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Odd sized kinship file #55
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Oh yes, the other tools using K don't seem to mind. They don't read the full file. So, this may have been happening before, but it did not matter for the result. |
@pjotrp Should I close this? It seems that it is not a bug after all? |
No, I need to figure out what happened first. |
Getting the same bug on my laptop. Test on master branch fails with
and
it appears it is outputting the number of individuals total, rather than the number used. @pcarbo what is the size of your output file? |
@pjotrp I get an output file
In any case, this doesn't explain the error you are getting. |
Cool, I swear I have seen a smaller K file. Anyway, we are getting different answers on different systems, so I am looking into that. |
Turns out that the output files are identical, but that awk gives a different result on different machines! Not a gemma problem - I'll fix the test. |
…t to shunit2 in repo fixes genetics-statistics#55
@pjotrp Interesting, thanks! |
When running the new test testCenteredRelatednessMatrixK I get different resulting files on two build setups. One is the correct size, but the second has 1940 rows instead of 1410. The extra rows are the same as the tail of the previous - so, somehow, the output buffer gets overwritten. I'll scrutinize this more closely.
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