[GenoMax]

Looks like blast script is making files that don't have any sequences in them as it splits your source file. Do you have blank spaces between sequences in your source file? That may be causing this (I am just speculating).

[sekhwal]

I have no spaces in my files...I have masking nuc genome seq and multiple fasta proteins seq for tblastn..
the script making two empty files dna.blast and pep.blast

[sekhwal]

Is seems script correct? I have data in my files, however it is showing ..

Warning: [tblastn] Query is Empty!

Looks like blast script is making files that don't have any sequences in them as it splits your source file. Do you have blank spaces between sequences in your source file? That may be causing this (I am just speculating).

[GenoMax]

Since you are new to all this I would suggest that you start with a simple blast search (instead of trying to speed it up). Use a test file with a couple of sequences. Make sure everything is working as expected before you try more fancy solutions like this script (apologies in advance if you have done this already).

[sekhwal]

I know, but this is not answer of my query. Is that suggestion platform or sharing knowledge? thanks for your every time suggestion.

Since you are new to all this I would suggest that you start with a simple blast search (instead of trying to speed it up). Use a test file with a couple of sequences. Make sure everything is working as expected before you try more fancy solutions like this script (apologies in advance if you have done this already).

[GenoMax]

If you are getting some results with just an error or two then it may be related to your input file. But if you are not getting any results then my recommendation (of using a simpler dataset, how many sequences are in your input file?) stands. The error is too generic to point to a specific problem.