installation with Gurobi not work

[banlangen523]

hi, I tried install with Gurobi but failed. I tested gurobi and it could work in my R. Either by devtools::install() or by install.packages('...v1.1.tar.gz', ...) does not work. Both gave: ...

• installing source package ‘JaBbA’ ... using staged installation CPLEX_DIR environment variable not set, please set (e.g. ~/Path/To/CPLEX_Studio/) prior to installing in order to install JaBbA with CPLEX functionality libs ... R inst byte-compile and prepare package for lazy loading Warning message: multiple methods tables found for ‘seqinfo<-’ help No man pages found in package ‘JaBbA’ * installing help indices building package indices ** testing if installed package can be loaded from temporary location Warning: multiple methods tables found for ‘seqinfo<-’ Error: package or namespace load failed for ‘JaBbA’: .onLoad failed in loadNamespace() for 'JaBbA', details: call: jerror("${CPLEX_DIR}/cplex not found") error: JaBbA 2022-03-18 14:48:28: ${CPLEX_DIR}/cplex not found Error: loading failed Execution halted ERROR: loading failed
• removing ‘/home/wangyz/anaconda3/envs/R_4.1/lib/R/library/JaBbA’ Warning message: In i.p(...) : installation of package ‘/tmp/RtmphSVXqF/file6b3c508ffcf3/JaBbA_0.0.0.9000.tar.gz’ had non-zero exit status

could you have a look on this? thank you.

[zining01]

Hi, thanks reaching out and sharing your error log!

JaBbA throws an error if the environment variable CPLEX_DIR is not defined - this was appropriate when we supported CPLEX exclusively, but should have been removed for users running JaBbA with Gurobi - sorry! Here is a patch that should address this: https://github.com/mskilab/JaBbA/tree/gurobi

Could you please try reinstalling from this branch? Please let us know if we can help further!

[banlangen523]

great, I have installed it correctly.