Leandro Lima

> The PRG string is technically representing this correctly, but my issue is I think the representation is somewhat flawed. I agree, although the graph is correct, I think I...

Hey @mbhall88 , you can download the binary here: https://www.dropbox.com/s/nl5q3zvmoaj86is/make_prg_0.4.1?dl=1 . Note that this is only the binary with my changes in [this branch](https://github.com/iqbal-lab-org/make_prg/tree/fix/55) to try to fix this issue....

`--update-method quick` is what is currently implemented

I actually use the container built with the root Dockerfile to build the binary... Will have to change this line: https://github.com/iqbal-lab-org/make_prg/blob/c2c7ff0f40dabc5034e2bfad7d6c2229e5649b09/Dockerfile#L3 ... I will check which glibc version we get...

Sorry, never got back to you... with py3.8, glibc is still 2.29 and too recent for the cluster... ``` [1147084] Error loading Python lib '/hps/nobackup/iqbal/leandro/temp/_MEIM0u2Za/libpython3.8.so.1.0': dlopen: /lib64/libm.so.6: version `GLIBC_2.29' not...

> It works in my drprg container which uses Debian 11 (Bullseye) I get this on bullseye, which is even more updated: `ldd (Debian GLIBC 2.31-13+deb11u6) 2.31`

[Debian 10](https://distrowatch.com/table.php?distribution=debian) and [Ubuntu 18.10](https://distrowatch.com/table.php?distribution=ubuntu) are the most recent versions of these distros with glibc 2.28, the same as in the cluster. It would be possible to create a precompiled...

This is the current output of a sample example in the `make_prg` branch: ``` 2 samples Sample toy_sample_1 1 loci with denovo variants GC00010897 9 nodes (0 [0, 110) ATGCAGATACGTGAACAGGGCCGCAAAATTCAGTGCATCCGCACCGTGTACGACAAGGCCATTGGCCGGGGTCGGCAGACGGTCATTGCCACACTGGCCCGCTATACGAC)...

I took a closer look at the first example, and I think this is hard to solve for all cases. We might make some improvements here and there, based on...

PS: I am not advocating we replace k-means clustering. I think it makes total sense in make_prg, and we should use it as we are using now