PTFM-2877: finishing up replacing --stdin flags with "-" => stdin
PTFM-2877: finishing up replacing --stdin flags with "-" => stdin

dnanexus/dx-toolkit,jhuttner/dx-toolkit,jhuttner/dx-toolkit,dnanexus/dx-toolkit,andyshinn/dx-toolkit,olegnev/dx-toolkit,dnanexus/dx-toolkit,olegnev/dx-toolkit,johnwallace123/dx-toolkit,jhuttner/dx-toolkit,johnwallace123/dx-toolkit,jhuttner/dx-toolkit,andyshinn/dx-toolkit,jhuttner/dx-toolkit,olegnev/dx-toolkit,andyshinn/dx-toolkit,johnwallace123/dx-toolkit,jhuttner/dx-toolkit,dnanexus/dx-toolkit,johnwallace123/dx-toolkit,olegnev/dx-toolkit,andyshinn/dx-toolkit,jhuttner/dx-toolkit,johnwallace123/dx-toolkit,andyshinn/dx-toolkit,johnwallace123/dx-toolkit,dnanexus/dx-toolkit,dnanexus/dx-toolkit,olegnev/dx-toolkit,andyshinn/dx-toolkit,jhuttner/dx-toolkit,andyshinn/dx-toolkit,johnwallace123/dx-toolkit,olegnev/dx-toolkit,johnwallace123/dx-toolkit,olegnev/dx-toolkit,dnanexus/dx-toolkit,dnanexus/dx-toolkit,olegnev/dx-toolkit,andyshinn/dx-toolkit