Re: [galaxy-user] Problem with Depth of Coverage on BAM files (GATK tools)

2012-06-21 Thread Carlos Borroto
On Thu, Jun 21, 2012 at 10:50 AM, Lilach Friedman wrote: > Hi Jennifer, > Thank you for this reply. > > I made a new BWA file, this time using the hg19(full) genome. > However, when I am trying to use DepthOfCoverage, the reference genomr is > stucked on the hg_g1k_v37 (this is the only option to

Re: [galaxy-user] Problem with Depth of Coverage on BAM files (GATK tools)

2012-06-21 Thread Lilach Friedman
Hi Jennifer, Thank you for this reply. I made a new BWA file, this time using the hg19(full) genome. However, when I am trying to use DepthOfCoverage, the reference genomr is stucked on the hg_g1k_v37 (this is the only option to select), and I cannot change it to hg19(full). Most probably, because

Re: [galaxy-user] jobs stuck on Galaxy

2012-06-21 Thread Jennifer Jackson
Hello Fatih, Yes, the public main server was down for a short period this morning. It is now back up. The cluster is fine and running with a full queue. I do not see any of your jobs, perhaps they completed overnight? If any ended with an unexpected error, then please start a rerun. Very s

Re: [galaxy-user] jobs stuck on Galaxy

2012-06-21 Thread Fatih Ozsolak
Hi Jennifer, I cannot seem to access the galaxy website. can you please check? Thanks, fatih On Wed, Jun 20, 2012 at 10:43 PM, Jennifer Jackson wrote: > Hello Fatih, > > I found five jobs under your account in the NGS cluster queue. Job > processing is normal - the Galaxy main instance is jus