aowenson-imm

File `CMakeLists.txt` contains: ``` # # if true, build with very strict error checking (disabled in src release tarballs) # set(DEVELOPER_MODE true) ``` This is wrong. The src release tarballs...

With some filesystems, the directory size reported by `stat` is the sum of all files and subdirectories within. E.g. on my Ceph: ``` $ stat $HOME ... Size: 10572529497 ......

When the R code changes in `main` branch, you should increment the version. Missing this prevents installing your package in environments where reproducibility is important, which is essentially any managed...

Python 3.9 is scheduled to be end-of-life at November 2025. It may seem far away, but porting and testing can take a long time. Is there a plan to move...

I understand that `rstan::vb` function is single-core. Is it possible to replace rstan::vb with another implementation that is parallel? A quick search found this but I lack the expertise to...

I am attempting to install your software into a cluster in a GNU environment module, loading other modules for its dependencies. But this line breaks that modularity: https://github.com/bcgsc/physlr/blob/4d32a9924df024b6e69937fb2d4cec781168e243/bin/physlr-make#L41 Must it...

I performed a patch update of my R install from 4.3.0 to 4.3.3. According to the official R documentation I have read, this should not require reinstalling any R packages,...

cmdError in system2(path, "callpeak -h", stdout = TRUE, stderr = TRUE)

1

**Attach your log file** [ArchR.log](https://github.com/user-attachments/files/23727933/ArchR.log) **Describe the bug** ArchR function `addReproduciblePeakSet` tries to call program `callpeak` here: https://github.com/GreenleafLab/ArchR/blob/6feec354ad6c8052ddbc4626a2ca2d858ed465bf/R/ReproduciblePeakSet.R#L788 Problem is that is not a program. It is a command of...

``` # pip install guarddog guarddog pypi scan snapatac2 repository_integrity_mismatch: Some files present in the package are different from the ones on GitHub for the same version of the package:...