Synchronizing some folders in LR 5.6 hangs

When I synchronize certain folders in LR 5.6, the process hangs, and I have to cancel the import and exit LR. The folder in question only has 366 photos and videos. This is occurring on my Macbook running Mavericks 10.9.4. So, I monitored the log file during the import, and got the errors below. The critical part of the error is:
   Bad sqlite return code: 19. Info: columns lc_idx_filename, folder are not unique
I believe the error is caused by LR trying to import photos and or videos that already exist in the catalog. I can see that some of the photos already exist in the catalog when I check the "Show import dialog before import".   Knowing the error is caused by non unique file names, I deleted all 366 photos from the catalog (But left them on disk, then the folder sync worked. This workaround works, but can anyone tell me if there is a way to rebuild the LR indexes, or correct the problem via some other means?
Marker - Sep 21, 2014, 10:09:09 PM
Sep 21 22:09:31 --- last message repeated 1 time ---
Sep 21 22:09:32 macbook.home Adobe Photoshop Lightroom 5[1387]:
    Bad sqlite return code: 19. Info: columns lc_idx_filename, folder are not unique
        0: method   runToCompletion                - C
        1: method   exec                           - 59600407:493+29
        2: method   exec                           - 1098400342:832+5
        3: method   new                            - 1100780495:39+13
        4: upvalue ?                              - 219380148:280+8
        5: upvalue ?                              - 219380148:451+16
        6: method   save                           - 219380148:1349+7
        7: method   sqlQuery                       - 219380148:735+12
        8: upvalue ?                              - 1626841921:187+40
        9:          [unnamed]                      - 1626841921:306+56
       10:          [unnamed]                      - tail
       11: method   createMetadata                 - 1216069304:338+41
       12: field    initializeMetadataForImage     - 1597059609:283+20
       13: upvalue ?                              - 209166131:556+44
       14:          [unnamed]                      - 209166131:980+43
       15:          [unnamed]                      - tail
       16:          [unnamed]                      - 219380148:965+5
       17: global   pcall                          - C
       18:          [unnamed]                      - 219380148:843+53
       19:          [unnamed]                      - tail
       20: global   pcall                          - C
       21:          [unnamed]                      - 1098400342:526+44
       22:          [unnamed]                      - tail
       23: upvalue ?                              - 209166131:173+7
       24:          [unnamed]                      - 209166131:950+26
       25: global   pcall                          - C
       26:          [unnamed]                      - 1002929302:1193+34
       27:          [unnamed]                      - tail
       28:          [unnamed]                      - tail
       29:          [unnamed]                      - tail
       30: method   dispatch                       - 1002929302:971+75
       31:          [unnamed]                      - 1002929302:1679+77
       32: global   AgCallWithAutoreleasePool      - C
       33: method   run                            - 1002929302:1642+28
       34:          [unnamed]                      - 435542093:0+6
Sep 21 22:09:32 macbook.home Adobe Photoshop Lightroom 5[1387]:
    Bad sqlite return code: 19. Info: columns lc_idx_filename, folder are not unique
        0: method   reset                          - C
        1: method   reviveReusableCachedStatement - 944881066:368+10
        2: method   prepareRunToCompletionStatement - 59600407:1041+4
        3: method   exec                           - 59600407:493+23
        4: method   exec                           - 1098400342:832+5
        5: method   new                            - 1100780495:39+13
        6: upvalue ?                              - 219380148:280+8
        7: upvalue ?                              - 219380148:451+16
        8: method   save                           - 219380148:1349+7
        9: method   sqlQuery                       - 219380148:735+12
       10: upvalue ?                              - 1626841921:187+40
       11:          [unnamed]                      - 1626841921:306+56
       12:          [unnamed]                      - tail
       13: method   createMetadata                 - 1216069304:338+41
       14: field    initializeMetadataForImage     - 1597059609:283+20
       15: upvalue ?                              - 209166131:556+44
       16:          [unnamed]                      - 209166131:980+43
       17:          [unnamed]                      - tail
       18:          [unnamed]                      - 219380148:965+5
       19: global   pcall                          - C
       20:          [unnamed]                      - 219380148:843+53
       21:          [unnamed]                      - tail
       22: global   pcall                          - C
       23:          [unnamed]                      - 1098400342:526+44
       24:          [unnamed]                      - tail
       25: upvalue ?                              - 209166131:173+7
       26:          [unnamed]                      - 209166131:950+26
       27: global   pcall                          - C
       28:          [unnamed]                      - 1002929302:1193+34
       29:          [unnamed]                      - tail
       30:          [unnamed]                      - tail
       31:          [unnamed]                      - tail
       32: method   dispatch                       - 1002929302:971+75
       33:          [unnamed]                      - 1002929302:1679+77
       34: global   AgCallWithAutoreleasePool      - C
       35: method   run                            - 1002929302:1642+28
       36:          [unnamed]                      - 435542093:0+6
Sep 21 22:09:32 macbook.home Adobe Photoshop Lightroom 5[1387]: assertion failed!

I'm having the exact, same, problem...
LR 5.6 gets hung up towards the end of an import. No error message, just freezes. I can work within it while it's hung up, but the last of the photos aren't imported, and it's still in the act of "converting to Digital Negative and Import" mode. The last image imported was a video, if that helps.
I'm running it on OS 10.8.5, iMac.
Had no problem with LR2, from which I just upgraded.

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