Hello, I have installed Galaxy locally using Galaxy Helm chart from here: [ GitHub - galaxyproject/galaxy-helm: Minimal setup required to run Galaxy under Kubernetes · GitHub ] I have installed Kraken, Kraken2, and other necessary tools successfully. Then I went on to install the kraken2 database us…

Welcome, @Anik_Du Does the database show up on the Kraken tool form? I’m asking since the indexes are specific to the tool release and your screenshot looks like Kraken2. Later on, be sure to not mix up data outputs generated between the two – they have been incompatible in the past. The ToolShed…

Hi @jennaj Thank you very much for the reply. Unfortunately, it did not work. I have now installed kraken2 and also the data_manager for building the kraken2 database. However, after installing this, I do not know how to run the data manager. Because it does not show up anywhere in my local Galaxy …

[image] Anik_Du: Because it does not show up anywhere in my local Galaxy interface. Hi @Anik_Du These data administration tools will not show up in the “regular” tool panel. Instead, find this under the Admin masthead menu while logged into your administrative account. This is where the Kra…

Hi @jennaj thanks a lot. Yes, I have found it now and it is working. But I have another question: I was trying to build the database from Pre-built RefSeq Indexes and the index files are dated back to June 2022 latest. Is there a way to get updated Indices I see already from here https://benlangme…

Hi @Anik_Du There isn’t a current way to capture the daily/weekly updates from RefSeq (that I know of!) but if this is something that you want to help with – meaning, improve the data manager to handle that – I’m sure others would be interested. Part of the reason the public servers don’t do this …

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How to install kraken2 database

devops-administration, galaxy-local, data-manager

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