[GenABEL-dev] Bug #1247; ProbABEL: what to do with Rsq in info file

[L.C. Karssen]

Dear list,

As pointed out on the forum
(http://forum.genabel.org/viewtopic.php?f=10&t=663&p=1145#p1145) the
ProbABEL manual states that the contents of the info file is not
relevant for the ProbABEL output and is simply copied over.

It turns out that this is not the case (see also bug #2147:
https://r-forge.r-project.org/tracker/index.php?func=detail&aid=2147&group_id=505&atid=2058).

In main.cpp line 751 we test for the Rsq values taken from the info
file. The test is used to decide whether to output betas, se_betas etc.
as 'nan' in the output files (see lines 771 and 836 in main.cpp).

I see two possible solutions:
1) update the manual and say that the Rsq column in the info file should
contain non-zero values. How many people will be using ProbABEL with
'fake' info files?

2) remove of modify the Rsq test in main.cpp. Suggestions are welcome on
a sane way to implement this. Print a warning message?


Thanks for thinking along,

Lennart.
-- 
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L.C. Karssen
Utrecht
The Netherlands

lennart at karssen.org
http://blog.karssen.org

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