User: njoebott

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njoebott30
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Posts by njoebott

<prev • 14 results • page 1 of 2 • next >
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Can't install galaxy-ops into toolshed
... Greetings Galaxy experts and enthusiasts, I have a simple single node installation of Galaxy using Ubuntu 16.04.1 and python 2.7.12 I Want to perform a simple join operation (per the 101 tutorial) but cannot fully install the dependencies required: package_galaxy_ops_1_0_0 -> galaxy-ops This ...
galaxy written 11 days ago by njoebott30
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Answer: A: ImportError: No module named bigbed_file
... Update. Here is the procedure I used to get the latest version of galaxy for a local installation running on Ubuntu - 14..04.5 with python 2.7.6 and 16.04.1 with 2.7.12 (removed version 3) - after install and applying apt-get updates, and install git. **Install development libraries for python:** ...
written 6 weeks ago by njoebott30
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Comment: C: ImportError: No module named bigbed_file
... Thanks for the response as it reminded me that I need to update this thread with relevant information. My version of pip is: pip 9.0.1 from /usr/local/lib/python2.7/dist-packages (python 2.7) I installed the latest version of pip and used --no-replace-pip when running the run script So look to t ...
written 6 weeks ago by njoebott30
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ImportError: No module named bigbed_file
... Ubuntu 14.04.5 and latest clone of Galaxy. Confirmed proper installation of numpy-1.11.3 and bx-python-0.7.3 but still get the following error up start up with sudo sh run.sh --no-replace-pip: ImportError: No module named bigbed_file Ideas? ...
galaxy written 7 weeks ago by njoebott30 • updated 6 weeks ago by Nate Coraor3.0k
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Comment: C: Galaxy installation on ubunto failed while running run.sh
... Following-up on this issue. Ubuntu 14.04.5 and latest clone of Galaxy. Confirmed proper installation of numpy-1.11.3 and bx-python-0.7.3 but still get the following error up start up with sudo sh run.sh --no-replace-pip: **ImportError: No module named bigbed_file** How does this get resolved, ga ...
written 7 weeks ago by njoebott30
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Comment: C: Galaxy Install Issues - pip version
... Thanks for the reply. The python version that comes with CentOS7 is 2.7.5. I had upgraded it to the latest version - 2.7.11 but still ran into issues . Ubuntu 14.04 has python version 2.7.6 - and has worked well so far. ...
written 7 months ago by njoebott30
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Comment: C: Configuring SWIFT object storage
... As it happens - I was able to get my object store (EMC ECS) connected via the S3 API. After reviewing the python scripts I realized boto was being used, so I set the http port for the ECS's S3 API - 9020 - and it works. Here's a sample of my object store config file: ...
written 7 months ago by njoebott30
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Comment: C: Configuring SWIFT object storage
... Another question I have regarding SWIFT object storage - does anybody know what version of authentication is being used? v1, 2,3? ...
written 7 months ago by njoebott30
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Configuring SWIFT object storage
... I have configured my SWIFT object storage and the galaxy.ini / object_store_conf.xml files per the documentation; however, I continue to get S3 response errors: tool_shed.tool_shed_registry DEBUG 2016-07-11 12:00:20,908 Loading references to tool sheds from ./config/tool_sheds_conf.xml.sample tool ...
galaxy written 7 months ago by njoebott30
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Comment: C: Galaxy Install Issues - pip version
... Thanks for the follow-up on this. I was able to move pass the original issue on CentOS 7; however, I ran into a myriad of other issues. So I went to Ubuntu and was able to get it running in short order using the above command option. Thanks again. ...
written 7 months ago by njoebott30

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