Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • Newbler cannot use a "project lock file"?

    Hi,

    I have been using Newbler (runAssembly) with no problems on one server and all the files and the binary are in fact stored on an NFS.

    I am now trying to run it on a second server, also attached to the same NFS (so all the files/binary are the same), however I get this error:

    $ runAssembly -o Newbler data11.sff
    Error: Unable to create project directory: Newbler
    Could not use a project lock file.
    Error in runAssembly: Error while creating the assembly project.
    Usage: runAssembly [-o projdir] [-nrm] [-p (sfffile | [regionlist:]analysisDir)]... (sfffile | [regionlist:]analysisDir)...

    I presume it is having some permissions issue, but my username does have write permission, and before the error arrives it does in fact create the 'Newbler' directory. Does it try to write this "project lock file" somewhere else? Does anybody know where this lock file lives? or know what causes this error specifically?

    thanks

    adam
    Last edited by Adam Witney; 09-20-2011, 11:01 AM.

  • #2
    Can you double check the NFS file system is mounted the same way on both machines?

    Comment


    • #3
      Yes, they are both mounted:

      homes1:/homedirs8 on /homedirs8 type nfs (rw,soft,intr,bg,addr=IP)

      Comment


      • #4
        The only time I've personally seen this was with a mounted drive, and I resorted to running it in a different directory.

        Perhaps this is down to the version of the library used to mount the drive... curious. Are the two servers running similar operating systems? e.g. Both the same Linux distribution?

        Comment


        • #5
          one is CentOS 5.5 and the other CentOS 5.6, so pretty similar. I will talk to our sysadmin tomorrow to see if he might know of any differences between the mountings

          thanks

          adam

          Comment

          Latest Articles

          Collapse

          • seqadmin
            Exploring the Dynamics of the Tumor Microenvironment
            by seqadmin




            The complexity of cancer is clearly demonstrated in the diverse ecosystem of the tumor microenvironment (TME). The TME is made up of numerous cell types and its development begins with the changes that happen during oncogenesis. “Genomic mutations, copy number changes, epigenetic alterations, and alternative gene expression occur to varying degrees within the affected tumor cells,” explained Andrea O’Hara, Ph.D., Strategic Technical Specialist at Azenta. “As...
            07-08-2024, 03:19 PM
          • seqadmin
            Exploring Human Diversity Through Large-Scale Omics
            by seqadmin


            In 2003, researchers from the Human Genome Project (HGP) announced the most comprehensive genome to date1. Although the genome wasn’t fully completed until nearly 20 years later2, numerous large-scale projects, such as the International HapMap Project and 1000 Genomes Project, continued the HGP's work, capturing extensive variation and genomic diversity within humans. Recently, newer initiatives have significantly increased in scale and expanded beyond genomics, offering a more detailed...
            06-25-2024, 06:43 AM

          ad_right_rmr

          Collapse

          News

          Collapse

          Topics Statistics Last Post
          Started by seqadmin, 07-10-2024, 07:30 AM
          0 responses
          23 views
          0 likes
          Last Post seqadmin  
          Started by seqadmin, 07-03-2024, 09:45 AM
          0 responses
          200 views
          0 likes
          Last Post seqadmin  
          Started by seqadmin, 07-03-2024, 08:54 AM
          0 responses
          209 views
          0 likes
          Last Post seqadmin  
          Started by seqadmin, 07-02-2024, 03:00 PM
          0 responses
          192 views
          0 likes
          Last Post seqadmin  
          Working...
          X