I am pleased to learn that NTemacs is smarter than it used to be.

I started using 
  (set-buffer-process-coding-system 'undecided-unix 'undecided-unix)
in my site-start.el years ago because it was necessary at that time.
I agree that it no longer seems necessary.

After your comment on it, I started a fresh emacs instance with
   emacs -q --no-site-file
then set three variables
   (setenv "COMSPEC" "/cygwin/bin/bash.exe")
   (setenv "SHELL" "/cygwin/bin/bash.exe")
   (setq shell-file-name "/cygwin/bin/bash.exe")
Note that I made no changes to any process-coding-system variables or functions.
With this, M-x shell opens a *shell* buffer running bash.  The bash does not
have end-of-line problems.

I now have several questions.
1.  How do I find the current process-coding system?  I didn't see any
variables or functions that give that information.  I found functions to change
it but not to give the current value.

2. In the situation above, PATH did not include cygwin.  I added it with
      PATH=c:/cygwin/bin/:$PATH
but it still wasn't correctly recognized:

/cygdrive/c/HOME/rmh$ PATH=c:/cygwin/bin/:$PATH
/cygdrive/c/HOME/rmh$ echo $PATH
c:/cygwin/bin/:/cygdrive/c/Program Files/.........
/cygdrive/c/HOME/rmh$ date
bash: date: command not found
/cygdrive/c/HOME/rmh$ c:/cygwin/bin/date
Fri Nov 25 16:20:48 EST 2005

Why wasn't the PATH acted on in this situation?

Rich


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