I attempted to generate an alignment based on four proteins: a pair of paralogous proteins from human and Arabidopsis thaliana.
This worked until reciprocal BLAST, where topiary was unable to retrieve the Arabidopsis proteome. It seems like topiary selected a genome assembly without an associated proteome, rather than the reference genome.
Following the instructions in the error message, I added a 'recip_blast' column to 01_initial-dataframe and tried restarting the pipeline, but I received the same error.
I'm not sure how general this problem might be, but it might be worth looking into.
I attempted to generate an alignment based on four proteins: a pair of paralogous proteins from human and Arabidopsis thaliana.
This worked until reciprocal BLAST, where topiary was unable to retrieve the Arabidopsis proteome. It seems like topiary selected a genome assembly without an associated proteome, rather than the reference genome.
Following the instructions in the error message, I added a 'recip_blast' column to 01_initial-dataframe and tried restarting the pipeline, but I received the same error.
I'm not sure how general this problem might be, but it might be worth looking into.
Input csv file: test_topiary_NRAMP.csv
Output from first run: terminal_output_1.txt
Edited version of 01_initial-dataframe: 01_initial-dataframe.csv
Output from second run: terminal_output_2.txt