- Installed NumPy
-
- Issue setting PYTHONPATH permanently for IDLE. Changed.bash_profile and restarted computer, but still only works in terminal.
- Attempted to install MySQLdb…
- Set up Enthought Canopy (BioPython not supported for free)
- Tried to Install Biopython http://biopython.org/DIST/docs/install/Installation.pdf
-
- Some issue with Xcode update won’t let me (https://www.biostars.org/p/99125/)
- building ‘Bio.cpairwise2’ extension
Compiling with an SDK that doesn’t seem to exist: /Developer/SDKs/MacOSX10.6.sdk
Please check your Xcode installation
gcc -DNDEBUG -g -O3 -arch x86_64 -isysroot /Developer/SDKs/MacOSX10.6.sdk Qunused-arguments -Qunused-arguments -Qunused-arguments -I/Applications/Canopy.app/appdata/canopy-1.4.1.1975.macosx-x86_64/Canopy.app/Contents/include/python2.7 -c Bio/cpairwise2module.c -o build/temp.macosx-10.6-x86_64-2.7/Bio/cpairwise2module.o
clang: error: no such file or directory: ‘Qunused-arguments’
clang: warning: no such sysroot directory: ‘/Developer/SDKs/MacOSX10.6.sdk’
error: command ‘gcc’ failed with exit status 1
- Ended up getting an Ubuntu virtual hardrive and getting Biopython on there
Retry (11/5/14)
- R package SimRAD and SeqinR
- ApeKI
-
- 3005 fragments between 50 and 250 bp
- 1825 fragments between 80 and 200 bp
- 2308 fragments between 80 and 240bp
-
- 86,879 in entire genome
- Total nucs:
- Method:http://www2.warwick.ac.uk/fac/sci/moac/people/students/peter_cock/python/fasta_n/
- Output file
- 13282692 = 2.64%
Getting My Genes Wet 