similar to: Unable to use names() to set names on a 'dist' object (PR#1129)

I'm not sure this belong here... Package: MASS Version: 6.2-8 I get a core dump when I call isoMDS with an incorrect argument for y. With d as an object of class "dist": > isoMDS(d,2) Program received signal SIGSEGV, Segmentation fault. 0x40229e43 in VR_mds_init_data () at MASS.c:157 --please do not edit the information below-- Version: platform = i586-pc-linux-gnu

library(mva) data(USArrests) hc <- hclust(dist(USArrests), "ave") plot(hc) # OK dump(c("hc"), "tst") rm(hc) source("tst") plot(hc) # Error in plot.hclust(hc) : invalid dendrogram input The same problem occurs with dput/dget --please do not edit the information below-- Version: platform =

The following problem occurs in R 1.4.0 and 1.3.1 for Windows95, but not in R 1.2.0 for Windows95. The problem does not occur in R 1.4.0 for Linux PC, Linux Alpha and HP-UX. Sometimes, the type of 'Size' of an object of type 'dist' changes from integer into double. Running cmdscale on such a 'dist' object gives invalid results. I don't know what should be considered

Running 'make check' I get two errors: running code in 'mva-Ex.R' .../usr/lib/dld.sl: Unresolved symbol: meet_ (code) from /users1/kleiweg/R-1.6.0-source/library/cluster/libs/cluster.sl running code in 'tcltk-Ex.R' .../usr/lib/dld.sl: Unresolved symbol: Tcl_EvalObjv (code) from /users1/kleiweg/R-1.6.0-source/library/tcltk/libs/tcltk.sl Version: platform =

The last line gets duplicated when a file is read like this: a <- scan(file=filename, what="", sep="\n", strip.white=c(TRUE), quiet=TRUE) (This error does not occur on Linux, the only other platform I tested.) Version: platform = hppa2.0-hp-hpux10.20 arch = hppa2.0 os = hpux10.20 system = hppa2.0, hpux10.20 Actually, all binaries are

plot.hclust: Setting up a window for a dendrogram assumes the first link is the shortest and the last is the longest. This is not always the case when the clustering was done with hclust, method="median" or method="centroid", and the dendrogram sometimes doesn't fit within the window. I propose the fix listed below. src/main/ --- plot.c Wed Sep 17 01:03:39 2003 +++

Non of these errors occured in earliers versions of R. > library(tcltk) /usr/lib/dld.sl: Unresolved symbol: Tcl_GetVar2Ex (code) from /opt_local/opt/R/lib/R/library/tcltk/libs/tcltk.sl /usr/lib/dld.sl: Unresolved symbol: Tcl_GetString (code) from /opt_local/opt/R/lib/R/library/tcltk/libs/tcltk.sl /usr/lib/dld.sl: Unresolved symbol: Tcl_SetVar2Ex (code) from

I noticed this bug before in R 1.2.0. Can't remember whether it was there in earlier versions. > help.start() Making links in ~/.R ... If /home/peter/sbin/netscape is already running, it is *not* restarted, and you must switch to its window. Otherwise, be patient.. > help("help", package = "base") help() for help is shown in

'make check' fails on d-p-q-r-tests: > ##-- non central Chi^2 : > xB <- c(2000,1e6,1e50,Inf) > for(df in c(0.1, 1, 10)) + for(ncp in c(0, 1, 10, 100)) stopifnot(pchisq(xB, df=df, ncp=ncp) == 1) Error: pchisq(xB, df = df, ncp = ncp) == 1 is not all TRUE Execution halted Here is some more testing: xB <- c(2000,1e6,1e50,Inf) for(df in c(0.1, 1, 10)) for(ncp in c(0, 1,

Should I submit this as a bug report? --- reg-tests-3.Rout.save Thu Jul 3 09:55:40 2003 +++ reg-tests-3.Rout Sun Nov 23 13:10:57 2003 @@ -1,17 +1,18 @@ -R : Copyright 2003, The R Development Core Team -Version 1.8.0 Under development (unstable) (2003-07-03) +R : Copyright 2003, The R Foundation for Statistical Computing +Version 1.8.1 (2003-11-21), ISBN 3-900051-00-3 R is free software and

If tbl is an object of class 'dist', you can do this: a <- sammon(tbl, k=3) But you can't do this: b <- isoMDS(tbl, k=3) Wouldn't it be sensible to have identical interfaces to sammon() and isoMDS() ? I think all that would be needed is to change this: isoMDS <- function(d, y=cmdscale(d, 2), maxit=50, trace=TRUE) { ...into this: isoMDS <-

The function cmdscale tries to copy names from the source to the result. This only works if the source is a matrix. If m is a matrix with labels (rownames) and d is an object of class "dist" with labels, this works: cmdscale(m) ...but with this, there are no labels in the results: cmdscale(d) However, this works: cmdscale(as.matrix(d)) My suggestion is to change, in

Setting enviroment variable R_DEFAULT_DEVICE causes an error. The patch below fixes this. I guess the same goes for R_INTERACTIVE_DEVICE. --- R-2.7.0/src/library/grDevices/R/zzz.R 2008-04-27 13:49:11.000000000 +0200 +++ R-2.7.0/src/library/grDevices/R/zzz.R.new 2008-04-27 13:59:37.000000000 +0200 @@ -22,7 +22,7 @@ extras <- if(.Platform$OS.type == "windows")

There seems to be a bug in hclust (package mva) for clustering methods 'median' and 'centroid'. I have written a clustering program in C and discovered that the results for 'median' differ from those of hclust in R. I used a third program, written by someone else in Pascal, and that program agrees with the output of my program. I found yet another clustering program that

data() is making assumptions about the structure of the 00Index files that are not warranted. All `Writing R Extensions' says is The @file{data} subdirectory should also contain a @file{00Index} file that describes the datasets available. Ideally this should have a one-line description of each dataset, with full documentation in the @file{man} directory. whereas data() is assuming

I reported this earlier, and have got reports that others have the same promlem on UNIX machines, so it is not only a windows problem S I file a bug report. The function (boot.stat) given at the end produces a postscript file, which cannot be included correctly in LaTeX. Specifically, the image in LaTeX (when translated by dvips to postscript) becomes very small, not using the bounding box, and

I'm not sure this list is the right place for this thing. I noticed some erratic behaviour in sammon(). Running sammon on two nearly identical sets of data results in very different results. Below is an example. I create an initial configuration with cmdscale() and store it into 'vec1'. I write this to file, and read it back in again to 'vec2'. According to cor() on the three

Peter Kleiweg skriver... > R dumps core if the first command I use is Sys.time(): > > > Sys.time() > Segmentation fault (core dumped) (peter) ~ R -d gdb [snip] GDB 4.16 (i386-redhat-linux), Copyright 1996 Free Software Foundation, Inc... (gdb) run Starting program: /usr/local/R/lib/R/bin/R.bin R : Copyright 2001, The R Development Core Team Version 1.2.1 (2001-01-15)

The print.dist() method in the mva package currently prints the triangular distance matrices with the ``trick'' of setting the (diagonal and) upper triangular part to NA, and then uses print(mat, na = "") to print that matrix. This is very much undesired if there are true NAs. Reproducible example code: (x <- cbind(c(1,NA,2,3), c(NA,2,NA,1))) (d <- dist(x)) ## does not

I use as.vector() on a data frame and I get a data frame in return. No warning. I have to use as.matrix() first. Why is that? Doesn't make sense to me. I'm using R 1.2.0 on Linux. > F <- data.frame(a = c(1,2,3), b = c(4,5,6)) > F a b 1 1 4 2 2 5 3 3 6 > V <- as.vector(F) > V a b 1 1 4 2 2 5 3 3 6 > attributes(V)