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tutorials:eccb_t2_codeml [2012/09/09 08:17] romainstuder |
tutorials:eccb_t2_codeml [2012/09/09 09:47] (current) romainstuder |
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| Line 4: | Line 4: | ||
| === Install of PAML === | === Install of PAML === | ||
| - | Windows: | + | Download it from here: http://abacus.gene.ucl.ac.uk/software/paml.html#download |
| + | |||
| + | Windows (The bin/ folder already contains windows executables): | ||
| + | <code> | ||
| cd paml4.6/ | cd paml4.6/ | ||
| - | - WINDOWS: The bin/ folder already contains windows executables. | + | </code> |
| Linux: | Linux: | ||
| + | <code> | ||
| cd paml4.5/ | cd paml4.5/ | ||
| rm bin/*.exe | rm bin/*.exe | ||
| Line 17: | Line 22: | ||
| mv baseml basemlg codeml pamp evolver yn00 chi2 ../bin | mv baseml basemlg codeml pamp evolver yn00 chi2 ../bin | ||
| chmod +x ../bin/* | chmod +x ../bin/* | ||
| + | </code> | ||
| MacOSX: | MacOSX: | ||
| + | <code> | ||
| cd paml4.6/ | cd paml4.6/ | ||
| rm bin/*.exe | rm bin/*.exe | ||
| Line 35: | Line 41: | ||
| mv baseml basemlg codeml pamp evolver yn00 chi2 ../bin | mv baseml basemlg codeml pamp evolver yn00 chi2 ../bin | ||
| chmod +x ../bin/* | chmod +x ../bin/* | ||
| + | </code> | ||
| Line 200: | Line 206: | ||
| Two mlc output files are produced (as it can take time, you can download them directly in the next step).: | Two mlc output files are produced (as it can take time, you can download them directly in the next step).: | ||
| * {{:tutorials:tf105351.eut.3.53876.mlc.zip|TF105351.Eut.3.53876.mlc (alternative model)}} | * {{:tutorials:tf105351.eut.3.53876.mlc.zip|TF105351.Eut.3.53876.mlc (alternative model)}} | ||
| - | * {{:tutorials:tf105351.eut.3.53876.fixed.ctl.zip|TF105351.Eut.3.53876.fixed.mlc (null model)}} | + | * {{:tutorials:tf105351.eut.3.53876.fixed.mlc.zip|TF105351.Eut.3.53876.fixed.mlc (null model)}} |
