Question: Orthomcl from anaconda, error
0
gravatar for lhernanj
10 months ago by
lhernanj0
lhernanj0 wrote:

Hi all,

I have installed orthomcl from anaconda with "conda install -c bioconda orthomcl" and I have copied the config file to my working directory but orthomcl does not work. I do not know what is the problem, maybe something related to msqyl?. Any idea to fix it.

thanks

laura

ortologues orthomcl • 316 views
ADD COMMENTlink modified 10 months ago • written 10 months ago by lhernanj0

does not work

Most uninformative problem description. Please elaborate.

ADD REPLYlink modified 10 months ago • written 10 months ago by ATpoint35k

orthomcl is installed in my conda environment and I checked it with "conda list", however when I type "which orthomcl", no a location is found. Then orthomcl does not work because something happens when I installed orthomcl from anaconda. Maybe someone has installed orthomcl from anaconda and know how to help me.

ADD REPLYlink written 10 months ago by lhernanj0
1
gravatar for ATpoint
10 months ago by
ATpoint35k
Germany
ATpoint35k wrote:

If no location is found, then it is either not installed, the bin folder of the environment is not in PATH, you installed it to an environment that has not been activated with conda activate or there is no executable called orthomcl(in that case check the manual on how it is called).

ADD COMMENTlink modified 10 months ago • written 10 months ago by ATpoint35k

by the way, I quickly installed it with conda and there is simply no executable called orthomcl, it might therefore be worth reading the manual on which commands exist and what each of those does. The following do exist:

enter image description here

ADD REPLYlink modified 10 months ago • written 10 months ago by ATpoint35k

Thanks a lot for your help ATpoint. I am using many conda environments and I did not check my environment was activated because I hide the conda environment name from the prompt. Thanks again for your clear information and your help.

greetings

laura

ADD REPLYlink written 10 months ago by lhernanj0
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