error in kmergenie compilation

Question

[Shakunthala Natarajan]

I downloaded kmergenie zip file from the link given as source in the kmergenie home page and extracted it into /vol folder in my system. I also have python and R installed in my system. But when I execute kmergenie with the following command:

./kmergenie R1.fastq -s 2 -o output.txt -t 10

It says,

running histogram estimation
setting maximum kmer length to: 151 bp
Computing histograms from (k=15 to k=121): cannot find ntCard/ntcard in either, /vol/kmergenie-1.7051
Did you type 'make' before installing kmergenie? If so, contact a developer

Can someone please help with this? Thank you!

[juliana.calderon]

Hi, can you explain me how did you dowload kmergenie, I'm having a lot of problems dowloading

Pls help

[GenoMax]

You have to download the program and then compile it. It is only supplied as source code. If you are new to this perhaps best to ask for help from someone who has unix experience.

Answer 1

[GenoMax]

As the message asks, did you compile the program using make?

[Shakunthala Natarajan]

No I did not compile the program using make. I just extracted the kmergenie folder. Changed my present working directory to that folder and executed kmergenie using the command I had typed before.

[GenoMax]

As the README says, you have to compile the program before you can use it.

[Shakunthala Natarajan]

Thank you for pointing that out. I compiled it and it now works. Thanks a lot!