David Heise

I just ran into this issue on a project. It looks like the PR was good at some point but has fallen into the bitbucket. Is there any news on...

I don't know if this is related, but I just discovered an issue where prospector gives different output depending on the way a file path is given to it. If...

I have started a work in progress branch in my [fork here](https://github.com/daheise/libStatGen/tree/parallel-bgzip). However, I may need help with change to build process for libStatGen; I am rusty on CXX build...

Regarding the strategy for how to handle dependencies on samtools and htslib, in my revision as it currently stands I have external dependencies rather than embedded in libStatGen. I did...

I've been doing some work and experiments before coming back to this. (1) We have noticed the same. Minimac4 does spend a fair amount of time doing in-memory singlethreaded `printf`s....

@abecasis I have submitted a PR for this feature here: #21

I did test with the test data included in [Eagle](https://github.com/poruloh/Eagle/tree/a10ffd048dfa9a250036bcc899e1f67a888d2ccc) tables and example folders. I got the same output from Minimac4 `master` and this PR.

We're running imputation on data from 400K+ individuals. Minimac does an extremely long running single threaded compressed write to disk. These changes reduce the run time of our longest running...

I will see if I can accomplish a test run on our data using SAV, can you provide additional information regarding that format? Do you provide a conversion to m3vcf...

Is SAV already the output format of Minimac4 on master, or are you saying that will be the only output file once the `sav-support-2` branch in merged? I did pull`sav-support-2`...