Please read NOTES.txt below for details. The pubmedpdf*.zip file contains everything you need. Old Windows version is in the "Windows" folder. Please also note that there is absolutely no support for this software (It's all source code, so it's easy to add features.). In particular, we cannot respond to any Perl or Unix questions. However, comments and improvements are welcome, and they should be sent to: firstname.lastname@example.org. And finally, if you run the scripts and find them useful, please do let us know. Our funding source would be glad to hear about it.
Notes on what's what --- PubMedPDF Tools, iPapers, and PubMedPDF/XOOPSWindows Version (2004-11-12: Shortcut creation bug FIXED. This version is frozen. No more updates will be done.) --- Key scripts in PubMedPDF Tools are now available also for Windows, thanks to Philipp Sasse. These are all command line tools and not GUI applications.
These pieces of software are based on the same idea of using PubMed ID as the key for organizing your reprint collection automatically, but are based on entirely different codebases. PubMedPDF/XOOPS has been written from scratch in a server-side scripting language PHP to add more sophisticated features such as key word searches and web-based interface. To support these features, it relies on MySQL database and XOOPS content management system. Despite these highly sopisticated features, installation and use of PubMedPDF/XOOPS is surprisingly simple and fast (5~10 min) on Windows and MacOS X (even for novices) thanks to prepackaged all-in-one distributions such as XAMPP. So, if you don't know what is suitable for you, I would recommend that you try PubMedPDF/XOOPS first. This software does take up CPU/memory resouces when it is running, and running it on a laptop all the time may be a bit problematic. PubMedPDF/XOOPS has been written and is maintained by a different group lead by Dr. Hidetoshi Ikeno at University of Hygo (Japanese page).
PubMedPDF Tools, which is downloadable below, is much simpler but less capable. It does not offer any search. It is a tool for creating static hierachical folder systems and symbolic links (shortcuts) with meaningful names to original PDF files by looking up PubMed. Once this is run, no programs will be running on your computer (so, no CPU/memory is consumed). You are supposed to use whatever is on a given OS for browsing the file system to find the PDF file you need. You can install both PubMedPDF Tools and PubMedPDF/XOOPS on the same machine without conflicts. The key parts of PubMedPDF Tools was written by Dr. T. Aoyama, before he went on to write the popular iPapers for MacOS X.
iPapers, which is downloadable from the original distribution site, is NOT a wrapper around "PubMedPDF Tools" as far as I am aware. Although the base idea is similar in that both use PubMedID-based file naming convention, and relies on PubMed lookup, iPapers is written from scratch in Cocoa API and does not use the Perl scripts.
Historical Notes: PubMedID-based PDF file naming convention originated from the MyPDF feature (implemented in April 2003) of Visiome Platform. For making stand-alone uses possible of the PDF collection consisting of numbered PDF files, Dr. T. Aoyama wrote PubMedPDF Tools (first release 2003-08-20 v1.0), and then iPapers (first release v0.1, 2004/5/14). PubMedPDF/XOOPS module was then written by a group led by Prof. H. Ikeno at Univ. of Hyogo, to fill a need for platform-indepencence and offer features similar to iPapers but via a web-based database solution.
MacOS X Application --- iPapers --
a new GUI-based MacOS X application is available now from the primary author
(Dr. T. Aoyama) of PubMedTools scripts. iPapers offers more conveniences, and
is complementary to the server-based system implemented by the scripts here.
Acknowlegements: Contents of this page mirror the official distribution from Visiome Platform ( http://platform.visiome.org/ ), (search with "pubmedpdf" there), which provides key word search capabilities (limited to the field of Vision Science) with links to reprints in your own collection (not ones at journal sites) in the form outlined above. Visiome Platform is now open for public access. PubMedPDF Tools and Visiome Platform are products of Neuroinfomatics Research in Vision (NRV) Project, which has been supported by a special coordination fund for promoting science from the Ministry of Education, Culture, Sports, Science and Technology (MEXT) of the Japanese government during fiscal years 1999-2003.