[Vegan-commits] r2467 - pkg/vegan/tests/Examples
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Mon Mar 4 19:33:14 CET 2013
Author: jarioksa
Date: 2013-03-04 19:33:14 +0100 (Mon, 04 Mar 2013)
New Revision: 2467
Modified:
pkg/vegan/tests/Examples/vegan-Ex.Rout.save
Log:
update examples for specaccum
Modified: pkg/vegan/tests/Examples/vegan-Ex.Rout.save
===================================================================
--- pkg/vegan/tests/Examples/vegan-Ex.Rout.save 2013-03-04 17:58:10 UTC (rev 2466)
+++ pkg/vegan/tests/Examples/vegan-Ex.Rout.save 2013-03-04 18:33:14 UTC (rev 2467)
@@ -23,7 +23,7 @@
> options(warn = 1)
> library('vegan')
Loading required package: permute
-This is vegan 2.1-26
+This is vegan 2.1-27
>
> assign(".oldSearch", search(), pos = 'CheckExEnv')
> cleanEx()
@@ -161,7 +161,7 @@
Formula:
y ~ poly(x1, 1) + poly(x2, 1)
-<environment: 0x10245a8e8>
+<environment: 0x10245e040>
Total model degrees of freedom 3
GCV score: 0.04278782
@@ -4908,7 +4908,7 @@
Formula:
y ~ s(x1, x2, k = knots)
-<environment: 0x109c07ae0>
+<environment: 0x109f51310>
Estimated degrees of freedom:
6.45 total = 7.45
@@ -4924,7 +4924,7 @@
Formula:
y ~ s(x1, x2, k = knots)
-<environment: 0x10a86e558>
+<environment: 0x10ad8d908>
Estimated degrees of freedom:
6.12 total = 7.12
@@ -5092,7 +5092,7 @@
Formula:
y ~ s(x1, x2, k = knots)
-<environment: 0x108ecf7b8>
+<environment: 0x10a846c38>
Estimated degrees of freedom:
8.93 total = 9.93
@@ -5105,7 +5105,7 @@
Formula:
y ~ s(x1, x2, k = knots)
-<environment: 0x107a54aa8>
+<environment: 0x10ad6a668>
Estimated degrees of freedom:
7.75 total = 8.75
@@ -5118,7 +5118,7 @@
Formula:
y ~ s(x1, x2, k = knots)
-<environment: 0x109d52b88>
+<environment: 0x10aab6478>
Estimated degrees of freedom:
8.9 total = 9.9
@@ -6555,8 +6555,8 @@
> ### Name: specaccum
> ### Title: Species Accumulation Curves
> ### Aliases: specaccum print.specaccum summary.specaccum plot.specaccum
-> ### boxplot.specaccum fitspecaccum plot.fitspecaccum predict.specaccum
-> ### predict.fitspecaccum
+> ### lines.specaccum boxplot.specaccum fitspecaccum plot.fitspecaccum
+> ### lines.fitspecaccum predict.specaccum predict.fitspecaccum
> ### Keywords: univar models
>
> ### ** Examples
@@ -6570,42 +6570,34 @@
Accumulation method: random, with 100 permutations
Call: specaccum(comm = BCI, method = "random")
-
-Sites 1.00000 2.000000 3.000000 4.000000 5.000000 6.000000
-Richness 91.34000 121.010000 138.720000 150.540000 159.540000 166.500000
-sd 7.21001 6.928925 6.748109 6.509387 6.125654 5.934831
-
-Sites 7.000000 8.000000 9.000000 10.000000 11.000000 12.000000
-Richness 171.820000 176.180000 179.790000 182.730000 185.950000 188.590000
-sd 5.603714 5.182293 5.129229 5.175418 4.719131 4.521766
-
-Sites 13.000000 14.000000 15.000000 16.000000 17.000000 18.000000
-Richness 191.080000 193.100000 194.920000 196.870000 198.270000 199.670000
-sd 4.421435 4.372781 4.527536 4.421378 4.287296 4.032832
-
-Sites 19.000000 20.000000 21.000000 22.000000 23.000000 24.000000
-Richness 201.000000 202.470000 203.950000 205.180000 206.210000 207.230000
-sd 4.005047 3.968194 3.952687 3.774931 3.682596 3.700546
-
-Sites 25.000000 26.000000 27.000000 28.000000 29.000000 30.000000
-Richness 208.380000 209.390000 210.540000 211.430000 212.290000 213.230000
-sd 3.323561 3.323911 3.316381 3.156699 3.098696 2.957118
-
-Sites 31.000000 32.000000 33.000000 34.000000 35.000000 36.000000
-Richness 214.100000 214.880000 215.620000 216.370000 217.000000 217.550000
-sd 2.761569 2.575251 2.529742 2.588455 2.486326 2.371442
-
-Sites 37.000000 38.000000 39.000000 40.000000 41.000000 42.000000
-Richness 218.160000 218.770000 219.340000 219.970000 220.600000 221.210000
-sd 2.364382 2.210421 2.041093 2.071719 1.964328 1.945183
-
-Sites 43.000000 44.00000 45.00 46.000000 47.000000 48.0000000
-Richness 221.850000 222.36000 222.89 223.320000 223.710000 224.1700000
-sd 1.771691 1.58605 1.49 1.476277 1.208514 0.9749903
-
-Sites 49.0000000 50
-Richness 224.6500000 225
-sd 0.6092718 0
+
+Sites 1.00000 2.00000 3.00000 4.00000 5.00000 6.00000 7.00000
+Richness 91.34000 121.01000 138.72000 150.54000 159.54000 166.50000 171.82000
+sd 7.21001 6.92892 6.74811 6.50939 6.12565 5.93483 5.60371
+
+Sites 8.00000 9.00000 10.00000 11.00000 12.00000 13.00000 14.00000
+Richness 176.18000 179.79000 182.73000 185.95000 188.59000 191.08000 193.10000
+sd 5.18229 5.12923 5.17542 4.71913 4.52177 4.42144 4.37278
+
+Sites 15.00000 16.00000 17.0000 18.00000 19.00000 20.00000 21.00000
+Richness 194.92000 196.87000 198.2700 199.67000 201.00000 202.47000 203.95000
+sd 4.52754 4.42138 4.2873 4.03283 4.00505 3.96819 3.95269
+
+Sites 22.00000 23.0000 24.00000 25.00000 26.00000 27.00000 28.0000
+Richness 205.18000 206.2100 207.23000 208.38000 209.39000 210.54000 211.4300
+sd 3.77493 3.6826 3.70055 3.32356 3.32391 3.31638 3.1567
+
+Sites 29.0000 30.00000 31.00000 32.00000 33.00000 34.00000 35.00000
+Richness 212.2900 213.23000 214.10000 214.88000 215.62000 216.37000 217.00000
+sd 3.0987 2.95712 2.76157 2.57525 2.52974 2.58846 2.48633
+
+Sites 36.00000 37.00000 38.00000 39.00000 40.00000 41.00000 42.00000
+Richness 217.55000 218.16000 218.77000 219.34000 219.97000 220.60000 221.21000
+sd 2.37144 2.36438 2.21042 2.04109 2.07172 1.96433 1.94518
+
+Sites 43.00000 44.00000 45.00 46.00000 47.00000 48.00000 49.00000 50
+Richness 221.85000 222.36000 222.89 223.32000 223.71000 224.17000 224.65000 225
+sd 1.77169 1.58605 1.49 1.47628 1.20851 0.97499 0.60927 0
> summary(sp2)
1 sites 2 sites 3 sites 4 sites
Min. : 77.00 Min. :105.0 Min. :123.0 Min. :135.0
@@ -7692,7 +7684,7 @@
Formula:
y ~ s(x1, x2, k = knots)
-<environment: 0x10b3653f0>
+<environment: 0x1095f6430>
Estimated degrees of freedom:
2 total = 3
@@ -8244,7 +8236,7 @@
> ### * <FOOTER>
> ###
> cat("Time elapsed: ", proc.time() - get("ptime", pos = 'CheckExEnv'),"\n")
-Time elapsed: 84.383 1.68 86.786 0 0
+Time elapsed: 90.285 2.151 101.802 0 0
> grDevices::dev.off()
null device
1
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