How to import you PDF files
Import PDF by Drag and Drop
 
If you have been naming your PDF files "PMID.pdf", it is easy for you to import these files into iPapers. Only drag and drop into "Library" or "Favorites" in Sources. iPapers makes the entry for accessing the PDF file using "Author" and "Journal" view, and copies PDF files into ~/Documents/iPapers2/iPapers paper/PubMed (default). iPapers automatically imports the information about author names, title, journal, abstract, and ... by searching PubMed DB.
Import through PubMed

In PubMed Mode selected PubMed in Source View, you can search articles by keywords, references in PubMed. Searched result is in Search Results View. The search results are displayed in the lower table. iPapers showes the authors name, title, journal, year, volume, pages, and PMID. 
When interested article is double clicked, if you have a permission to access the PDF file, you can download by clicking the link of downloading PDF file in iPapers web browser without opening other web browser, and then you can automatically import the downloaded PDF files. Import the information of PDF file by yourself

In PubMed Mode selected PubMed in Source View, you can search articles by keywords, references in PubMed. Searched result is in Search Results View. The search results are displayed in the lower table. iPapers showes the authors name, title, journal, year, volume, pages, and PMID. 
When interested article is double clicked, if you have a permission to access the PDF file, you can download by clicking the link of downloading PDF file in iPapers web browser without opening other web browser, and then you can automatically import the downloaded PDF files.