R devel - Apr 2003 - make check failures (PR#2884)

R Version 1.7.0 Patched (2003-04-28), built on Solaris 2.8
with gcc 3.0.3.
Obtained via rsync -rC rsync.r-project.org::r-patched R

I'm not sure how signficant these difference are during development,
but after an apparently successful build I got the following
discrepancies in make check:

make[3]: Entering directory `/export/home/ross/src/R/tests'
running code in 'reg-tests-1.R' ... OK
running code in 'reg-tests-2.R' ... OK
comparing 'reg-tests-2.Rout' to './reg-tests-2.Rout.save'
...2259,2260c2259,2276
< Warning message: 
< There is no package called 'MASS' in: library(package,
character.only = TRUE, logical = TRUE, warn.conflicts = warn.conflicts,
---
> Start:  AIC= 26.94 
>  y ~ x1 + x2 + x3 + x4 
> 
>        Df Sum of Sq    RSS    AIC
> - x3    1     0.109 47.973 24.974
> - x4    1     0.247 48.111 25.011
> - x2    1     2.972 50.836 25.728
> <none>              47.864 26.944
> - x1    1    25.951 73.815 30.576
> 
> Step:  AIC= 24.97 
>  y ~ x1 + x2 + x4 
> 
>        Df Sum of Sq    RSS    AIC
> <none>               47.97  24.97
> - x4    1      9.93  57.90  25.42
> - x2    1     26.79  74.76  28.74
> - x1    1    820.91 868.88  60.63
2291,2292c2307,2311
< Warning message: 
< There is no package called 'survival' in: library(package,
character.only = TRUE, logical = TRUE, warn.conflicts = warn.conflicts,
---
>  Surv [1:23, 1:2]  9  13  13+ 18  23  28+ 31  34  45+ 48  ...
>  - attr(*, "dimnames")=List of 2
>   ..$ : NULL
>   ..$ : chr [1:2] "time" "status"
>  - attr(*, "type")= chr "right"
 OK
running code in 'reg-IO.R' ... OK


Note that configure reported
checking for recommended packages... ./src/library/Recommended/survival_*.tar.gz
not found

I don't know what the deal is with the survival library.

ross@biostat.ucsf.edu writes:
> R Version 1.7.0 Patched (2003-04-28), built on Solaris 2.8
> with gcc 3.0.3.
> Obtained via rsync -rC rsync.r-project.org::r-patched R
> 
> I'm not sure how signficant these difference are during development,
> but after an apparently successful build I got the following
> discrepancies in make check:
You need to get the set of recommended packages. Run
tools/rsync-recommended in your source directroy and rebuild.

The discrepances are warnings (and only warnings) about the absense of
packages and are quite expectable if you didn't install them...

-- 
   O__  ---- Peter Dalgaard             Blegdamsvej 3  
  c/ /'_ --- Dept. of Biostatistics     2200 Cph. N   
 (*) \(*) -- University of Copenhagen   Denmark      Ph: (+45) 35327918
~~~~~~~~~~ - (p.dalgaard@biostat.ku.dk)             FAX: (+45) 35327907

ross@biostat.ucsf.edu writes:
> R Version 1.7.0 Patched (2003-04-28), built on Solaris 2.8
> with gcc 3.0.3.
> Obtained via rsync -rC rsync.r-project.org::r-patched R
> 
> I'm not sure how signficant these difference are during development,
> but after an apparently successful build I got the following
> discrepancies in make check:
> 
> make[3]: Entering directory `/export/home/ross/src/R/tests'
> running code in 'reg-tests-1.R' ... OK
> running code in 'reg-tests-2.R' ... OK
> comparing 'reg-tests-2.Rout' to './reg-tests-2.Rout.save'
...2259,2260c2259,2276
> < Warning message: 
> < There is no package called 'MASS' in: library(package,
character.only = TRUE, logical = TRUE, warn.conflicts = warn.conflicts,
> ---
> > Start:  AIC= 26.94 
> >  y ~ x1 + x2 + x3 + x4 
> > 
> >        Df Sum of Sq    RSS    AIC
> > - x3    1     0.109 47.973 24.974
> > - x4    1     0.247 48.111 25.011
> > - x2    1     2.972 50.836 25.728
> > <none>              47.864 26.944
> > - x1    1    25.951 73.815 30.576
> > 
> > Step:  AIC= 24.97 
> >  y ~ x1 + x2 + x4 
> > 
> >        Df Sum of Sq    RSS    AIC
> > <none>               47.97  24.97
> > - x4    1      9.93  57.90  25.42
> > - x2    1     26.79  74.76  28.74
> > - x1    1    820.91 868.88  60.63
> 2291,2292c2307,2311
> < Warning message: 
> < There is no package called 'survival' in: library(package,
character.only = TRUE, logical = TRUE, warn.conflicts = warn.conflicts,
> ---
> >  Surv [1:23, 1:2]  9  13  13+ 18  23  28+ 31  34  45+ 48  ...
> >  - attr(*, "dimnames")=List of 2
> >   ..$ : NULL
> >   ..$ : chr [1:2] "time" "status"
> >  - attr(*, "type")= chr "right"
>  OK
> running code in 'reg-IO.R' ... OK
> 
> 
> Note that configure reported
> checking for recommended packages...
./src/library/Recommended/survival_*.tar.gz not found
> 
> I don't know what the deal is with the survival library.
R-patched is just the R sources.  After you have obtained a copy of
those sources via rsync, cd to the top-level source directory and run

./tools/rsync-recommended

This arrangement allows the authors of recommended packages to update
their packages on their own schedules, not necessarily on the schedule
for the R sources.