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Citation Management Tools

Using bibliographic management or citation management software will help organize your research. With a few clicks of a mouse create bibliographies and save time formatting your manuscript.

Citation Management with EndNote 2025

Installation

  • EndNote technical support reports: "It is not necessary to uninstall the previous version prior to installing EndNote 2025."
  • Generating a compressed file backup in advance of the installation is encouraged!

Compatibility

Apple M4 chip compatibility has not yet been confirmed by Clarivate.

Configuring EndNote Preferences and Downloading PDFs

Jefferson Libraries implements OpenAthens authentication for access to journal articles. EndNote Desktop is not supported by OpenAthens and only the OpenURL Path may be added via Preferences (Authenticate with: URL: input field is now left empty).

To attach a PDF to a citation manager (during or after the import process), you’ll need to configure the citation manager tool with the library’s OpenURL  (https://jefferson.primo.exlibrisgroup.com/openurl/01TJU_INST/01TJU_INST:01TJU?):

  1. Open EndNote.

  2. Via the EndNote 2025 tab, select Settings, then EndNote Preferences.

  3. Select Find Full Text.

  4. Paste the OpenURL (above) into the box labeled OpenURL Path.

  5. Save changes.

EndNote 2025 preferences menu and selecting Find Full Text to input the OpenURL path.

Please note: without the Authenticate with: URL: EndNote's Find Full Text is not totally functional at this time (we hope for an eventual fix) as it is only relying upon the OpenURL to import PDFs.

EndNote Click is an alternative option for capturing full text (PDFs must have embedded digital object identifiers to be successfully imported).

Finders

Backup

Creating a Compressed Library File:

1. Open the library in EndNote.

2. From the File menu, select Compress Library (.enlx) to display a Compress Library dialog.

3. Use the radio buttons to determine these options: ▪ Specify whether you want to Create a compressed library or to Create & Email the library. ▪ Specify whether you want to save file attachments with the library or not. Specify whether you want to save all references to the compressed library, only selected references, or only the references in a specific group or group set. 

4. Click Next to display a file dialog. Save the compressed library to a folder on your hard drive. You can change the file name but you cannot use the following characters (please refer to the EndNote 2025 Help Guide for a list of invalid characters).

Damaged Library Recovery

If an EndNote library has been damaged, you may get an error message like the one below when trying to open it or work with the references. If you have been syncing the library with EndNote Web/online, click the Sync button and EndNote will attempt to repair your library from the copy saved online.

Recover a dmaged EndNote Library popup by selecting Sync.

If you have not synced the library, you may be able to use the Recover Library command under the Library menu to repair the library.

Along with syncing your library to be sure there is always a backup online, another good way to protect yourself from damaged files is to make regular backup copies of your important files and documents (saving a compressed file, saving a copy of a library). If you are not syncing and do not have a backup copy of a damaged EndNote library, you can use the Recover Library command to repair the damaged file.

To repair a damaged EndNote library:

1. Close the library if it is currently open.

2. From the Library menu, select Recover Library. Read the information about the Recover Library command, and click OK.

3. In the dialog that appears, locate and select the library that needs to be repaired, and click Open.

EndNote creates a copy of the library with the suffix "-Saved" added to the name. For example, if you were repairing a library called "References" the original library would remain untouched and a new, repaired library called "References-Saved" would be created in the same location.

Once the new library has been saved, you should be able to open it and use it in place of the damaged library.