aaftf filter URL issue

[Bambi3024]

Hello! I tried to run the script for aaftf filter but terminal gave me always the same error: Running AAFTF v0.5.0 error with url https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/819/615/GCF_000819615.1_ViralProj14015/GCF_000819615.1_ViralProj14015_genomic.fna.gz aaftf-filter_85caa12f/GCF_000819615.1_ViralProj14015_genomic.fna.gz Traceback (most recent call last): File "/mnt/home/dematth2/anaconda3/envs/aaftf/bin/AAFTF", line 8, in sys.exit(main()) File "/mnt/home/dematth2/anaconda3/envs/aaftf/lib/python3.7/site-packages/AAFTF/AAFTF_main.py", line 1113, in main args.func(parser, args) File "/mnt/home/dematth2/anaconda3/envs/aaftf/lib/python3.7/site-packages/AAFTF/AAFTF_main.py", line 53, in run_subtool submodule.run(parser, args) File "/mnt/home/dematth2/anaconda3/envs/aaftf/lib/python3.7/site-packages/AAFTF/filter.py", line 65, in run earliest_file_age = os.path.getctime(acc_file) File "/mnt/home/dematth2/anaconda3/envs/aaftf/lib/python3.7/genericpath.py", line 65, in getctime return os.stat(filename).st_ctime FileNotFoundError: [Errno 2] No such file or directory: 'aaftf-filter_85caa12f/GCF_000819615.1_ViralProj14015_genomic.fna.gz' ======= This is where my script ends! =========

I tried to modify the link because, if i delete the last part and i copy on my internet page i can download the Escherichia coli's sequence but never has changed on the terminal...i obtained the same error. I tried also to modify the script first by adding the genome directory (before i downloaded it) with the options -u but it keeps insisting on the URL and then i tried to add the right URL instead, but it keeps giving an error on that initial URL.

Thank you 👍

[hyphaltip]

I’ll see why the downloads may have an issue. You can also download manually.

[Bambi3024]

Thank you. Is there a manual, or a more detailed documentation, for this pipeline I can use? Or maybe is it included in a publication? Thanks again, Martina