GFinisher. bioinformatics tool developed in the Graduate Program in Sciences - Biochemistry at the UFPR

installation

The Finisher is distributed in binary form and in source code.

To run GFinisher is necessary there is the Java Virtual Machine (JVM) installed. You can verify or make the Java download from www.java.com.

Linux is necessary to check the run attributes in the blast files. Use "ls -l gfinisher/NCBI_blast".

ls -l
-rw-r--r-- 1 user user 32386568 Mar 30 18:21 blastn
-rw-r--r-- 1 user user 22927032 Mar 30 18:21 makeblastdb

If the files don't contain "x" in attributes, fix it with the chmod +x blastn and chmod +x makeblastdb commands. And verify again.

ls -l
-rwxr-xr-x 1 dieval dieval 32386568 Mar 30 18:21 blastn
-rwxr-xr-x 1 dieval dieval 22927032 Mar 30 18:21 makeblastdb

For more information, see "Standalone BLAST Setup for Unix" at http://www.ncbi.nlm.nih.gov/books/NBK52640/