Hi Karen,
Sorry your having trouble with installing the tool. It seems that the somehow,
the numpy dependency didn't install properly or isn't being found during the
HTSeq install. Is there any other info in the log to indicate an issue with
installing Numpy? Also, what OS are you running Galaxy on?
Lance
On June 10, 2014 4:04:13 AM EDT, Karen Chait <kch...@techunix.technion.ac.il>
wrote:
>Hi,
>
>I am trying to install the tool htseq-count from the tool-shed. I had a
>problem in the first installation so I uninstalled the tool and all its
>dependencies (numpy, samtools 0.1.19 and pysam) from the 'manage
>installed
>tool shed repositories) and installed it again but then I get
>installation
>status 'Installed, missing tool dependencies' for htseq-count.
>
>When running this tool I get the error
>
>Fatal error: The HTSeq python package is not properly installed,
>contact
>Galaxy administrators
>
>The path set in universe_wsgi.ini:
>
>tool_dependency_dir = /home/galaxy/galaxy-dist/tool_deps
>
>
>
>in the installation log
>htseq/0.6.1/lparsons/htseq_count/d5edaf8dc974/INSTALLATION.log I get
>the
>error:
>
>Setup script for HTSeq: Failed to import 'numpy'.
>
>Please install numpy and then try again to install HTSeq.
>
>
>
>I reinstalled numpy but that did not help.
>
>How should I continue?
>
>Thanks,
>
>Karen
>
>
>
>
>
>------------------------------------------------------------------------
>
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--
Lance Parsons - Scientific Programmer
134 Carl C. Icahn Laboratory
Lewis-Sigler Institute for Integrative Genomics
Princeton University
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