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padlocbio / padloc

Locate antiviral defence systems in prokaryotic genomes
MIT License
43 stars 9 forks source link

error with dependencies #28

Closed andrenalina1 closed 9 months ago

andrenalina1 commented 1 year ago

Hello We've recently installed the padloc program, but we're having trouble getting it to work. Although we have obtained resulting files, we are always shown the following error:

[14:23:49] >> Predicting protein-coding genes with prodigal [14:23:57] >> Scanning genome.fasta for defence system proteins [14:26:53] >> Searching genome.fasta for defence systems Error: package or namespace load failed for ‘tidyverse’ in dyn.load(file, DLLpath = DLLpath, ...): unable to load shared object '/home/user/.conda/envs/PadLoc/lib/R/library/stringi/libs/stringi.so': libicui18n.so.58: cannot open shared object file: No such file or directory Execution halted [14:26:54] ERROR >> errexit on line 397

apparently the tidyverse package is not working correctly. Could you help us understand the problem and solve it?

francisco-sanhueza commented 1 year ago

I have the same problem

xinleee commented 12 months ago

Finally found it from google:https://github.com/tidyverse/haven/issues/363 For people who googled to here, you may try this: withr::with_makevars(c(PKG_LIBS = "-liconv"), install.packages("haven"), assignment = "+=") It seems someone create a typo in somewhere.

leightonpayne commented 9 months ago

I am unable to reproduce this issue, when making a fresh install via conda, I don't run into any errors. I'm going to assume this is solved and close the issue, but feel free to re-open with more information if you're still having trouble.