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  1. Jalview
  2. JAL-2275

Cannot view local structures imported via cifs/samba mount

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    Details

    • Type: Bug
    • Status: Open
    • Priority: Critical
    • Resolution: Unresolved
    • Affects Version/s: None
    • Fix Version/s: None
    • Component/s: jvdesktop, Structures
    • Labels:

      Description

      This affect 2.8 onwards (and probably earlier).

      1. On a Windows 7 PC with a samba-mounted home directory, drag a local PDB file from the home directory to the Jalview desktop.
      2. Right click the sequence(s) and try to view the structure via the 'cached PDB' view.

      Jmol reports it couldn't load the file. Console dump below.

      Jalview Version: Development Branch Build
      Jalview Installation: webstart git-commit:f37ae4b [develop]
      Build Date: 17 October 2016
      Java version: 1.8.0_65
      amd64 Windows 7 6.1
      (C) 2012 Jmol Development
      Jmol Version: 14.2.14_2015.06.01 2015-06-01 19:39
      java.vendor: Java: Oracle Corporation
      java.version: Java 1.8.0_65
      os.name: Windows 7
      Access: ALL
      memory: 55.8/469.8
      processors available: 8
      useCommandThread: false

      FileManager.getAtomSetCollectionFromFile(\\\\gjb-smb.lifesci.dundee.ac.uk\\jprocter\\Downloads\\c2olpB_.5.pdb)
      cacheGet file:///gjb-smb.lifesci.dundee.ac.uk/jprocter/Downloads/gjb-smb.lifesci.dundee.ac.uk/jprocter/Downloads/c2olpB_.5.pdb false
      cacheGet file:///gjb-smb.lifesci.dundee.ac.uk/jprocter/Downloads/gjb-smb.lifesci.dundee.ac.uk/jprocter/Downloads/c2olpB_.5.pdb false
      FileManager opening 2 \\gjb-smb.lifesci.dundee.ac.uk\jprocter\Downloads\gjb-smb.lifesci.dundee.ac.uk\jprocter\Downloads\c2olpB_.5.pdb
      Time for openFile(\\\\gjb-smb.lifesci.dundee.ac.uk\\jprocter\\Downloads\\c2olpB_.5.pdb): 57 ms
      file ERROR: \\gjb-smb.lifesci.dundee.ac.uk\jprocter\Downloads\gjb-smb.lifesci.dundee.ac.uk\jprocter\Downloads\c2olpB_.5.pdb
      java.io.FileNotFoundException: \\gjb-smb.lifesci.dundee.ac.uk\jprocter\Downloads\gjb-smb.lifesci.dundee.ac.uk\jprocter\Downloads\c2olpB_.5.pdb (The system cannot find the path specified)
      eval ERROR: Eval
       pc:0
      1 statements
      ----
      Token[keyword(3/0x8101403) value="load"]
      Token[keyword(7/0x49501207) value="file"]
      Token[string(4/0x4) value="\\\\gjb-smb.lifesci.dundee.ac.uk\\jprocter\\Downloads\\c2olpB_.5.pdb"]

      END

      Timed out waiting for Jmol to load files after 20020ms

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              Assignee:
              jprocter Jim Procter
              Reporter:
              jprocter Jim Procter
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                Dates

                Created:
                Updated: