search

wguo-research / scCancer

A package for automated processing of single cell RNA-seq data in cancer
92 stars 39 forks source link

liger dependency error #45

Open nicholas-middelberg opened 1 month ago

nicholas-middelberg commented 1 month ago

Per the installation instructions on the wiki:

if(!checkPkg("liger")) install_github("MacoskoLab/liger")

image

This successfully installs the package, but as the liger README states, the package is installed under the name rliger, so when I try to install scCancer from github I get the following error:

ERROR: dependency ‘liger’ is not available for package ‘scCancer’

Does anyone have advice for fixing this issue?

sunyu1010 commented 1 month ago

I also encountered the same problem(ㄒoㄒ)

weiwei0029 commented 4 days ago

. Search and Replace liger References in the Code It's possible that some parts of the code still directly reference liger. You can search for liger in the scCancer package source code and replace it with rliger.

Unzip the scCancer-master.zip file. Search for liger in the unzipped folder: In RStudio, you can use the "Find in Files" feature (shortcut: Ctrl+Shift+F) to search for all occurrences of liger in the code and replace them with rliger. Save all modified files.

  1. Reinstall the Modified Package After making the replacements, try installing the modified package again