Hello folks, I am having a problem installing pbatR package. (My R version is 2.8.1.)
As I execute a command > install.packages(lib='/usr/local/apps/R-2.8.1/lib64/R/library', "pbatR") it detects lack of rootSolve package and attempts to install it. But cannot seem to compile it, and the rest is aborted. Any hint as to what I can do? Thank you in advance for your help. Tena Sakai tsa...@gallo.ucsf.edu Here's the detail: > install.packages(lib='/usr/local/apps/R-2.8.1/lib64/R/library', "pbatR") --- Please select a CRAN mirror for use in this session --- Loading Tcl/Tk interface ... done also installing the dependency ŒrootSolve¹ trying URL 'http://cran.cnr.Berkeley.edu/src/contrib/rootSolve_1.5.tar.gz' Content type 'application/x-gzip' length 488474 bytes (477 Kb) opened URL ================================================== downloaded 477 Kb trying URL 'http://cran.cnr.Berkeley.edu/src/contrib/pbatR_2.2-0.tar.gz' Content type 'application/x-gzip' length 120576 bytes (117 Kb) opened URL ================================================== downloaded 117 Kb * Installing *source* package 'rootSolve' ... ** libs gcc -std=gnu99 -I/usr/local/apps/R-2.8.1/lib64/R/include -I/usr/local/include -fpic -g -O2 -c call_runsteady .c -o call_runsteady.o gcc -std=gnu99 -I/usr/local/apps/R-2.8.1/lib64/R/include -I/usr/local/include -fpic -g -O2 -c call_steady.c -o call_steady.o gcc -std=gnu99 -I/usr/local/apps/R-2.8.1/lib64/R/include -I/usr/local/include -fpic -g -O2 -c call_stsparse. c -o call_stsparse.o g77 -fpic -g -O2 -c dlinpk.f -o dlinpk.o g77 -fpic -g -O2 -c lsodes.f -o lsodes.o lsodes.f: In subroutine `dlsodes': lsodes.f:1536: warning: CALL DSTODE (NEQ, Y, RWORK(LYH), NYH, RWORK(LYH), RWORK(LEWT), 1 lsodes.f:3468: (continued): CALL DSTODE (NEQ, Y, RWORK(LYH), NYH, RWORK(LYH), RWORK(LEWT), 2 Argument #10 of `dstode' is one type at (2) but is some other type at (1) [info -f g77 M GLOBALS] lsodes.f: In subroutine `dprep': lsodes.f:4980: warning: CALL DPREP (NEQ, Y, RWORK(LYH), RWORK(LSAVF), RWORK(LEWT), 1 lsodes.f:5412: (continued): SUBROUTINE DPREP (NEQ, Y, YH, SAVF, EWT, FTEM, IA, JA, 2 Argument #10 (named `iwk') of `dprep' is one type at (2) but is some other type at (1) [info -f g77 M GLOBALS] g77 -fpic -g -O2 -c sparsecoeff.f -o sparsecoeff.o g77 -fpic -g -O2 -c sparse.f -o sparse.o g77 -fpic -g -O2 -c steady.f -o steady.o steady.f: In subroutine `dsteady': steady.f:101: Beta = -beta ^ Expression at (^) has incorrect data type or rank for its context steady.f:101: Beta = -beta 12 Arithmetic operator at (1) must operate on two scalar (not array) subexpressions, two function invocations return ing arithmetic scalars, or a combination of both -- but the subexpression at (2) is an array steady.f:106: Beta = -beta ^ Expression at (^) has incorrect data type or rank for its context steady.f:106: Beta = -beta 12 Arithmetic operator at (1) must operate on two scalar (not array) subexpressions, two function invocations return ing arithmetic scalars, or a combination of both -- but the subexpression at (2) is an array make: *** [steady.o] Error 1 ERROR: compilation failed for package 'rootSolve' ** Removing '/usr/local/apps/R-2.8.1/lib64/R/library/rootSolve' * Installing *source* package 'pbatR' ... ** libs g++ -I/usr/local/apps/R-2.8.1/lib64/R/include -I/usr/local/include -fpic -g -O2 -c data.cpp -o data.o g++ -I/usr/local/apps/R-2.8.1/lib64/R/include -I/usr/local/include -fpic -g -O2 -c fbatDist.cpp -o fbatDist. o g++ -I/usr/local/apps/R-2.8.1/lib64/R/include -I/usr/local/include -fpic -g -O2 -c kludge.cpp -o kludge.o g++ -I/usr/local/apps/R-2.8.1/lib64/R/include -I/usr/local/include -fpic -g -O2 -c powerSim.cpp -o powerSim. o g++ -I/usr/local/apps/R-2.8.1/lib64/R/include -I/usr/local/include -fpic -g -O2 -c random.cpp -o random.o g++ -I/usr/local/apps/R-2.8.1/lib64/R/include -I/usr/local/include -fpic -g -O2 -c sh2win.cpp -o sh2win.o g++ -I/usr/local/apps/R-2.8.1/lib64/R/include -I/usr/local/include -fpic -g -O2 -c wait.cpp -o wait.o g++ -shared -L/usr/local/lib64 -o pbatR.so data.o fbatDist.o kludge.o powerSim.o random.o sh2win.o wait.o -L/us r/local/apps/R-2.8.1/lib64/R/lib -lR ** R ** preparing package for lazy loading Loading required package: survival Loading required package: splines Loading required package: rootSolve Warning in library(pkg, character.only = TRUE, logical.return = TRUE, lib.loc = lib.loc) : there is no package called 'rootSolve' Error: package 'rootSolve' could not be loaded Execution halted ERROR: lazy loading failed for package 'pbatR' ** Removing '/usr/local/apps/R-2.8.1/lib64/R/library/pbatR' The downloaded packages are in /tmp/RtmpmWdovn/downloaded_packages Updating HTML index of packages in '.Library' Warning messages: 1: In install.packages(lib = "/usr/local/apps/R-2.8.1/lib64/R/library", : installation of package 'rootSolve' had non-zero exit status 2: In install.packages(lib = "/usr/local/apps/R-2.8.1/lib64/R/library", : installation of package 'pbatR' had non-zero exit status > > exit Error: object "exit" not found > q() Save workspace image? [y/n/c]: n ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.