can't make bedtools

[clueless_in_ct]

Hello all,
I'm new and have no clue what I'm doing. I apologize for basic questions. Please be kind. I've installed Bedtools and am trying to use the "make" command but I get the error below:

Building BEDTools:
=========================================================
DETECTED_VERSION = v2.20.1
CURRENT_VERSION = v2.20.1
* Creating BamTools API
- Building in src/utils/bedFile
make[1]: *** No rule to make target 'bedFile.h', needed by '../../../obj//bedFile.o'. Stop.
Makefile:130: recipe for target 'src/utils/bedFile' failed
make: *** [src/utils/bedFile] Error 2





I'm certain I'm doing something stupid and I'd appreciate you guys pointing it out.

Cheers.

[GenoMax]

Did you download the code from https://github.com/arq5x/bedtools2/releases and then are trying to use "make" to compile it? Make is not for installing the software. What OS are you using?

[clueless_in_ct]

Thank you for your reply, GenoMax.

I downloaded using the instructions on the bedtools website:

$ curl http://bedtools.googlecode.com/files/BEDTools.<version>.tar.gz > BEDTools.tar.gz
$ tar -zxvf BEDTools.tar.gz
$ cd BEDTools-<version>
$ make

I am using cygwin on windows 8 (which I hate but it's what I have).

[GenoMax]

Did you install a compiler when you installed Cygwin (gcc, g++)?

[clueless_in_ct]

I did, following these instructions:

http://cs.calvin.edu/curriculum/cs/112/resources/installingEclipse/cygwin/

[GenoMax]

Can you try to re-download the source tar file and try make again? I am wondering if source file was corrupted. Did you get any errors when you did tar -xvcf command?

[bio_boris]

Hey Clueless_in_ct

You can make life a lot easier on yourself by installing virtualbox, and throwing in an install of ubuntu or bio linux (has a lot of software already installed) . Or dual boot works too.