Arthur Rand

Yup, there's nothing wrong with the file (other than missing alignments). Just to be clear, you're excuting ```bash RUSTFLAGS="-C target-feature=-avx" cargo install --path . ``` (so that `RUSTFLAGS` is in...

Does the debug build also fail? Could you also try an older version of modkit (download an

You can make a `debug` build by omitting he `--release` flag: `RUSTFLAGS="-C target-feature=-avx,-avx2" cargo build`. Then try with full backtrace: `RUST_BACKTRACE=full target/debug/modkit pileup `.

That's certainly frustrating, but not completely unexpected. From googling, I suspect that cargo is expecting that you have some instructions available that in fact aren't available. Do you have another...

Hello @mp15, Could you give me some more details on what's happening? If I'm understanding correctly the steps you've performed are: 1. dorado basecall 2. align with minimap2 3. sort...

Interesting, thanks, keep me posted.

Great. It'll have to make it into rust-htslib also, but I can probably push on it once it's in mainline. Thanks for the update.

Hello @HeleneMeMartin >Does bedMethyl table output only site that have at least 1 called higher than the threshold ? So that there is no lines like Nmod = 0 Ncanonical...

Hello @kir1to455, There is a common misconception that the `call_prob` is the "probability of modification", it's not quite that. It's the probability of the **call** in `call_code`, there is a...

Hello @kir1to455, Could you look in the log files for the two commands and tell me what the estimated threshold was? The log lines should look like `[src/command_utils.rs::121][2024-08-11 10:59:50][DEBUG] estimated...