Clement Helsens

I add myself here, as discussed over email to help with this project.

Thanks for this, I also encountered the same issue using a more recent version of numpy and had to implement the same fixes as yours. Hope the authors will merge...

The reference is danio_rerio from ensembl primary assembly and for the query sequences In [this google drive](https://drive.google.com/drive/folders/135ztx5On1JM16gNOWsacZqAU2VEWyFMu?usp=share_link) you have the reference genome, the input fastq file and the minimap error:...

hello @lh3 , thanks for the suggestions! Looks like indeed I was using an old version of minimap2. I just tried with 2.26 and it worked just fine, the memory...

hello @lh3, I can not answer in detail your question, thus let me tag the main developer @wheaton5

Sure! thanks @wheaton5, but as I mentioned in the thread, following @lh3 suggestion, using a more recent version of minimap2 solved the very large memory consumption issue, but I don't...

Hello ! I am also trying to run with the hard install and I face the same problem. I see that your last comment @wheaton5 mention fixing the environment, but...

Thanks @wheaton5 ! sorry for not providing more details, I thought those were not relevant here. I'm working with zebrafish, and I have a common variant file available. But I...

hello @wheaton5, I posted an issue on minimap2 [here](https://github.com/lh3/minimap2/issues/1054) and following the suggestion of trying the latest version everything worked fine (version 2.26). I was using version 2.17, and I...