Uploaded image for project: 'Jalview'
  1. Jalview
  2. JAL-623

pdb structure imported from paste to alignment not loaded into new Jmol window

    XMLWordPrintable

    Details

    • Type: Bug
    • Status: Open
    • Priority: Blocker
    • Resolution: Unresolved
    • Affects Version/s: 2.6, 2.7, 2.8
    • Fix Version/s: None
    • Component/s: awt-gui, gui, jvdesktop, jvlite, Structures
    • Labels:
      None

      Description

      Importing a pdb file by pasting it and adding the sequence to an alignment, then trying to view the pdb file results in a jmol input error:

      Console output:
      FileManager.getAtomSetCollectionFromFile(Paste)
      FileManager opening http://www.compbio.dundee.ac.uk/user/ws-dev1/jalview/latest/applet/Paste
      file ERROR: http://www.compbio.dundee.ac.uk/user/ws-dev1/jalview/latest/applet/Paste
      java.io.FileNotFoundException: http://www.compbio.dundee.ac.uk/user/ws-dev1/jalview/latest/applet/Paste
      openFile(Paste): 265 ms

      Looks like the 'reserved filename' Paste is not being recognised and dealt with in the binding.

        Attachments

          Issue Links

          blocks

          New Feature - A new feature of the product, which has yet to be developed. JAL-803 extend PDBFile parameter to allow the contents of the PDB file being associated to be passed to the applet

          • Major - Major loss of function.
          • Open
          related with

          Improvement - An improvement or enhancement to an existing feature or task. JAL-582 update Jmol to 2010 series (12.XX)

          • Major - Major loss of function.
          • Resolved

          New Feature - A new feature of the product, which has yet to be developed. JAL-674 display secondary structure of known structures on alignment

          • Major - Major loss of function.
          • Closed

            Activity

              People

              Assignee:
              jprocter James Procter
              Reporter:
              jprocter James Procter
              Votes:
              0 Vote for this issue
              Watchers:
              0 Start watching this issue

                Dates

                Created:
                Updated: