- using R Under development (unstable) (2013-06-18 r62971)
- using platform: x86_64-unknown-linux-gnu (64-bit)
- using session charset: UTF-8
- checking for file ‘tsDyn/DESCRIPTION’ ... OK
- checking extension type ... Package
- this is package ‘tsDyn’ version ‘0.9-2’
- checking package namespace information ... OK
- checking package dependencies ... OK
- checking if this is a source package ... OK
- checking if there is a namespace ... OK
- checking for executable files ... OK
- checking for hidden files and directories ... OK
- checking for portable file names ... OK
- checking for sufficient/correct file permissions ... OK
- checking whether package ‘tsDyn’ can be installed ... WARNING
Found the following significant warnings:
Warning: /home/hornik/tmp/R.check/r-devel-ng/Work/PKGS/tsDyn/man/lstar.Rd:8-11: Section \synopsis is unrecognized and will be dropped
Warning: /home/hornik/tmp/R.check/r-devel-ng/Work/PKGS/tsDyn/man/setar.Rd:9-11: Section \synopsis is unrecognized and will be dropped
See http://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian/tsDyn-00install.html for details.
- checking installed package size ... OK
- checking package directory ... OK
- checking DESCRIPTION meta-information ... OK
- checking top-level files ... OK
- checking for left-over files ... OK
- checking index information ... OK
- checking package subdirectories ... OK
- checking R files for non-ASCII characters ... OK
- checking R files for syntax errors ... OK
- checking whether the package can be loaded ... OK
- checking whether the package can be loaded with stated dependencies ... OK
- checking whether the package can be unloaded cleanly ... OK
- checking whether the namespace can be loaded with stated dependencies ... OK
- checking whether the namespace can be unloaded cleanly ... OK
- checking loading without being on the library search path ... OK
- checking for unstated dependencies in R code ... OK
- checking S3 generic/method consistency ... OK
- checking replacement functions ... OK
- checking foreign function calls ... OK
- checking R code for possible problems ... OK
- checking Rd files ... WARNING
prepare_Rd: lstar.Rd:8-11: Section \synopsis is unrecognized and will be dropped
prepare_Rd: setar.Rd:9-11: Section \synopsis is unrecognized and will be dropped
- checking Rd metadata ... OK
- checking Rd cross-references ... OK
- checking for missing documentation entries ... OK
- checking for code/documentation mismatches ... WARNING
Codoc mismatches from documentation object 'LSTAR':
lstar
Code: function(x, m, d = 1, steps = d, series, mL, mH, mTh, thDelay,
thVar, th, gamma, trace = TRUE, include = c("const",
"trend", "none", "both"), control = list(),
starting.control = list())
Docs: function(x, m, d = 1, steps = d, series, mL, mH, thDelay, th,
gamma, trace = TRUE, include = "const", control =
list(), starting.control = list(nTh = 20))
Argument names in code not in docs:
mTh thVar
Mismatches in argument names (first 3):
Position: 8 Code: mTh Docs: thDelay
Position: 9 Code: thDelay Docs: th
Position: 10 Code: thVar Docs: gamma
Mismatches in argument default values:
Name: 'include' Code: c("const", "trend", "none", "both") Docs: "const"
Name: 'starting.control' Code: list() Docs: list(nTh = 20)
lstar
Code: function(x, m, d = 1, steps = d, series, mL, mH, mTh, thDelay,
thVar, th, gamma, trace = TRUE, include = c("const",
"trend", "none", "both"), control = list(),
starting.control = list())
Docs: function(series, m, d, steps, mL, mH, mTh, th, gamma, trace =
TRUE, control = list())
Argument names in code not in docs:
x thDelay thVar include starting.control
Mismatches in argument names (first 3):
Position: 1 Code: x Docs: series
Position: 5 Code: series Docs: mL
Position: 6 Code: mL Docs: mH
Mismatches in argument default values:
Name: 'd' Code: 1 Docs:
Name: 'steps' Code: d Docs:
lstar
Code: function(x, m, d = 1, steps = d, series, mL, mH, mTh, thDelay,
thVar, th, gamma, trace = TRUE, include = c("const",
"trend", "none", "both"), control = list(),
starting.control = list())
Docs: function(series, m, d, steps, mL = m, mH = m, thVar, th, gamma,
trace = TRUE, control = list())
Argument names in code not in docs:
x mTh thDelay include starting.control
Mismatches in argument names (first 3):
Position: 1 Code: x Docs: series
Position: 5 Code: series Docs: mL
Position: 6 Code: mL Docs: mH
Mismatches in argument default values (first 3):
Name: 'd' Code: 1 Docs:
Name: 'steps' Code: d Docs:
Name: 'mL' Code: Docs: m
Codoc mismatches from documentation object 'SETAR':
setar
Code: function(x, m, d = 1, steps = d, series, mL, mM, mH, thDelay =
0, mTh, thVar, th, trace = FALSE, nested = FALSE,
include = c("const", "trend", "none", "both"), common
= c("none", "include", "lags", "both"), model =
c("TAR", "MTAR"), ML = seq_len(mL), MM = seq_len(mM),
MH = seq_len(mH), nthresh = 1, trim = 0.15, type =
c("level", "diff", "ADF"), restriction = c("none",
"OuterSymAll", "OuterSymTh"))
Docs: function(x, m, d = 1, steps = d, series, mL = m, mH = m,
thDelay = 0, th, trace = FALSE, include = c("const",
"trend", "none", "both"), common = FALSE, model =
c("TAR", "MTAR"), ML = seq_len(mL), MH = seq_len(mH),
nthresh = 1, trim = 0.15, type = c("level", "diff",
"ADF"), restriction = c("none", "OuterSymAll",
"OuterSymTh"))
Argument names in code not in docs:
mM mTh thVar nested MM
Mismatches in argument names (first 3):
Position: 7 Code: mM Docs: mH
Position: 8 Code: mH Docs: thDelay
Position: 9 Code: thDelay Docs: th
Mismatches in argument default values:
Name: 'mL' Code: Docs: m
Name: 'mH' Code: Docs: m
Name: 'common' Code: c("none", "include", "lags", "both") Docs: FALSE
setar
Code: function(x, m, d = 1, steps = d, series, mL, mM, mH, thDelay =
0, mTh, thVar, th, trace = FALSE, nested = FALSE,
include = c("const", "trend", "none", "both"), common
= c("none", "include", "lags", "both"), model =
c("TAR", "MTAR"), ML = seq_len(mL), MM = seq_len(mM),
MH = seq_len(mH), nthresh = 1, trim = 0.15, type =
c("level", "diff", "ADF"), restriction = c("none",
"OuterSymAll", "OuterSymTh"))
Docs: function(x, m, d = 1, steps = d, series, mL = m, mH = m, mTh,
th, trace = FALSE, include = c("const", "trend",
"none", "both"), common = FALSE, model = c("TAR",
"MTAR"), ML = seq_len(mL), MH = seq_len(mH), nthresh =
1, trim = 0.15, type = c("level", "diff", "ADF"),
restriction = c("none", "OuterSymAll", "OuterSymTh"))
Argument names in code not in docs:
mM thDelay thVar nested MM
Mismatches in argument names (first 3):
Position: 7 Code: mM Docs: mH
Position: 8 Code: mH Docs: mTh
Position: 9 Code: thDelay Docs: th
Mismatches in argument default values:
Name: 'mL' Code: Docs: m
Name: 'mH' Code: Docs: m
Name: 'common' Code: c("none", "include", "lags", "both") Docs: FALSE
setar
Code: function(x, m, d = 1, steps = d, series, mL, mM, mH, thDelay =
0, mTh, thVar, th, trace = FALSE, nested = FALSE,
include = c("const", "trend", "none", "both"), common
= c("none", "include", "lags", "both"), model =
c("TAR", "MTAR"), ML = seq_len(mL), MM = seq_len(mM),
MH = seq_len(mH), nthresh = 1, trim = 0.15, type =
c("level", "diff", "ADF"), restriction = c("none",
"OuterSymAll", "OuterSymTh"))
Docs: function(x, m, d = 1, steps = d, series, mL = m, mH = m, thVar,
th, trace = FALSE, include = c("const", "trend",
"none", "both"), common = FALSE, model = c("TAR",
"MTAR"), ML = seq_len(mL), MH = seq_len(mH), nthresh =
1, trim = 0.15, type = c("level", "diff", "ADF"),
restriction = c("none", "OuterSymAll", "OuterSymTh"))
Argument names in code not in docs:
mM thDelay mTh nested MM
Mismatches in argument names (first 3):
Position: 7 Code: mM Docs: mH
Position: 8 Code: mH Docs: thVar
Position: 9 Code: thDelay Docs: th
Mismatches in argument default values:
Name: 'mL' Code: Docs: m
Name: 'mH' Code: Docs: m
Name: 'common' Code: c("none", "include", "lags", "both") Docs: FALSE
- checking Rd \usage sections ... OK
- checking Rd contents ... OK
- checking for unstated dependencies in examples ... OK
- checking contents of ‘data’ directory ... OK
- checking data for non-ASCII characters ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking line endings in C/C++/Fortran sources/headers ... OK
- checking line endings in Makefiles ... OK
- checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
- checking compiled code ... OK
- checking sizes of PDF files under ‘inst/doc’ ... OK
- checking installed files from ‘inst/doc’ ... OK
- checking examples ... [31s/31s] OK
- checking for unstated dependencies in tests ... OK
- checking tests ... [46s/46s] OK
Running ‘00SetarAndFriends.R’ [4s/4s]
Comparing ‘00SetarAndFriends.Rout’ to ‘00SetarAndFriends.Rout.save’ ...4,6c4,11
< This is mgcv 1.7-24. For overview type 'help("mgcv-package")'.
< Warning message:
< In initDefaultClusterOptions(libname) : NAs introduced by coercion
---
> This is mgcv 1.7-22. For overview type 'help("mgcv-package")'.
>
> Attaching package: 'Matrix'
>
> The following object(s) are masked from 'package:stats':
>
> toeplitz
>
Running ‘TVECM.sim.R’ [3s/3s]
Comparing ‘TVECM.sim.Rout’ to ‘TVECM.sim.Rout.save’ ...4,6c4,11
< This is mgcv 1.7-24. For overview type 'help("mgcv-package")'.
< Warning message:
< In initDefaultClusterOptions(libname) : NAs introduced by coercion
---
> This is mgcv 1.7-22. For overview type 'help("mgcv-package")'.
>
> Attaching package: 'Matrix'
>
> The following object(s) are masked from 'package:stats':
>
> toeplitz
>
Running ‘TVECM_HSTEST.R’ [4s/5s]
Comparing ‘TVECM_HSTEST.Rout’ to ‘TVECM_HSTEST.Rout.save’ ...4,6c4,11
< This is mgcv 1.7-24. For overview type 'help("mgcv-package")'.
< Warning message:
< In initDefaultClusterOptions(libname) : NAs introduced by coercion
---
> This is mgcv 1.7-22. For overview type 'help("mgcv-package")'.
>
> Attaching package: 'Matrix'
>
> The following object(s) are masked from 'package:stats':
>
> toeplitz
>
Running ‘VAR.R’ [3s/3s]
Comparing ‘VAR.Rout’ to ‘VAR.Rout.save’ ...4,6c4,11
< This is mgcv 1.7-24. For overview type 'help("mgcv-package")'.
< Warning message:
< In initDefaultClusterOptions(libname) : NAs introduced by coercion
---
> This is mgcv 1.7-22. For overview type 'help("mgcv-package")'.
>
> Attaching package: 'Matrix'
>
> The following object(s) are masked from 'package:stats':
>
> toeplitz
>
Running ‘VECM.R’ [6s/6s]
Comparing ‘VECM.Rout’ to ‘VECM.Rout.save’ ...4,6c4,11
< This is mgcv 1.7-24. For overview type 'help("mgcv-package")'.
< Warning message:
< In initDefaultClusterOptions(libname) : NAs introduced by coercion
---
> This is mgcv 1.7-22. For overview type 'help("mgcv-package")'.
>
> Attaching package: 'Matrix'
>
> The following object(s) are masked from 'package:stats':
>
> toeplitz
>
Running ‘compare_tsDyn_vars.R’ [5s/5s]
Comparing ‘compare_tsDyn_vars.Rout’ to ‘compare_tsDyn_vars.Rout.save’ ...5,7c5,12
< This is mgcv 1.7-24. For overview type 'help("mgcv-package")'.
< Warning message:
< In initDefaultClusterOptions(libname) : NAs introduced by coercion
---
> This is mgcv 1.7-22. For overview type 'help("mgcv-package")'.
>
> Attaching package: 'Matrix'
>
> The following object(s) are masked from 'package:stats':
>
> toeplitz
>
12c17
< The following object is masked from 'package:base':
---
> The following object(s) are masked from 'package:base':
71c76
< [2] "Mean relative difference: 1.830199e-08"
---
> [2] "Mean relative difference: 1.830196e-08"
75c80
< [6] "Mean relative difference: 1.551177e-08"
---
> [6] "Mean relative difference: 1.551162e-08"
96,97c101,102
< [5] "Mean relative difference: 2.717637e-08"
< [6] "Mean relative difference: 1.916822e-08"
---
> [5] "Mean relative difference: 2.719027e-08"
> [6] "Mean relative difference: 1.916757e-08"
Running ‘lstar.R’ [9s/9s]
Comparing ‘lstar.Rout’ to ‘lstar.Rout.save’ ...4,6c4,11
< This is mgcv 1.7-24. For overview type 'help("mgcv-package")'.
< Warning message:
< In initDefaultClusterOptions(libname) : NAs introduced by coercion
---
> This is mgcv 1.7-22. For overview type 'help("mgcv-package")'.
>
> Attaching package: 'Matrix'
>
> The following object(s) are masked from 'package:stats':
>
> toeplitz
>
65c70
< const1 0.489101 0.204915 2.3868 0.0169935 *
---
> const1 0.489101 0.204914 2.3869 0.0169929 *
68,72c73,77
< const2 -1.024076 2.430098 -0.4214 0.6734533
< phi2.1 0.423267 0.172146 2.4588 0.0139417 *
< phi2.2 -0.254609 0.585422 -0.4349 0.6636244
< gamma 11.153834 10.004788 1.1148 0.2649149
< th 3.339199 0.092749 36.0024 < 2.2e-16 ***
---
> const2 -1.024076 2.430067 -0.4214 0.6734493
> phi2.1 0.423267 0.172146 2.4588 0.0139415 *
> phi2.2 -0.254609 0.585416 -0.4349 0.6636208
> gamma 11.153834 10.004737 1.1149 0.2649124
> th 3.339199 0.092748 36.0030 < 2.2e-16 ***
147,152c152,157
< const1 0.288460 0.246037 1.1724 0.2410
< phi1.1 0.928029 0.094170 9.8549 <2e-16 ***
< const2 -0.672632 1.336363 -0.5033 0.6147
< phi2.1 0.133119 0.384826 0.3459 0.7294
< gamma 100.003135 93.728989 1.0669 0.2860
< th 3.235652 0.021024 153.9038 <2e-16 ***
---
> const1 0.288460 0.246039 1.1724 0.2410
> phi1.1 0.928029 0.094171 9.8547 <2e-16 ***
> const2 -0.672632 1.336549 -0.5033 0.6148
> phi2.1 0.133119 0.384879 0.3459 0.7294
> gamma 100.003135 93.792934 1.0662 0.2863
> th 3.235652 0.021034 153.8282 <2e-16 ***
226,231c231,236
< phi1.1 1.40051 0.17405 8.0465 8.882e-16 ***
< phi1.2 -0.22537 0.21245 -1.0608 0.288778
< phi2.1 0.76605 0.31698 2.4167 0.015661 *
< phi2.2 -1.05528 0.38300 -2.7553 0.005863 **
< gamma 2.45691 1.31198 1.8727 0.061114 .
< th 2.70784 0.15801 17.1375 < 2.2e-16 ***
---
> phi1.1 1.40051 0.17418 8.0406 8.882e-16 ***
> phi1.2 -0.22537 0.21261 -1.0600 0.289142
> phi2.1 0.76605 0.31715 2.4154 0.015717 *
> phi2.2 -1.05528 0.38318 -2.7540 0.005887 **
> gamma 2.45691 1.30651 1.8805 0.060039 .
> th 2.70784 0.15844 17.0908 < 2.2e-16 ***
305,312c310,317
< trend1 1.8252e-05 1.6342e-03 0.0112 0.991089
< phi1.1 1.4037e+00 1.6546e-01 8.4833 < 2.2e-16 ***
< phi1.2 -2.3333e-01 2.1022e-01 -1.1099 0.267047
< trend2 6.9321e-04 2.3867e-03 0.2904 0.771473
< phi2.1 7.3901e-01 2.9735e-01 2.4853 0.012945 *
< phi2.2 -1.0305e+00 3.5984e-01 -2.8639 0.004185 **
< gamma 2.5757e+00 1.3490e+00 1.9094 0.056213 .
< th 2.6980e+00 1.6637e-01 16.2169 < 2.2e-16 ***
---
> trend1 1.8252e-05 1.6344e-03 0.0112 0.991090
> phi1.1 1.4037e+00 1.6554e-01 8.4793 < 2.2e-16 ***
> phi1.2 -2.3333e-01 2.1044e-01 -1.1087 0.267542
> trend2 6.9321e-04 2.3867e-03 0.2904 0.771476
> phi2.1 7.3901e-01 2.9754e-01 2.4837 0.013002 *
> phi2.2 -1.0305e+00 3.6030e-01 -2.8602 0.004234 **
> gamma 2.5757e+00 1.3529e+00 1.9038 0.056942 .
> th 2.6980e+00 1.6629e-01 16.2246 < 2.2e-16 ***
388,397c393,402
< const1 3.8694e-01 3.1768e-01 1.2180 0.2232142
< trend1 2.5958e-04 1.3092e-03 0.1983 0.8428239
< phi1.1 1.2410e+00 1.5052e-01 8.2444 2.220e-16 ***
< phi1.2 -3.2770e-01 9.8629e-02 -3.3226 0.0008919 ***
< const2 7.9812e-01 3.7117e-01 2.1503 0.0315332 *
< trend2 1.9957e-04 1.4824e-03 0.1346 0.8929096
< phi2.1 3.0345e-01 1.7018e-01 1.7831 0.0745682 .
< phi2.2 -6.3465e-01 1.2179e-01 -5.2110 1.879e-07 ***
< gamma 1.0000e+02 8.0617e+01 1.2404 0.2148175
< th 2.5681e+00 1.4783e-02 173.7186 < 2.2e-16 ***
---
> const1 3.8694e-01 3.1768e-01 1.2180 0.223218
> trend1 2.5958e-04 1.3092e-03 0.1983 0.842824
> phi1.1 1.2410e+00 1.5053e-01 8.2443 2.220e-16 ***
> phi1.2 -3.2770e-01 9.8630e-02 -3.3226 0.000892 ***
> const2 7.9812e-01 3.7117e-01 2.1503 0.031534 *
> trend2 1.9957e-04 1.4824e-03 0.1346 0.892910
> phi2.1 3.0345e-01 1.7018e-01 1.7831 0.074570 .
> phi2.2 -6.3465e-01 1.2179e-01 -5.2109 1.879e-07 ***
> gamma 1.0000e+02 8.0617e+01 1.2404 0.214813
> th 2.5681e+00 1.4783e-02 173.7213 < 2.2e-16 ***
Running ‘nlar-methods.R’ [4s/4s]
Comparing ‘nlar-methods.Rout’ to ‘nlar-methods.Rout.save’ ...4,6c4,11
< This is mgcv 1.7-24. For overview type 'help("mgcv-package")'.
< Warning message:
< In initDefaultClusterOptions(libname) : NAs introduced by coercion
---
> This is mgcv 1.7-22. For overview type 'help("mgcv-package")'.
>
> Attaching package: 'Matrix'
>
> The following object(s) are masked from 'package:stats':
>
> toeplitz
>
Running ‘regime.R’ [4s/4s]
Running ‘toMlm.R’ [2s/2s]
Comparing ‘toMlm.Rout’ to ‘toMlm.Rout.save’ ...4,6c4,11
< This is mgcv 1.7-24. For overview type 'help("mgcv-package")'.
< Warning message:
< In initDefaultClusterOptions(libname) : NAs introduced by coercion
---
> This is mgcv 1.7-22. For overview type 'help("mgcv-package")'.
>
> Attaching package: 'Matrix'
>
> The following object(s) are masked from 'package:stats':
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> toeplitz
>
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes in ‘inst/doc’ ... OK
- checking running R code from vignettes ... [14s/14s] OK
- checking re-building of vignette PDFs ... [15s/16s] OK
- checking PDF version of manual ... OK
WARNING: There were 3 warnings.
See
‘/home/hornik/tmp/R.check/r-devel-ng/Work/PKGS/tsDyn.Rcheck/00check.log’
for details.