Option "installWithVers" seems to impact new.packages() badly? - R-devel

Tue, Oct 4, 2005 6:27 AM #

Hard to know what you expect here.  There is no recent change that I can 
see.

I removed ash and then installed it with version.  new.packages() showed 
it as new in both 2.1.1 and 2.2.0-beta.

The issue is that installed.packages() has never been taught about 
versioned installs, and you might like to take that up with your BioC 
colleagues who added the idea.

On Fri, 30 Sep 2005, A.J. Rossini wrote:

I believe it always did: it certainly does in 2.1.1 for me.

Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595

A.J. Rossini

Tue, Oct 4, 2005 6:30 AM #

I expect "new.packages()" to not report on packages which I've
installed, as per documentation.

best,
-tony

On 10/4/05, Prof Brian Ripley <ripley at stats.ox.ac.uk> wrote:

--
best,
-tony

blindglobe at gmail.com
Muttenz, Switzerland.
"Commit early,commit often, and commit in a repository from which we can easily
roll-back your mistakes" (AJR, 4Jan05).

A.J. Rossini

Tue, Oct 4, 2005 6:32 AM #

Also, I don't know what this has to do with BioC.  This is core R, so
pertinent to this list.  Otherwise, perhaps it should be taken out?

On 10/4/05, A.J. Rossini <blindglobe at gmail.com> wrote:

--
best,
-tony

blindglobe at gmail.com
Muttenz, Switzerland.
"Commit early,commit often, and commit in a repository from which we can easily
roll-back your mistakes" (AJR, 4Jan05).

Peter Dalgaard

Tue, Oct 4, 2005 7:42 AM #

"A.J. Rossini" <blindglobe at gmail.com> writes:

...

Brian can of course speak for himself, but I think his point was just
that the request for the feature came from BioC, not that the
discussion was on the wrong list.

O__  ---- Peter Dalgaard             ?ster Farimagsgade 5, Entr.B
  c/ /'_ --- Dept. of Biostatistics     PO Box 2099, 1014 Cph. K
 (*) \(*) -- University of Copenhagen   Denmark          Ph:  (+45) 35327918
~~~~~~~~~~ - (p.dalgaard at biostat.ku.dk)                  FAX: (+45) 35327907

A.J. Rossini

Tue, Oct 4, 2005 12:07 PM #

On 04 Oct 2005 16:42:14 +0200, Peter Dalgaard <p.dalgaard at biostat.ku.dk> wrote:

But what the heck did that have to do with anything?   Should I be
making comments to  Brian about Peter Donnelly or Jotun Hein if I've
got comments about their work just because he's at Oxford?

Irrelevant network connections are irrelevant, and the comment about
BioC made no sense whatsoever to me.

best,
-tony

blindglobe at gmail.com
Muttenz, Switzerland.
"Commit early,commit often, and commit in a repository from which we can easily
roll-back your mistakes" (AJR, 4Jan05).

Brian Ripley

Tue, Oct 4, 2005 12:24 PM #

Please don't mangle replies like this to make them unreadable.

Peter's comment is spot-on.  The request for versioned installs and the 
original code came from the BioC team via Robert Gentleman.  I presume it 
was a deliberate choice that a versioned install of 'ash' is reported as 
an installation of 'ash_1.0-9', not 'ash', and I was referring you to the 
authors (and RG was one and will know who else was involved, as I recall 
at least Jeff Gentry) as to their intentions.

On Tue, 4 Oct 2005, A.J. Rossini wrote:

Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595

A.J. Rossini

Tue, Oct 4, 2005 12:45 PM #

Please grow up, Brian.   If you want to side track the issue, why
don't you wait for Robert, etc, to answer?  Are you pissed at that
particular change, so that if anyone brings up a problem with it, and
who might happen to have had a conversation with them once or twice, 
that you will jump on them?  Or do you need to enlighten me on your
perceptions of my failings on my part for not knowing what everyone I
know is doing and whether what they are doing is correct?  Gosh
almightly.

Right now, as has been true for nearly a year now, my time with R is
strictly a hobby, as is any little time I might spend on BioC.

Thankfully, Luke's ancient Common LispStat works on SBCL.  Hobbys are
for enjoyment, and given the berating I've just gotten on the two
questions, it's almost enough to make the switch complete.

If you want to report issues about ash, feel free to.  That wasn't the
issue I reported on.  I reported on two, we've solved one, and I've
had a snide clueless remark and a rather tactless remark on the other.

best,
-tony

On 10/4/05, Prof Brian Ripley <ripley at stats.ox.ac.uk> wrote:

Please don't mangle replies like this to make them unreadable.

Peter's comment is spot-on.  The request for versioned installs and the
original code came from the BioC team via Robert Gentleman.  I presume it
was a deliberate choice that a versioned install of 'ash' is reported as
an installation of 'ash_1.0-9', not 'ash', and I was referring you to the
authors (and RG was one and will know who else was involved, as I recall
at least Jeff Gentry) as to their intentions.


On Tue, 4 Oct 2005, A.J. Rossini wrote:

On 04 Oct 2005 16:42:14 +0200, Peter Dalgaard <p.dalgaard at biostat.ku.dk> wrote:

The issue is that installed.packages() has never been taught about> > > > versioned installs, and you might like to take that up with your BioC> > > > colleagues who added the idea.> >> "A.J. Rossini" <blindglobe at gmail.com> writes:> > Also, I don't know what this has to do with BioC.  This is core R, so> > pertinent to this list.  Otherwise, perhaps it should be taken out?>> Brian can of course speak for himself, but I think his point was just> that the request for the feature came from BioC, not that the> discussion was on the wrong list.

But what the heck did that have to do with anything?   Should I bemaking comments to  Brian about Peter Donnelly or Jotun Hein if I'vegot comments about their work just because he's at Oxford?
Irrelevant network connections are irrelevant, and the comment aboutBioC made no sense whatsoever to me.
best,-tony
blindglobe at gmail.comMuttenz, Switzerland."Commit early,commit often, and commit in a repository from which we can easilyroll-back your mistakes" (AJR, 4Jan05).

--
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595

--
best,
-tony

blindglobe at gmail.com
Muttenz, Switzerland.
"Commit early,commit often, and commit in a repository from which we can easily
roll-back your mistakes" (AJR, 4Jan05).