Error(s) in re-building vignettes:
  ...
--- re-building ‘Appendix_S2_Valcu_et_al_2012.Rmd’ using rmarkdown
Warning: call dbDisconnect() when finished working with a connection
Quitting from lines 108-130 (Appendix_S2_Valcu_et_al_2012.Rmd) 
Error: processing vignette 'Appendix_S2_Valcu_et_al_2012.Rmd' failed with diagnostics:
VECTOR_ELT() can only be applied to a 'list', not a 'double'
--- failed re-building ‘Appendix_S2_Valcu_et_al_2012.Rmd’

--- re-building ‘Appendix_S3_Valcu_et_al_2012.Rmd’ using rmarkdown
Warning: call dbDisconnect() when finished working with a connection
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Warning in rlm.default(x, y, weights, method = method, wt.method = wt.method,  :
  'rlm' failed to converge in 20 steps
Quitting from lines 93-96 (Appendix_S3_Valcu_et_al_2012.Rmd) 
Error: processing vignette 'Appendix_S3_Valcu_et_al_2012.Rmd' failed with diagnostics:
VECTOR_ELT() can only be applied to a 'list', not a 'double'
--- failed re-building ‘Appendix_S3_Valcu_et_al_2012.Rmd’

--- re-building ‘Appendix_S4_Valcu_et_al_2012.Rmd’ using rmarkdown
New session 2019-03-29 23:26:03
PROJECT: wrens.sqlite 
DIRECTORY: /tmp/RtmpKbjiBe
Grid size set to 1 map units.
Canvas uploaded.
Warning: executing %dopar% sequentially: no parallel backend registered
Warning: call dbDisconnect() when finished working with a connection
Writing overlay output to project...
84 out of 84 ranges updated; Elapsed time: 0.1 mins
Table biotab saved as a  BIO_ table
+______________+
class            rangeMap
Project_location /tmp/RtmpKbjiBe/wrens.sqlite
Proj4            +proj=longlat +ellps=GRS80 +towgs84=0,0,0,0,0,0,0 +no_defs
CellSize         1
Extent           xmin=-164.8716,xmax=-34.60225,ymin=-55.72056,ymax=61.5632
BIO_tables       biotab
MAP_tables       species_richness;median_body_mass
METADATA_RANGES  
+______________+
New session 2019-03-29 23:26:08
PROJECT: wrens.sqlite 
DIRECTORY: /tmp/RtmpKbjiBe
Grid size set to 1.33 map units.
Canvas uploaded.
Writing overlay output to project...
84 out of 84 ranges updated; Elapsed time: 0.1 mins
Table biotab saved as a  BIO_ table
+______________+
class            rangeMap
Project_location /tmp/RtmpKbjiBe/wrens.sqlite
Proj4            +proj=longlat +ellps=GRS80 +towgs84=0,0,0,0,0,0,0 +no_defs
CellSize         1.33
Extent           xmin=-164.8716,xmax=-34.60225,ymin=-55.72056,ymax=61.5632
BIO_tables       biotab
MAP_tables       species_richness;median_body_mass
METADATA_RANGES  
+______________+
New session 2019-03-29 23:26:13
PROJECT: wrens.sqlite 
DIRECTORY: /tmp/RtmpKbjiBe
Grid size set to 1.67 map units.
Canvas uploaded.
Writing overlay output to project...
84 out of 84 ranges updated; Elapsed time: 0 mins
Table biotab saved as a  BIO_ table
+______________+
class            rangeMap
Project_location /tmp/RtmpKbjiBe/wrens.sqlite
Proj4            +proj=longlat +ellps=GRS80 +towgs84=0,0,0,0,0,0,0 +no_defs
CellSize         1.67
Extent           xmin=-164.8716,xmax=-34.60225,ymin=-55.72056,ymax=61.5632
BIO_tables       biotab
MAP_tables       species_richness;median_body_mass
METADATA_RANGES  
+______________+
New session 2019-03-29 23:26:16
PROJECT: wrens.sqlite 
DIRECTORY: /tmp/RtmpKbjiBe
Grid size set to 2 map units.
Canvas uploaded.
Writing overlay output to project...
84 out of 84 ranges updated; Elapsed time: 0 mins
Table biotab saved as a  BIO_ table
+______________+
class            rangeMap
Project_location /tmp/RtmpKbjiBe/wrens.sqlite
Proj4            +proj=longlat +ellps=GRS80 +towgs84=0,0,0,0,0,0,0 +no_defs
CellSize         2
Extent           xmin=-164.8716,xmax=-34.60225,ymin=-55.72056,ymax=61.5632
BIO_tables       biotab
MAP_tables       species_richness;median_body_mass
METADATA_RANGES  
+______________+
New session 2019-03-29 23:26:19
PROJECT: wrens.sqlite 
DIRECTORY: /tmp/RtmpKbjiBe
Grid size set to 2.33 map units.
Canvas uploaded.
Writing overlay output to project...
84 out of 84 ranges updated; Elapsed time: 0 mins
Table biotab saved as a  BIO_ table
+______________+
class            rangeMap
Project_location /tmp/RtmpKbjiBe/wrens.sqlite
Proj4            +proj=longlat +ellps=GRS80 +towgs84=0,0,0,0,0,0,0 +no_defs
CellSize         2.33
Extent           xmin=-164.8716,xmax=-34.60225,ymin=-55.72056,ymax=61.5632
BIO_tables       biotab
MAP_tables       species_richness;median_body_mass
METADATA_RANGES  
+______________+
New session 2019-03-29 23:26:22
PROJECT: wrens.sqlite 
DIRECTORY: /tmp/RtmpKbjiBe
Grid size set to 2.67 map units.
Canvas uploaded.
Writing overlay output to project...
84 out of 84 ranges updated; Elapsed time: 0 mins
Table biotab saved as a  BIO_ table
+______________+
class            rangeMap
Project_location /tmp/RtmpKbjiBe/wrens.sqlite
Proj4            +proj=longlat +ellps=GRS80 +towgs84=0,0,0,0,0,0,0 +no_defs
CellSize         2.67
Extent           xmin=-164.8716,xmax=-34.60225,ymin=-55.72056,ymax=61.5632
BIO_tables       biotab
MAP_tables       species_richness;median_body_mass
METADATA_RANGES  
+______________+
New session 2019-03-29 23:26:24
PROJECT: wrens.sqlite 
DIRECTORY: /tmp/RtmpKbjiBe
Grid size set to 3 map units.
Canvas uploaded.
Writing overlay output to project...
84 out of 84 ranges updated; Elapsed time: 0 mins
Table biotab saved as a  BIO_ table
+______________+
class            rangeMap
Project_location /tmp/RtmpKbjiBe/wrens.sqlite
Proj4            +proj=longlat +ellps=GRS80 +towgs84=0,0,0,0,0,0,0 +no_defs
CellSize         3
Extent           xmin=-164.8716,xmax=-34.60225,ymin=-55.72056,ymax=61.5632
BIO_tables       biotab
MAP_tables       species_richness;median_body_mass
METADATA_RANGES  
+______________+
New session 2019-03-29 23:26:27
PROJECT: wrens.sqlite 
DIRECTORY: /tmp/RtmpKbjiBe
Grid size set to 3.33 map units.
Canvas uploaded.
Writing overlay output to project...
84 out of 84 ranges updated; Elapsed time: 0 mins
Table biotab saved as a  BIO_ table
+______________+
class            rangeMap
Project_location /tmp/RtmpKbjiBe/wrens.sqlite
Proj4            +proj=longlat +ellps=GRS80 +towgs84=0,0,0,0,0,0,0 +no_defs
CellSize         3.33
Extent           xmin=-164.8716,xmax=-34.60225,ymin=-55.72056,ymax=61.5632
BIO_tables       biotab
MAP_tables       species_richness;median_body_mass
METADATA_RANGES  
+______________+
New session 2019-03-29 23:26:30
PROJECT: wrens.sqlite 
DIRECTORY: /tmp/RtmpKbjiBe
Grid size set to 3.67 map units.
Canvas uploaded.
Writing overlay output to project...
84 out of 84 ranges updated; Elapsed time: 0 mins
Table biotab saved as a  BIO_ table
+______________+
class            rangeMap
Project_location /tmp/RtmpKbjiBe/wrens.sqlite
Proj4            +proj=longlat +ellps=GRS80 +towgs84=0,0,0,0,0,0,0 +no_defs
CellSize         3.67
Extent           xmin=-164.8716,xmax=-34.60225,ymin=-55.72056,ymax=61.5632
BIO_tables       biotab
MAP_tables       species_richness;median_body_mass
METADATA_RANGES  
+______________+
New session 2019-03-29 23:26:32
PROJECT: wrens.sqlite 
DIRECTORY: /tmp/RtmpKbjiBe
Grid size set to 4 map units.
Canvas uploaded.
Writing overlay output to project...
84 out of 84 ranges updated; Elapsed time: 0 mins
Table biotab saved as a  BIO_ table
+______________+
class            rangeMap
Project_location /tmp/RtmpKbjiBe/wrens.sqlite
Proj4            +proj=longlat +ellps=GRS80 +towgs84=0,0,0,0,0,0,0 +no_defs
CellSize         4
Extent           xmin=-164.8716,xmax=-34.60225,ymin=-55.72056,ymax=61.5632
BIO_tables       biotab
MAP_tables       species_richness;median_body_mass
METADATA_RANGES  
+______________+
Loading required package: ggplot2
Quitting from lines 58-73 (Appendix_S4_Valcu_et_al_2012.Rmd) 
Error: processing vignette 'Appendix_S4_Valcu_et_al_2012.Rmd' failed with diagnostics:
VECTOR_ELT() can only be applied to a 'list', not a 'double'
--- failed re-building ‘Appendix_S4_Valcu_et_al_2012.Rmd’

--- re-building ‘Appendix_S5_Valcu_et_al_2012.Rmd’ using rmarkdown
Warning: call dbDisconnect() when finished working with a connection
Loading required package: ggplot2
Quitting from lines 83-98 (Appendix_S5_Valcu_et_al_2012.Rmd) 
Error: processing vignette 'Appendix_S5_Valcu_et_al_2012.Rmd' failed with diagnostics:
VECTOR_ELT() can only be applied to a 'list', not a 'double'
--- failed re-building ‘Appendix_S5_Valcu_et_al_2012.Rmd’

SUMMARY: processing the following files failed:
  ‘Appendix_S2_Valcu_et_al_2012.Rmd’ ‘Appendix_S3_Valcu_et_al_2012.Rmd’
  ‘Appendix_S4_Valcu_et_al_2012.Rmd’ ‘Appendix_S5_Valcu_et_al_2012.Rmd’

Error: Vignette re-building failed.
Execution halted