[galaxy-dev] Part Time Job opening at GenePeeks
Hi everyone, I am posting this position description for a Part Time - Galaxy (BioLinux) Server Administrator / Python Programmer. We are a really great company in an interesting space. Please check out this video for a good overview of what we do. (We also have some full time openings that range from computational geneticist to senior scientist, if you are interested, send me an e-mail and I will send you more information.) GenePeeks: Protecting our Children http://vimeo.com/68860139 Company GenePeeks is a genetic information company with a mission to help families protect the next generation. Our patent-pending technology reduces the risk of more than 600 severe, pediatric diseases by digitally weaving together the DNA of prospective parents and analyzing thousands of digital babies pre-pregnancy. Our initial focus is the donor sperm industry, where we help sperm bank clients avoid donor matches that carry a high risk of passing on life-threatening and life-altering diseases. GenePeeks was founded by Princeton genetics professor Lee Silver and Anne Morriss, an entrepreneur and mother whose first child was born with a rare disease that could have been identified with GenePeeks technology. For more information, please visit genepeeks.com. GenePeeks is a unique genetic information company with a mission to help families protect the health of their future children. We are searching for a Part Time Galaxy (BioLinux) Server Administrator to join our growing team and help develop leading-edge technologies in a fast-paced, early-stage environment. Description: Manage and maintain several cloud based BioLinux instances running Galaxy on Amazon Web Services Manage and maintain a source code control baseline on BitBucket Manage and maintain internal wiki site using mediawiki Help install and maintain new cloud based technologies as required Perform code reviews of Python scripts Assist in organizing the code base and proper source code Manage backup and disaster recovery planning Requirements Must be fast learning and responsive Must have experience using BioLinux Must have Python coding experience Must have experience using BitBucket Background in Genetics or Molecular Biology is a plus Sense of humor required Details Position is part time and will bill hourly Hours will fluctuate (estimate about 10 hours a week) Location in the New York area is a plus, but will consider remote working arrangements for the right candidate Hourly Rate Commensurate with experience and efficiency If you are interested please contact me directly at adamc...@genepeeks.com -- Adam S. Cohn Chief Technology Officer / Chief Operations Officer GenePeeks 175 Varick Street, New York, NY (646) 664-4268 (703) 473-8811 (mobile) adamc...@genepeeks.com www.genepeeks.com ___ 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: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] Some problems setting up a new cloudman instance on AWS
If anyone is following this thread, it turned out to be an error specific to Safari Web browser. The tool shed functionality works fine on Firefox. It has been identified as an issue and reproduced by the Galaxy team. Thanks Dannon for going above and beyond in tracking this down! Adam ___ 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: http://lists.bx.psu.edu/
Re: [galaxy-dev] Some problems setting up a new cloudman instance on AWS
Dannon, Thanks again for the response. I tried this and it was not successful. (same error) I am pretty much running CloudMan out of the box, plus one update, plus a few minor config file changes (already described in my first post.) The only thing I did that was different from the documentation is when I initiated SSH, it asked me if I wanted to configure NX client. I said yes and this process executed successfully. I am rapidly reaching the end of my time allocation to spend on this. Do you know of anyone who would be willing to do a couple of hours of paid work to setup and configure a cloud based Galaxy for our use? Thanks, Adam On 3/8/13 5:41 PM, Dannon Baker dannon.ba...@gmail.com wrote: This is probably due to the version of your cloud galaxy installation being slightly older than the currently deployed tool shed version. If you use the cloud admin panel to update to a more recent galaxy-dist (or just do it yourself after ssh'ing in), this should be resolved. -Dannon ___ 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: http://lists.bx.psu.edu/
[galaxy-dev] Some problems setting up a new cloudman instance on AWS
Hi Galaxy Admin list, This is my first post to this list. Galaxy is a great tool and I am really enjoying working with it. Background, I am setting up a private galaxy instance for my company using AWS. The installation is going very smoothly with a few problems listed below. I apologize if these questions have been asked before. I have been through the documentation and searched the list pretty thoroughly and can't find the answers. Thanks in advance for your help. Question 1: Can't install tools in the tool shed I have added this line to the universe_wsgi.ini tool_config_file = tool_conf.xml,shed_tool_conf.xml Which references a file that contains this tag: toolbox tool_path=../shed_tools /toolbox I have created this directory at the correct level and set permission to 755. But I am still getting a non specific error loading tools. I saw that this was (is?) a known issue, but that it had been resolved in the latest build. What am I missing? The log does not give me any more specific information about the error. Any suggestions? Question 2: Weird log error. Every minute the log records this error: galaxy.web.framework DEBUG 2013-03-07 13:07:42,207 Error: this request returned None from get_history(): http://127.0.0.1:8080/root 127.0.0.1 - - [07/Mar/2013:13:07:42 +] GET /root HTTP/1.1 200 - - Python-urllib/2.6 Is this a known issue? How can I find more information about what is causing it? Question 3: Correct Settings: My intent is to allow employees to access galaxy remotely without allowing public access. In order to keep the data private, I have set: require_login = True allow_user_creation = False Other than the id_secret setting (which I am currently researching) are there any big security holes I am missing with the default installation? Thanks again for the help. Adam ___ 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: http://lists.bx.psu.edu/
