[Thu Jan 15 17:14:06 1998] Log file created [Thu Jan 15 17:15:27 1998] Settings changed [Thu Jan 15 17:15:28 1998] Running CANOCO: [Thu Jan 15 17:15:28 1998] CON file [C:\canoco\samples\LINES\Lineblk.con] saved [Thu Jan 15 17:15:38 1998] CON file [C:\canoco\samples\LINES\Lineblk.con] saved Program CANOCO Version 4.0 September 1997 - written by Cajo J.F. Ter Braak Copyright (c) 1988-1997 Centre for Biometry, CPRO-DLO Box 100, 6700 AC Wageningen, the Netherlands. CANOCO performs (partial) (detrended) (canonical) correspondence analysis, principal components analysis and redundancy analysis. CANOCO is an extension of Cornell Ecology program DECORANA (Hill,1979) For explanation of the input/output see the manual or Ter Braak, C.J.F. (1995) Ordination. Chapter 5 in: Data Analysis in Community and Landscape Ecology (Jongman, R.H.G., Ter Braak, C.J.F. and Van Tongeren, O.F.R., Eds) Cambridge University Press, Cambridge, UK, 91-173 pp. *** Type of analysis *** Model Gradient analysis indirect direct hybrid linear 1=PCA 2= RDA 3 unimodal 4= CA 5= CCA 6 ,, 7=DCA 8=DCCA 9 10=non-standard analysis Type analysis number Answer = 5 *** Data files *** Species data : PLANTSPE.DTA Covariable data : LINE_ENV.DTA Environmental data : LINE_ENV.DTA Initialization file: Forward selection of envi. variables = 1 Scaling of ordination scores = 2 Diagnostics = 3 File : PLANTSPE.DTA Title : SKABBHOLMEN SHORE DATA (126 plots, 68 species) Format : (I5,9(I5,F3.0)) No. of couplets of species number and abundance per line : 9 Sample 1 to be omitted Sample 2 to be omitted Sample 3 to be omitted Sample 4 to be omitted Sample 5 to be omitted Sample 6 to be omitted Sample 7 to be omitted Sample 8 to be omitted Sample 9 to be omitted Sample 10 to be omitted Sample 11 to be omitted Sample 12 to be omitted Sample 13 to be omitted Sample 14 to be omitted Sample 15 to be omitted Sample 16 to be omitted Sample 17 to be omitted Sample 18 to be omitted Sample 19 to be omitted Sample 20 to be omitted Sample 21 to be omitted Sample 22 to be omitted Sample 23 to be omitted Sample 47 to be omitted Sample 48 to be omitted Sample 49 to be omitted Sample 50 to be omitted Sample 51 to be omitted Sample 52 to be omitted Sample 53 to be omitted Sample 54 to be omitted Sample 55 to be omitted Sample 56 to be omitted Sample 57 to be omitted Sample 58 to be omitted Sample 59 to be omitted Sample 60 to be omitted Sample 61 to be omitted Sample 62 to be omitted Sample 63 to be omitted Sample 64 to be omitted Sample 65 to be omitted Sample 66 to be omitted Sample 67 to be omitted Sample 68 to be omitted Sample 69 to be omitted Sample 70 to be omitted Sample 71 to be omitted Sample 72 to be omitted Sample 73 to be omitted Sample 74 to be omitted Sample 75 to be omitted Sample 76 to be omitted Sample 77 to be omitted Sample 78 to be omitted Sample 79 to be omitted Sample 80 to be omitted Sample 81 to be omitted Sample 82 to be omitted Sample 83 to be omitted Sample 84 to be omitted Sample 85 to be omitted Sample 86 to be omitted Sample 87 to be omitted Sample 88 to be omitted Sample 132 to be omitted Sample 133 to be omitted Sample 134 to be omitted Sample 135 to be omitted Sample 136 to be omitted Sample 137 to be omitted Sample 138 to be omitted Sample 139 to be omitted Sample 140 to be omitted Sample 141 to be omitted Sample 142 to be omitted Sample 143 to be omitted Sample 144 to be omitted Sample 145 to be omitted Sample 146 to be omitted Sample 147 to be omitted Sample 148 to be omitted Sample 149 to be omitted Sample 150 to be omitted Sample 151 to be omitted Sample 152 to be omitted Sample 153 to be omitted Sample 154 to be omitted Sample 155 to be omitted Sample 156 to be omitted Sample 157 to be omitted Sample 158 to be omitted Sample 159 to be omitted Sample 160 to be omitted Sample 161 to be omitted Sample 162 to be omitted Sample 163 to be omitted Sample 164 to be omitted Sample 165 to be omitted Sample 200 to be omitted Sample 201 to be omitted Sample 202 to be omitted Sample 203 to be omitted Sample 204 to be omitted Sample 205 to be omitted Sample 206 to be omitted Sample 207 to be omitted Sample 208 to be omitted Sample 209 to be omitted Sample 210 to be omitted Sample 211 to be omitted Sample 212 to be omitted Sample 213 to be omitted Sample 214 to be omitted Sample 215 to be omitted Sample 216 to be omitted Sample 217 to be omitted Sample 218 to be omitted Sample 219 to be omitted Sample 220 to be omitted Sample 221 to be omitted Sample 222 to be omitted Sample 223 to be omitted Sample 224 to be omitted Sample 225 to be omitted Sample 226 to be omitted Sample 227 to be omitted Sample 228 to be omitted Sample 229 to be omitted Sample 230 to be omitted Sample 231 to be omitted Sample 232 to be omitted Number of samples 63 Number of species 129 Number of occurrences 999 File : LINE_ENV.DTA Title : SKABBHOLMEN ENVIRONMENT Format : (1X,I5,(T10,7F10.3)) No. of covariables : 12 No interaction terms defined ****************************************************************************** Names of covariables ****************************************************************************** Transct2 Transct1 Transct3 Transct4 ****************************************************************************** File : LINE_ENV.DTA Title : SKABBHOLMEN ENVIRONMENT Format : (1X,I5,(T10,7F10.3)) No. of environmental variables : 12 No interaction terms defined No transformation of species data No species-weights specified No sample-weights specified No downweighting of rare species No. of active samples: 63 No. of passive samples: 0 No. of active species: 57 Total inertia in species data= Sum of all eigenvalues of CA = 4.34838 Covariable Transct4 is linearly dependent, hence ignored ***** Variable 8 has neglegible variance ****** ***** (possibly after adjustment for covariables) ****** Environmental variable 8 omitted ****** Check on influence in covariable/environment data ****** The following sample(s) have extreme values Sample Environmental Covariable + Environment space variable Influence influence influence 30 3.5x 31 3.2x 99 5 29.5x 99 3.1x 102 4 8.4x 103 4 6.7x 116 1 8.3x 116 7 6.0x 116 3.1x 180 6 38.6x 180 3.9x 183 2 6.7x 184 4 8.2x 185 2 8.2x 236 3.4x 237 3.4x 238 4.1x ****** End of check ****** **** Start of forward selection of variables **** *** Specification of blocks *** *** The permutations are conditioned on 3 covariable(s), namely: *** covariable Transct2 covariable Transct1 covariable Transct3 *** Sample arrangement in permutation test *** Samples in block 1 : ** Time series or line of plots ** 24 25 26 27 28 29 30 31 32 The 9 plots are permuted using cyclic shifts Samples in block 2 : ** Time series or line of plots ** 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 The 28 plots are permuted using cyclic shifts Samples in block 3 : ** Time series or line of plots ** 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 The 20 plots are permuted using cyclic shifts Samples in block 4 : ** Time series or line of plots ** 233 234 235 236 237 238 The 6 plots are permuted using cyclic shifts Seeds: 23239 945 N Name Extra fit 5 Drift .07 6 Litter .20 4 Mosses .21 3 Stones .32 2 Loglight .41 7 Inundati .46 1 Elevatio .50 Environmental variable 1 tested Number of permutations= 199 *** Permutation under reduced model *** P-value .005 (variable 1; F-ratio= 9.37; number of permutations= 199) Environmental variable 1 added to model Variance explained by the variables selected: .50 " " " all variables : 1.32 N Name Extra fit 5 Drift .04 4 Mosses .14 6 Litter .16 3 Stones .20 7 Inundati .21 2 Loglight .22 Environmental variable 2 tested Number of permutations= 199 *** Permutation under reduced model *** P-value .010 (variable 2; F-ratio= 4.37; number of permutations= 199) Environmental variable 2 added to model Variance explained by the variables selected: .72 " " " all variables : 1.32 N Name Extra fit 5 Drift .04 4 Mosses .11 7 Inundati .16 6 Litter .16 3 Stones .19 Environmental variable 3 tested Number of permutations= 199 *** Permutation under reduced model *** P-value .010 (variable 3; F-ratio= 4.04; number of permutations= 199) Environmental variable 3 added to model Variance explained by the variables selected: .92 " " " all variables : 1.32 N Name Extra fit 5 Drift .03 4 Mosses .10 7 Inundati .13 6 Litter .15 Environmental variable 6 tested Number of permutations= 199 *** Permutation under reduced model *** P-value .005 (variable 6; F-ratio= 3.37; number of permutations= 199) Environmental variable 6 added to model Variance explained by the variables selected: 1.07 " " " all variables : 1.32 N Name Extra fit 5 Drift .03 4 Mosses .10 7 Inundati .13 Environmental variable 7 tested Number of permutations= 199 *** Permutation under reduced model *** P-value .005 (variable 7; F-ratio= 2.91; number of permutations= 199) Environmental variable 7 added to model Variance explained by the variables selected: 1.20 " " " all variables : 1.32 N Name Extra fit 5 Drift .03 4 Mosses .10 Environmental variable 4 tested Number of permutations= 199 *** Permutation under reduced model *** P-value .035 (variable 4; F-ratio= 2.19; number of permutations= 199) Environmental variable 4 added to model Variance explained by the variables selected: 1.29 " " " all variables : 1.32 N Name Extra fit 5 Drift .03 Environmental variable 5 tested Number of permutations= 199 *** Permutation under reduced model *** P-value .685 (variable 5; F-ratio= .69; number of permutations= 199) Environmental variable 5 added to model Variance explained by the variables selected: 1.32 " " " all variables : 1.32 No more variables to improve fit *** End of selection *** 1 **** Weighted correlation matrix (weight = sample total) **** SPEC AX1 1.0000 SPEC AX2 .0212 1.0000 SPEC AX3 .0399 .0263 1.0000 SPEC AX4 -.0099 -.0028 .0312 1.0000 ENVI AX1 .9712 .0000 .0000 .0000 1.0000 ENVI AX2 .0000 .8606 .0000 .0000 .0000 1.0000 ENVI AX3 .0000 .0000 .8568 .0000 .0000 .0000 1.0000 ENVI AX4 .0000 .0000 .0000 .8266 .0000 .0000 .0000 1.0000 Elevatio -.9140 -.0838 .2720 .0177 -.9411 -.0974 .3175 .0214 Loglight .7633 .2806 .3702 .0736 .7860 .3261 .4321 .0891 Stones .6195 -.4500 .1539 .2717 .6379 -.5229 .1796 .3287 Mosses -.4690 .0305 -.3170 -.0492 -.4830 .0354 -.3700 -.0595 Drift .2632 -.0776 .0507 .0859 .2710 -.0902 .0592 .1040 Litter -.3363 .4318 -.0686 .6275 -.3463 .5017 -.0801 .7591 Inundati .8486 -.0960 -.3751 .0580 .8738 -.1115 -.4378 .0702 SPEC AX1 SPEC AX2 SPEC AX3 SPEC AX4 ENVI AX1 ENVI AX2 ENVI AX3 ENVI AX4 Elevatio 1.0000 Loglight -.6461 1.0000 Stones -.4746 .3556 1.0000 Mosses .3092 -.4213 -.3137 1.0000 Drift -.1945 .2380 .1576 -.2592 1.0000 Litter .2756 -.1333 -.1969 .0695 -.1308 1.0000 Inundati -.9582 .5079 .5100 -.2395 .1736 -.2930 1.0000 Elevatio Loglight Stones Mosses Drift Litter Inundati N name (weighted) mean stand. dev. inflation factor 1 SPEC AX1 .0000 1.0297 2 SPEC AX2 .0000 1.1619 3 SPEC AX3 .0000 1.1671 4 SPEC AX4 .0000 1.2097 5 ENVI AX1 .0000 1.0000 6 ENVI AX2 .0000 1.0000 7 ENVI AX3 .0000 1.0000 8 ENVI AX4 .0000 1.0000 1 Elevatio .2135 .1886 30.5390 2 Loglight 1.6592 .3678 2.7760 3 Stones 16.5291 27.5730 1.7958 4 Mosses 14.9968 21.5524 1.3689 5 Drift 4.2395 10.7134 1.1499 6 Litter 8.9369 17.6237 1.4620 7 Inundati 35.3374 23.5264 26.6941 **** Summary **** Axes 1 2 3 4 Total inertia Eigenvalues : .538 .248 .213 .121 4.348 Species-environment correlations : .971 .861 .857 .827 Cumulative percentage variance of species data : 14.9 21.8 27.8 31.1 of species-environment relation: 40.6 59.4 75.4 84.6 Sum of all unconstrained eigenvalues 3.600 Sum of all canonical eigenvalues 1.325 The sum of all unconstrained eigenvalues is after fitting covariables Percentages are taken with respect to residual variances i.e. variances after fitting covariables *** MESSAGE *** The fit for species is additional to the fit due to covariables. With covariables, CANOCO cannot calculate residuals for samples. [Thu Jan 15 17:16:03 1998] CANOCO call succeeded