CRAN Package Check Results for Package coxme

Last updated on 2015-02-27 04:46:43.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.2-3 5.46 220.59 226.05 ERROR
r-devel-linux-x86_64-debian-gcc 2.2-3 5.96 233.92 239.88 ERROR
r-devel-linux-x86_64-fedora-clang 2.2-3 262.32 ERROR
r-devel-linux-x86_64-fedora-gcc 2.2-3 287.81 ERROR
r-devel-osx-x86_64-clang 2.2-3 387.04 ERROR
r-devel-windows-ix86+x86_64 2.2-3 30.00 448.00 478.00 ERROR
r-patched-linux-x86_64 2.2-3 7.70 124.74 132.44 ERROR
r-patched-solaris-sparc 2.2-3 1772.60 ERROR
r-patched-solaris-x86 2.2-3 345.30 ERROR
r-release-linux-ix86 2.2-3 7.98 329.60 337.57 NOTE
r-release-linux-x86_64 2.2-3 8.57 0.25 8.82 OK
r-release-osx-x86_64-mavericks 2.2-3 NOTE
r-release-windows-ix86+x86_64 2.2-3 27.00 291.00 318.00 ERROR
r-oldrel-windows-ix86+x86_64 2.2-3 25.00 297.00 322.00 ERROR

Check Details

Version: 2.2-3
Check: DESCRIPTION meta-information
Result: NOTE
    Malformed Title field: should not end in a period.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang, r-devel-windows-ix86+x86_64

Version: 2.2-3
Check: top-level files
Result: NOTE
    Non-standard files/directories found at top level:
     ‘COPYRIGHT’ ‘Readme’
    Copyright information should be in file inst/COPYRIGHTS
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-linux-x86_64, r-release-linux-ix86

Version: 2.2-3
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘methods’ ‘survival’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
    ':::' calls which should be '::':
     ‘survival:::agreg.fit’ ‘survival:::coxph.fit’
     See the note in ?`:::` about the use of this operator.
    Unexported object imported by a ':::' call: ‘survival:::anova.coxmelist’
     See the note in ?`:::` about the use of this operator.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86

Version: 2.2-3
Check: R code for possible problems
Result: NOTE
    coxme: no visible global function definition for ‘untangle.specials’
    coxme: no visible global function definition for ‘strata’
    coxme.fit: no visible global function definition for ‘coxph.control’
    expand.nested: no visible global function definition for ‘strata’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-ix86, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64

Version: 2.2-3
Check: tests
Result: ERROR
    Running the tests in ‘tests/test2.R’ failed.
    Last 13 lines of output:
     > # First with no sparse
     > fit0 <- coxme(Surv(time, status) ~ rx + (1|litter), data=rats,
     + vfixed=theta, iter=0, sparse=c(100, .001))
     > tfit <- coxph(Surv(time, status) ~ factor(litter) + rx,
     + data=rats, x=T, iter=0)
     > dt0 <- coxph.detail(tfit)
     >
     > aeq(apply(dt0$score,2,sum), fit0$u)
     [1] TRUE
     > h0 <- apply(dt0$imat,1:2,sum) + diag(c(rep(1/theta, 50),0))
     Error in apply(dt0$imat, 1:2, sum) + diag(c(rep(1/theta, 50), 0)) :
     non-conformable arrays
     Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86

Version: 2.2-3
Check: running tests for arch 'i386'
Result: ERROR
    Running the tests in 'tests/test2.R' failed.
    Last 13 lines of output:
     > # First with no sparse
     > fit0 <- coxme(Surv(time, status) ~ rx + (1|litter), data=rats,
     + vfixed=theta, iter=0, sparse=c(100, .001))
     > tfit <- coxph(Surv(time, status) ~ factor(litter) + rx,
     + data=rats, x=T, iter=0)
     > dt0 <- coxph.detail(tfit)
     >
     > aeq(apply(dt0$score,2,sum), fit0$u)
     [1] TRUE
     > h0 <- apply(dt0$imat,1:2,sum) + diag(c(rep(1/theta, 50),0))
     Error in apply(dt0$imat, 1:2, sum) + diag(c(rep(1/theta, 50), 0)) :
     non-conformable arrays
     Execution halted
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64

Version: 2.2-3
Check: running tests for arch 'x64'
Result: ERROR
    Running the tests in 'tests/test2.R' failed.
    Last 13 lines of output:
     > # First with no sparse
     > fit0 <- coxme(Surv(time, status) ~ rx + (1|litter), data=rats,
     + vfixed=theta, iter=0, sparse=c(100, .001))
     > tfit <- coxph(Surv(time, status) ~ factor(litter) + rx,
     + data=rats, x=T, iter=0)
     > dt0 <- coxph.detail(tfit)
     >
     > aeq(apply(dt0$score,2,sum), fit0$u)
     [1] TRUE
     > h0 <- apply(dt0$imat,1:2,sum) + diag(c(rep(1/theta, 50),0))
     Error in apply(dt0$imat, 1:2, sum) + diag(c(rep(1/theta, 50), 0)) :
     non-conformable arrays
     Execution halted
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64

Version: 2.2-3
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘methods’ ‘survival’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
    ':::' calls which should be '::':
     ‘survival:::agreg.fit’ ‘survival:::coxph.fit’
     See the note in ?`:::` about the use of this operator.
    Unexported object imported by a ':::' call: ‘survival:::anova.coxmelist’
     See the note in ?`:::` about the use of this operator.
    See the information on DESCRIPTION files in the chapter ‘Creating R
    packages’ of the ‘Writing R Extensions’ manual.
Flavors: r-release-linux-ix86, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64