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merenlab / anvio

An analysis and visualization platform for 'omics data
http://merenlab.org/software/anvio
GNU General Public License v3.0
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[BUG] anvi-interactive is not working in my computer #2251

Closed soojunglee98 closed 2 months ago

soojunglee98 commented 2 months ago

Short description of the problem

The anvi-interactive is not working in my computer.

anvi'o version

anvi-self-test --version

Anvi'o .......................................: marie (v8) Python .......................................: 3.10.14

Profile database .............................: 38 Contigs database .............................: 21 Pan database .................................: 16 Genome data storage ..........................: 7 Auxiliary data storage .......................: 2 Structure database ...........................: 2 Metabolic modules database ...................: 4 tRNA-seq database ............................: 2

System info

Detailed description of the issue

ANVI'O FILLED IN THE 2 ARGS BELOW AUTOMATICALLY

profile_db ...................................: ./Downloads/PROFILE.db contigs_db ...................................: ./Downloads/contigs.db

Contigs DB ...................................: Initialized: ./Downloads/contigs.db (v. 21)
Interactive mode .............................: full
Profile Super ................................: Initialized with all 1052137 splits: ./Downloads/PROFILE.db (v. 38)

WARNING

Auxiliary data is not available; which means you will not be able to perform certain operations (i.e., the inspect menu in the interactive interface will not work, etc).

WARNING

This merged profile database does not seem to have any hierarchical clustering of splits :/ It may be the case becasue it may have been generated by anvi-merge with the --skip-hierarchical-clustering flag, or hierarchical clustering step may have been skipped by anvi-merge because you had too many splits to get the clustering in a reasonable amount of time. Basically you will not see a clustering dendrogram in the center of your display. Please read the help menu for anvi-merge, and/or refer to the tutorial: http://merenlab.org/2015/05/01/anvio-tutorial/#clustering-during-merging

Config Error: Apologies :( The code managed to came all the way down here without any item
orders set for your project, which makes it impossible for anvi'o intearctive interface to display anything :/ Please check warning messages you may have on your screen.

metehaansever commented 2 months ago

Hello @soojunglee98 What is your system information? Do you run Anvio under WSL?

meren commented 2 months ago

@soojunglee98, there is nothing wrong here: there are 1,052,137 splits in your profile database, and no hierarchical clustering of them to offer an interactive interface. I am not sure what is your end goal, but this is not a technical bug.

If you have usage questions or need for input for best practices please consider sending them to the anvi'o discord :)