* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/pathwayTMB.Rcheck’
* using R Under development (unstable) (2025-09-02 r88773)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)
    GNU Fortran (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)
* running under: Fedora Linux 40 (Workstation Edition)
* using session charset: UTF-8
* checking for file ‘pathwayTMB/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘pathwayTMB’ version ‘0.1.3’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘pathwayTMB’ can be installed ... [12s/12s] OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
  ‘clusterProfiler’ ‘purrr’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [18s/18s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking examples with --run-donttest ... [15s/15s] ERROR
Running examples in ‘pathwayTMB-Ex.R’ failed
The error most likely occurred in:

> ### Name: GenePathwayOncoplots
> ### Title: draw an GenePathwayOncoplots
> ### Aliases: GenePathwayOncoplots
> 
> ### ** Examples
> 
> #get the path of the mutation annotation file and samples' survival data
> maf<-system.file("extdata","data_mutations_extended.txt",package = "pathwayTMB")
> sur_path<-system.file("extdata","sur.csv",package = "pathwayTMB")
> sur<-read.csv(sur_path,header=TRUE,row.names = 1)
> #perform the function 'get_mut_matrix'
> ## No test: 
> mut_matrix<-get_mut_matrix(maffile=maf,mut_fre = 0.01,is.TCGA=FALSE,sur=sur)
-Reading
-Validating
-Silent variants: 26 
-Summarizing
--Possible FLAGS among top ten genes:
  MUC16
  USH2A
-Processing clinical data
--Missing clinical data
-Finished in 0.368s elapsed (0.342s cpu) 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
Warning in coxph.fit(X, Y, istrat, offset, init, control, weights = weights,  :
  Loglik converged before variable  1 ; coefficient may be infinite. 
> #perform the function `get_PTMB`
> PTMB_matrix<-get_PTMB(freq_matrix=mut_matrix,genesmbol=genesmbol,gene_path=gene_path)
> set.seed(1)
> final_character<-get_final_signature(PTMB=PTMB_matrix,sur=sur)
Loading required package: ggplot2
Loading required package: lattice
> ## End(No test)
> #calculate the risksciore
> riskscore<-plotKMcurves(t(PTMB_matrix[final_character,]),sur=sur,plots=FALSE)$risk_score
Error in names(x) <- value : 
  'names' attribute [4] must be the same length as the vector [3]
Calls: plotKMcurves -> colnames<-
Execution halted
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘spelling.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [21s/21s] OK
* checking PDF version of manual ... OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* checking for new files in some other directories ... OK
* DONE

Status: 1 ERROR, 1 NOTE
See
  ‘/data/blackswan/ripley/R/packages/tests-devel/pathwayTMB.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 3:43.11, 152.06 + 69.83