mutagenic activities of Cu<jats:sup>+</jats:sup> ions were confirmed by measuring spontaneous mutation rate in a laboratory medium supplemented with copper sulfate at a non‐inhibitory concentration. The copper‐evolved populations have acquired increased resistance to Cu<jats:sup>+</jats:sup> ions and tobramycin (an aminoglycoside antibiotic), but showed decreased production of biofilm, exoprotein, and pyoverdine. To
 gether, our data demonstrate the potential of bacteria to evolve prolonged survival on metallic copper, and the long‐term impacts should be considered with increased copper usage in hospi!
 tal environments.</jats:p>},
affiliation = {School of Natural Sciences Massey University Auckland New Zealand and School of Natural Sciences Massey University Auckland New Zealand and School of Natural Sciences Massey University Auckland New Zealand and School of Natural Sciences Massey University Auckland New Zealand and State Key Laboratory of Microbial Resources, Institute of Microbiology Chinese Academy of Sciences Beijing China and School of Natural Sciences Massey University Auckland New Zealand},
alternative-id = {10.1002/ece3.9225},
archive = {Portico},
assertion = {2022-03-27, 0, received, Received, publication_history, Publication History, 2022-07-27, 1, accepted, Accepted, publication_history, Publication History, 2022-08-22, 2, published, Published, publication_history, Publication History},
author = {Xu , Feng and Liu , Sha and Naren , Naran and Li , Lily and Ma , Luyan Z. and Zhang , XueXian},
author_as_rcvd = {Feng Xu and Sha Liu and Naran Naren and Lily Li and Luyan Z. Ma and Xue‐Xian Zhang},
author_orig = {Feng Xu and Sha Liu and Naran Naren and Lily Li and Luyan Z. Ma and XueXian Zhang},
bib-source = {Crossref},
container-title = {Ecology and Evolution},
content-domain = {onlinelibrary.wiley.com, true},
date = {08/2022},
date-created = {2022-08-23T06:45:03Z},
date-deposited = {2023-08-222023-08-22T10:14:36Z},
date-indexed = {2024-09-06T18:21:14Z},
date-issued = {2022-08},
date-journal-issue = {2022-08},
date-license = {2022-08-222022-08-22T00:00:00Z},
date-published-online = {2022-08-22},
date-published-print = {2022-08},
date_orig = { 2022-08   2022-08 2022-08     2022-08-22 },
deposited = {1692699276000},
doi = {10.1002/ece3.9225},
funder = {10.13039/501100001518, Maurice and Phyllis Paykel Trust, publisher, 10.13039/501100001518, DOI, publisher},
is-referenced-by-count = {3},
issn = {2045-7758},
issn-type = {2045-7758, print, 2045-7758, electronic},
issue = {8},
journal = {Ecology and Evolution},
journal-issue = {8},
language = {en},
license = {1661126400000, vor, 21, http://creativecommons.org/licenses/by/4.0/},
link = {https://onlinelibrary.wiley.com/doi/pdf/10.1002/ece3.9225, application/pdf, vor, text-mining, https://onlinelibrary.wiley.com/doi/full-xml/10.1002/ece3.9225, application/xml, vor, text-mining, https://onlinelibrary.wiley.com/doi/pdf/10.1002/ece3.9225, unspecified, vor, similarity-checking},
member = {311},
month = {08},
prefix = {10.1002},
publication-date = {2022-08},
publisher = {Wiley},
reference = {deleted},
reference-count = {56},
references-count = {56},
resource = {https://onlinelibrary.wiley.com/doi/10.1002/ece3.9225},
score = {1},
title = {Experimental evolution of bacterial survival on metallic copper},
type = {journal-article},
update-policy = {http://dx.doi.org/10.1002/crossmark_policy},
url = {https://doi.org/10.1002/ece3.9225},
urldate = {2025-02-23},
volume = {12},
year = {2022},
final_assembly ={ TooBib handler handlepdfexif(crossref)},
srcurl={https://mro.massey.ac.nz/server/api/core/bitstreams/43bc48a5-4da3-43b0-ba34-5d571fc247d3/content},
xsrcurl={https://mro.massey.ac.nz/server/api/core/bitstreams/43bc48a5-4da3-43b0-ba34-5d571fc247d3/content},
citeurl={http://api.crossref.org/works/10.1002/ece3.9225},
toobib-date={2025-02-23:07:37:57 Sun 23 Feb 2025 07:37:57 AM EST}

}


./mjm_med2bib_guesses.h1187  saving to  df=xxxx
./mjm_med2bib_guesses.h1201  have citation   nfound=1 cite=\cite{Xu_Liu_Naren_Experimental_evolution_bacterial_2022} something=1 paste_citation=1
mjm>



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