[nilshomer]

Thank you. I use SUN cluster computer. I have already copy whole folder of SAM version 0.1.6 to my working directory. However, it still doesn't work. I'm not sure which one is the install directory.

Please be more verbose. What commands are you executing to install samtools after copying the SAM folder. You may have to get your cluster administrator to install samtools cluster-wide. I typically have a local install directory that is included in my PATH environmental variable.

[Victory]

I use the import command to make BAM file.
samtools import <in.ref_list> <in.sam> <out.bam>
Do I have to use specific command to install the SAM program or just put the program folder on the directory?

[nilshomer]

I use the import command to make BAM file.
samtools import <in.ref_list> <in.sam> <out.bam>
Do I have to use specific command to install the SAM program or just put the program folder on the directory?

You have to copy the binary to an directory where *other* binaries are installed (like /usr/local/bin). You have to make sure that your PATH environment variable includes the above path. Then you can just "samtools" instead of the "/home/<ETC>/samtools"

[Victory]

Thank you. I will try that.