This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Mixture of Isoforms (MISO) tool for ascertaining isoforms' (alternatively spliced genes) expressions using Bayesian approach.

I am a beginner to MISO and having setup issues with the version 0.5.4. The environment is Ubuntu 16.04 with version of Python (a prerequisite) being 2.7, alongwith samtools and bedtools installed as well.

miso bayes rule
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written by Shaurya Jauhari • Shaurya Jauhari

And what would those setup issues be?

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written by h.mon h.mon

I downloaded and unwrapped the misopy-0.5.4.tar.gz file from the repository. Shifting to the directory and typing miso gives me the following output:

Traceback (most recent call last): File "/usr/local/bin/miso", line 5, in <module> from pkg_resources import load_entry_point File "/usr/local/lib/python2.7/dist-packages/distribute-0.6.34-py2.7.egg/pkg_resources.py", line 2823, in <module> add_activation_listener(lambda dist: dist.activate()) File "/usr/local/lib/python2.7/dist-packages/distribute-0.6.34-py2.7.egg/pkg_resources.py", line 710, in subscribe callback(dist) File "/usr/local/lib/python2.7/dist-packages/distribute-0.6.34-py2.7.egg/pkg_resources.py", line 2823, in <lambda> add_activation_listener(lambda dist: dist.activate()) File "/usr/local/lib/python2.7/dist-packages/distribute-0.6.34-py2.7.egg/pkg_resources.py", line 2255, in activate self.insert_on(path) File "/usr/local/lib/python2.7/dist-packages/distribute-0.6.34-py2.7.egg/pkg_resources.py", line 2356, in insert_on "with distribute. Found one at %s" % str(self.location)) ValueError: A 0.7-series setuptools cannot be installed with distribute. Found one at /usr/lib/python2.7/dist-packages

P.S. My intent was to get started with miso and to verify whether the version is workable. The suggested expression given in the docs- setup.py install isn't working either.

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written by Shaurya Jauhari • Shaurya Jauhari

Did you try pip install misopy? Sorry, what you pasted is unreadable. Formated python messages are already terrible, but unformatted ones burn my eyes.

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written by h.mon h.mon

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