[Fri Jan 16 14:54:22 1998] Log file created [Fri Jan 16 14:55:14 1998] Settings changed [Fri Jan 16 14:55:25 1998] Running CANOCO: [Fri Jan 16 14:55:25 1998] CON file [C:\canoco\samples\LINES\Line1.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 : 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 89 to be omitted Sample 90 to be omitted Sample 91 to be omitted Sample 92 to be omitted Sample 93 to be omitted Sample 94 to be omitted Sample 95 to be omitted Sample 96 to be omitted Sample 97 to be omitted Sample 98 to be omitted Sample 99 to be omitted Sample 100 to be omitted Sample 101 to be omitted Sample 102 to be omitted Sample 103 to be omitted Sample 104 to be omitted Sample 105 to be omitted Sample 106 to be omitted Sample 107 to be omitted Sample 108 to be omitted Sample 109 to be omitted Sample 110 to be omitted Sample 111 to be omitted Sample 112 to be omitted Sample 113 to be omitted Sample 114 to be omitted Sample 115 to be omitted Sample 116 to be omitted Sample 117 to be omitted Sample 118 to be omitted Sample 119 to be omitted Sample 120 to be omitted Sample 121 to be omitted Sample 122 to be omitted Sample 123 to be omitted Sample 124 to be omitted Sample 125 to be omitted Sample 126 to be omitted Sample 127 to be omitted Sample 128 to be omitted Sample 129 to be omitted Sample 130 to be omitted Sample 131 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 166 to be omitted Sample 167 to be omitted Sample 168 to be omitted Sample 169 to be omitted Sample 170 to be omitted Sample 171 to be omitted Sample 172 to be omitted Sample 173 to be omitted Sample 174 to be omitted Sample 175 to be omitted Sample 176 to be omitted Sample 177 to be omitted Sample 178 to be omitted Sample 179 to be omitted Sample 180 to be omitted Sample 181 to be omitted Sample 182 to be omitted Sample 183 to be omitted Sample 184 to be omitted Sample 185 to be omitted Sample 186 to be omitted Sample 187 to be omitted Sample 188 to be omitted Sample 189 to be omitted Sample 190 to be omitted Sample 191 to be omitted Sample 192 to be omitted Sample 193 to be omitted Sample 194 to be omitted Sample 195 to be omitted Sample 196 to be omitted Sample 197 to be omitted Sample 198 to be omitted Sample 199 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 Sample 233 to be omitted Sample 234 to be omitted Sample 235 to be omitted Sample 236 to be omitted Sample 237 to be omitted Sample 238 to be omitted Number of samples 9 Number of species 129 Number of occurrences 999 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: 9 No. of passive samples: 0 No. of active species: 30 Total inertia in species data= Sum of all eigenvalues of CA = 1.96895 ****** Check on influence in covariable/environment data ****** The following sample(s) have extreme values Sample Environmental Covariable + Environment space variable Influence influence influence 29 5 10.5x ****** End of check ****** **** Start of forward selection of variables **** *** Sample arrangement in permutation test *** ** Time series or line of plots ** The 9 plots are permuted using cyclic shifts Seeds: 2010 11066 N Name Extra fit 5 Drift .17 4 Mosses .37 6 Litter .48 2 Loglight .56 3 Stones .66 7 Inundati .66 1 Elevatio .69 Environmental variable 1 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .059 (variable 1; F-ratio= 3.80; number of permutations= 9999) Environmental variable 1 added to model Variance explained by the variables selected: .69 " " " all variables : 1.89 N Name Extra fit 5 Drift .18 4 Mosses .27 2 Loglight .28 6 Litter .29 3 Stones .32 7 Inundati .34 Environmental variable 7 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .057 (variable 7; F-ratio= 2.20; number of permutations= 9999) Environmental variable 7 added to model Variance explained by the variables selected: 1.03 " " " all variables : 1.89 N Name Extra fit 6 Litter .10 5 Drift .19 4 Mosses .24 3 Stones .27 2 Loglight .33 Environmental variable 2 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .112 (variable 2; F-ratio= 2.77; number of permutations= 9999) Environmental variable 2 added to model Variance explained by the variables selected: 1.37 " " " all variables : 1.89 N Name Extra fit 5 Drift .13 4 Mosses .15 6 Litter .18 3 Stones .19 Environmental variable 3 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .219 (variable 3; F-ratio= 1.90; number of permutations= 9999) Environmental variable 3 added to model Variance explained by the variables selected: 1.56 " " " all variables : 1.89 N Name Extra fit 6 Litter .07 4 Mosses .13 5 Drift .14 Environmental variable 5 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .332 (variable 5; F-ratio= 1.61; number of permutations= 9999) Environmental variable 5 added to model Variance explained by the variables selected: 1.70 " " " all variables : 1.89 N Name Extra fit 6 Litter .03 4 Mosses .12 Environmental variable 4 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .274 (variable 4; F-ratio= 1.64; number of permutations= 9999) Environmental variable 4 added to model Variance explained by the variables selected: 1.82 " " " all variables : 1.89 N Name Extra fit 6 Litter .06 Environmental variable 6 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .725 (variable 6; F-ratio= .76; number of permutations= 9999) Environmental variable 6 added to model Variance explained by the variables selected: 1.89 " " " all variables : 1.89 No more variables to improve fit *** End of selection *** *** BEWARE *** Residual for axis 1 bigger than tolerance, which is .00000 N name (weighted) mean stand. dev. inflation factor 1 SPEC AX1 .0000 1.0035 2 SPEC AX2 .0000 1.0001 3 SPEC AX3 .0000 1.0140 4 SPEC AX4 .0000 1.0141 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 .3325 .1513 550.4476 2 Loglight 1.4795 .4341 176.5851 3 Stones 26.5618 25.6970 246.3237 4 Mosses 11.9663 12.0770 65.5060 5 Drift 6.0674 10.3715 14.2128 6 Litter 7.4157 11.2707 276.8626 7 Inundati 20.5034 15.4937 132.0069 **** Summary **** Axes 1 2 3 4 Total inertia Eigenvalues : .726 .477 .290 .180 1.969 Species-environment correlations : .997 1.000 .986 .986 Cumulative percentage variance of species data : 36.9 61.1 75.9 85.0 of species-environment relation: 38.5 63.8 79.2 88.8 Sum of all unconstrained eigenvalues 1.969 Sum of all canonical eigenvalues 1.886 [Fri Jan 16 14:58:18 1998] CANOCO call succeeded [Fri Jan 16 15:19:42 1998] Settings changed [Fri Jan 16 15:19:46 1998] Running CANOCO: [Fri Jan 16 15:19:46 1998] CON file [C:\canoco\samples\LINES\Line1.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 : 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 89 to be omitted Sample 90 to be omitted Sample 91 to be omitted Sample 92 to be omitted Sample 93 to be omitted Sample 94 to be omitted Sample 95 to be omitted Sample 96 to be omitted Sample 97 to be omitted Sample 98 to be omitted Sample 99 to be omitted Sample 100 to be omitted Sample 101 to be omitted Sample 102 to be omitted Sample 103 to be omitted Sample 104 to be omitted Sample 105 to be omitted Sample 106 to be omitted Sample 107 to be omitted Sample 108 to be omitted Sample 109 to be omitted Sample 110 to be omitted Sample 111 to be omitted Sample 112 to be omitted Sample 113 to be omitted Sample 114 to be omitted Sample 115 to be omitted Sample 116 to be omitted Sample 117 to be omitted Sample 118 to be omitted Sample 119 to be omitted Sample 120 to be omitted Sample 121 to be omitted Sample 122 to be omitted Sample 123 to be omitted Sample 124 to be omitted Sample 125 to be omitted Sample 126 to be omitted Sample 127 to be omitted Sample 128 to be omitted Sample 129 to be omitted Sample 130 to be omitted Sample 131 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 166 to be omitted Sample 167 to be omitted Sample 168 to be omitted Sample 169 to be omitted Sample 170 to be omitted Sample 171 to be omitted Sample 172 to be omitted Sample 173 to be omitted Sample 174 to be omitted Sample 175 to be omitted Sample 176 to be omitted Sample 177 to be omitted Sample 178 to be omitted Sample 179 to be omitted Sample 180 to be omitted Sample 181 to be omitted Sample 182 to be omitted Sample 183 to be omitted Sample 184 to be omitted Sample 185 to be omitted Sample 186 to be omitted Sample 187 to be omitted Sample 188 to be omitted Sample 189 to be omitted Sample 190 to be omitted Sample 191 to be omitted Sample 192 to be omitted Sample 193 to be omitted Sample 194 to be omitted Sample 195 to be omitted Sample 196 to be omitted Sample 197 to be omitted Sample 198 to be omitted Sample 199 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 Sample 233 to be omitted Sample 234 to be omitted Sample 235 to be omitted Sample 236 to be omitted Sample 237 to be omitted Sample 238 to be omitted Number of samples 9 Number of species 129 Number of occurrences 999 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: 9 No. of passive samples: 0 No. of active species: 30 Total inertia in species data= Sum of all eigenvalues of CA = 1.96895 ****** Check on influence in covariable/environment data ****** The following sample(s) have extreme values Sample Environmental Covariable + Environment space variable Influence influence influence 29 5 10.5x ****** End of check ****** **** Start of forward selection of variables **** *** Sample arrangement in permutation test *** ** Time series or line of plots ** The 9 plots are permuted using cyclic shifts Seeds: 13510 29708 N Name Extra fit 5 Drift .17 4 Mosses .37 6 Litter .48 2 Loglight .56 3 Stones .66 7 Inundati .66 1 Elevatio .69 Environmental variable 1 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .054 (variable 1; F-ratio= 3.80; number of permutations= 9999) Environmental variable 1 added to model Variance explained by the variables selected: .69 " " " all variables : 1.89 N Name Extra fit 5 Drift .18 4 Mosses .27 2 Loglight .28 6 Litter .29 3 Stones .32 7 Inundati .34 Environmental variable 7 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .056 (variable 7; F-ratio= 2.20; number of permutations= 9999) Environmental variable 7 added to model Variance explained by the variables selected: 1.03 " " " all variables : 1.89 N Name Extra fit 6 Litter .10 5 Drift .19 4 Mosses .24 3 Stones .27 2 Loglight .33 Environmental variable 2 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .116 (variable 2; F-ratio= 2.77; number of permutations= 9999) Environmental variable 2 added to model Variance explained by the variables selected: 1.37 " " " all variables : 1.89 N Name Extra fit 5 Drift .13 4 Mosses .15 6 Litter .18 3 Stones .19 Environmental variable 3 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .226 (variable 3; F-ratio= 1.90; number of permutations= 9999) Environmental variable 3 added to model Variance explained by the variables selected: 1.56 " " " all variables : 1.89 N Name Extra fit 6 Litter .07 4 Mosses .13 5 Drift .14 Environmental variable 5 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .330 (variable 5; F-ratio= 1.61; number of permutations= 9999) Environmental variable 5 added to model Variance explained by the variables selected: 1.70 " " " all variables : 1.89 N Name Extra fit 6 Litter .03 4 Mosses .12 Environmental variable 4 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .280 (variable 4; F-ratio= 1.64; number of permutations= 9999) Environmental variable 4 added to model Variance explained by the variables selected: 1.82 " " " all variables : 1.89 N Name Extra fit 6 Litter .06 Environmental variable 6 tested Number of permutations= 9999 *** Permutation under reduced model *** P-value .724 (variable 6; F-ratio= .76; number of permutations= 9999) Environmental variable 6 added to model Variance explained by the variables selected: 1.89 " " " all variables : 1.89 No more variables to improve fit *** End of selection *** *** BEWARE *** Residual for axis 1 bigger than tolerance, which is .00000 N name (weighted) mean stand. dev. inflation factor 1 SPEC AX1 .0000 1.0035 2 SPEC AX2 .0000 1.0001 3 SPEC AX3 .0000 1.0140 4 SPEC AX4 .0000 1.0141 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 .3325 .1513 550.4476 2 Loglight 1.4795 .4341 176.5851 3 Stones 26.5618 25.6970 246.3237 4 Mosses 11.9663 12.0770 65.5060 5 Drift 6.0674 10.3715 14.2128 6 Litter 7.4157 11.2707 276.8626 7 Inundati 20.5034 15.4937 132.0069 **** Summary **** Axes 1 2 3 4 Total inertia Eigenvalues : .726 .477 .290 .180 1.969 Species-environment correlations : .997 1.000 .986 .986 Cumulative percentage variance of species data : 36.9 61.1 75.9 85.0 of species-environment relation: 38.5 63.8 79.2 88.8 Sum of all unconstrained eigenvalues 1.969 Sum of all canonical eigenvalues 1.886 [Fri Jan 16 15:28:26 1998] CANOCO call succeeded