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micans / mcl

MCL, the Markov Cluster algorithm, also known as Markov Clustering, is a method and program for clustering weighted or simple networks, a.k.a. graphs.
https://micans.org/mcl
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Missing mcxdeblast in the MCL package for Roary analysis #32

Open nrk-u opened 3 weeks ago

nrk-u commented 3 weeks ago

Hello,

I am trying to run Roary for pangenome analysis, but I encountered an error saying that mcxdeblast is not found. I installed the mcl package using Homebrew, but it seems that mcxdeblast is not included in the package. I have tried reinstalling mcl multiple times, but the issue persists.

While searching the MCL repository on GitHub, I could only find the mcxdeblast.html and mcxdeblast.ps files, but not the actual executable or source code for mcxdeblast.

Could you please provide guidance on where to find the mcxdeblast tool, or suggest an alternative solution to get Roary working?

Thank you for your help.

Best regards, nrk-u

micans commented 3 weeks ago

Hi, this is a known error - apologies. please see my comment+solution in this discussion.

I'll keep this issue open until the next release so that people can find the answer more easily.

nrk-u commented 3 weeks ago

Hello,

Thank you so much for your prompt response regarding the mcxdeblast issue. I followed your advice and downloaded the script manually from the link you provided. Roary is now running smoothly, and the issue seems to be resolved.

I really appreciate your help and the work you put into maintaining this project. Your assistance made a big difference!

Best regards, nrk-u