paoloczi

Thank you @ccoulombe ! If you can change your PR so that it works both for the static and dynamic executable, I will be happy to merge it. Please check...

Nice, well done, thank you! Before merging it, we need to test that it works on Ubuntu 22.04 and with the latest code on GitHub, both on Intel and ARM...

To simplify my testing, it would be great if you could pull into your fork the latest code from `chanzuckerberg/shasta`. You fork is currently 3 commits behind, and between last...

Unfortunately my latest commit introduced the need for manual merging, but it should be easy enough. I just removed the `cpu_features` library from the command line, which is no longer...

This fork is behind and merging this PR would require a manual merge which I want to avoid, so I tried making the same changes on the latest code. Things...

Since no solution has emerged for the static libraries, I am closing this PR.

If I understand correctly you want to assemble the two haplotypes separately, and you have approximately 17x for each haplotype. Can you confirm? Also, what Guppy version and accuracy option...

> Yes, I want to assemble the separate haplotypes and I have 17x for each. Thank you for confirming that. That is low coverage but, with some tweaking of assembly...

For haploid assembly, you can do that using the following command line option: ``` --Assembly.writeReadsByAssembledSegment ``` I have not tested this option in some time, so if you bump into...

A bit more information on that option. If you turn it on, the assembly directory will contain a csv file named `ReadsBySegment.csv`. The top of the file looks like this:...