Question: Implementing Blast tool for local database on a website using WAMP and Windows
0
gravatar for Pratham
3.6 years ago by
Pratham0
United States
Pratham0 wrote:

Hello,

I am a software engineer. I am working on an assignment wherein I have to implement a BLAST tool on a website.

The BLAST tool should work with the local databases I have created in the MySQL server.

I am using a WAMP server on Windows for creating and hosting the website using Dreamweaver.

Please guide me as to how should I proceed to achieve the required solution to this assignment.

Thanks,

Pratham

website blast mysql windows wamp • 1.6k views
ADD COMMENTlink written 3.6 years ago by Pratham0
1

blast ↔ mysql ? blast doesn't use mysql databases.

ADD REPLYlink written 3.6 years ago by Pierre Lindenbaum116k

I am using a tabular structure database in MySQL. The database table has the required ATGC sequence column.

Does BLAST tool use some different database structure model?

ADD REPLYlink written 3.6 years ago by Pratham0
1

yep, it's a local binary file generated from a fasta using  the makeblastdb tool http://www.ncbi.nlm.nih.gov/books/NBK279688/ . So, you're using a windows server ? well.... good luck.

ADD REPLYlink written 3.6 years ago by Pierre Lindenbaum116k

Ok. So is it like for every FASTA file, a local binary file is generated. I can get a corresponding FASTA file for the data stored in my MySQL database table. Using this FASTA file I can generate a local binary file. Will Windows WAMP server be a problem in that case?

ADD REPLYlink written 3.6 years ago by Pratham0
1

There is no problem with windows server per se, but the slogan everyone follows here is "No 'windows' for serious bioinformatics"

ADD REPLYlink modified 3.6 years ago • written 3.6 years ago by geek_y9.1k

Thanks for your help. I was confused about the database structure.

Now that I have installed blast-2.2.31+ in my system, I am able to figure out that the BLAST databases are different from relational ones.

I would like to implement a similar BLAST functionality on a website.

Where can I get access to WWWBLAST ?

 

ADD REPLYlink written 3.5 years ago by Pratham0
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