Hi Deepak, how are you running this Container? Can you check how many memory you have inside the container?
Cheers, Bjoern On 11.08.2017 15:35, Deepak Tanwar wrote: > Hello, > > I am trying to build Bowtie2 index for hg19. > I a using Docker image of Galaxy. > > Computer I am using have 12 cores and 64 GB of RAM. > > Error I am getting is: > > Fatal error: Exit code 1 () > Building a SMALL index > Could not allocate space for a joined string of 2897310462 elements. > Switching to a packed string representation. > Building a SMALL index > Could not find approrpiate bmax/dcv settings for building this index. > Already tried a packed string representation. > Please try indexing this reference on a computer with more memory. > Error: Encountered internal Bowtie 2 exception (#1) > Command: bowtie2-build --wrapper basic-0 > /export/galaxy-central/database/job_working_directory/000/113/dataset_80_files/hg19 > fa.fa hg19 fa > Deleting "hg19 fa.3.bt2" file written during aborted indexing attempt. > Deleting "hg19 fa.4.bt2" file written during aborted indexing attempt. > Deleting "hg19 fa.1.bt2" file written during aborted indexing attempt. > Deleting "hg19 fa.2.bt2" file written during aborted indexing attempt. > Deleting "hg19 fa.3.bt2" file written during aborted indexing attempt. > Deleting "hg19 fa.4.bt2" file written during aborted indexing attempt. > Deleting "hg19 fa.1.bt2" file written during aborted indexing attempt. > Deleting "hg19 fa.2.bt2" file written during aborted indexing attempt. > Error building index. > > Please help! > > Thank you, > Deepak > > > > ___________________________________________________________ > Please keep all replies on the list by using "reply all" > in your mail client. To manage your subscriptions to this > and other Galaxy lists, please use the interface at: > https://lists.galaxyproject.org/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/ > ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/
