Unconfigured Ad

Collapse
X
Collapse
 
  • Page of 1
  • Filter
  • Time
  • Show
Clear All
new posts
Previous template Next
  • polsum
    Member
    • May 2009
    • 32
    #1

    Bowtie memory error

    Hi - I am getting following error with bowtie

    "Error: Could not allocate ChunkPool of 67108864 bytes
    terminate called after throwing an instance of 'int'"

    Our computer has 12 GB memory with quadcore processor. The fasta file size is about 470MB and I am mapping it to the mouse genome. I am using Ubuntu 11.10 OS.

    I am using following options: -f --best --quiet -m10 -v2 --fullref --un --al --max -p32 -S m_musculus_ncbi37

    Has any one encountered similar problem?

    THanks in advance for any help.
    Last edited by polsum; 12-01-2011, 03:31 PM.
    Tags: None
  • dpryan
    Devon Ryan
    • Jul 2011
    • 3478
    #2
    Perhaps there are some strict memory limits being enforced; check "ulimit -a".

    Comment

    • polsum
      Member
      • May 2009
      • 32
      #3
      Ok I was using 32-bit OS and I removed it and installed 64-Bit OS and its working without any problems. Apparently 32-bit version cant use more than 4GB memory.

      Comment

      Previous template Next

      Latest Articles

      Collapse
      • SEQadmin2
        Nine Things a Sample Prep Scientist Thinks About Before Sequencing
        by SEQadmin2


        I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.

        Here are nine questions we think about, in roughly the order they matter, before...
        06-18-2026, 07:11 AM
      • SEQadmin2
        From Collection to Sequencing: Why Sample Preparation and Preservation Define Sequencing Data
        by SEQadmin2


        Data variability is still an issue in sequencing technologies despite the advances in reproducibility and accuracy of these platforms. But the problem does not originate in the sequencing itself, but in the previous steps, before the sample reaches the sequencer.

        The first step is collection, followed by preservation and sample preparation for analysis. Most scientists overlook those steps, but not being careful might just be skewing the experiment’s results.
        ...
        06-02-2026, 10:05 AM
      View All

      ad_right_rmr

      Collapse

      News

      Collapse
      Topics Statistics Last Post
      Large-Scale Protein Screen Uncovers Hidden Regulators of Alternative Polyadenylation by SEQadmin2
      Started by SEQadmin2, 06-26-2026, 11:10 AM
      0 responses
      15 views
      0 reactions
      		 Last Post SEQadmin2
      by SEQadmin2
      06-26-2026, 11:10 AM  
      Whole-Genome Sequencing Traces Faroe Islands Ancestry to a North Atlantic Founder Population by SEQadmin2
      Started by SEQadmin2, 06-17-2026, 06:09 AM
      0 responses
      49 views
      0 reactions
      		 Last Post SEQadmin2
      by SEQadmin2
      06-17-2026, 06:09 AM  
      Sequencing the Two-Toed Sloth Genome Reveals Jumping Genes Tied to Its Extreme Metabolism by SEQadmin2
      Started by SEQadmin2, 06-09-2026, 11:58 AM
      0 responses
      107 views
      0 reactions
      		 Last Post SEQadmin2
      by SEQadmin2
      06-09-2026, 11:58 AM  
      A New Method Makes Hantavirus Genome Analysis Faster and More Accessible by SEQadmin2
      Started by SEQadmin2, 06-05-2026, 10:09 AM
      0 responses
      125 views
      0 reactions
      		 Last Post SEQadmin2
      by SEQadmin2
      06-05-2026, 10:09 AM  
      View All
      Working...