* using log directory 'd:/Rcompile/CRANpkg/local/3.5/vegan.Rcheck' * using R version 3.5.3 (2019-03-11) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * checking for file 'vegan/DESCRIPTION' ... OK * this is package 'vegan' version '2.5-6' * 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 hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'vegan' can be installed ... OK * checking installed package size ... 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 R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * loading checks for arch 'i386' ** 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 use of S3 registration ... OK * loading checks for arch 'x64' ** 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 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 ... [81s] 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 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 pragmas in C/C++ headers and code ... OK * checking compiled code ... OK * checking sizes of PDF files under 'inst/doc' ... OK * checking installed files from 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... [54s] OK ** running examples for arch 'x64' ... [59s] OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... [17s] OK Running 'cca-object-tests.R' [5s] Comparing 'cca-object-tests.Rout' to 'cca-object-tests.Rout.save' ...763c763 < [1] 0.055799 --- > [1] 0.054162 877c877 < Model 4 0.45 1.27 0.18 --- > Model 4 0.45 1.27 0.26 890c890 < Model 4 16.8 1.32 0.08 . --- > Model 4 16.8 1.32 0.18 892,893d891 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 905c903 < Model 4 6.14 1.22 0.14 --- > Model 4 6.14 1.22 0.22 918c916 < Model 4 1.07 1.59 0.12 --- > Model 4 1.07 1.59 0.16 931c929 < Model 4 1.03 1.73 0.1 --- > Model 4 1.03 1.73 0.14 944c942 < Model 4 213 1.41 0.1 --- > Model 4 213 1.41 0.14 957c955 < Model 4 203 1.57 0.04 * --- > Model 4 203 1.57 0.12 959,960d956 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 979,980c975,976 < Manure 3 86.5 1.03 0.30 < A1 1 89.0 2.00 0.08 . --- > Manure 3 86.5 1.03 0.46 > A1 1 89.0 2.00 0.04 * 987c983 < Manure 3 87.4 1.30 0.10 --- > Manure 3 87.4 1.30 0.22 993,994c989,990 < Manure 3 68.2 1.12 0.3 < A1 1 69.6 1.48 0.2 --- > Manure 3 68.2 1.12 0.34 > A1 1 69.6 1.48 0.14 999c995 < Manure 3 28.4 1.24 0.20 --- > Manure 3 28.4 1.24 0.26 1005,1006c1001,1002 < Manure 3 26.4 1.32 0.2 < A1 1 28.4 2.46 0.1 --- > Manure 3 26.4 1.32 0.26 > A1 1 28.4 2.46 0.10 1015c1011 < Model 4 0.45 1.27 0.18 --- > Model 4 0.45 1.27 0.26 1024c1020 < Model 4 16.8 1.32 0.08 . --- > Model 4 16.8 1.32 0.18 1026,1027d1021 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1035c1029 < Model 4 6.14 1.22 0.14 --- > Model 4 6.14 1.22 0.22 1044c1038 < Model 4 1.07 1.59 0.12 --- > Model 4 1.07 1.59 0.16 1053c1047 < Model 4 1.03 1.73 0.1 --- > Model 4 1.03 1.73 0.14 1062c1056 < Model 4 213 1.41 0.1 --- > Model 4 213 1.41 0.14 1071c1065 < Model 4 203 1.57 0.04 * --- > Model 4 203 1.57 0.12 1073,1074d1066 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1091,1092c1083,1084 < Manure 3 0.273 1.03 0.34 < A1 1 0.177 2.00 0.08 . --- > Manure 3 0.273 1.03 0.46 > A1 1 0.177 2.00 0.04 * 1104c1096 < Manure 3 13.3 1.40 0.04 * --- > Manure 3 13.3 1.40 0.14 1107,1108d1098 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1117,1118c1107,1108 < Manure 3 4.28 1.14 0.24 < A1 1 1.86 1.48 0.20 --- > Manure 3 4.28 1.14 0.36 > A1 1 1.86 1.48 0.14 1128c1118 < Manure 3 0.703 1.39 0.14 --- > Manure 3 0.703 1.39 0.22 1139c1129 < Manure 3 0.667 1.49 0.14 --- > Manure 3 0.667 1.49 0.22 1150,1151c1140,1141 < Manure 3 173 1.53 0.04 * < A1 1 40 1.07 0.40 --- > Manure 3 173 1.53 0.12 > A1 1 40 1.07 0.34 1153,1154d1142 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1163,1164c1151,1152 < Manure 3 163 1.68 0.04 * < A1 1 39 1.22 0.36 --- > Manure 3 163 1.68 0.10 > A1 1 39 1.22 0.28 1166,1167d1153 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1177,1178c1163,1164 < Manure 3 0.274 1.03 0.30 < A1 1 0.177 2.00 0.08 . --- > Manure 3 0.274 1.03 0.46 > A1 1 0.177 2.00 0.04 * 1190c1176 < Manure 3 12.4 1.30 0.10 --- > Manure 3 12.4 1.30 0.22 1201,1202c1187,1188 < Manure 3 4.21 1.12 0.3 < A1 1 1.86 1.48 0.2 --- > Manure 3 4.21 1.12 0.34 > A1 1 1.86 1.48 0.14 1212c1198 < Manure 3 0.627 1.24 0.20 --- > Manure 3 0.627 1.24 0.26 1223,1224c1209,1210 < Manure 3 0.594 1.32 0.2 < A1 1 0.367 2.46 0.1 --- > Manure 3 0.594 1.32 0.26 > A1 1 0.367 2.46 0.10 1234,1235c1220,1221 < Manure 3 165 1.46 0.08 . < A1 1 40 1.07 0.40 --- > Manure 3 165 1.46 0.18 > A1 1 40 1.07 0.34 1237,1238d1222 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1247,1248c1231,1232 < Manure 3 155 1.60 0.06 . < A1 1 39 1.22 0.36 --- > Manure 3 155 1.60 0.18 > A1 1 39 1.22 0.28 1250,1251d1233 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1261,1264c1243,1246 < CCA1 1 0.223 2.52 0.14 < CCA2 1 0.123 1.39 0.70 < CCA3 1 0.064 0.72 1.00 < CCA4 1 0.041 0.46 0.90 --- > CCA1 1 0.223 2.52 0.24 > CCA2 1 0.123 1.39 0.58 > CCA3 1 0.064 0.72 0.98 > CCA4 1 0.041 0.46 0.94 1274,1276c1256,1258 < RDA1 1 8.5 2.69 0.08 . < RDA2 1 4.3 1.36 0.72 < RDA3 1 2.2 0.69 0.96 --- > RDA1 1 8.5 2.69 0.14 > RDA2 1 4.3 1.36 0.60 > RDA3 1 2.2 0.69 0.98 1279,1280d1260 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1289,1292c1269,1272 < RDA1 1 2.61 2.08 0.18 < RDA2 1 1.70 1.35 0.76 < RDA3 1 1.10 0.88 0.96 < RDA4 1 0.73 0.58 0.88 --- > RDA1 1 2.61 2.08 0.32 > RDA2 1 1.70 1.35 0.68 > RDA3 1 1.10 0.88 0.92 > RDA4 1 0.73 0.58 0.84 1302,1305c1282,1285 < CAP1 1 0.674 4.00 0.12 < CAP2 1 0.243 1.44 0.78 < CAP3 1 0.105 0.62 0.94 < CAP4 1 0.051 0.30 0.98 --- > CAP1 1 0.674 4.00 0.16 > CAP2 1 0.243 1.44 0.62 > CAP3 1 0.105 0.62 0.96 > CAP4 1 0.051 0.30 0.94 1315,1318c1295,1298 < dbRDA1 1 0.667 4.45 0.10 < dbRDA2 1 0.238 1.59 0.76 < dbRDA3 1 0.091 0.61 0.94 < dbRDA4 1 0.038 0.26 0.96 --- > dbRDA1 1 0.667 4.45 0.16 > dbRDA2 1 0.238 1.59 0.60 > dbRDA3 1 0.091 0.61 0.96 > dbRDA4 1 0.038 0.26 0.94 1328,1330c1308,1310 < CAP1 1 126 3.33 0.14 < CAP2 1 49 1.31 0.80 < CAP3 1 24 0.64 0.98 --- > CAP1 1 126 3.33 0.18 > CAP2 1 49 1.31 0.72 > CAP3 1 24 0.64 1.00 1341,1344c1321,1324 < dbRDA1 1 123 3.81 0.12 < dbRDA2 1 47 1.47 0.74 < dbRDA3 1 22 0.68 0.96 < dbRDA4 1 10 0.31 0.88 --- > dbRDA1 1 123 3.81 0.16 > dbRDA2 1 47 1.47 0.70 > dbRDA3 1 22 0.68 0.98 > dbRDA4 1 10 0.31 0.84 Running 'oecosimu-tests.R' [3s] Comparing 'oecosimu-tests.Rout' to 'oecosimu-tests.Rout.save' ... OK Running 'vegan-tests.R' [7s] Comparing 'vegan-tests.Rout' to 'vegan-tests.Rout.save' ...61c61 < Management 3 0.82392 1.7163 0.03 * --- > Management 3 0.82392 1.7163 0.02 * 63c63 < spno 1 0.08318 0.5198 0.96 --- > spno 1 0.08318 0.5198 0.95 75,76c75,76 < Management 3 0.55418 1.1544 0.21 < poly(A1, 2) 2 0.32940 1.0292 0.44 --- > Management 3 0.55418 1.1544 0.25 > poly(A1, 2) 2 0.32940 1.0292 0.30 87,92c87,92 < CCA1 1 0.46993 2.9366 0.07 . < CCA2 1 0.26217 1.6384 0.75 < CCA3 1 0.19308 1.2066 0.97 < CCA4 1 0.18345 1.1464 0.90 < CCA5 1 0.08871 0.5544 0.98 < CCA6 1 0.06104 0.3815 0.93 --- > CCA1 1 0.46993 2.9366 0.09 . > CCA2 1 0.26217 1.6384 0.80 > CCA3 1 0.19308 1.2066 0.89 > CCA4 1 0.18345 1.1464 0.84 > CCA5 1 0.08871 0.5544 0.99 > CCA6 1 0.06104 0.3815 0.90 105c105 < Model 6 59.582 1.6462 0.04 * --- > Model 6 59.582 1.6462 0.03 * 118,119c118,119 < poly(A1, 2) 2 10.150 0.8413 0.63 < spno 1 3.167 0.5250 0.79 --- > poly(A1, 2) 2 10.150 0.8413 0.69 > spno 1 3.167 0.5250 0.91 131,133c131,133 < Management 3 28.7515 1.5888 0.13 < poly(A1, 2) 2 8.0847 0.6701 0.88 < spno 1 3.1669 0.5250 0.90 --- > Management 3 28.7515 1.5888 0.05 * > poly(A1, 2) 2 8.0847 0.6701 0.92 > spno 1 3.1669 0.5250 0.93 134a135,136 > --- > Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 143,147c145,149 < CAP1 1 25.0252 4.1487 0.03 * < CAP2 1 15.8759 2.6319 0.39 < CAP3 1 8.0942 1.3419 0.78 < CAP4 1 5.0675 0.8401 0.95 < CAP5 1 3.5671 0.5914 0.96 --- > CAP1 1 25.0252 4.1487 0.02 * > CAP2 1 15.8759 2.6319 0.45 > CAP3 1 8.0942 1.3419 0.88 > CAP4 1 5.0675 0.8401 0.96 > CAP5 1 3.5671 0.5914 0.95 162c164 < Model 6 1.54840 1.6423 0.14 --- > Model 6 1.54840 1.6423 0.13 172,174c174,176 < Management 3 1.17117 2.4844 0.02 * < poly(A1, 2) 2 0.30602 0.9737 0.53 < spno 1 0.07121 0.4532 0.84 --- > Management 3 1.17117 2.4844 0.06 . > poly(A1, 2) 2 0.30602 0.9737 0.54 > spno 1 0.07121 0.4532 0.85 186,188c188,190 < Management 3 0.64888 1.3765 0.22 < poly(A1, 2) 2 0.26160 0.8324 0.69 < spno 1 0.07121 0.4532 0.91 --- > Management 3 0.64888 1.3765 0.25 > poly(A1, 2) 2 0.26160 0.8324 0.66 > spno 1 0.07121 0.4532 0.86 198,201c200,203 < CAP1 1 0.77834 4.9533 0.13 < CAP2 1 0.45691 2.9078 0.48 < CAP3 1 0.14701 0.9355 0.98 < CAP4 1 0.11879 0.7560 0.96 --- > CAP1 1 0.77834 4.9533 0.09 . > CAP2 1 0.45691 2.9078 0.39 > CAP3 1 0.14701 0.9355 1.00 > CAP4 1 0.11879 0.7560 0.97 204a207,208 > --- > Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 215c219 < Model 6 1.25838 1.3106 0.11 --- > Model 6 1.25838 1.3106 0.18 227c231 < Management 3 0.82392 1.7163 0.02 * --- > Management 3 0.82392 1.7163 0.03 * 229c233 < spno 1 0.08318 0.5198 0.95 --- > spno 1 0.08318 0.5198 0.96 241,243c245,247 < Management 3 0.55418 1.1544 0.33 < poly(A1, 2) 2 0.32940 1.0292 0.44 < spno 1 0.08318 0.5198 0.94 --- > Management 3 0.55418 1.1544 0.28 > poly(A1, 2) 2 0.32940 1.0292 0.46 > spno 1 0.08318 0.5198 0.96 253c257 < CCA1 1 0.46993 2.9366 0.05 * --- > CCA1 1 0.46993 2.9366 0.10 255,257c259,261 < CCA3 1 0.19308 1.2066 0.93 < CCA4 1 0.18345 1.1464 0.88 < CCA5 1 0.08871 0.5544 0.97 --- > CCA3 1 0.19308 1.2066 0.95 > CCA4 1 0.18345 1.1464 0.85 > CCA5 1 0.08871 0.5544 0.96 260,261d263 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 404,407c406,409 < CCA1 1 0.27109 2.9561 0.09 . < CCA2 1 0.14057 1.5329 0.56 < CCA3 1 0.08761 0.9553 0.78 < CCA4 1 0.05624 0.6132 0.76 --- > CCA1 1 0.27109 2.9561 0.07 . > CCA2 1 0.14057 1.5329 0.48 > CCA3 1 0.08761 0.9553 0.85 > CCA4 1 0.05624 0.6132 0.84 443,445c445,447 < CAP1 1 0.2682 1.3075 0.783 < CAP2 1 0.0685 0.3339 0.998 < CAP3 1 0.0455 0.2217 0.967 --- > CAP1 1 0.2682 1.3075 0.779 > CAP2 1 0.0685 0.3339 0.997 > CAP3 1 0.0455 0.2217 0.964 456,457c458,459 < A 1 0.1316 0.6415 0.680 < B 2 0.2506 0.6108 0.824 --- > A 1 0.1316 0.6415 0.696 > B 2 0.2506 0.6108 0.821 471,473c473,475 < CAP1 1 0.2682 1.3267 0.764 < CAP2 1 0.0685 0.3388 0.993 < CAP3 1 0.0455 0.2249 0.964 --- > CAP1 1 0.2682 1.3267 0.785 > CAP2 1 0.0685 0.3388 0.995 > CAP3 1 0.0455 0.2249 0.961 484,485c486,487 < A 1 0.1316 0.6509 0.693 < B 2 0.2506 0.6198 0.829 --- > A 1 0.1316 0.6509 0.665 > B 2 0.2506 0.6198 0.834 499c501 < RDA1 1 0.2682 1.3075 0.774 --- > RDA1 1 0.2682 1.3075 0.770 501c503 < RDA3 1 0.0455 0.2217 0.964 --- > RDA3 1 0.0455 0.2217 0.962 512,513c514,515 < A 1 0.1316 0.6415 0.669 < B 2 0.2506 0.6108 0.827 --- > A 1 0.1316 0.6415 0.656 > B 2 0.2506 0.6108 0.825 527,529c529,531 < RDA1 1 0.2682 1.3267 0.768 < RDA2 1 0.0685 0.3388 0.995 < RDA3 1 0.0455 0.2249 0.971 --- > RDA1 1 0.2682 1.3267 0.765 > RDA2 1 0.0685 0.3388 0.996 > RDA3 1 0.0455 0.2249 0.969 540,541c542,543 < A 1 0.1316 0.6509 0.695 < B 2 0.2506 0.6198 0.820 --- > A 1 0.1316 0.6509 0.690 > B 2 0.2506 0.6198 0.823 566,570c568,572 < A1 1 0.22476 2.5704 0.010 ** < Moisture 3 0.51898 1.9783 0.009 ** < Management 3 0.39543 1.5074 0.064 . < Use 2 0.10910 0.6238 0.922 < Manure 3 0.25490 0.9717 0.519 --- > A1 1 0.22476 2.5704 0.012 * > Moisture 3 0.51898 1.9783 0.005 ** > Management 3 0.39543 1.5074 0.055 . > Use 2 0.10910 0.6238 0.927 > Manure 3 0.25490 0.9717 0.518 583,587c585,589 < A1 1 8.1148 2.7156 0.008 ** < Moisture 3 21.6497 2.4150 0.008 ** < Management 3 19.1153 2.1323 0.009 ** < Use 2 4.7007 0.7865 0.730 < Manure 3 9.6257 1.0737 0.377 --- > A1 1 8.1148 2.7156 0.009 ** > Moisture 3 21.6497 2.4150 0.004 ** > Management 3 19.1153 2.1323 0.007 ** > Use 2 4.7007 0.7865 0.724 > Manure 3 9.6257 1.0737 0.360 612c614 < Manure 4 4.7257 5.7006 0.009 ** --- > Manure 4 4.7257 5.7006 0.011 * 673,675c675,677 < Procrustes Sum of Squares (m12 squared): 0.9147 < Correlation in a symmetric Procrustes rotation: 0.292 < Significance: 0.08 --- > Procrustes Sum of Squares (m12 squared): 0.9389 > Correlation in a symmetric Procrustes rotation: 0.2471 > Significance: 0.46 681,695c683,697 < [1] 0.2056649 0.2008622 0.2062525 0.2656158 0.2739148 0.1990895 0.3124461 < [8] 0.2287779 0.2033140 0.2396172 0.1868019 0.2736072 0.1830199 0.2026019 < [15] 0.2402570 0.2286169 0.2791609 0.2214468 0.2356083 0.2188325 0.2097262 < [22] 0.2596154 0.2560289 0.2190367 0.2174689 0.2438396 0.1991101 0.2374612 < [29] 0.2030745 0.2205115 0.2566758 0.1448623 0.2354268 0.2419134 0.3144177 < [36] 0.2368505 0.2442661 0.2272011 0.3184241 0.2200089 0.2598430 0.2301587 < [43] 0.2763337 0.2332606 0.1935269 0.2315727 0.2573623 0.2021127 0.2387335 < [50] 0.2419087 0.2213094 0.2231619 0.2577845 0.2828219 0.2554605 0.2830915 < [57] 0.2342396 0.2137396 0.2151201 0.2432896 0.1956238 0.2055716 0.2329736 < [64] 0.2086125 0.2039124 0.1955711 0.2038045 0.2358886 0.2579199 0.1808128 < [71] 0.2155189 0.2967100 0.2480105 0.2010537 0.2718478 0.2182713 0.2471893 < [78] 0.2310223 0.2007771 0.2902640 0.2392380 0.2551756 0.3476679 0.2632614 < [85] 0.2289929 0.2222382 0.2503562 0.1983700 0.2084773 0.2406556 0.2478302 < [92] 0.2136439 0.3251671 0.2048928 0.3098776 0.2501555 0.2677039 0.2427125 < [99] 0.2693285 --- > [1] 0.2142734 0.2317691 0.2325867 0.2318738 0.2297942 0.2547687 0.2150992 > [8] 0.2856655 0.2323035 0.2430091 0.2607687 0.2653226 0.2127120 0.2482851 > [15] 0.3044707 0.2797892 0.2644764 0.2560291 0.2916665 0.2330199 0.2434141 > [22] 0.2891063 0.2871878 0.2609612 0.2158827 0.2297220 0.2417230 0.2244848 > [29] 0.2177450 0.2528551 0.2616422 0.2584395 0.2412174 0.2244347 0.2264776 > [36] 0.2244727 0.1973865 0.2837535 0.2634514 0.2823068 0.2699507 0.2750179 > [43] 0.2628074 0.2458801 0.2635264 0.2801017 0.2296173 0.1947667 0.2929171 > [50] 0.2422339 0.1831137 0.2688563 0.2555202 0.2043385 0.2287129 0.2366098 > [57] 0.2141830 0.1858646 0.2616734 0.1974915 0.3197986 0.2245312 0.2712518 > [64] 0.2171044 0.2241602 0.2100868 0.2183290 0.2143512 0.2642714 0.2572791 > [71] 0.2806032 0.2401609 0.2063171 0.2016924 0.2684739 0.2484569 0.2200211 > [78] 0.2487178 0.1925942 0.2957915 0.2991842 0.2359773 0.2440686 0.2504427 > [85] 0.2919524 0.2324999 0.2086198 0.2298386 0.2727169 0.3253668 0.2292110 > [92] 0.2193247 0.3517265 0.2777563 0.3713275 0.2330743 0.1986322 0.2027622 > [99] 0.2281227 ** running tests for arch 'x64' ... [17s] OK Running 'cca-object-tests.R' [5s] Comparing 'cca-object-tests.Rout' to 'cca-object-tests.Rout.save' ...763c763 < [1] 0.055799 --- > [1] 0.054162 877c877 < Model 4 0.45 1.27 0.18 --- > Model 4 0.45 1.27 0.26 890c890 < Model 4 16.8 1.32 0.08 . --- > Model 4 16.8 1.32 0.18 892,893d891 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 905c903 < Model 4 6.14 1.22 0.14 --- > Model 4 6.14 1.22 0.22 918c916 < Model 4 1.07 1.59 0.12 --- > Model 4 1.07 1.59 0.16 931c929 < Model 4 1.03 1.73 0.1 --- > Model 4 1.03 1.73 0.14 944c942 < Model 4 213 1.41 0.1 --- > Model 4 213 1.41 0.14 957c955 < Model 4 203 1.57 0.04 * --- > Model 4 203 1.57 0.12 959,960d956 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 979,980c975,976 < Manure 3 86.5 1.03 0.30 < A1 1 89.0 2.00 0.08 . --- > Manure 3 86.5 1.03 0.46 > A1 1 89.0 2.00 0.04 * 987c983 < Manure 3 87.4 1.30 0.10 --- > Manure 3 87.4 1.30 0.22 993,994c989,990 < Manure 3 68.2 1.12 0.3 < A1 1 69.6 1.48 0.2 --- > Manure 3 68.2 1.12 0.34 > A1 1 69.6 1.48 0.14 999c995 < Manure 3 28.4 1.24 0.20 --- > Manure 3 28.4 1.24 0.26 1005,1006c1001,1002 < Manure 3 26.4 1.32 0.2 < A1 1 28.4 2.46 0.1 --- > Manure 3 26.4 1.32 0.26 > A1 1 28.4 2.46 0.10 1015c1011 < Model 4 0.45 1.27 0.18 --- > Model 4 0.45 1.27 0.26 1024c1020 < Model 4 16.8 1.32 0.08 . --- > Model 4 16.8 1.32 0.18 1026,1027d1021 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1035c1029 < Model 4 6.14 1.22 0.14 --- > Model 4 6.14 1.22 0.22 1044c1038 < Model 4 1.07 1.59 0.12 --- > Model 4 1.07 1.59 0.16 1053c1047 < Model 4 1.03 1.73 0.1 --- > Model 4 1.03 1.73 0.14 1062c1056 < Model 4 213 1.41 0.1 --- > Model 4 213 1.41 0.14 1071c1065 < Model 4 203 1.57 0.04 * --- > Model 4 203 1.57 0.12 1073,1074d1066 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1091,1092c1083,1084 < Manure 3 0.273 1.03 0.34 < A1 1 0.177 2.00 0.08 . --- > Manure 3 0.273 1.03 0.46 > A1 1 0.177 2.00 0.04 * 1104c1096 < Manure 3 13.3 1.40 0.04 * --- > Manure 3 13.3 1.40 0.14 1107,1108d1098 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1117,1118c1107,1108 < Manure 3 4.28 1.14 0.24 < A1 1 1.86 1.48 0.20 --- > Manure 3 4.28 1.14 0.36 > A1 1 1.86 1.48 0.14 1128c1118 < Manure 3 0.703 1.39 0.14 --- > Manure 3 0.703 1.39 0.22 1139c1129 < Manure 3 0.667 1.49 0.14 --- > Manure 3 0.667 1.49 0.22 1150,1151c1140,1141 < Manure 3 173 1.53 0.04 * < A1 1 40 1.07 0.40 --- > Manure 3 173 1.53 0.12 > A1 1 40 1.07 0.34 1153,1154d1142 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1163,1164c1151,1152 < Manure 3 163 1.68 0.04 * < A1 1 39 1.22 0.36 --- > Manure 3 163 1.68 0.10 > A1 1 39 1.22 0.28 1166,1167d1153 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1177,1178c1163,1164 < Manure 3 0.274 1.03 0.30 < A1 1 0.177 2.00 0.08 . --- > Manure 3 0.274 1.03 0.46 > A1 1 0.177 2.00 0.04 * 1190c1176 < Manure 3 12.4 1.30 0.10 --- > Manure 3 12.4 1.30 0.22 1201,1202c1187,1188 < Manure 3 4.21 1.12 0.3 < A1 1 1.86 1.48 0.2 --- > Manure 3 4.21 1.12 0.34 > A1 1 1.86 1.48 0.14 1212c1198 < Manure 3 0.627 1.24 0.20 --- > Manure 3 0.627 1.24 0.26 1223,1224c1209,1210 < Manure 3 0.594 1.32 0.2 < A1 1 0.367 2.46 0.1 --- > Manure 3 0.594 1.32 0.26 > A1 1 0.367 2.46 0.10 1234,1235c1220,1221 < Manure 3 165 1.46 0.08 . < A1 1 40 1.07 0.40 --- > Manure 3 165 1.46 0.18 > A1 1 40 1.07 0.34 1237,1238d1222 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1247,1248c1231,1232 < Manure 3 155 1.60 0.06 . < A1 1 39 1.22 0.36 --- > Manure 3 155 1.60 0.18 > A1 1 39 1.22 0.28 1250,1251d1233 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1261,1264c1243,1246 < CCA1 1 0.223 2.52 0.14 < CCA2 1 0.123 1.39 0.70 < CCA3 1 0.064 0.72 1.00 < CCA4 1 0.041 0.46 0.90 --- > CCA1 1 0.223 2.52 0.24 > CCA2 1 0.123 1.39 0.58 > CCA3 1 0.064 0.72 0.98 > CCA4 1 0.041 0.46 0.94 1274,1276c1256,1258 < RDA1 1 8.5 2.69 0.08 . < RDA2 1 4.3 1.36 0.72 < RDA3 1 2.2 0.69 0.96 --- > RDA1 1 8.5 2.69 0.14 > RDA2 1 4.3 1.36 0.60 > RDA3 1 2.2 0.69 0.98 1279,1280d1260 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 1289,1292c1269,1272 < RDA1 1 2.61 2.08 0.18 < RDA2 1 1.70 1.35 0.76 < RDA3 1 1.10 0.88 0.96 < RDA4 1 0.73 0.58 0.88 --- > RDA1 1 2.61 2.08 0.32 > RDA2 1 1.70 1.35 0.68 > RDA3 1 1.10 0.88 0.92 > RDA4 1 0.73 0.58 0.84 1302,1305c1282,1285 < CAP1 1 0.674 4.00 0.12 < CAP2 1 0.243 1.44 0.78 < CAP3 1 0.105 0.62 0.94 < CAP4 1 0.051 0.30 0.98 --- > CAP1 1 0.674 4.00 0.16 > CAP2 1 0.243 1.44 0.62 > CAP3 1 0.105 0.62 0.96 > CAP4 1 0.051 0.30 0.94 1315,1318c1295,1298 < dbRDA1 1 0.667 4.45 0.10 < dbRDA2 1 0.238 1.59 0.76 < dbRDA3 1 0.091 0.61 0.94 < dbRDA4 1 0.038 0.26 0.96 --- > dbRDA1 1 0.667 4.45 0.16 > dbRDA2 1 0.238 1.59 0.60 > dbRDA3 1 0.091 0.61 0.96 > dbRDA4 1 0.038 0.26 0.94 1328,1330c1308,1310 < CAP1 1 126 3.33 0.14 < CAP2 1 49 1.31 0.80 < CAP3 1 24 0.64 0.98 --- > CAP1 1 126 3.33 0.18 > CAP2 1 49 1.31 0.72 > CAP3 1 24 0.64 1.00 1341,1344c1321,1324 < dbRDA1 1 123 3.81 0.12 < dbRDA2 1 47 1.47 0.74 < dbRDA3 1 22 0.68 0.96 < dbRDA4 1 10 0.31 0.88 --- > dbRDA1 1 123 3.81 0.16 > dbRDA2 1 47 1.47 0.70 > dbRDA3 1 22 0.68 0.98 > dbRDA4 1 10 0.31 0.84 Running 'oecosimu-tests.R' [4s] Comparing 'oecosimu-tests.Rout' to 'oecosimu-tests.Rout.save' ... OK Running 'vegan-tests.R' [8s] Comparing 'vegan-tests.Rout' to 'vegan-tests.Rout.save' ...61c61 < Management 3 0.82392 1.7163 0.03 * --- > Management 3 0.82392 1.7163 0.02 * 63c63 < spno 1 0.08318 0.5198 0.96 --- > spno 1 0.08318 0.5198 0.95 75,76c75,76 < Management 3 0.55418 1.1544 0.21 < poly(A1, 2) 2 0.32940 1.0292 0.44 --- > Management 3 0.55418 1.1544 0.25 > poly(A1, 2) 2 0.32940 1.0292 0.30 87,92c87,92 < CCA1 1 0.46993 2.9366 0.07 . < CCA2 1 0.26217 1.6384 0.75 < CCA3 1 0.19308 1.2066 0.97 < CCA4 1 0.18345 1.1464 0.90 < CCA5 1 0.08871 0.5544 0.98 < CCA6 1 0.06104 0.3815 0.93 --- > CCA1 1 0.46993 2.9366 0.09 . > CCA2 1 0.26217 1.6384 0.80 > CCA3 1 0.19308 1.2066 0.89 > CCA4 1 0.18345 1.1464 0.84 > CCA5 1 0.08871 0.5544 0.99 > CCA6 1 0.06104 0.3815 0.90 105c105 < Model 6 59.582 1.6462 0.04 * --- > Model 6 59.582 1.6462 0.03 * 118,119c118,119 < poly(A1, 2) 2 10.150 0.8413 0.63 < spno 1 3.167 0.5250 0.79 --- > poly(A1, 2) 2 10.150 0.8413 0.69 > spno 1 3.167 0.5250 0.91 131,133c131,133 < Management 3 28.7515 1.5888 0.13 < poly(A1, 2) 2 8.0847 0.6701 0.88 < spno 1 3.1669 0.5250 0.90 --- > Management 3 28.7515 1.5888 0.05 * > poly(A1, 2) 2 8.0847 0.6701 0.92 > spno 1 3.1669 0.5250 0.93 134a135,136 > --- > Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 143,147c145,149 < CAP1 1 25.0252 4.1487 0.03 * < CAP2 1 15.8759 2.6319 0.39 < CAP3 1 8.0942 1.3419 0.78 < CAP4 1 5.0675 0.8401 0.95 < CAP5 1 3.5671 0.5914 0.96 --- > CAP1 1 25.0252 4.1487 0.02 * > CAP2 1 15.8759 2.6319 0.45 > CAP3 1 8.0942 1.3419 0.88 > CAP4 1 5.0675 0.8401 0.96 > CAP5 1 3.5671 0.5914 0.95 162c164 < Model 6 1.54840 1.6423 0.14 --- > Model 6 1.54840 1.6423 0.13 172,174c174,176 < Management 3 1.17117 2.4844 0.02 * < poly(A1, 2) 2 0.30602 0.9737 0.53 < spno 1 0.07121 0.4532 0.84 --- > Management 3 1.17117 2.4844 0.06 . > poly(A1, 2) 2 0.30602 0.9737 0.54 > spno 1 0.07121 0.4532 0.85 186,188c188,190 < Management 3 0.64888 1.3765 0.22 < poly(A1, 2) 2 0.26160 0.8324 0.69 < spno 1 0.07121 0.4532 0.91 --- > Management 3 0.64888 1.3765 0.25 > poly(A1, 2) 2 0.26160 0.8324 0.66 > spno 1 0.07121 0.4532 0.86 198,201c200,203 < CAP1 1 0.77834 4.9533 0.13 < CAP2 1 0.45691 2.9078 0.48 < CAP3 1 0.14701 0.9355 0.98 < CAP4 1 0.11879 0.7560 0.96 --- > CAP1 1 0.77834 4.9533 0.09 . > CAP2 1 0.45691 2.9078 0.39 > CAP3 1 0.14701 0.9355 1.00 > CAP4 1 0.11879 0.7560 0.97 204a207,208 > --- > Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 215c219 < Model 6 1.25838 1.3106 0.11 --- > Model 6 1.25838 1.3106 0.18 227c231 < Management 3 0.82392 1.7163 0.02 * --- > Management 3 0.82392 1.7163 0.03 * 229c233 < spno 1 0.08318 0.5198 0.95 --- > spno 1 0.08318 0.5198 0.96 241,243c245,247 < Management 3 0.55418 1.1544 0.33 < poly(A1, 2) 2 0.32940 1.0292 0.44 < spno 1 0.08318 0.5198 0.94 --- > Management 3 0.55418 1.1544 0.28 > poly(A1, 2) 2 0.32940 1.0292 0.46 > spno 1 0.08318 0.5198 0.96 253c257 < CCA1 1 0.46993 2.9366 0.05 * --- > CCA1 1 0.46993 2.9366 0.10 255,257c259,261 < CCA3 1 0.19308 1.2066 0.93 < CCA4 1 0.18345 1.1464 0.88 < CCA5 1 0.08871 0.5544 0.97 --- > CCA3 1 0.19308 1.2066 0.95 > CCA4 1 0.18345 1.1464 0.85 > CCA5 1 0.08871 0.5544 0.96 260,261d263 < --- < Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 404,407c406,409 < CCA1 1 0.27109 2.9561 0.09 . < CCA2 1 0.14057 1.5329 0.56 < CCA3 1 0.08761 0.9553 0.78 < CCA4 1 0.05624 0.6132 0.76 --- > CCA1 1 0.27109 2.9561 0.07 . > CCA2 1 0.14057 1.5329 0.48 > CCA3 1 0.08761 0.9553 0.85 > CCA4 1 0.05624 0.6132 0.84 443,445c445,447 < CAP1 1 0.2682 1.3075 0.783 < CAP2 1 0.0685 0.3339 0.998 < CAP3 1 0.0455 0.2217 0.967 --- > CAP1 1 0.2682 1.3075 0.779 > CAP2 1 0.0685 0.3339 0.997 > CAP3 1 0.0455 0.2217 0.964 456,457c458,459 < A 1 0.1316 0.6415 0.680 < B 2 0.2506 0.6108 0.824 --- > A 1 0.1316 0.6415 0.696 > B 2 0.2506 0.6108 0.821 471,473c473,475 < CAP1 1 0.2682 1.3267 0.764 < CAP2 1 0.0685 0.3388 0.993 < CAP3 1 0.0455 0.2249 0.964 --- > CAP1 1 0.2682 1.3267 0.785 > CAP2 1 0.0685 0.3388 0.995 > CAP3 1 0.0455 0.2249 0.961 484,485c486,487 < A 1 0.1316 0.6509 0.693 < B 2 0.2506 0.6198 0.829 --- > A 1 0.1316 0.6509 0.665 > B 2 0.2506 0.6198 0.834 499c501 < RDA1 1 0.2682 1.3075 0.774 --- > RDA1 1 0.2682 1.3075 0.770 501c503 < RDA3 1 0.0455 0.2217 0.964 --- > RDA3 1 0.0455 0.2217 0.962 512,513c514,515 < A 1 0.1316 0.6415 0.669 < B 2 0.2506 0.6108 0.827 --- > A 1 0.1316 0.6415 0.656 > B 2 0.2506 0.6108 0.825 527,529c529,531 < RDA1 1 0.2682 1.3267 0.768 < RDA2 1 0.0685 0.3388 0.995 < RDA3 1 0.0455 0.2249 0.971 --- > RDA1 1 0.2682 1.3267 0.765 > RDA2 1 0.0685 0.3388 0.996 > RDA3 1 0.0455 0.2249 0.969 540,541c542,543 < A 1 0.1316 0.6509 0.695 < B 2 0.2506 0.6198 0.820 --- > A 1 0.1316 0.6509 0.690 > B 2 0.2506 0.6198 0.823 566,570c568,572 < A1 1 0.22476 2.5704 0.010 ** < Moisture 3 0.51898 1.9783 0.009 ** < Management 3 0.39543 1.5074 0.064 . < Use 2 0.10910 0.6238 0.922 < Manure 3 0.25490 0.9717 0.519 --- > A1 1 0.22476 2.5704 0.012 * > Moisture 3 0.51898 1.9783 0.005 ** > Management 3 0.39543 1.5074 0.055 . > Use 2 0.10910 0.6238 0.927 > Manure 3 0.25490 0.9717 0.518 583,587c585,589 < A1 1 8.1148 2.7156 0.008 ** < Moisture 3 21.6497 2.4150 0.008 ** < Management 3 19.1153 2.1323 0.009 ** < Use 2 4.7007 0.7865 0.730 < Manure 3 9.6257 1.0737 0.377 --- > A1 1 8.1148 2.7156 0.009 ** > Moisture 3 21.6497 2.4150 0.004 ** > Management 3 19.1153 2.1323 0.007 ** > Use 2 4.7007 0.7865 0.724 > Manure 3 9.6257 1.0737 0.360 612c614 < Manure 4 4.7257 5.7006 0.009 ** --- > Manure 4 4.7257 5.7006 0.011 * 673,675c675,677 < Procrustes Sum of Squares (m12 squared): 0.9147 < Correlation in a symmetric Procrustes rotation: 0.292 < Significance: 0.08 --- > Procrustes Sum of Squares (m12 squared): 0.9389 > Correlation in a symmetric Procrustes rotation: 0.2471 > Significance: 0.46 681,695c683,697 < [1] 0.2056649 0.2008622 0.2062525 0.2656158 0.2739148 0.1990895 0.3124461 < [8] 0.2287779 0.2033140 0.2396172 0.1868019 0.2736072 0.1830199 0.2026019 < [15] 0.2402570 0.2286169 0.2791609 0.2214468 0.2356083 0.2188325 0.2097262 < [22] 0.2596154 0.2560289 0.2190367 0.2174689 0.2438396 0.1991101 0.2374612 < [29] 0.2030745 0.2205115 0.2566758 0.1448623 0.2354268 0.2419134 0.3144177 < [36] 0.2368505 0.2442661 0.2272011 0.3184241 0.2200089 0.2598430 0.2301587 < [43] 0.2763337 0.2332606 0.1935269 0.2315727 0.2573623 0.2021127 0.2387335 < [50] 0.2419087 0.2213094 0.2231619 0.2577845 0.2828219 0.2554605 0.2830915 < [57] 0.2342396 0.2137396 0.2151201 0.2432896 0.1956238 0.2055716 0.2329736 < [64] 0.2086125 0.2039124 0.1955711 0.2038045 0.2358886 0.2579199 0.1808128 < [71] 0.2155189 0.2967100 0.2480105 0.2010537 0.2718478 0.2182713 0.2471893 < [78] 0.2310223 0.2007771 0.2902640 0.2392380 0.2551756 0.3476679 0.2632614 < [85] 0.2289929 0.2222382 0.2503562 0.1983700 0.2084773 0.2406556 0.2478302 < [92] 0.2136439 0.3251671 0.2048928 0.3098776 0.2501555 0.2677039 0.2427125 < [99] 0.2693285 --- > [1] 0.2142734 0.2317691 0.2325867 0.2318738 0.2297942 0.2547687 0.2150992 > [8] 0.2856655 0.2323035 0.2430091 0.2607687 0.2653226 0.2127120 0.2482851 > [15] 0.3044707 0.2797892 0.2644764 0.2560291 0.2916665 0.2330199 0.2434141 > [22] 0.2891063 0.2871878 0.2609612 0.2158827 0.2297220 0.2417230 0.2244848 > [29] 0.2177450 0.2528551 0.2616422 0.2584395 0.2412174 0.2244347 0.2264776 > [36] 0.2244727 0.1973865 0.2837535 0.2634514 0.2823068 0.2699507 0.2750179 > [43] 0.2628074 0.2458801 0.2635264 0.2801017 0.2296173 0.1947667 0.2929171 > [50] 0.2422339 0.1831137 0.2688563 0.2555202 0.2043385 0.2287129 0.2366098 > [57] 0.2141830 0.1858646 0.2616734 0.1974915 0.3197986 0.2245312 0.2712518 > [64] 0.2171044 0.2241602 0.2100868 0.2183290 0.2143512 0.2642714 0.2572791 > [71] 0.2806032 0.2401609 0.2063171 0.2016924 0.2684739 0.2484569 0.2200211 > [78] 0.2487178 0.1925942 0.2957915 0.2991842 0.2359773 0.2440686 0.2504427 > [85] 0.2919524 0.2324999 0.2086198 0.2298386 0.2727169 0.3253668 0.2292110 > [92] 0.2193247 0.3517265 0.2777563 0.3713275 0.2330743 0.1986322 0.2027622 > [99] 0.2281227 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in 'inst/doc' ... OK * checking re-building of vignette outputs ... [66s] OK * checking PDF version of manual ... OK * DONE Status: OK