That fixed it!! Thank you very much! I should have thought of that.

Thanks again,

Ben

On Wed, Sep 14, 2011 at 9:57 AM, Steve Lianoglou <
mailinglist.honeypot@gmail.com> wrote:

> Hi,
>
> On Wed, Sep 14, 2011 at 11:44 AM, Ben qant <ccquant@gmail.com> wrote:
> > Hello,
> >
> > I've posted something similar under a different subject and never
> received a
> > solution. Trying again with (hopefully) a better description.
> >
> > Objective: Send a matrix of string data in an email message. The message
> > must have authentication and be sent via an R script.
> >
> > I'm almost there!
> >
> > Here is where I am at:
> > I collect long error message lines in 'errs', which is a matrix.
>
> (I might collect this into a list, but that's just a matter of style)
>
>
> > Then I collapse them into a character vector via:
> >
> > errs = paste(errs, collapse = "")
> >
> > Then I send that in a email via rJython. The message is sent to an
> Microsoft
> > Outlook address like this:
> >
> > mail = c(  ....etc...
> > paste("msg = MIMEText('",errs,"')",sep=""),
> > ...etc....)
> >
> > ...etc... [the rest of the rJython stuff to send a message omitted here]
> >
> > jython.exec(rJython,mail)
> >
> > The problem: The issue is that the message wraps the text in the body of
> the
> > message so that the message just looks like one big line of text which
> makes
> > it very difficult to read (aka is not acceptable).
> >
> > Notes:
> > 1) The message must have authentication; therefore, I am using rJython.
> (My
> > understanding is that there is no R way to send an email message with
> > authentication.)
> > 2) I have to receive the message in Outlook.
> > 3) When I do errs = paste(errs, collapse = "\n"), and pass that as the
> > message text, rJython gives me an error:
> > Error in ls(envir = envir, all.names = private) :
> >  invalid 'envir' argument
>
> It's hard to imagine why this would happen. using `paste(errs,
> collapse="")` vs. `paste(errs, collapse="\n")` will provide you with
> one character vector/string, so I've got to believe the problem is
> somewhere else.
>
> Just a stab in the dark, but does `paste(errs, collapse="\\n")` give
> you problems?
>
> What if you take your `errs = paste(errs, collapse="\n")` and call
> `writeLines` on `errs` to a tmp file that you provide the path for to
> rJython, which then reads the file and append into a message.
>
> Also -- if you want to be reading the file "normally" on windows,
> shouldn't you be using windows line endings (I think "\r\n"), or does
> outlook recognize "\n" as a new line (I'm imagining if you do get the
> whole thing to work, outlook might still just show you one long line
> since "\n" alone isn't recognized as a newline command on windows
> (last time I checked)).
>
> -steve
>
> --
> Steve Lianoglou
> Graduate Student: Computational Systems Biology
>  | Memorial Sloan-Kettering Cancer Center
>  | Weill Medical College of Cornell University
> Contact Info: http://cbio.mskcc.org/~lianos/contact
>

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