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Monthly Archives: March 2013
Using valgrind to debug R programs
Tweet If you want to debug your R program because of a segmentation fault or memory leak, you can use valgrind as follows in a shell:
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R -d "valgrind --leak-check=full --show-reachable=yes" -f your_script.R |
ipython error
Tweet If you get this kind of error when starting ipython:
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/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/kernmagic/__init__.py in activate(ip, *args) 14 continue 15 magic_name = name[len('magic_'):] ---> 16 ip.shell.define_magic(magic_name, getattr(mymagics, name)) 17 18 def activate_aliases(ip, *args): AttributeError: 'TerminalInteractiveShell' object has no attribute 'shell' |
you may solve the problem by deleting the special directory .ipython in your home directory. It worked for me at least. Of course you lose you previous ipython … Continue reading
Accessing Life Science Web Services from Python
Tweet In a previous post, I started to discuss about Web Services in Life Science and what a maze it is to navigate between them. Some Web Services provides Python code to access to their databases but not all of … Continue reading
Posted in biology, Life Science
Tagged bioservices, kegg, python, uniprot, web services
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