Not sure if it will work, but ive started using evernote.  It takes images 
(scans, pdf and whatnot) and attempts to read words within the image.  I has 
search capabilities among other organizing features like tagging pages and 
titles.  Can be hooked to the web to view your notes anywhere.  Its only for 
windows/mac but it might work in WINE? 

http://www.evernote.com/

Scott

---- Original message ----
>Date: Wed, 1 Oct 2008 15:50:39 -0400
>From: Nick Cummings <[EMAIL PROTECTED]>  
>Subject: Re: [UM-LINUX] Keeping Track of Papers  
>To: [email protected]
>
>I took a look at JabRef.  It certainly looks like a useful program. It
>looks substantively pretty similar to Pybliographic.  There are clearly
>some differences (e.g., JabRef seems to have more built in tools for
>querying various online bibliographic databases), but there may be
>further significant differences that are not immediately obvious.
>
>Being bibtex-centered is fine, because I need my bibtex database anyway
>for TeXing up papers.  This could use JabRef or Pybliographic.  If I
>developed a system of naming for files, I could presumably create a new
>field in the bibtex entry for each paper giving the paper location, and
>put in abstract information.  I could tag things either in the keywords
>field or, again, by adding an additional field.  That sort of setup
>would not be entirely ideal, but it would probably be acceptable.
>
>I'm getting a lot of intriguing thoughts here (clearly I asked the right
>group), and I'll certainly check out Zotero to see if it would be a
>better solution.  I did read about the lawsuit on Slashdot, but I'm not
>going to worry about that too much yet as long as it looks like I'd be
>able to get most of my data back out in a format other software could
>understand.
>
>Thanks,
>
>Nick
>
>Mehmet Atif Ergun wrote:
>> Hi,
>>
>> I happily use JabRef to have my database organized and searchable. All
>> papers, articles, readings, whatever are stored in one directory, and
>> all their information are stored in JabRef entries.
>>
>> However, JabRef is very bibtex-centered and seem no to allow indexing
>> of file attachments (to entries), so Zotero (Firefox add-on) might be
>> a better choice for you. Zotero does exactly what you are looking for
>> by allowing for tags and in-file searches for all entries.
>>
>> Mehmet.
>>
>> Note: Zotero got sued by EndNote recently, so download a copy now just
>> in case...
>>
>> On Wed, Oct 1, 2008 at 2:08 PM, Nick Cummings <[EMAIL PROTECTED]> wrote:
>>   
>>> For a while I've really wanted to have some sort of database that would
>>> allow me to keep track of papers relevant to my research.  Basically,
>>> right now I just download papers I find that are of interest, and put
>>> them in a hierarchy of directories by subject.  This has a couple of
>>> problems: 1) It takes time to do the organizing.  2) The subject matter
>>> of papers is not hierarchical, it's more of a web. 3) There's no easy
>>> way to store metadata about the paper (e.g., author & title) such that
>>> it can be browsed through without opening every paper. 4) No convenient
>>> way to track read/unread status. 5) It's not searchable.  I'm hoping
>>> there's a piece of software one can use on Linux to help with this sort
>>> of thing, either software specifically for this purpose or one that
>>> could be adapted without very much work (or much programming
>>> expertise).  Surely some of you bright academics have tried to find a
>>> solution to this sort of problem before.  :-)  I'm also open to web
>>> services for these purposes, my only hesitation is that I may then end
>>> up with my info locked into it with no possibility to migrate later.
>>>
>>> I've come up with some idea for solutions, but none seem all that good:
>>> 1) I could simply keep a spreadsheet (or text file) with each paper's
>>> associated information (bibliographic info, read/unread status,
>>> tags/keywords) and the file name of the paper (if it exists). 2) Try to
>>> use my BibTeX bibliographic database and Pybliographic GUI to keep track
>>> of all the info about papers and, again, point to file locations (not
>>> sure how feasible this is). 3) Hope I can find a URL for the abstract of
>>> each paper and use del.icio.us to bookmark and tag each one.  Make sure
>>> to put all bibliographic info in the notes section.
>>>
>>> Of those, #1 seems like the most plausible solution but far from ideal.
>>>
>>> Regards,
>>>
>>> Nick
>>>
>>>
>>>     
>>
>>
>>
>>   
>
>
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