[Tue Jan 27 16:53:13 1998] Log file cleared [Tue Jan 27 16:54:13 1998] Settings changed [Tue Jan 27 16:54:15 1998] Running CANOCO: [Tue Jan 27 16:54:15 1998] CON file [C:\canoco\samples\PRC\Prctest1.con] saved Program CANOCO Version 4.0 September 1997 - written by Cajo J.F. Ter Braak Copyright (c) 1988-1997 Centre for Biometry Wageningen, 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 = 2 *** Data files *** Species data : SPECIES.DTA Covariable data : DESIGN.DTA Environmental data : DESIGN.DTA Initialization file: Forward selection of envi. variables = 0 Scaling of ordination scores = -1 Diagnostics = 1 File : SPECIES.DTA Title : macrofauna data chlorpyrifos experiment (Ln(10X+1) transformation) Format : (1X,I5,(T10,7F10.3)) No. of couplets of species number and abundance per line : 0 No samples omitted Number of samples 132 Number of species 122 Number of occurrences 2966 File : DESIGN.DTA Title : PRC analysis: 5 treatment (ds0-ds4: 1-5) and 11 time (Wk-4-Wk24: 6-16) indicato Format : (I5,8(I5,F4.0)) No. of covariables : 16 No interaction terms defined ****************************************************************************** Names of covariables ****************************************************************************** Wk-4 Wk-1 Wk0.1 Wk1 Wk2 Wk4 Wk8 Wk12 Wk15 Wk19 Wk24 ****************************************************************************** File : DESIGN.DTA Title : PRC analysis: 5 treatment (ds0-ds4: 1-5) and 11 time (Wk-4-Wk24: 6-16) indicato Format : (I5,8(I5,F4.0)) No. of environmental variables : 16 *** Interaction terms *** Variable 17 = variable 2 * variable 8 Variable 18 = variable 3 * variable 8 Variable 19 = variable 4 * variable 8 Variable 20 = variable 5 * variable 8 Variable 21 = variable 2 * variable 9 Variable 22 = variable 3 * variable 9 Variable 23 = variable 4 * variable 9 Variable 24 = variable 5 * variable 9 Variable 25 = variable 2 * variable 10 Variable 26 = variable 3 * variable 10 Variable 27 = variable 4 * variable 10 Variable 28 = variable 5 * variable 10 Variable 29 = variable 2 * variable 11 Variable 30 = variable 3 * variable 11 Variable 31 = variable 4 * variable 11 Variable 32 = variable 5 * variable 11 Variable 33 = variable 2 * variable 12 Variable 34 = variable 3 * variable 12 Variable 35 = variable 4 * variable 12 Variable 36 = variable 5 * variable 12 Variable 37 = variable 2 * variable 13 Variable 38 = variable 3 * variable 13 Variable 39 = variable 4 * variable 13 Variable 40 = variable 5 * variable 13 Variable 41 = variable 2 * variable 14 Variable 42 = variable 3 * variable 14 Variable 43 = variable 4 * variable 14 Variable 44 = variable 5 * variable 14 Variable 45 = variable 2 * variable 15 Variable 46 = variable 3 * variable 15 Variable 47 = variable 4 * variable 15 Variable 48 = variable 5 * variable 15 Variable 49 = variable 2 * variable 16 Variable 50 = variable 3 * variable 16 Variable 51 = variable 4 * variable 16 Variable 52 = variable 5 * variable 16 No transformation of species data No species-weights specified No sample-weights specified Centring/standardization by species = 1 Centring/standardization by samples = 0 No. of active samples: 132 No. of passive samples: 0 No. of active species: 122 Total sum of squares in species data = 19754.5 Total standard deviation in species data TAU = 1.10756 Covariable Wk24 is linearly dependent, hence ignored 1 **** Correlation matrix **** SPEC AX1 1.0000 SPEC AX2 .0188 1.0000 SPEC AX3 .0281 -.0594 1.0000 SPEC AX4 .0291 -.0171 -.0042 1.0000 ENVI AX1 .9593 .0000 .0000 .0000 1.0000 ENVI AX2 .0000 .7775 .0000 .0000 .0000 1.0000 ENVI AX3 .0000 .0000 .8121 .0000 .0000 .0000 1.0000 ENVI AX4 .0000 .0000 .0000 .7974 .0000 .0000 .0000 1.0000 ds1*Wk0. -.0241 .0414 .0573 .1991 -.0251 .0533 .0706 .2497 ds2*Wk0. -.0611 .1665 -.1480 -.0413 -.0637 .2141 -.1822 -.0518 ds3*Wk0. .0632 .0559 .0348 -.0656 .0659 .0719 .0428 -.0822 ds4*Wk0. .2068 -.0846 -.0224 .0205 .2156 -.1088 -.0276 .0257 ds1*Wk1 -.1406 .0066 .0761 .1878 -.1466 .0085 .0937 .2355 ds2*Wk1 -.0432 .1414 -.0545 .0318 -.0450 .1818 -.0671 .0399 ds3*Wk1 .2572 .0242 -.1141 -.0128 .2681 .0311 -.1405 -.0160 ds4*Wk1 .2877 -.1107 -.0590 .0023 .2999 -.1423 -.0727 .0029 ds1*Wk2 -.0924 .0801 .0115 .2115 -.0963 .1031 .0142 .2653 ds2*Wk2 -.0211 .1370 -.1484 -.0386 -.0220 .1762 -.1827 -.0483 ds3*Wk2 .2030 -.1264 -.0186 -.1274 .2116 -.1626 -.0229 -.1598 ds4*Wk2 .2642 -.1069 .0476 .0350 .2754 -.1375 .0586 .0439 ds1*Wk4 -.1087 .0572 -.0962 .2996 -.1133 .0736 -.1184 .3758 ds2*Wk4 -.0779 .1167 -.0946 -.0825 -.0812 .1501 -.1165 -.1034 ds3*Wk4 .2806 -.0667 -.0297 -.0679 .2925 -.0857 -.0366 -.0851 ds4*Wk4 .3174 -.0517 .0209 .0033 .3308 -.0665 .0257 .0041 ds1*Wk8 -.0717 -.0594 -.0850 .2577 -.0747 -.0764 -.1046 .3232 ds2*Wk8 -.0882 .2872 -.2952 -.0012 -.0920 .3694 -.3634 -.0015 ds3*Wk8 .0831 .0112 -.0195 -.2959 .0867 .0144 -.0240 -.3710 ds4*Wk8 .3171 -.0394 .2006 .0365 .3306 -.0507 .2470 .0458 ds1*Wk12 -.0448 -.0302 -.0459 .1940 -.0467 -.0388 -.0565 .2433 ds2*Wk12 .0008 .1834 -.1480 .0077 .0009 .2359 -.1822 .0096 ds3*Wk12 .0740 -.0432 -.0366 .0108 .0771 -.0556 -.0451 .0135 ds4*Wk12 .2263 .0933 .0974 .1370 .2359 .1201 .1199 .1718 ds1*Wk15 -.0141 -.0738 -.2004 .1410 -.0147 -.0949 -.2468 .1768 ds2*Wk15 -.0098 .1580 -.0263 -.1339 -.0103 .2031 -.0324 -.1679 ds3*Wk15 .0486 -.0976 -.1901 -.2312 .0507 -.1255 -.2341 -.2899 ds4*Wk15 .1530 .1168 .2139 .1400 .1595 .1502 .2634 .1756 ds1*Wk19 .0045 -.1316 -.2193 .1381 .0046 -.1692 -.2700 .1732 ds2*Wk19 -.0395 .1814 -.0997 -.0367 -.0412 .2333 -.1228 -.0460 ds3*Wk19 .0482 -.1013 -.1776 -.1016 .0502 -.1303 -.2187 -.1274 ds4*Wk19 .1382 .2762 .2238 -.0336 .1441 .3552 .2756 -.0421 ds1*Wk24 -.0247 -.1270 -.1415 .0979 -.0258 -.1634 -.1743 .1228 ds2*Wk24 -.0041 .1819 -.0604 -.1875 -.0043 .2340 -.0744 -.2352 ds3*Wk24 .0354 -.1517 -.1318 -.0249 .0369 -.1951 -.1622 -.0312 ds4*Wk24 .1037 .2730 .3078 -.0068 .1081 .3511 .3790 -.0085 SPEC AX1 SPEC AX2 SPEC AX3 SPEC AX4 ENVI AX1 ENVI AX2 ENVI AX3 ENVI AX4 ds1*Wk0. 1.0000 ds2*Wk0. -.2000 1.0000 ds3*Wk0. -.2000 -.2000 1.0000 ds4*Wk0. -.2000 -.2000 -.2000 1.0000 ds1*Wk1 .0000 .0000 .0000 .0000 1.0000 ds2*Wk1 .0000 .0000 .0000 .0000 -.2000 1.0000 ds3*Wk1 .0000 .0000 .0000 .0000 -.2000 -.2000 1.0000 ds4*Wk1 .0000 .0000 .0000 .0000 -.2000 -.2000 -.2000 1.0000 ds1*Wk2 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk2 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk2 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk2 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk4 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk4 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk4 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk4 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk8 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk8 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk8 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk8 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk12 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk12 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk12 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk12 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk15 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk15 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk15 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk15 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk19 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk19 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk19 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk19 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk0. ds2*Wk0. ds3*Wk0. ds4*Wk0. ds1*Wk1 ds2*Wk1 ds3*Wk1 ds4*Wk1 ds1*Wk2 1.0000 ds2*Wk2 -.2000 1.0000 ds3*Wk2 -.2000 -.2000 1.0000 ds4*Wk2 -.2000 -.2000 -.2000 1.0000 ds1*Wk4 .0000 .0000 .0000 .0000 1.0000 ds2*Wk4 .0000 .0000 .0000 .0000 -.2000 1.0000 ds3*Wk4 .0000 .0000 .0000 .0000 -.2000 -.2000 1.0000 ds4*Wk4 .0000 .0000 .0000 .0000 -.2000 -.2000 -.2000 1.0000 ds1*Wk8 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk8 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk8 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk8 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk12 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk12 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk12 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk12 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk15 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk15 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk15 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk15 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk19 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk19 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk19 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk19 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk2 ds2*Wk2 ds3*Wk2 ds4*Wk2 ds1*Wk4 ds2*Wk4 ds3*Wk4 ds4*Wk4 ds1*Wk8 1.0000 ds2*Wk8 -.2000 1.0000 ds3*Wk8 -.2000 -.2000 1.0000 ds4*Wk8 -.2000 -.2000 -.2000 1.0000 ds1*Wk12 .0000 .0000 .0000 .0000 1.0000 ds2*Wk12 .0000 .0000 .0000 .0000 -.2000 1.0000 ds3*Wk12 .0000 .0000 .0000 .0000 -.2000 -.2000 1.0000 ds4*Wk12 .0000 .0000 .0000 .0000 -.2000 -.2000 -.2000 1.0000 ds1*Wk15 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk15 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk15 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk15 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk19 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk19 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk19 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk19 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk8 ds2*Wk8 ds3*Wk8 ds4*Wk8 ds1*Wk12 ds2*Wk12 ds3*Wk12 ds4*Wk12 ds1*Wk15 1.0000 ds2*Wk15 -.2000 1.0000 ds3*Wk15 -.2000 -.2000 1.0000 ds4*Wk15 -.2000 -.2000 -.2000 1.0000 ds1*Wk19 .0000 .0000 .0000 .0000 1.0000 ds2*Wk19 .0000 .0000 .0000 .0000 -.2000 1.0000 ds3*Wk19 .0000 .0000 .0000 .0000 -.2000 -.2000 1.0000 ds4*Wk19 .0000 .0000 .0000 .0000 -.2000 -.2000 -.2000 1.0000 ds1*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds2*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds3*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds4*Wk24 .0000 .0000 .0000 .0000 .0000 .0000 .0000 .0000 ds1*Wk15 ds2*Wk15 ds3*Wk15 ds4*Wk15 ds1*Wk19 ds2*Wk19 ds3*Wk19 ds4*Wk19 ds1*Wk24 1.0000 ds2*Wk24 -.2000 1.0000 ds3*Wk24 -.2000 -.2000 1.0000 ds4*Wk24 -.2000 -.2000 -.2000 1.0000 ds1*Wk24 ds2*Wk24 ds3*Wk24 ds4*Wk24 N name (weighted) mean stand. dev. inflation factor 1 SPEC AX1 .0000 .3782 2 SPEC AX2 .0000 .2093 3 SPEC AX3 .0000 .1836 4 SPEC AX4 .0000 .1720 5 ENVI AX1 .0000 .3628 6 ENVI AX2 .0000 .1627 7 ENVI AX3 .0000 .1491 8 ENVI AX4 .0000 .1371 17 ds1*Wk0. .0152 .1222 1.4773 18 ds2*Wk0. .0152 .1222 1.4773 19 ds3*Wk0. .0152 .1222 1.4773 20 ds4*Wk0. .0152 .1222 1.4773 21 ds1*Wk1 .0152 .1222 1.4773 22 ds2*Wk1 .0152 .1222 1.4773 23 ds3*Wk1 .0152 .1222 1.4773 24 ds4*Wk1 .0152 .1222 1.4773 25 ds1*Wk2 .0152 .1222 1.4773 26 ds2*Wk2 .0152 .1222 1.4773 27 ds3*Wk2 .0152 .1222 1.4773 28 ds4*Wk2 .0152 .1222 1.4773 29 ds1*Wk4 .0152 .1222 1.4773 30 ds2*Wk4 .0152 .1222 1.4773 31 ds3*Wk4 .0152 .1222 1.4773 32 ds4*Wk4 .0152 .1222 1.4773 33 ds1*Wk8 .0152 .1222 1.4773 34 ds2*Wk8 .0152 .1222 1.4773 35 ds3*Wk8 .0152 .1222 1.4773 36 ds4*Wk8 .0152 .1222 1.4773 37 ds1*Wk12 .0152 .1222 1.4773 38 ds2*Wk12 .0152 .1222 1.4773 39 ds3*Wk12 .0152 .1222 1.4773 40 ds4*Wk12 .0152 .1222 1.4773 41 ds1*Wk15 .0152 .1222 1.4773 42 ds2*Wk15 .0152 .1222 1.4773 43 ds3*Wk15 .0152 .1222 1.4773 44 ds4*Wk15 .0152 .1222 1.4773 45 ds1*Wk19 .0152 .1222 1.4773 46 ds2*Wk19 .0152 .1222 1.4773 47 ds3*Wk19 .0152 .1222 1.4773 48 ds4*Wk19 .0152 .1222 1.4773 49 ds1*Wk24 .0152 .1222 1.4773 50 ds2*Wk24 .0152 .1222 1.4773 51 ds3*Wk24 .0152 .1222 1.4773 52 ds4*Wk24 .0152 .1222 1.4773 **** Summary **** Axes 1 2 3 4 Total variance Eigenvalues : .132 .026 .022 .019 1.000 Species-environment correlations : .959 .778 .812 .797 Cumulative percentage variance of species data : 16.6 20.0 22.8 25.1 of species-environment relation: 40.3 48.4 55.2 61.0 Sum of all unconstrained eigenvalues .792 Sum of all canonical eigenvalues .327 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. 1 *** Sample arrangement in permutation test *** Whole plot 1 : 1 13 25 37 49 61 73 85 97 109 121 Whole plot 2 : 2 14 26 38 50 62 74 86 98 110 122 Whole plot 3 : 3 15 27 39 51 63 75 87 99 111 123 Whole plot 4 : 4 16 28 40 52 64 76 88 100 112 124 Whole plot 5 : 5 17 29 41 53 65 77 89 101 113 125 Whole plot 6 : 6 18 30 42 54 66 78 90 102 114 126 Whole plot 7 : 7 19 31 43 55 67 79 91 103 115 127 Whole plot 8 : 8 20 32 44 56 68 80 92 104 116 128 Whole plot 9 : 9 21 33 45 57 69 81 93 105 117 129 Whole plot 10 : 10 22 34 46 58 70 82 94 106 118 130 Whole plot 11 : 11 23 35 47 59 71 83 95 107 119 131 Whole plot 12 : 12 24 36 48 60 72 84 96 108 120 132 These 12 whole plots are permuted completely at random The 11 split plots are not permuted Seeds: 29290 1048 **** Summary of Monte Carlo test **** Test of significance of first canonical axis: eigenvalue = .132 F-ratio = 16.943 P-value = .0050 ( 199 permutations under reduced model) [Tue Jan 27 16:55:16 1998] CANOCO call succeeded