Last updated on 2020-09-23 08:08:43 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.3 | 45.54 | 425.20 | 470.74 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.3 | 38.09 | 337.23 | 375.32 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.3 | 586.52 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0.3 | 563.13 | OK | |||
| r-devel-windows-ix86+x86_64 | 1.0.3 | 83.00 | 485.00 | 568.00 | OK | |
| r-patched-linux-x86_64 | 1.0.3 | 45.88 | 404.92 | 450.80 | OK | |
| r-patched-solaris-x86 | 1.0.3 | 807.60 | WARN | |||
| r-release-linux-x86_64 | 1.0.3 | 41.72 | 409.21 | 450.93 | OK | |
| r-release-macos-x86_64 | 1.0.3 | ERROR | ||||
| r-release-windows-ix86+x86_64 | 1.0.3 | 85.00 | 477.00 | 562.00 | OK | |
| r-oldrel-macos-x86_64 | 1.0.3 | WARN | ||||
| r-oldrel-windows-ix86+x86_64 | 1.0.3 | 57.00 | 333.00 | 390.00 | OK |
Version: 1.0.3
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building ‘i-introduction.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
--- finished re-building ‘i-introduction.Rmd’
--- re-building ‘ii-modules.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Attaching package: 'igraph'
The following objects are masked from 'package:stats':
decompose, spectrum
The following object is masked from 'package:base':
union
Loading required package: quickPlot
Loading required package: reproducible
Attaching package: 'SpaDES.core'
The following objects are masked from 'package:stats':
end, start
The following object is masked from 'package:utils':
citation
Loading required package: SpaDES.tools
Loading required package: RandomFields
Loading required package: sp
Loading required package: RandomFieldsUtils
Attaching package: 'RandomFields'
The following object is masked from 'package:RandomFieldsUtils':
RFoptions
Setting:
options(
spades.modulePath = '/home/ripley/R/Lib32/SpaDES.core/sampleModules'
)
Paths set to:
options(
rasterTmpDir = '/tmp/Rtmp_HaqXT/working_dir/Rtmp9Caqc5/raster'
reproducible.cachePath = '/tmp/Rtmp_HaqXT/working_dir/Rtmp9Caqc5/Require/cache'
spades.inputPath = '/tmp/RtmpG0aG_a/SpaDES/inputs'
spades.outputPath = '/tmp/RtmpG0aG_a/SpaDES/outputs'
spades.modulePath = '/home/ripley/R/Lib32/SpaDES.core/sampleModules'
)
Loading required package: RColorBrewer
Loading required package: raster
2020-09-22 23:34:17 INFO:: total elpsd: 0.0056 secs | 0 checkpoint init 0
2020-09-22 23:34:17 INFO:: total elpsd: 0.79 secs | 0 save init 0
2020-09-22 23:34:17 INFO:: total elpsd: 0.79 secs | 0 progress init 0
2020-09-22 23:34:17 INFO:: total elpsd: 0.8 secs | 0 load init 0
2020-09-22 23:34:17 INFO:: total elpsd: 0.81 secs | 0 randomLandscapes init
2020-09-22 23:34:22 INFO:: total elpsd: 5.7 secs | 0 fireSpread init 1
2020-09-22 23:34:22 INFO:: total elpsd: 5.8 secs | 0 caribouMovement init 1
2020-09-22 23:34:22 INFO:: total elpsd: 5.8 secs | 0 fireSpread burn 5
2020-09-22 23:34:23 INFO:: total elpsd: 6.2 secs | 0 fireSpread stats 5
2020-09-22 23:34:23 INFO:: total elpsd: 6.3 secs | 0 randomLandscapes plot 1
2020-09-22 23:34:23 INFO:: total elpsd: 6.8 secs | 0 fireSpread plot.init 10
2020-09-22 23:34:24 INFO:: total elpsd: 7.1 secs | 0.08333 caribouMovement p
2020-09-22 23:34:24 INFO:: total elpsd: 7.4 secs | 0.1667 caribouMovement pl
2020-09-22 23:34:24 INFO:: total elpsd: 7.6 secs | 0.25 caribouMovement plot
2020-09-22 23:34:24 INFO:: total elpsd: 7.8 secs | 0.3333 caribouMovement pl
2020-09-22 23:34:24 INFO:: total elpsd: 7.9 secs | 0.4167 caribouMovement pl
2020-09-22 23:34:25 INFO:: total elpsd: 8.1 secs | 0.5 caribouMovement plot
2020-09-22 23:34:25 INFO:: total elpsd: 8.3 secs | 0.5833 caribouMovement pl
2020-09-22 23:34:25 INFO:: total elpsd: 8.5 secs | 0.6667 caribouMovement pl
2020-09-22 23:34:25 INFO:: total elpsd: 8.7 secs | 0.75 caribouMovement plot
2020-09-22 23:34:25 INFO:: total elpsd: 8.9 secs | 0.8333 caribouMovement pl
2020-09-22 23:34:26 INFO:: total elpsd: 9 secs | 0.9167 caribouMovement plot
2020-09-22 23:34:26 INFO:: total elpsd: 9.2 secs | 1 caribouMovement move 5
2020-09-22 23:34:26 INFO:: total elpsd: 9.3 secs | 1 fireSpread burn 5
2020-09-22 23:34:27 INFO:: total elpsd: 11 secs | 1 fireSpread stats 5
2020-09-22 23:34:27 INFO:: total elpsd: 11 secs | 1 caribouMovement plot 10
2020-09-22 23:34:28 INFO:: total elpsd: 11 secs | 1.083 caribouMovement move
2020-09-22 23:34:28 INFO:: total elpsd: 11 secs | 1.083 caribouMovement plot
2020-09-22 23:34:28 INFO:: total elpsd: 11 secs | 1.167 caribouMovement move
2020-09-22 23:34:28 INFO:: total elpsd: 11 secs | 1.167 caribouMovement plot
2020-09-22 23:34:28 INFO:: total elpsd: 12 secs | 1.25 caribouMovement move
2020-09-22 23:34:28 INFO:: total elpsd: 12 secs | 1.25 caribouMovement plot
2020-09-22 23:34:28 INFO:: total elpsd: 12 secs | 1.333 caribouMovement move
2020-09-22 23:34:28 INFO:: total elpsd: 12 secs | 1.333 caribouMovement plot
2020-09-22 23:34:29 INFO:: total elpsd: 12 secs | 1.417 caribouMovement move
2020-09-22 23:34:29 INFO:: total elpsd: 12 secs | 1.417 caribouMovement plot
2020-09-22 23:34:29 INFO:: total elpsd: 12 secs | 1.5 caribouMovement move 5
2020-09-22 23:34:29 INFO:: total elpsd: 12 secs | 1.5 caribouMovement plot 1
2020-09-22 23:34:29 INFO:: total elpsd: 13 secs | 1.583 caribouMovement move
2020-09-22 23:34:29 INFO:: total elpsd: 13 secs | 1.583 caribouMovement plot
2020-09-22 23:34:29 INFO:: total elpsd: 13 secs | 1.667 caribouMovement move
2020-09-22 23:34:29 INFO:: total elpsd: 13 secs | 1.667 caribouMovement plot
2020-09-22 23:34:29 INFO:: total elpsd: 13 secs | 1.75 caribouMovement move
2020-09-22 23:34:29 INFO:: total elpsd: 13 secs | 1.75 caribouMovement plot
2020-09-22 23:34:30 INFO:: total elpsd: 13 secs | 1.833 caribouMovement move
2020-09-22 23:34:30 INFO:: total elpsd: 13 secs | 1.833 caribouMovement plot
2020-09-22 23:34:30 INFO:: total elpsd: 13 secs | 1.917 caribouMovement move
2020-09-22 23:34:30 INFO:: total elpsd: 13 secs | 1.917 caribouMovement plot
2020-09-22 23:34:30 INFO:: total elpsd: 14 secs | 2 fireSpread burn 5
2020-09-22 23:34:30 INFO:: total elpsd: 14 secs | 2 caribouMovement move 5
2020-09-22 23:34:30 INFO:: total elpsd: 14 secs | 2 fireSpread stats 5
2020-09-22 23:34:30 INFO:: total elpsd: 14 secs | 2 caribouMovement plot 10
simList saved in
SpaDES.core:::.pkgEnv$.sim
It will be deleted at next spades() call.
Quitting from lines 386-390 (ii-modules.Rmd)
Error: processing vignette 'ii-modules.Rmd' failed with diagnostics:
there is no package called 'webshot'
--- failed re-building ‘ii-modules.Rmd’
--- re-building ‘iii-cache.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Loading required package: sp
Attaching package: 'raster'
The following object is masked from 'package:magrittr':
extract
Loading required package: quickPlot
Attaching package: 'SpaDES.core'
The following objects are masked from 'package:stats':
end, start
The following object is masked from 'package:utils':
citation
Setting:
options(
spades.modulePath = '/home/ripley/R/Lib32/SpaDES.core/sampleModules'
)
Paths set to:
options(
rasterTmpDir = '/tmp/Rtmp_HaqXT/working_dir/Rtmpoiay.f/raster'
reproducible.cachePath = '/tmp/Rtmp_HaqXT/working_dir/Rtmpoiay.f/Require/cache'
spades.inputPath = '/tmp/RtmpG0aG_a/SpaDES/inputs'
spades.outputPath = '/tmp/RtmpG0aG_a/SpaDES/outputs'
spades.modulePath = '/home/ripley/R/Lib32/SpaDES.core/sampleModules'
)
Loading required package: RColorBrewer
Loading required package: SpaDES.tools
--- finished re-building ‘iii-cache.Rmd’
--- re-building ‘iv-advanced.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
--- finished re-building ‘iv-advanced.Rmd’
SUMMARY: processing the following file failed:
‘ii-modules.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-solaris-x86
Version: 1.0.3
Check: tests
Result: ERROR
Running ‘test-all.R’ [64s/69s]
Running the tests in ‘tests/test-all.R’ failed.
Last 13 lines of output:
Backtrace:
1. testthat::expect_true(any(grepl("grandpar1", communities(mg$communities)[["1"]])))
5. igraph::communities(mg$communities)
6. igraph::membership(x)
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 508 | SKIPPED: 18 | WARNINGS: 2 | FAILED: 5 ]
1. Failure: 3 levels of parent and child modules load and show correctly (@test-module-deps-methods.R#215)
2. Failure: 3 levels of parent and child modules load and show correctly (@test-module-deps-methods.R#216)
3. Failure: 3 levels of parent and child modules load and show correctly (@test-module-deps-methods.R#217)
4. Failure: 3 levels of parent and child modules load and show correctly (@test-module-deps-methods.R#218)
5. Error: 3 levels of parent and child modules load and show correctly (@test-module-deps-methods.R#219)
Error: testthat unit tests failed
Execution halted
Flavor: r-release-macos-x86_64
Version: 1.0.3
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘i-introduction.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
--- finished re-building ‘i-introduction.Rmd’
--- re-building ‘ii-modules.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Attaching package: 'igraph'
The following objects are masked from 'package:stats':
decompose, spectrum
The following object is masked from 'package:base':
union
Loading required package: quickPlot
Loading required package: reproducible
Attaching package: 'SpaDES.core'
The following objects are masked from 'package:stats':
end, start
The following object is masked from 'package:utils':
citation
Loading required package: SpaDES.tools
Loading required package: RandomFields
Loading required package: sp
Loading required package: RandomFieldsUtils
Attaching package: 'RandomFields'
The following object is masked from 'package:RandomFieldsUtils':
RFoptions
Setting:
options(
spades.modulePath = '/Volumes/Builds/packages/high-sierra-x86_64/results/4.0/SpaDES.core.Rcheck/SpaDES.core/sampleModules'
)
Paths set to:
options(
rasterTmpDir = '/Volumes/Temp/tmp/RtmpsFtBYf/raster'
reproducible.cachePath = '/Volumes/Temp/tmp/RtmpsFtBYf/Require/cache'
spades.inputPath = '/Volumes/Temp/tmp/RtmpsQ9YgY/SpaDES/inputs'
spades.outputPath = '/Volumes/Temp/tmp/RtmpsQ9YgY/SpaDES/outputs'
spades.modulePath = '/Volumes/Builds/packages/high-sierra-x86_64/results/4.0/SpaDES.core.Rcheck/SpaDES.core/sampleModules'
)
Loading required package: RColorBrewer
Loading required package: raster
2020-09-21 06:58:08 INFO:: total elpsd: 0.0015 secs | 0 checkpoint init 0
2020-09-21 06:58:08 INFO:: total elpsd: 0.14 secs | 0 save init 0
2020-09-21 06:58:08 INFO:: total elpsd: 0.15 secs | 0 progress init 0
2020-09-21 06:58:08 INFO:: total elpsd: 0.15 secs | 0 load init 0
2020-09-21 06:58:08 INFO:: total elpsd: 0.15 secs | 0 randomLandscapes init
2020-09-21 06:58:09 INFO:: total elpsd: 0.92 secs | 0 fireSpread init 1
2020-09-21 06:58:09 INFO:: total elpsd: 0.94 secs | 0 caribouMovement init 1
2020-09-21 06:58:09 INFO:: total elpsd: 0.96 secs | 0 fireSpread burn 5
2020-09-21 06:58:09 INFO:: total elpsd: 1 secs | 0 fireSpread stats 5
2020-09-21 06:58:09 INFO:: total elpsd: 1 secs | 0 randomLandscapes plot 10
2020-09-21 06:58:09 INFO:: total elpsd: 1.1 secs | 0 fireSpread plot.init 10
2020-09-21 06:58:09 INFO:: total elpsd: 1.2 secs | 0.08333 caribouMovement p
2020-09-21 06:58:09 INFO:: total elpsd: 1.3 secs | 0.1667 caribouMovement pl
2020-09-21 06:58:09 INFO:: total elpsd: 1.3 secs | 0.25 caribouMovement plot
2020-09-21 06:58:09 INFO:: total elpsd: 1.4 secs | 0.3333 caribouMovement pl
2020-09-21 06:58:09 INFO:: total elpsd: 1.4 secs | 0.4167 caribouMovement pl
2020-09-21 06:58:10 INFO:: total elpsd: 1.5 secs | 0.5 caribouMovement plot
2020-09-21 06:58:10 INFO:: total elpsd: 1.5 secs | 0.5833 caribouMovement pl
2020-09-21 06:58:10 INFO:: total elpsd: 1.6 secs | 0.6667 caribouMovement pl
2020-09-21 06:58:10 INFO:: total elpsd: 1.7 secs | 0.75 caribouMovement plot
2020-09-21 06:58:10 INFO:: total elpsd: 1.7 secs | 0.8333 caribouMovement pl
2020-09-21 06:58:10 INFO:: total elpsd: 1.8 secs | 0.9167 caribouMovement pl
2020-09-21 06:58:10 INFO:: total elpsd: 1.8 secs | 1 caribouMovement move 5
2020-09-21 06:58:10 INFO:: total elpsd: 1.9 secs | 1 fireSpread burn 5
2020-09-21 06:58:10 INFO:: total elpsd: 2.2 secs | 1 fireSpread stats 5
2020-09-21 06:58:10 INFO:: total elpsd: 2.2 secs | 1 caribouMovement plot 10
2020-09-21 06:58:10 INFO:: total elpsd: 2.3 secs | 1.083 caribouMovement mov
2020-09-21 06:58:10 INFO:: total elpsd: 2.3 secs | 1.083 caribouMovement plo
2020-09-21 06:58:10 INFO:: total elpsd: 2.4 secs | 1.167 caribouMovement mov
2020-09-21 06:58:10 INFO:: total elpsd: 2.4 secs | 1.167 caribouMovement plo
2020-09-21 06:58:10 INFO:: total elpsd: 2.4 secs | 1.25 caribouMovement move
2020-09-21 06:58:10 INFO:: total elpsd: 2.5 secs | 1.25 caribouMovement plot
2020-09-21 06:58:11 INFO:: total elpsd: 2.5 secs | 1.333 caribouMovement mov
2020-09-21 06:58:11 INFO:: total elpsd: 2.5 secs | 1.333 caribouMovement plo
2020-09-21 06:58:11 INFO:: total elpsd: 2.6 secs | 1.417 caribouMovement mov
2020-09-21 06:58:11 INFO:: total elpsd: 2.6 secs | 1.417 caribouMovement plo
2020-09-21 06:58:11 INFO:: total elpsd: 2.6 secs | 1.5 caribouMovement move
2020-09-21 06:58:11 INFO:: total elpsd: 2.6 secs | 1.5 caribouMovement plot
2020-09-21 06:58:11 INFO:: total elpsd: 2.7 secs | 1.583 caribouMovement mov
2020-09-21 06:58:11 INFO:: total elpsd: 2.7 secs | 1.583 caribouMovement plo
2020-09-21 06:58:11 INFO:: total elpsd: 2.8 secs | 1.667 caribouMovement mov
2020-09-21 06:58:11 INFO:: total elpsd: 2.8 secs | 1.667 caribouMovement plo
2020-09-21 06:58:11 INFO:: total elpsd: 2.8 secs | 1.75 caribouMovement move
2020-09-21 06:58:11 INFO:: total elpsd: 2.9 secs | 1.75 caribouMovement plot
2020-09-21 06:58:11 INFO:: total elpsd: 2.9 secs | 1.833 caribouMovement mov
2020-09-21 06:58:11 INFO:: total elpsd: 2.9 secs | 1.833 caribouMovement plo
2020-09-21 06:58:11 INFO:: total elpsd: 3 secs | 1.917 caribouMovement move
2020-09-21 06:58:11 INFO:: total elpsd: 3 secs | 1.917 caribouMovement plot
2020-09-21 06:58:11 INFO:: total elpsd: 3 secs | 2 fireSpread burn 5
2020-09-21 06:58:11 INFO:: total elpsd: 3.1 secs | 2 caribouMovement move 5
2020-09-21 06:58:11 INFO:: total elpsd: 3.1 secs | 2 fireSpread stats 5
2020-09-21 06:58:11 INFO:: total elpsd: 3.1 secs | 2 caribouMovement plot 10
simList saved in
SpaDES.core:::.pkgEnv$.sim
It will be deleted at next spades() call.
Quitting from lines 386-390 (ii-modules.Rmd)
Error: processing vignette 'ii-modules.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘ii-modules.Rmd’
--- re-building ‘iii-cache.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Loading required package: sp
Attaching package: 'raster'
The following object is masked from 'package:magrittr':
extract
Loading required package: quickPlot
Attaching package: 'SpaDES.core'
The following objects are masked from 'package:stats':
end, start
The following object is masked from 'package:utils':
citation
Setting:
options(
spades.modulePath = '/Volumes/Builds/packages/high-sierra-x86_64/results/4.0/SpaDES.core.Rcheck/SpaDES.core/sampleModules'
)
Paths set to:
options(
rasterTmpDir = '/Volumes/Temp/tmp/RtmpjSlp4O/raster'
reproducible.cachePath = '/Volumes/Temp/tmp/RtmpjSlp4O/Require/cache'
spades.inputPath = '/Volumes/Temp/tmp/RtmpsQ9YgY/SpaDES/inputs'
spades.outputPath = '/Volumes/Temp/tmp/RtmpsQ9YgY/SpaDES/outputs'
spades.modulePath = '/Volumes/Builds/packages/high-sierra-x86_64/results/4.0/SpaDES.core.Rcheck/SpaDES.core/sampleModules'
)
Loading required package: RColorBrewer
Loading required package: SpaDES.tools
--- finished re-building ‘iii-cache.Rmd’
--- re-building ‘iv-advanced.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
--- finished re-building ‘iv-advanced.Rmd’
SUMMARY: processing the following file failed:
‘ii-modules.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-macos-x86_64
Version: 1.0.3
Check: dependencies in R code
Result: NOTE
No protocol specified
No protocol specified
Flavor: r-oldrel-macos-x86_64
Version: 1.0.3
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘i-introduction.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
--- finished re-building ‘i-introduction.Rmd’
--- re-building ‘ii-modules.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Attaching package: 'igraph'
The following objects are masked from 'package:stats':
decompose, spectrum
The following object is masked from 'package:base':
union
Loading required package: quickPlot
Loading required package: reproducible
Attaching package: 'SpaDES.core'
The following objects are masked from 'package:stats':
end, start
The following object is masked from 'package:utils':
citation
Loading required package: SpaDES.tools
Loading required package: RandomFields
Loading required package: sp
Loading required package: RandomFieldsUtils
Attaching package: 'RandomFields'
The following object is masked from 'package:RandomFieldsUtils':
RFoptions
Setting:
options(
spades.modulePath = '/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/SpaDES.core.Rcheck/SpaDES.core/sampleModules'
)
Paths set to:
options(
rasterTmpDir = '/private/tmp/RtmpifS0II/raster'
reproducible.cachePath = '/private/tmp/RtmpifS0II/Require/cache'
spades.inputPath = '/private/tmp/Rtmp6n1B7F/SpaDES/inputs'
spades.outputPath = '/private/tmp/Rtmp6n1B7F/SpaDES/outputs'
spades.modulePath = '/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/SpaDES.core.Rcheck/SpaDES.core/sampleModules'
)
Loading required package: RColorBrewer
Loading required package: raster
2020-09-13 04:56:32 INFO:: total elpsd: 0.0023 secs | 0 checkpoint init 0
2020-09-13 04:56:33 INFO:: total elpsd: 0.39 secs | 0 save init 0
2020-09-13 04:56:33 INFO:: total elpsd: 0.39 secs | 0 progress init 0
2020-09-13 04:56:33 INFO:: total elpsd: 0.39 secs | 0 load init 0
2020-09-13 04:56:33 INFO:: total elpsd: 0.4 secs | 0 randomLandscapes init 1
2020-09-13 04:56:34 INFO:: total elpsd: 2.1 secs | 0 fireSpread init 1
2020-09-13 04:56:34 INFO:: total elpsd: 2.2 secs | 0 caribouMovement init 1
2020-09-13 04:56:35 INFO:: total elpsd: 2.2 secs | 0 fireSpread burn 5
2020-09-13 04:56:35 INFO:: total elpsd: 2.3 secs | 0 fireSpread stats 5
2020-09-13 04:56:35 INFO:: total elpsd: 2.3 secs | 0 randomLandscapes plot 1
2020-09-13 04:56:35 INFO:: total elpsd: 2.5 secs | 0 fireSpread plot.init 10
2020-09-13 04:56:35 INFO:: total elpsd: 2.7 secs | 0.08333 caribouMovement p
2020-09-13 04:56:35 INFO:: total elpsd: 2.8 secs | 0.1667 caribouMovement pl
2020-09-13 04:56:35 INFO:: total elpsd: 2.9 secs | 0.25 caribouMovement plot
2020-09-13 04:56:35 INFO:: total elpsd: 3.1 secs | 0.3333 caribouMovement pl
2020-09-13 04:56:36 INFO:: total elpsd: 3.2 secs | 0.4167 caribouMovement pl
2020-09-13 04:56:36 INFO:: total elpsd: 3.3 secs | 0.5 caribouMovement plot
2020-09-13 04:56:36 INFO:: total elpsd: 3.5 secs | 0.5833 caribouMovement pl
2020-09-13 04:56:36 INFO:: total elpsd: 3.6 secs | 0.6667 caribouMovement pl
2020-09-13 04:56:36 INFO:: total elpsd: 3.7 secs | 0.75 caribouMovement plot
2020-09-13 04:56:36 INFO:: total elpsd: 3.9 secs | 0.8333 caribouMovement pl
2020-09-13 04:56:36 INFO:: total elpsd: 4 secs | 0.9167 caribouMovement plot
2020-09-13 04:56:36 INFO:: total elpsd: 4.1 secs | 1 caribouMovement move 5
2020-09-13 04:56:36 INFO:: total elpsd: 4.2 secs | 1 fireSpread burn 5
2020-09-13 04:56:37 INFO:: total elpsd: 5 secs | 1 fireSpread stats 5
2020-09-13 04:56:37 INFO:: total elpsd: 5 secs | 1 caribouMovement plot 10
2020-09-13 04:56:37 INFO:: total elpsd: 5.1 secs | 1.083 caribouMovement mov
2020-09-13 04:56:37 INFO:: total elpsd: 5.1 secs | 1.083 caribouMovement plo
2020-09-13 04:56:38 INFO:: total elpsd: 5.3 secs | 1.167 caribouMovement mov
2020-09-13 04:56:38 INFO:: total elpsd: 5.3 secs | 1.167 caribouMovement plo
2020-09-13 04:56:38 INFO:: total elpsd: 5.4 secs | 1.25 caribouMovement move
2020-09-13 04:56:38 INFO:: total elpsd: 5.4 secs | 1.25 caribouMovement plot
2020-09-13 04:56:38 INFO:: total elpsd: 5.6 secs | 1.333 caribouMovement mov
2020-09-13 04:56:38 INFO:: total elpsd: 5.6 secs | 1.333 caribouMovement plo
2020-09-13 04:56:38 INFO:: total elpsd: 5.7 secs | 1.417 caribouMovement mov
2020-09-13 04:56:38 INFO:: total elpsd: 5.7 secs | 1.417 caribouMovement plo
2020-09-13 04:56:38 INFO:: total elpsd: 5.9 secs | 1.5 caribouMovement move
2020-09-13 04:56:38 INFO:: total elpsd: 5.9 secs | 1.5 caribouMovement plot
2020-09-13 04:56:38 INFO:: total elpsd: 6 secs | 1.583 caribouMovement move
2020-09-13 04:56:38 INFO:: total elpsd: 6 secs | 1.583 caribouMovement plot
2020-09-13 04:56:38 INFO:: total elpsd: 6.1 secs | 1.667 caribouMovement mov
2020-09-13 04:56:38 INFO:: total elpsd: 6.2 secs | 1.667 caribouMovement plo
2020-09-13 04:56:39 INFO:: total elpsd: 6.3 secs | 1.75 caribouMovement move
2020-09-13 04:56:39 INFO:: total elpsd: 6.3 secs | 1.75 caribouMovement plot
2020-09-13 04:56:39 INFO:: total elpsd: 6.4 secs | 1.833 caribouMovement mov
2020-09-13 04:56:39 INFO:: total elpsd: 6.4 secs | 1.833 caribouMovement plo
2020-09-13 04:56:39 INFO:: total elpsd: 6.6 secs | 1.917 caribouMovement mov
2020-09-13 04:56:39 INFO:: total elpsd: 6.6 secs | 1.917 caribouMovement plo
2020-09-13 04:56:39 INFO:: total elpsd: 6.7 secs | 2 fireSpread burn 5
2020-09-13 04:56:39 INFO:: total elpsd: 6.8 secs | 2 caribouMovement move 5
2020-09-13 04:56:39 INFO:: total elpsd: 6.8 secs | 2 fireSpread stats 5
2020-09-13 04:56:39 INFO:: total elpsd: 6.8 secs | 2 caribouMovement plot 10
simList saved in
SpaDES.core:::.pkgEnv$.sim
It will be deleted at next spades() call.
Quitting from lines 386-390 (ii-modules.Rmd)
Error: processing vignette 'ii-modules.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘ii-modules.Rmd’
--- re-building ‘iii-cache.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Loading required package: sp
Attaching package: 'raster'
The following object is masked from 'package:magrittr':
extract
Loading required package: quickPlot
Attaching package: 'SpaDES.core'
The following objects are masked from 'package:stats':
end, start
The following object is masked from 'package:utils':
citation
Setting:
options(
spades.modulePath = '/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/SpaDES.core.Rcheck/SpaDES.core/sampleModules'
)
Paths set to:
options(
rasterTmpDir = '/private/tmp/Rtmpn36SIZ/raster'
reproducible.cachePath = '/private/tmp/Rtmpn36SIZ/Require/cache'
spades.inputPath = '/private/tmp/Rtmp6n1B7F/SpaDES/inputs'
spades.outputPath = '/private/tmp/Rtmp6n1B7F/SpaDES/outputs'
spades.modulePath = '/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/SpaDES.core.Rcheck/SpaDES.core/sampleModules'
)
Loading required package: RColorBrewer
Loading required package: SpaDES.tools
--- finished re-building ‘iii-cache.Rmd’
--- re-building ‘iv-advanced.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
--- finished re-building ‘iv-advanced.Rmd’
SUMMARY: processing the following file failed:
‘ii-modules.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-macos-x86_64