* using log directory ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/phenofit.Rcheck’
* using R version 4.4.3 RC (2025-02-20 r87814)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc-14 (Debian 14.2.0-16) 14.2.0
    GNU Fortran (Debian 14.2.0-16) 14.2.0
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘phenofit/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘phenofit’ version ‘0.3.9’
* 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 serialization versions ... OK
* checking whether package ‘phenofit’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-patched-linux-x86_64/phenofit-00install.html' for details.
* used C compiler: ‘gcc-14 (Debian 14.2.0-16) 14.2.0’
* used C++ compiler: ‘g++-14 (Debian 14.2.0-16) 14.2.0’
* checking package directory ... OK
* checking for future file timestamps ... 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 ... [2s/3s] OK
* checking whether the package can be loaded with stated dependencies ... [1s/2s] OK
* checking whether the package can be unloaded cleanly ... [1s/2s] OK
* checking whether the namespace can be loaded with stated dependencies ... [1s/2s] OK
* checking whether the namespace can be unloaded cleanly ... [2s/3s] OK
* checking loading without being on the library search path ... [2s/2s] OK
* checking whether startup messages can be suppressed ... [2s/2s] OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [23s/29s] OK
* checking Rd files ... [1s/1s] 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 ... [0s/0s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [26s/30s] OK
Examples with CPU (user + system) or elapsed time > 5s
           user system elapsed
curvefits 4.267  0.067   5.228
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [72s/83s] ERROR
  Running ‘testthat.R’ [72s/82s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(phenofit)
  > 
  > test_check("phenofit")
  List of 5
   $ AG    : tibble [6 × 8] (S3: tbl_df/tbl/data.frame)
   $ Beck  : tibble [6 × 7] (S3: tbl_df/tbl/data.frame)
   $ Elmore: tibble [6 × 8] (S3: tbl_df/tbl/data.frame)
   $ Gu    : tibble [6 × 10] (S3: tbl_df/tbl/data.frame)
   $ Zhang : tibble [6 × 8] (S3: tbl_df/tbl/data.frame)
  NULL
  # A tibble: 6 × 8
    flag      t0    mn    mx     rsp    a3     rau    a5
    <chr>  <dbl> <dbl> <dbl>   <dbl> <dbl>   <dbl> <dbl>
  1 1999_1 -135. 0.201 0.636 0.00932  2.85 0.00852  2   
  2 2000_1  189. 0.238 0.635 0.0126   2.47 0.00801  3.21
  3 2001_1  569. 0.252 0.626 0.0108   2.96 0.00950  2.96
  4 2002_1  892. 0.253 0.614 0.0159   2    0.00724  3.08
  5 2003_1 1268. 0.236 0.577 0.0121   2.88 0.00723  2.88
  6 2004_1 1677. 0.202 0.576 0.00832  2.84 0.00990  3.48
       meth        R2       NSE         R         RMSE        pvalue n_sim
     <char>     <num>     <num>     <num>        <num>         <num> <num>
  1:     AG 0.9986908 0.9985845 0.9993452 9.940385e-03  4.489925e-65    46
  2:   Beck 1.0000000 1.0000000 1.0000000 1.389780e-09  0.000000e+00    46
  3: Elmore 1.0000000 1.0000000 1.0000000 4.161813e-10  0.000000e+00    46
  4:     Gu 1.0000000 1.0000000 1.0000000 4.891365e-11  0.000000e+00    46
  5:  Zhang 1.0000000 1.0000000 1.0000000 5.529073e-06 8.043461e-208    46
  $AG
   formula:	mn + (mx - mn) * exp(-((t0 - t) * rsp)^a3)
    formula:	mn + (mx - mn) * exp(-((t - t0) * rau)^a5)
  pars:
               t0        mn        mx         rsp a3         rau a5
  nlminb 149.8926 0.1020656 0.7095242 0.009389263  6 0.009367765  6
  
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 1.65502e-16); attempting approx solution
  
  warning: solve(): system is singular (rcond: 2.19427e-17); attempting approx solution
  
  warning: solve(): system is singular (rcond: 1.65502e-16); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 1.33432e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
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  warning: solve(): system is singular; attempting approx solution
  
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  warning: solve(): system is singular; attempting approx solution
  
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  warning: solve(): system is singular (rcond: 2.38811e-17); attempting approx solution
  
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  warning: solve(): system is singular (rcond: 1.33432e-17); attempting approx solution
  
  warning: solve(): system is singular (rcond: 3.31005e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
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  warning: solve(): system is singular (rcond: 3.08395e-17); attempting approx solution
  
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  warning: solve(): system is singular (rcond: 2.36432e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
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  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 6.97437e-18); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 1.85037e-16); attempting approx solution
  
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  warning: solve(): system is singular (rcond: 2.80681e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 5.43896e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 2.38811e-17); attempting approx solution
  
  warning: solve(): system is singular (rcond: 3.05447e-17); attempting approx solution
  
  warning: solve(): system is singular (rcond: 2.11109e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 6.04329e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
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  warning: solve(): system is singular (rcond: 1.85037e-16); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 2.80681e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 5.43896e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
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  warning: solve(): system is singular (rcond: 3.31005e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
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  warning: solve(): system is singular; attempting approx solution
  
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  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 2.38811e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 3.31005e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 2.38811e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
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  warning: solve(): system is singular (rcond: 1.94249e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 3.84957e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 3.31005e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 8.58712e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 2.38811e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 2.09346e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 3.82199e-17); attempting approx solution
  
  warning: solve(): system is singular (rcond: 2.38705e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 2.38811e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 5.88785e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 1.85037e-16); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 7.40149e-17); attempting approx solution
  
  warning: solve(): system is singular (rcond: 6.20634e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 2.38811e-17); attempting approx solution
  
  warning: solve(): system is singular (rcond: 3.05447e-17); attempting approx solution
  
  warning: solve(): system is singular (rcond: 2.11109e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 5.43896e-17); attempting approx solution
  
  warning: solve(): system is singular (rcond: 4.38854e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 1.00786e-16); attempting approx solution
  
  warning: solve(): system is singular (rcond: 1.46031e-17); attempting approx solution
  
  warning: solve(): system is singular (rcond: 5.02097e-17); attempting approx solution
  
  warning: solve(): system is singular (rcond: 1.25524e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 3.31005e-17); attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular; attempting approx solution
  
  warning: solve(): system is singular (rcond: 3.31005e-17); attempting approx solution
  [ FAIL 1 | WARN 2 | SKIP 0 | PASS 69 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-curvefit.R:18:5'): curvefit works ────────────────────────────
  all.equal(p1, p2, tolerance = 1e-06) is not TRUE
  
  `actual` is a character vector ('Component "Elmore": Component "mn": Mean relative difference: 1.990404e-06')
  `expected` is a logical vector (TRUE)
  
  [ FAIL 1 | WARN 2 | SKIP 0 | PASS 69 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [34s/44s] OK
* checking PDF version of manual ... [7s/10s] OK
* checking HTML version of manual ... [4s/7s] OK
* checking for non-standard things in the check directory ... OK
* DONE
Status: 1 ERROR