cufflinks command not found

Hello,

I tried running the following cuffling command and recieved this error mesage (see below). Does anyone have an idea how to overcome this?

I'm using Matlab 2024a prerelease.

[gtfs,isofpkm,genes,skipped] = cufflinks(sams,cflOpt);

Error using cufflinks (line 69)

The following error(s) and/or warning(s) were found while running 'cufflinks':

'zsh:1: command not found: cufflinks

Answer 1

[Sulaymon Eshkabilov]

Do you have bioinformatics toolbox?

This function is part of the toolbox -

• Bioinformatics Toolbox Software Support Packages

[Guy Nir]

Yes, I have.I had to copy the contents of this package from another mac that I have since for some reason it is not downloading well on this mac. This approach has worked well for the bowtie2 support package.

[Guy Nir]

It something to do with the install. It's saying completed but not really installing. Ended up copying it from another computer.

[Sulaymon Eshkabilov]

Most of the cases, installation process starts with some downloads and them extraction, and then actual installation. Maybe you need to re-start your pc and start fresh.

The last resort if the problem is consistent, is reach out to MathWOrks staff.

[Guy Nir]

Restarted my mac severla times since. Even switched Matlab versions.

[Guy Nir]

I ended up installing this package from my other computer where the installation was successful and it works.

[Sulaymon Eshkabilov]

All the best - thumbs Up!