hi
i am trying to install ABYSS using cygwin. i downloaded ABYSS, boost, openmpi, sqlite and sparsehash. all programs is in /cygdrive/c/users/rain/desktop directory in my PC. i am confuse about installing ABYSS. please help me to do it.
hi
i am trying to install ABYSS using cygwin. i downloaded ABYSS, boost, openmpi, sqlite and sparsehash. all programs is in /cygdrive/c/users/rain/desktop directory in my PC. i am confuse about installing ABYSS. please help me to do it.
I wouldn't recommend trying to run ABySS on cygwin -- I've never tested it and it's not a platform that we officially support. You will have far less problems on Linux/Mac, and I think you will find the story is the same for the majority of bioinformatics software. If you are really set on using Windows as your O/S then I would recommend setting up a virtual machine running Linux (e.g. Ubuntu) with VirtualBox or VMWare instead of using cygwin.
That said, if you want to try installing ABySS on cygwin anyway:
tar xvf abyss-2.0.0.tar.gz
in the download directory.cd abyss-2.0.0
./configure
make
make install
See https://github.com/bcgsc/abyss#compiling-abyss-from-source for more info.
Good luck!
I agree with benv. I would recommend either setting up a VirtualBox VM (where you can have an Unbuntu graphical interface).
https://www.virtualbox.org/wiki/Downloads
http://www.ubuntu.com/download/desktop
Installing Docker might also be a good option, where some other programs are even "Dockerized" (where you can download an image with the program already installed)
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mentioned way to running ABYSS not worked. i checked above commands previously.
Fair enough. I will need you to provide some more detailed information before I can help, though. At what step did the commands fail? What was the error message? Was there partial output from the failed command?