* using log directory ‘/Users/ripley/R/packages/tests-devel/cobs.Rcheck’ * using R Under development (unstable) (2025-04-01 r88089) * using platform: aarch64-apple-darwin24.3.0 * R was compiled by Apple clang version 17.0.0 (clang-1700.0.13.3) GNU Fortran (GCC) 14.2.0 * running under: macOS Sequoia 15.4 * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘cobs/DESCRIPTION’ ... OK * this is package ‘cobs’ version ‘1.3-9’ * 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 ‘cobs’ can be installed ... OK * used C compiler: ‘Apple clang version 17.0.0 (clang-1700.0.13.3)’ * used SDK: ‘MacOSX15.4.sdk’ * checking installed package size ... OK * checking package 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 whether startup messages can be suppressed ... 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 ... OK * checking Rd files ... OK * checking Rd metadata ... 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 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 pragmas in C/C++ headers and code ... OK * checking compilation flags used ... OK * checking compiled code ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘0_pt-ex.R’ Running ‘ex1.R’ Running ‘ex2-long.R’ Running ‘ex3.R’ Comparing ‘ex3.Rout’ to ‘ex3.Rout.save’ ...15,16c15,16 < Warning message: < In cobs(weight, height, knots = weight, nknots = length(weight)) : --- > Warning messages: > 1: In cobs(weight, height, knots = weight, nknots = length(weight)) : 18a19,20 > 2: In cobs(weight, height, knots = weight, nknots = length(weight)) : > drqssbc2(): Not all flags are normal (== 1), ifl : 18 Running ‘multi-constr.R’ Comparing ‘multi-constr.Rout’ to ‘multi-constr.Rout.save’ ...56a57,80 > Warning messages: > 1: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > > 2: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > > 3: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > > 4: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > > 5: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > > 6: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > > 7: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > > 8: In cobs(x, y, trace = 3) : > drqssbc2(): Not all flags are normal (== 1), ifl : 18 136a161,178 > Warning in cobs(x, y, degree = 1, trace = 3) : > The algorithm has not converged after 100 iterations > Warning messages: > 1: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > > 2: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > > 3: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > > 4: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > > 5: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > 180a223,229 > Warning messages: > 1: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > > 2: In rq.fit.sfn(Xeq, Yeq, tau = tau, rhs = rhs, control = rqCtrl) : > tiny diagonals replaced with Inf when calling blkfct > Running ‘roof.R’ Comparing ‘roof.Rout’ to ‘roof.Rout.save’ ... OK Running ‘small-ex.R’ Comparing ‘small-ex.Rout’ to ‘small-ex.Rout.save’ ...23a24,25 > Warning message: > In cobs(x, y) : drqssbc2(): Not all flags are normal (== 1), ifl : 18 Running ‘spline-ex.R’ Comparing ‘spline-ex.Rout’ to ‘spline-ex.Rout.save’ ... OK Running ‘temp.R’ Comparing ‘temp.Rout’ to ‘temp.Rout.save’ ...444a445,446 > Warning in cobs(year, temp, knots.add = TRUE, degree = 1, constraint = "none", : > The algorithm has not converged after 100 iterations 453a456,457 > Warning in cobs(year, temp, nknots = 9, knots.add = TRUE, degree = 1, constraint = "none", : > The algorithm has not converged after 100 iterations 459,460c463,464 < coef[1:5]: -0.40655906, -0.31473700, 0.05651823, -0.05681818, 0.28681956 < R^2 = 72.56% ; empirical tau (over all): 54/113 = 0.4778761 (target tau= 0.5) --- > coef[1:5]: -0.39324840, -0.28115087, 0.05916295, -0.07465159, 0.31227753 > R^2 = 73.22% ; empirical tau (over all): 63/113 = 0.5575221 (target tau= 0.5) 465a470,473 > > **** ERROR in algorithm: ifl = 18 > > 467a476,478 > Warning message: > In cobs(year, temp, nknots = length(a50$knots), knots = a50$knot, : > drqssbc2(): Not all flags are normal (== 1), ifl : 18 469a481,482 > Warning in cobs(year, temp, nknots = length(a50$knots), knots = a50$knot, : > The algorithm has not converged after 100 iterations 475c488,490 < [1] 10 18 21 22 47 61 68 74 78 79 102 111 --- > [1] 1 2 9 10 17 18 20 21 22 23 26 27 35 36 42 47 48 49 52 > [20] 53 58 59 61 62 63 64 65 68 73 74 78 79 80 81 82 83 84 88 > [39] 90 91 94 98 100 101 102 104 108 109 111 112 477c492,495 < [1] 5 8 25 38 39 50 54 77 85 97 113 --- > [1] 3 4 5 6 7 8 11 12 13 14 15 16 19 24 25 28 29 30 31 > [20] 32 33 34 37 38 39 40 41 43 44 45 46 50 51 54 55 56 57 60 > [39] 66 67 69 70 71 72 75 76 77 85 86 87 89 92 93 95 96 97 99 > [58] 103 105 106 107 110 113 Running ‘wind.R’ [14s/14s] NOTE * checking PDF version of manual ... OK * checking HTML version of manual ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 NOTE See ‘/Users/ripley/R/packages/tests-devel/cobs.Rcheck/00check.log’ for details. 44.87 real 38.44 user 5.14 sys