Fix #33#36

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thesamovar wants to merge 3 commits intomasterfrom

Commits on Jan 14, 2015

Maybe fixed issue 33?
thesamovar
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Commits on Jan 16, 2015

Only do a full step if both the raw and penalised scores have got worse
thesamovar
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Commits on May 4, 2015

Temp files saved with different names
thesamovar
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