In my case, changing GOROOT from /usr/local/go/ to /usr/lib/go/, remove the problem.

My output of go tool is:

$ go tool
addr2line
asm
buildid
cgo
...

Instead of:

$ go tool
go: no tool directory: open /usr/share/go/pkg/tool/linux_amd64: no such file or directory

Maybe it will fix your problem too.