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broadinstitute / infercnv

Inferring CNV from Single-Cell RNA-Seq
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ERROR: configuration failed for package ‘rjags’ #553

Closed archana433 closed 1 year ago

archana433 commented 1 year ago

hi, I am getting this error configure: WARNING: pkg-config file for jags 4 unavailable configure: WARNING: Consider adding the directory containing jags.pc configure: WARNING: to the PKG_CONFIG_PATH environment variable configure: Attempting legacy configuration of rjags checking for jags... no configure: error: "automatic detection of JAGS failed. Please use pkg-config to locate the JAGS library. See the INSTALL file for details." ERROR: configuration failed for package ‘rjags’

i have tried below suggestion also , but no luck Unix/Linux: pkg-config

If you have pkg-config installed then you can use it to detect the JAGS library and set the compiler and linker flags for rjags. You can test this capability in a unix shell by typing

pkg-config --modversion jags

If this does not detect your JAGS installation then it means that the file 'jags.pc' installed is not on the search path of pkg-config. In this case you should add it by setting the environment variable PKG_CONFIG_PATH. For example if the full path to 'jags.pc' is '/usr/local/lib64/pkgconfig/jags.pc', then set

export PKG_CONFIG_PATH=/usr/local/lib64/pkgconfig

before installing rjags.

GeorgescuC commented 1 year ago

Hi @archana433 ,

Do you have JAGS installed? It is a non-R dependency that rjags is an interface to. If that is the issue, you can install it from here

Regards, Christophe.

archana433 commented 1 year ago

Hi, Thanks for the reply. Yes , when I installed and loaded JAGS, it's working now.