Warning masseage when i run the example data

[EugeniaMing]

Hello, i want to run args-oap v3.2.4 for mategenomic data. after installing the software, i first try it with example data using the code following:

i got output file like this

i just download example data from GitHub and checked these input files, i really don't know whats wrong

Looking forward to your reply Thanks!

[xinehc]

It is likely some of the dependencies are not properly installed.

I would suggest installing args-oap in a fresh environment:

conda install -c bioconda -c conda-forge args_oap

[zxgsy520]

这里是你代码的bug，应该是构建数据库的问题。需要手工构建完整的数据库。 bwa index /Work/pipeline/software/meta/ARGs-OAP/v3.2.4/lib/python3.12/site-packages/args_oap/db/gg85.fasta makeblastdb -in /Work/pipeline/software/meta/ARGs-OAP/v3.2.4/lib/python3.12/site-packages/args_oap/db/gg85.fasta -input_type fasta -dbtype nucl args_oap make_db --infile /Work/pipeline/software/meta/ARGs-OAP/v3.2.4/lib/python3.12/site-packages/args_oap/db/ko30.fasta

[zxgsy520]

数据的索引需要单独构建。如果没有构建，就会出现这样的问题。主要是脚本stage_one.py的run部分使用了try函数。另外该软件不支持华大mgi平台的数据，需要修改一下代码才能运行。