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Question: Making Galaxy See Rpy And Numpy
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gravatar for Rodolfo Aramayo
8.6 years ago by
Rodolfo Aramayo • 30
Rodolfo Aramayo • 30 wrote:
People, I have installed Galaxy on my laptop following standard procedures I have installed R, NumPy and RPy via MacPorts yet Galaxy seems to complain it cannot connect to them == An error occurred running this job: Traceback (most recent call last): File "/Library/WebServer/Documents/galaxy_dist/tools/stats/gsummary.py", line 4, in <module> from rpy import * ImportError: No module named rpy == Any ideas/suggestions would be greatly appreciated Thanks Rodolfo Aramayo
galaxy • 1000 views
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modified 8.6 years ago by Kanwei Li • 270 • written 8.6 years ago by Rodolfo Aramayo • 30
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gravatar for Kanwei Li
8.6 years ago by
Kanwei Li • 270
Kanwei Li • 270 wrote:
Hi Rodolfo, You are probably not using the macports python to run galaxy... please check by entering "which python" in console. Thanks, Kanwei
ADD COMMENT • link written 8.6 years ago by Kanwei Li • 270
Hi Rodolfo, Using Rpy to interface Galaxy and R was not a good idea in my experience, when Rpy was used Galaxy seams to not be able to handle the interruption of a file being loaded (e.g network failure or refresh action in the browser) we solved the problem by using Popen instead. Regards, Jorge
ADD REPLY • link written 8.6 years ago by Jorge Andrade • 20
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