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 <bjoern.gruen...@gmail.com> wrote:
> 
> 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.
>> 
>> Thanks,
>> Deepak
>> 
>> 
>>> On Aug 11, 2017, at 9:54 AM, Deepak Tanwar <dktan...@hotmail.com
>>> <mailto:dktan...@hotmail.com>> wrote:
>>> 
>>> Hi Björn,
>>> 
>>> If I do docker stats:
>>> CONTAINER           CPU %               MEM USAGE / LIMIT     MEM %  
>>>            NET I/O             BLOCK I/O           PIDS
>>> dd4da10c0a54        6.16%               690.9MiB / 995.8MiB   69.38%  
>>>           158kB / 785kB       11.4GB / 81MB       106
>>> 
>>> And, after ssh into docker machine:
>>> 
>>> Filesystem                Size      Used Available Use% Mounted on
>>> tmpfs                   896.2M    186.6M    709.6M  21% /
>>> tmpfs                   497.9M    476.0K    497.4M   0% /dev/shm
>>> /dev/sda1               282.7G     14.9G    253.2G   6% /mnt/sda1
>>> cgroup                  497.9M         0    497.9M   0% /sys/fs/cgroup
>>> Users                   931.0G    683.8G    247.2G  73% /Users
>>> /dev/sda1               282.7G     14.9G    253.2G   6%
>>> /mnt/sda1/var/lib/docker/aufs
>>> 
>>> Best regards,
>>> Deepak
>>> 
>>> 
>>>> On Aug 11, 2017, at 9:39 AM, Björn Grüning <bjoern.gruen...@gmail.com
>>>> <mailto:bjoern.gruen...@gmail.com>> wrote:
>>>> 
>>>> 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
>>>>> 
>>>>> 
>>>>> 
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