Pierre, thanks for the help! I read the links you provided and followed your directions. I confirmed that the bigWigToWig program is now in my $PATH. When I now try to execute the bigWigToWig in.bigWig out.wig command, I get a Permissions denied error. I tried this locally on my Mac and also on our server. I get the same error. Any other ideas? Thanks again.

do you have the right to write here ? try "bigWigToWig in.bigWig /tmp/out.wig"

...or try moving (copying) bigWigToWig into whatever directory the files you want to convert are located. Not a good permanent fix, but might work in the short term.

@Pierre I tried your "bigWigToWig in.bigWig /tmp/out.wig" command and I also get a Permission denied message. I tried to run bigWigToWig on my local machine's Desktop rather than on the server and I still get the same Permission denied message?! I also double checked to make sure that bigWigToWig is in my path. Do you have any other ideas? Thanks again for all the help.

Thank you! This turned out to be the real problem.

Dear Farhat,

I tried doing the same, but my problem is that the file is a binary and therefore not an executable

The roor message that I get is - bash: ./bigWigToWig: cannot execute binary file: Exec format error

Thanks

Byron, thank you for the help. Yes, the program (bigWigToWig) and the .bigWig file were initially in the same directory, so I tried your ./bigWigToWig suggestion. It returned a Permissions denied error (see above). Thanks for the help. Do you have any other suggestions?