Re: [galaxy-dev] Bowtie2 index building

Hi Björn, That’s right! It was quiet strange. I need to extend the memory and cores usage via command line. Thank you so much! Deepak > On Aug 11, 2017, at 10:00, Björn Grüning wrote: > > Hi, > > it seems that your Docker Box only gets 1GB :( > > please

Re: [galaxy-dev] Bowtie2 index building

Hi, it seems that your Docker Box only gets 1GB :( please re-check the configs. Sorry to be not more helpful! Bjoern On 11.08.2017 15:55, Deepak Tanwar wrote: > Also, I am running this container on a Mac Pro using Kitematic and I > have docker preference set to use 12 cores and 64 GB RAM. > >

Re: [galaxy-dev] Bowtie2 index building

Hi Björn, If I do docker stats: CONTAINER CPU % MEM USAGE / LIMIT MEM % NET I/O BLOCK I/O PIDS dd4da10c0a546.16% 690.9MiB / 995.8MiB 69.38% 158kB / 785kB 11.4GB / 81MB 106 And,

Re: [galaxy-dev] Bowtie2 index building

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

[galaxy-dev] Bowtie2 index building

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

Re: [galaxy-dev] Data manager for ncbi_blast_plus in the main tool shed?

Hi David, Daniel Blankenberg wrote one (CC'd): https://github.com/peterjc/galaxy_blast/tree/master/data_managers/ncbi_blastdb http://testtoolshed.g2.bx.psu.edu/view/blankenberg/data_manager_example_blastdb_ncbi_update_blastdb I've never used it in production and don't have enough understanding

Re: [galaxy-dev] Installing Galaxy, Conda and Python

On 11 August 2017 at 14:33, Lachlan Musicman wrote: > Hola, > > We are attempting to install Galaxy, from git, version 17.05 > > We largely have it installed, but seem to be falling over at the > installation of dependencies. > > In particular, conda via Galaxy can't find