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fallerlab / ARF

Differential Ribosomal heterogeneity Prediction through Ribosome Profiling generated rRNA fragments and their Proximity to Ribosomal Proteins
GNU General Public License v3.0
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Error during GSEA analysis #8

Closed cmichellew closed 7 months ago

cmichellew commented 7 months ago

Hi! I've gotten everything installed and am trying to run DRIP-ARF on the test data provided here. The program begins running smoothly, but then I encounter this error (full output attached). I'm wondering if you all may have seen this before/ know what could be causing it. Thanks! ARF_error.txt

ferhatalkan commented 7 months ago

Hi. We have seen this before. It's due to external package version differences. Please see this post on previously solved issue #4

cmichellew commented 7 months ago

Thanks-- I cloned and replaced those lines. However, this might be a silly question, I don't really understand how to run it this way. Previously, I just had ARF installed in my R environment and ran the wrapper function-- all from the command line. Do I now run the R_platform.R script in my environment and then call the wrapper function? Thanks

ferhatalkan commented 7 months ago

Hi again. After cloning the repository (downloading it as a whole) and making the necessary changes, you would need to reinstall it from that local copy, using a similar command as before, which would be something like this:

install.packages("devtools") library(devtools) my_cloned_library_build = devtools::build("~/put/the/package/path/here") devtools::install_local(my_cloned_library_build) library(ARF)