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HAN-Siyu / LION

An Integrated R Package for Effective Prediction of ncRNA- and lncRNA-protein Interaction
https://doi.org/10.1093/bib/bbac420
GNU General Public License v3.0
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Run LION #1

Closed LDoretto closed 11 months ago

LDoretto commented 1 year ago

Is it possible to run LION in another language but R?

Sorry if missed any information in the document. Thank you very much. Lucas

HAN-Siyu commented 1 year ago

Is it possible to run LION in another language but R?

Sorry if missed any information in the document. Thank you very much. Lucas

Hi Lucas! Thank you for your interest in LION. Sorry that currently LION only supports R environment (and Linux OS if you would like to compute secondary structure features for protein sequences). Some languages (like Python) have packages (like rpy2) can be used as R's interface, so that R commands can be called in those languages. I don't know if this may help. Please let me know if you have more questions.

Thank you, Siyu

LDoretto commented 1 year ago

Dear Siyu,

Thank you very much for your help. My lion script is currently working (ubuntu 22.04).

I`m wondering if I can limit the usage of my ram memory in lion script session (i.e. no more than 64gb ram). When lion runs with a big amount of data, it consumes all my ram memory and crashes my R session. I have done a lot of literature research, but none of the commands I have found avoid lion crashing my R session due ram total consumption. Does lion have any command to limit ram usage?

Sorry if I miss anything in the document. Thank you very much in advance!

Lucas

Em qua., 7 de dez. de 2022 às 18:43, Han, Siyu @.***> escreveu:

Is it possible to run LION in another language but R?

Sorry if missed any information in the document. Thank you very much. Lucas

Hi Lucas! Thank you for your interest in LION. Sorry that currently LION only supports R environment (and Linux OS if you would like to compute secondary structure features for protein sequences). Some languages (like Python) have packages (like rpy2) can be used as R's interface, so that R commands can be called in those languages. I don't know if this may help. Please let me know if you have more questions.

Thank you, Siyu

— Reply to this email directly, view it on GitHub https://github.com/HAN-Siyu/LION/issues/1#issuecomment-1341633483, or unsubscribe https://github.com/notifications/unsubscribe-auth/ARXM5OZBD6VPJ5TGFIZGAWTWMEAGRANCNFSM6AAAAAASWD2LZY . You are receiving this because you authored the thread.Message ID: @.***>

-- M.Sc Lucas Doretto Ph.D student - Cellular, Structural and Functional Biology São Paulo State University - UNESP Institute of Biosciences Department of Functional and Structural Biology, Botucatu - SP

Lucas Benites Doretto

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HAN-Siyu commented 1 year ago

Hi Lucas, may I know which functions you were trying to run? And did you use any cores for parallel computing (the argument parallel.cores)? Thanks!