Rasmus Rydbirk

Hi @evanbiederstedt I was digging into this today since we still face this problem. Please note, I updated igraph, conos and leidenAlg with all dependencies before debugging, and I tried...

@evanbiederstedt my bad!! I tried to run it in the terminal, same result but more information: `> con$findCommunities(method=leiden.community, n.iterations=2)` `/usr/include/c++/8/bits/stl_vector.h:932: std::vector::reference std::vector::operator[](std::vector::size_type) [with _Tp = double; _Alloc = std::allocator; std::vector::reference...

Hi @evanbiederstedt Thanks for looking into this. About the warnings for preprocessing, these samples are really small for the sake of the example. We experience the problem with every dataset...

How much memory do you have? The calculation is requesting ~432 GB memory. Either move the calculation to a bigger machine, or filter/subsample your dataset. An example of filtering can...

I know this is an old problem, but I belive I fixed it here: https://github.com/velocyto-team/velocyto.R/pull/126 devtools::install_github("rrydbirk/velocyto.R") At least it worked on my dataset with the same error. However, that many...

Indeed, it looks like it's `job`-specific. Running `lm(mpg~cyl, mtcars)` as a job fails with the same error message, while `rstudioapi::jobRunScript(path_to_script)` succeeds. FYI, I just created a script with ``` data(mtcars)...

Hi @Laura19993 If I remember correctly, you need a named palette, i.e., the names should be "treated_2_", "treated_3_", etc. /Rasmus

Hi Laura I just checked, it's `sample.colors` that needs to be named. You can use `sample.groups` for this, so try with `cao$plotSampleDistances(sample.colors = setNames(metadata$sequencing, names(cao$sample.groups)), palette = rainbow(3))` Please let...

Hi @Laura19993 This should be fixed in `dev`. Could you please confirm? Remember to update your Cacoa object. /Rasmus

Hi Laura This is not the `dev` version. Please install it using `remotes::install_github("kharchenkolab/cacoa", ref = "dev")`.