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bowtie2: ImportError: No module named argparse

hi all, I am beginner for NGS analysis.I installed bowtie2 and when I run bowtie2 for indexing the genome it gave this following error: ImportError: No module named argparse I tried to install this module by yum install python-argparse then it gave same error: File "/usr/local/bin/bowtie2-build", line 27, in <module> import argparse ImportError: No module named argparse. OS :centOS

rna-seq next-gen alignment software error
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updated by WouterDeCoster WouterDeCoster • written by BioBaby • BioBaby

How did you install bowtie? Which is your python version?

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written by WouterDeCoster WouterDeCoster

That's a really old python version. I agree with colindaven, just use bioconda for all your bioinformatics software.

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written by WouterDeCoster WouterDeCoster

i updated python version still I got same error.

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written by BioBaby • BioBaby

How did you update python? Which version do you have now? Look, just use bioconda okay?

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written by WouterDeCoster WouterDeCoster

solved...I copy argparse.py script and paste into bowtie2 folder. Thanks WouterDeCoster and colindaven

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written by BioBaby • BioBaby

You temporarily patched the problem, but all of this is suggestive of far more problems you will encounter later. Anyway, good luck.

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written by WouterDeCoster WouterDeCoster

I'd go for bioconda and follow their tutorial. It'll save you a world of pain ....

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written by colindaven colindaven

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