An error occurred while creating the database

[green34567]

hello,
When I was using args_oap/3.2.4 to create a database, I was prompted to enter the file in an incorrect format.

But I was able to run the same command on another server with the same software version and input file, so I don't know what went wrong.

Input file for the former:

The input file for the latter:

I checked the size of the two input files, the number of bytes is exactly the same, I am copying directly, there should not be any difference.
Looking forward to your reply

[xinehc]

hi,

it is likely that diamond is not properly install in this environment, can you try

diamond makedb

and see what happens?

otherwise, you may check the md5 of the two input files using

md5 your_db.fasta

[green34567]

Thank you very much for your prompt response.
I checked the MD5 of the file and it was not modified.

Then I installed diamond, but the same problem occurred

hi,

it is likely that diamond is not properly install in this environment, can you try

diamond makedb

and see what happens?

otherwise, you may check the md5 of the two input files using

md5 your_db.fasta

[xinehc]

you may not have the write permission to the folder, try:

chmod +rwx your_db_folder

if this is not the case, can you check whether diamond makedb works?

diamond makedb --in your_db_file --db test

[green34567]

you may not have the write permission to the folder, try:

chmod +rwx your_db_folder

if this is not the case, can you check whether diamond makedb works?

diamond makedb --in your_db_file --db test

None of this will work.

[xinehc]

that's weird, I didn't manage to reproduce the issue.

Did you install args_oap via bioconda? Can you check whether blast has been installed in your environment? More specifically:

blastx -version
makeblastdb -in PDGs_DB.fasta -dbtype prot -out test