Add verbosity option for data output

[gregpinero]

Option 1 Just hmm data
Option 2 Just parsed files
Option 3 All data

Also, are there any other large files that should be removed?

What should default verbosity be? Option 1?

[dstern]

Option 1 Just hmm data

If we keep only hmm_data, then we need to provide user with an option (in msg.cfg) to use just this folder. This will involve ignoring the absence of all the previous files, since msg currently by default looks for earlier folders and calculates them if
they are absent.

Option 2 Just parsed files
Option 3 All data

also remove, or better, never calculate:

ancestry-probs-par1-1.000000-0.000000-1.000000.plot.rda
ancestry-probs-par2-1.000000-0.000000-1.000000.plot.rda
ancestry-probs-par2-1.000000-0.010000-0.100000.thinned_plot.rda
ancestry-probs-thinned-par2.tsv

On Oct 24, 2011, at 2:59 PM, Greg Pinero wrote:

Option 1 Just hmm data
Option 2 Just parsed files
Option 3 All data
Also, are there any other large files that should be removed?

What should default verbosity be?  Option 1?

Reply to this email directly or view it on GitHub:#16

David Stern
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