Closed sidrahmaryam-cyber closed 1 month ago
I could somehow work this one out, by trying again and again. However, While running multinichnet, I am getting this error.
plot_oi = make_sample_lr_prod_activity_plots_Omnipath(
by = join_by(ligand, receptor)
Error in UseMethod("mutate") :
no applicable method for 'mutate' applied to an object of class "NULL"Can you please help in this case.
Hello, I updated my R and RStudio to latest version, and now when I am trying to install multinichenetr, I am getting this error.
Downloading GitHub repo saeyslab/multinichenetr@HEAD Error in utils::download.file(url, path, method = method, quiet = quiet, : download from 'https://api.github.com/repos/saeyslab/multinichenetr/tarball/HEAD' failed
Can you please let me know the possible issue with this. Thanks
Hello, I updated my R and RStudio to latest version, and now when I am trying to install multinichenetr, I am getting this error.
Downloading GitHub repo saeyslab/multinichenetr@HEAD Error in utils::download.file(url, path, method = method, quiet = quiet, : download from 'https://api.github.com/repos/saeyslab/multinichenetr/tarball/HEAD' failed
Can you please let me know the possible issue with this. Thanks
Hi @sidrahmaryam-cyber
The error message during installation pointed to general connection issues (your internet access or general issues connecting to github) and was not MultiNicheNet specific. Therefore it worked after trying a couple of times.
I could somehow work this one out, by trying again and again. However, While running multinichnet, I am getting this error.
plot_oi = make_sample_lr_prod_activity_plots_Omnipath(
- multinichenet_output$prioritization_tables,
- prioritized_tbl_oi_M_50 %>% inner_join(lr_network_all)
- ) Joining with
by = join_by(ligand, receptor)
Error in UseMethod("mutate") : no applicable method for 'mutate' applied to an object of class "NULL"Can you please help in this case.
Can you check whether
1) multinichenet_output$prioritization_tables is not empty 2) prioritized_tbl_oi_M_50 is not empty 3) lr_network_all s not empty 4) prioritized_tbl_oi_M_50 %>% inner_join(lr_network_all)
Normally none of these elements should be empty, but I guess they are in your case here (I will assume this error occurs on your data, not on the vignette data). Possible reasons: problems reading in the lr_network, wrong definition of condition_oi, or senders_oi/receivers_oi, leading to an empty prioritized_tbl_oi_M_50. By looking into these, you should be able to identify where things went wrong.
Because the main issue you reported is not a MultiNicheNet issue, I will close this issue. Feel free to open a new issue with your other problem. This helps other users find back relevant issues better.
Hello, I updated my R and RStudio to latest version, and now when I am trying to install multinichenetr, I am getting this error.
Downloading GitHub repo saeyslab/multinichenetr@HEAD Error in utils::download.file(url, path, method = method, quiet = quiet, : download from 'https://api.github.com/repos/saeyslab/multinichenetr/tarball/HEAD' failed
Can you please let me know the possible issue with this. Thanks