[Vegan-commits] r1994 - pkg/vegan/tests/Examples
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Sat Nov 12 19:43:31 CET 2011
Author: gsimpson
Date: 2011-11-12 19:43:31 +0100 (Sat, 12 Nov 2011)
New Revision: 1994
Modified:
pkg/vegan/tests/Examples/vegan-Ex.Rout.save
Log:
new example output following changes in r1992
Modified: pkg/vegan/tests/Examples/vegan-Ex.Rout.save
===================================================================
--- pkg/vegan/tests/Examples/vegan-Ex.Rout.save 2011-11-12 17:59:29 UTC (rev 1993)
+++ pkg/vegan/tests/Examples/vegan-Ex.Rout.save 2011-11-12 18:43:31 UTC (rev 1994)
@@ -23,7 +23,7 @@
> options(warn = 1)
> library('vegan')
Loading required package: permute
-This is vegan 2.1-6
+This is vegan 2.1-7
>
> assign(".oldSearch", search(), pos = 'CheckExEnv')
> cleanEx()
@@ -161,7 +161,7 @@
Formula:
y ~ poly(x1, 1) + poly(x2, 1)
-<environment: 0x3745a78>
+<environment: 0x3832a78>
Total model degrees of freedom 3
GCV score: 0.0427924
@@ -585,8 +585,8 @@
Df SumsOfSqs MeanSqs F.Model R2 Pr(>F)
Management 3 1.4686 0.48953 3.2629 0.34161 0.01 **
-A1 1 0.4409 0.44089 2.9387 0.10256 0.01 **
-Management:A1 3 0.5892 0.19639 1.3090 0.13705 0.01 **
+A1 1 0.4409 0.44089 2.9387 0.10256 0.02 *
+Management:A1 3 0.5892 0.19639 1.3090 0.13705 0.18
Residuals 12 1.8004 0.15003 0.41878
Total 19 4.2990 1.00000
---
@@ -638,10 +638,10 @@
Call:
adonis(formula = Y ~ NO3, data = dat, permutations = 1000, strata = dat$field)
- Df SumsOfSqs MeanSqs F.Model R2 Pr(>F)
-NO3 1 0.055856 0.055856 4.0281 0.28714 0.000999 ***
-Residuals 10 0.138667 0.013867 0.71286
-Total 11 0.194524 1.00000
+ Df SumsOfSqs MeanSqs F.Model R2 Pr(>F)
+NO3 1 0.055856 0.055856 4.0281 0.28714 0.008991 **
+Residuals 10 0.138667 0.013867 0.71286
+Total 11 0.194524 1.00000
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
>
@@ -651,10 +651,10 @@
Call:
adonis(formula = Y ~ NO3, data = dat, permutations = 1000)
- Df SumsOfSqs MeanSqs F.Model R2 Pr(>F)
-NO3 1 0.055856 0.055856 4.0281 0.28714 0.000999 ***
-Residuals 10 0.138667 0.013867 0.71286
-Total 11 0.194524 1.00000
+ Df SumsOfSqs MeanSqs F.Model R2 Pr(>F)
+NO3 1 0.055856 0.055856 4.0281 0.28714 0.004995 **
+Residuals 10 0.138667 0.013867 0.71286
+Total 11 0.194524 1.00000
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
>
@@ -4695,7 +4695,7 @@
Formula:
y ~ s(x1, x2, k = knots)
-<environment: 0x954e888>
+<environment: 0x8c56950>
Estimated degrees of freedom:
6.4351 total = 7.43507
@@ -4711,7 +4711,7 @@
Formula:
y ~ s(x1, x2, k = knots)
-<environment: 0x87cc510>
+<environment: 0x9171138>
Estimated degrees of freedom:
6.1039 total = 7.103853
@@ -4867,7 +4867,7 @@
Formula:
y ~ s(x1, x2, k = knots)
-<environment: 0x6407078>
+<environment: 0x7ba3778>
Estimated degrees of freedom:
8.9275 total = 9.927492
@@ -4880,7 +4880,7 @@
Formula:
y ~ s(x1, x2, k = knots)
-<environment: 0x916f818>
+<environment: 0x92baf50>
Estimated degrees of freedom:
7.7529 total = 8.75294
@@ -4893,7 +4893,7 @@
Formula:
y ~ s(x1, x2, k = knots)
-<environment: 0x84c5758>
+<environment: 0x8e2a6a8>
Estimated degrees of freedom:
8.8962 total = 9.89616
@@ -7162,7 +7162,7 @@
Formula:
y ~ s(x1, x2, k = knots)
-<environment: 0x8a4dc68>
+<environment: 0x8f05d28>
Estimated degrees of freedom:
2 total = 3
@@ -7175,14 +7175,14 @@
Call:
adonis(formula = dune ~ ., data = dune.env)
- Df SumsOfSqs MeanSqs F.Model R2 Pr(>F)
-A1 1 0.7230 0.72295 5.2038 0.16817 0.001 ***
-Moisture 3 1.1871 0.39569 2.8482 0.27613 0.001 ***
-Management 3 0.9036 0.30121 2.1681 0.21019 0.001 ***
-Use 2 0.0921 0.04606 0.3315 0.02143 0.001 ***
-Manure 3 0.4208 0.14026 1.0096 0.09787 0.001 ***
-Residuals 7 0.9725 0.13893 0.22621
-Total 19 4.2990 1.00000
+ Df SumsOfSqs MeanSqs F.Model R2 Pr(>F)
+A1 1 0.7230 0.72295 5.2038 0.16817 0.002 **
+Moisture 3 1.1871 0.39569 2.8482 0.27613 0.003 **
+Management 3 0.9036 0.30121 2.1681 0.21019 0.025 *
+Use 2 0.0921 0.04606 0.3315 0.02143 0.976
+Manure 3 0.4208 0.14026 1.0096 0.09787 0.490
+Residuals 7 0.9725 0.13893 0.22621
+Total 19 4.2990 1.00000
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
> adonis(dune ~ Management + Moisture, dune.env)
@@ -7192,7 +7192,7 @@
Df SumsOfSqs MeanSqs F.Model R2 Pr(>F)
Management 3 1.4686 0.48953 3.7907 0.34161 0.001 ***
-Moisture 3 1.1516 0.38387 2.9726 0.26788 0.001 ***
+Moisture 3 1.1516 0.38387 2.9726 0.26788 0.003 **
Residuals 13 1.6788 0.12914 0.39051
Total 19 4.2990 1.00000
---
@@ -7638,7 +7638,7 @@
> ### * <FOOTER>
> ###
> cat("Time elapsed: ", proc.time() - get("ptime", pos = 'CheckExEnv'),"\n")
-Time elapsed: 49.21 0.408 50.131 0 0
+Time elapsed: 49.291 0.376 50.073 0 0
> grDevices::dev.off()
null device
1
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