John Lees
John Lees
Hi Sreeram Unfortunately we don't currently have this capability built into poppunk
I'm really sorry @conmeehan but I totally forgot about this!! I remembered as I'd seen this pubished: https://www.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.001281 Just made a compatible poppunk scheme (without the error reported here) and...
To keep using the first approach, could you use some shared memory to mark genes which have been included? The shared memory manager in python3.8 has made this kind of...
I think this is fine as imputation is run in chunks across each chromosome, and you should then be able to combine these output files yourself However might I also...
This is a probably an issue with the mutex on stdout used with multiple threads. See http://stackoverflow.com/questions/21825291/threading-issues An improvement would be to thread each significant_kmer rather than each fasta
map_back mostly redundant with phandango output
See commit 452b28633d634186c1f7f4866f41503f06e5642b
Apologies, this is a bit of a hack around the fact that if run over multiple files they will each have a header row, and in the resulting file only...
My guess would be that Firth regression is being run on everything (which is very slow), perhaps due to a label mismatch giving erroneous low frequency entries. I am not...
I don't get this on gcc-4.9 (presume it became deprecated from gcc-5 onwards), but will fix this if I ever move to c++14