pvanheus

@jwasmuth nothing wrong on your side. I traced through the source code and that file is opened in the `max_intron_len()` function which came along with the initial code commit yet...

This issue is resolved by spaln release 2.3.3 (which is now available via bioconda), so this issue can be closed.

So: 1. Nothing in `~/.condarc` 2. `conda` is version 24.3.0 with the `libmamba` solver version 1.5.8 3. the install you suggested still fails: ```bash LibMambaUnsatisfiableError: Encountered problems while solving: -...

My base environment: ```yaml name: base channels: - conda-forge - bioconda - defaults dependencies: - _libgcc_mutex=0.1=conda_forge - _openmp_mutex=4.5=2_gnu - archspec=0.2.3=pyhd8ed1ab_0 - boltons=23.1.1=pyhd8ed1ab_0 - brotli-python=1.1.0=py310hc6cd4ac_1 - bzip2=1.0.8=hd590300_5 - c-ares=1.24.0=hd590300_0 - ca-certificates=2024.2.2=hbcca054_0...

I've just tried with `mamba create` and... same error. I have now created a Docker-based example to reproduce this bug [here](https://github.com/pvanheus/testconda).

In my experience this is typically caused by inclusion of poor quality samples or samples with reads that don't map to reference. The `snp-sites -c` command excludes all columns of...

@oschwengers any update on that work? I'm wondering what the best approach would be here? Two passes, the first that finds all candidates for all samples and the second that...

Thanks, I adapted this into the following: ```R chunk_size

Hi there... so that message should be read as "Returning entries at positions X-Y in the list of Z total entries"? I got confused because I thought "hey, I've asked...

Incentives: can there or should there be incentives for participation?