which jellyfish version

[mictadlo]

Hi,
Which Jellyfish version is compatible to kraken:

> conda search jellyfish
Fetching package metadata ...............
jellyfish                    0.5.1                    py27_0  conda-forge     
                             0.5.1                    py34_0  conda-forge     
                             0.5.1                    py35_0  conda-forge     
                             0.5.6                    py35_0  conda-forge     
                             0.5.6                    py27_0  conda-forge     
                             0.5.6                    py34_0  conda-forge     
                             1.1.11                        0  bioconda        
                             1.1.11                        1  bioconda        
                             2.2.3                         0  bioconda        
                             2.2.3                         1  bioconda        
                          *  2.2.6                         0  bioconda  

Thank you in advance.

Michal

[ressy]

Hi Michal,

I'm setting up an environment to run Kraken also, and trying to figure this out. When I installed the latest Kraken release (0.10.5-beta) I saw that the manual says it requires Jellyfish version 1 and explicitly not version 2. I installed 1.1.11 since that's the latest of version 1 that exists. For me, Kraken stopped complaining to me about Jellyfish so I assumed it was happy with it, though I'm seeing some errors when building a custom database. (Not sure if that's related though.)

So, I'll be curious to know if there are any more specific requirements for the Jellyfish version, but version 1 is what the documentation says for the latest kraken release.

Jesse

[ressy]

Never mind, I was just forgetting to add the taxonomy when setting up the custom database. I can confirm Jellyfish 1.1.11 works for me for kraken-build.

[mictadlo]

Thank you, for me too.