The MCL tool instal: There is nothing to do for all mcl installation

Question

[Mehmet]

Dear All,

I am trying to install mcl tool, but I am getting the error below:

make[2]: Nothing to be done for install-data-am'. Making install in testing Making install in . make[3]: Nothing to be done forinstall-exec-am'. make[3]: Nothing to be done for install-data-am'. Making install in stream make[3]: Nothing to be done forinstall-exec-am'. make[3]: Nothing to be done for install-data-am'. Making install in blast make[3]: Nothing to be done forinstall-exec-am'. make[3]: Nothing to be done for install-data-am'. Making install in setops make[3]: Nothing to be done forinstall-exec-am'. make[3]: Nothing to be done for `install-data-am'.

first I did ./configure

then, make and finally make install

I want to use orthofinder which requires mcl tool.

Any suggestion about the error?

Thank you

[Jean-Karim Heriche]

Tell us what you've done exactly. You mention installing mcl (which I assume is the program to run the Markov clustering algorithm) but the error messages don't seem to have anything to do with mcl.

[Mehmet]

Yes, it is a program. I dowloaded and tried to install mcl version mcl-14-137. Then, run ;

1. ./configure
2. make 3.make install

Then, I tried to run OrthoFinder

and I got the error;

Test can run "makeblastdb -help" - ok Test can run "blastp -help" - ok Test can run "mcl -h" - failed ERROR: Cannot run MCL with the command "mcl -h" Please check MCL is installed and in the system path

Also,

I would like to ask you, how can I add path of mcl to orthofinder?

[Jean-Karim Heriche]

As the error message says, mcl is not in your path. Find out where the mcl program has been installed and make sure that its location is included in your path. If you use bash, add this to your .bash_profile:

PATH=$PATH:/path/to/mcl
export PATH