checkRd: (-1) findRes.Rd:28: Escaped LaTeX specials: \&
checkRd: (-1) ppmlasso-package.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) findRes.Rd:28: Escaped LaTeX specials: \&
checkRd: (-1) ppmlasso-package.Rd:42: Escaped LaTeX specials: \&
Running examples in ‘ppmlasso-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: envelope.ppmlasso
> ### Title: Calculates simulation envelopes for goodness-of-fit
> ### Aliases: envelope.ppmlasso
> 
> ### ** Examples
> 
> data(BlueMountains)
> sub.env = BlueMountains$env[BlueMountains$env$Y > 6270 & BlueMountains$env$X > 300,]
> sub.euc = BlueMountains$eucalypt[BlueMountains$eucalypt$Y > 6270 & BlueMountains$eucalypt$X > 300,]
> ppm.form = ~poly(FC, TMP_MIN, TMP_MAX, RAIN_ANN, degree = 2) + poly(D_MAIN_RDS, D_URBAN, degree = 2)
> ppm.fit  = ppmlasso(ppm.form, sp.xy = sub.euc, env.grid = sub.env, sp.scale = 1, n.fits = 20,
+ writefile = FALSE)
Calculating species environmental data for variable: FC 
Calculating species environmental data for variable: D_MAIN_RDS 
Calculating species environmental data for variable: D_URBAN 
Calculating species environmental data for variable: RAIN_ANN 
Calculating species environmental data for variable: TMP_MAX 
Calculating species environmental data for variable: TMP_MIN 
Fitting Models: 1 of 20 
Fitting Models: 2 of 20 
Fitting Models: 3 of 20 
Fitting Models: 4 of 20 
Fitting Models: 5 of 20 
Fitting Models: 6 of 20 
Fitting Models: 7 of 20 
Fitting Models: 8 of 20 
Fitting Models: 9 of 20 
Fitting Models: 10 of 20 
Fitting Models: 11 of 20 
Fitting Models: 12 of 20 
Fitting Models: 13 of 20 
Fitting Models: 14 of 20 
Fitting Models: 15 of 20 
Fitting Models: 16 of 20 
Fitting Models: 17 of 20 
Fitting Models: 18 of 20 
Fitting Models: 19 of 20 
Fitting Models: 20 of 20 
> envelope(ppm.fit, Kinhom, nsim = 20)
Error in UseMethod("envelope") : 
  no applicable method for 'envelope' applied to an object of class "c('ppmlasso', 'list')"
Calls: envelope
Execution halted
checkRd: (-1) findRes.Rd:28: Escaped LaTeX specials: \&
checkRd: (-1) ppmlasso-package.Rd:42: Escaped LaTeX specials: \&
Running examples in ‘ppmlasso-Ex.R’ failed
The error most likely occurred in:

> ### Name: envelope.ppmlasso
> ### Title: Calculates simulation envelopes for goodness-of-fit
> ### Aliases: envelope.ppmlasso
> 
> ### ** Examples
> 
> data(BlueMountains)
> sub.env = BlueMountains$env[BlueMountains$env$Y > 6270 & BlueMountains$env$X > 300,]
> sub.euc = BlueMountains$eucalypt[BlueMountains$eucalypt$Y > 6270 & BlueMountains$eucalypt$X > 300,]
> ppm.form = ~poly(FC, TMP_MIN, TMP_MAX, RAIN_ANN, degree = 2) + poly(D_MAIN_RDS, D_URBAN, degree = 2)
> ppm.fit  = ppmlasso(ppm.form, sp.xy = sub.euc, env.grid = sub.env, sp.scale = 1, n.fits = 20,
+ writefile = FALSE)
Calculating species environmental data for variable: FC 
Calculating species environmental data for variable: D_MAIN_RDS 
Calculating species environmental data for variable: D_URBAN 
Calculating species environmental data for variable: RAIN_ANN 
Calculating species environmental data for variable: TMP_MAX 
Calculating species environmental data for variable: TMP_MIN 
Fitting Models: 1 of 20 
Fitting Models: 2 of 20 
Fitting Models: 3 of 20 
Fitting Models: 4 of 20 
Fitting Models: 5 of 20 
Fitting Models: 6 of 20 
Fitting Models: 7 of 20 
Fitting Models: 8 of 20 
Fitting Models: 9 of 20 
Fitting Models: 10 of 20 
Fitting Models: 11 of 20 
Fitting Models: 12 of 20 
Fitting Models: 13 of 20 
Fitting Models: 14 of 20 
Fitting Models: 15 of 20 
Fitting Models: 16 of 20 
Fitting Models: 17 of 20 
Fitting Models: 18 of 20 
Fitting Models: 19 of 20 
Fitting Models: 20 of 20 
> envelope(ppm.fit, Kinhom, nsim = 20)
Error in UseMethod("envelope") : 
  no applicable method for 'envelope' applied to an object of class "c('ppmlasso', 'list')"
Calls: envelope
Execution halted
checkRd: (-1) findRes.Rd:28: Escaped LaTeX specials: \&
checkRd: (-1) ppmlasso-package.Rd:42: Escaped LaTeX specials: \&
Running examples in ‘ppmlasso-Ex.R’ failed
The error most likely occurred in:

> ### Name: envelope.ppmlasso
> ### Title: Calculates simulation envelopes for goodness-of-fit
> ### Aliases: envelope.ppmlasso
> 
> ### ** Examples
> 
> data(BlueMountains)
> sub.env = BlueMountains$env[BlueMountains$env$Y > 6270 & BlueMountains$env$X > 300,]
> sub.euc = BlueMountains$eucalypt[BlueMountains$eucalypt$Y > 6270 & BlueMountains$eucalypt$X > 300,]
> ppm.form = ~poly(FC, TMP_MIN, TMP_MAX, RAIN_ANN, degree = 2) + poly(D_MAIN_RDS, D_URBAN, degree = 2)
> ppm.fit  = ppmlasso(ppm.form, sp.xy = sub.euc, env.grid = sub.env, sp.scale = 1, n.fits = 20,
+ writefile = FALSE)
Calculating species environmental data for variable: FC 
Calculating species environmental data for variable: D_MAIN_RDS 
Calculating species environmental data for variable: D_URBAN 
Calculating species environmental data for variable: RAIN_ANN 
Calculating species environmental data for variable: TMP_MAX 
Calculating species environmental data for variable: TMP_MIN 
Fitting Models: 1 of 20 
Fitting Models: 2 of 20 
Fitting Models: 3 of 20 
Fitting Models: 4 of 20 
Fitting Models: 5 of 20 
Fitting Models: 6 of 20 
Fitting Models: 7 of 20 
Fitting Models: 8 of 20 
Fitting Models: 9 of 20 
Fitting Models: 10 of 20 
Fitting Models: 11 of 20 
Fitting Models: 12 of 20 
Fitting Models: 13 of 20 
Fitting Models: 14 of 20 
Fitting Models: 15 of 20 
Fitting Models: 16 of 20 
Fitting Models: 17 of 20 
Fitting Models: 18 of 20 
Fitting Models: 19 of 20 
Fitting Models: 20 of 20 
> envelope(ppm.fit, Kinhom, nsim = 20)
Error in UseMethod("envelope") : 
  no applicable method for 'envelope' applied to an object of class "c('ppmlasso', 'list')"
Calls: envelope
Execution halted
checkRd: (-1) findRes.Rd:28: Escaped LaTeX specials: \&
checkRd: (-1) ppmlasso-package.Rd:42: Escaped LaTeX specials: \&
Running examples in 'ppmlasso-Ex.R' failed
The error most likely occurred in:

> ### Name: envelope.ppmlasso
> ### Title: Calculates simulation envelopes for goodness-of-fit
> ### Aliases: envelope.ppmlasso
> 
> ### ** Examples
> 
> data(BlueMountains)
> sub.env = BlueMountains$env[BlueMountains$env$Y > 6270 & BlueMountains$env$X > 300,]
> sub.euc = BlueMountains$eucalypt[BlueMountains$eucalypt$Y > 6270 & BlueMountains$eucalypt$X > 300,]
> ppm.form = ~poly(FC, TMP_MIN, TMP_MAX, RAIN_ANN, degree = 2) + poly(D_MAIN_RDS, D_URBAN, degree = 2)
> ppm.fit  = ppmlasso(ppm.form, sp.xy = sub.euc, env.grid = sub.env, sp.scale = 1, n.fits = 20,
+ writefile = FALSE)
Calculating species environmental data for variable: FC 
Calculating species environmental data for variable: D_MAIN_RDS 
Calculating species environmental data for variable: D_URBAN 
Calculating species environmental data for variable: RAIN_ANN 
Calculating species environmental data for variable: TMP_MAX 
Calculating species environmental data for variable: TMP_MIN 
Fitting Models: 1 of 20 
Fitting Models: 2 of 20 
Fitting Models: 3 of 20 
Fitting Models: 4 of 20 
Fitting Models: 5 of 20 
Fitting Models: 6 of 20 
Fitting Models: 7 of 20 
Fitting Models: 8 of 20 
Fitting Models: 9 of 20 
Fitting Models: 10 of 20 
Fitting Models: 11 of 20 
Fitting Models: 12 of 20 
Fitting Models: 13 of 20 
Fitting Models: 14 of 20 
Fitting Models: 15 of 20 
Fitting Models: 16 of 20 
Fitting Models: 17 of 20 
Fitting Models: 18 of 20 
Fitting Models: 19 of 20 
Fitting Models: 20 of 20 
> envelope(ppm.fit, Kinhom, nsim = 20)
Error in UseMethod("envelope") : 
  no applicable method for 'envelope' applied to an object of class "c('ppmlasso', 'list')"
Calls: envelope
Execution halted
Running examples in ‘ppmlasso-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: envelope.ppmlasso
> ### Title: Calculates simulation envelopes for goodness-of-fit
> ### Aliases: envelope.ppmlasso
> 
> ### ** Examples
> 
> data(BlueMountains)
> sub.env = BlueMountains$env[BlueMountains$env$Y > 6270 & BlueMountains$env$X > 300,]
> sub.euc = BlueMountains$eucalypt[BlueMountains$eucalypt$Y > 6270 & BlueMountains$eucalypt$X > 300,]
> ppm.form = ~poly(FC, TMP_MIN, TMP_MAX, RAIN_ANN, degree = 2) + poly(D_MAIN_RDS, D_URBAN, degree = 2)
> ppm.fit  = ppmlasso(ppm.form, sp.xy = sub.euc, env.grid = sub.env, sp.scale = 1, n.fits = 20,
+ writefile = FALSE)
Calculating species environmental data for variable: FC 
Calculating species environmental data for variable: D_MAIN_RDS 
Calculating species environmental data for variable: D_URBAN 
Calculating species environmental data for variable: RAIN_ANN 
Calculating species environmental data for variable: TMP_MAX 
Calculating species environmental data for variable: TMP_MIN 
Fitting Models: 1 of 20 
Fitting Models: 2 of 20 
Fitting Models: 3 of 20 
Fitting Models: 4 of 20 
Fitting Models: 5 of 20 
Fitting Models: 6 of 20 
Fitting Models: 7 of 20 
Fitting Models: 8 of 20 
Fitting Models: 9 of 20 
Fitting Models: 10 of 20 
Fitting Models: 11 of 20 
Fitting Models: 12 of 20 
Fitting Models: 13 of 20 
Fitting Models: 14 of 20 
Fitting Models: 15 of 20 
Fitting Models: 16 of 20 
Fitting Models: 17 of 20 
Fitting Models: 18 of 20 
Fitting Models: 19 of 20 
Fitting Models: 20 of 20 
> envelope(ppm.fit, Kinhom, nsim = 20)
Error in UseMethod("envelope") : 
  no applicable method for 'envelope' applied to an object of class "c('ppmlasso', 'list')"
Calls: envelope
Execution halted
Running examples in ‘ppmlasso-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: envelope.ppmlasso
> ### Title: Calculates simulation envelopes for goodness-of-fit
> ### Aliases: envelope.ppmlasso
> 
> ### ** Examples
> 
> data(BlueMountains)
> sub.env = BlueMountains$env[BlueMountains$env$Y > 6270 & BlueMountains$env$X > 300,]
> sub.euc = BlueMountains$eucalypt[BlueMountains$eucalypt$Y > 6270 & BlueMountains$eucalypt$X > 300,]
> ppm.form = ~poly(FC, TMP_MIN, TMP_MAX, RAIN_ANN, degree = 2) + poly(D_MAIN_RDS, D_URBAN, degree = 2)
> ppm.fit  = ppmlasso(ppm.form, sp.xy = sub.euc, env.grid = sub.env, sp.scale = 1, n.fits = 20,
+ writefile = FALSE)
Calculating species environmental data for variable: FC 
Calculating species environmental data for variable: D_MAIN_RDS 
Calculating species environmental data for variable: D_URBAN 
Calculating species environmental data for variable: RAIN_ANN 
Calculating species environmental data for variable: TMP_MAX 
Calculating species environmental data for variable: TMP_MIN 
Fitting Models: 1 of 20 
Fitting Models: 2 of 20 
Fitting Models: 3 of 20 
Fitting Models: 4 of 20 
Fitting Models: 5 of 20 
Fitting Models: 6 of 20 
Fitting Models: 7 of 20 
Fitting Models: 8 of 20 
Fitting Models: 9 of 20 
Fitting Models: 10 of 20 
Fitting Models: 11 of 20 
Fitting Models: 12 of 20 
Fitting Models: 13 of 20 
Fitting Models: 14 of 20 
Fitting Models: 15 of 20 
Fitting Models: 16 of 20 
Fitting Models: 17 of 20 
Fitting Models: 18 of 20 
Fitting Models: 19 of 20 
Fitting Models: 20 of 20 
> envelope(ppm.fit, Kinhom, nsim = 20)
Error in UseMethod("envelope") : 
  no applicable method for 'envelope' applied to an object of class "c('ppmlasso', 'list')"
Calls: envelope
Execution halted
Running examples in 'ppmlasso-Ex.R' failed
The error most likely occurred in:

> ### Name: envelope.ppmlasso
> ### Title: Calculates simulation envelopes for goodness-of-fit
> ### Aliases: envelope.ppmlasso
> 
> ### ** Examples
> 
> data(BlueMountains)
> sub.env = BlueMountains$env[BlueMountains$env$Y > 6270 & BlueMountains$env$X > 300,]
> sub.euc = BlueMountains$eucalypt[BlueMountains$eucalypt$Y > 6270 & BlueMountains$eucalypt$X > 300,]
> ppm.form = ~poly(FC, TMP_MIN, TMP_MAX, RAIN_ANN, degree = 2) + poly(D_MAIN_RDS, D_URBAN, degree = 2)
> ppm.fit  = ppmlasso(ppm.form, sp.xy = sub.euc, env.grid = sub.env, sp.scale = 1, n.fits = 20,
+ writefile = FALSE)
Calculating species environmental data for variable: FC 
Calculating species environmental data for variable: D_MAIN_RDS 
Calculating species environmental data for variable: D_URBAN 
Calculating species environmental data for variable: RAIN_ANN 
Calculating species environmental data for variable: TMP_MAX 
Calculating species environmental data for variable: TMP_MIN 
Fitting Models: 1 of 20 
Fitting Models: 2 of 20 
Fitting Models: 3 of 20 
Fitting Models: 4 of 20 
Fitting Models: 5 of 20 
Fitting Models: 6 of 20 
Fitting Models: 7 of 20 
Fitting Models: 8 of 20 
Fitting Models: 9 of 20 
Fitting Models: 10 of 20 
Fitting Models: 11 of 20 
Fitting Models: 12 of 20 
Fitting Models: 13 of 20 
Fitting Models: 14 of 20 
Fitting Models: 15 of 20 
Fitting Models: 16 of 20 
Fitting Models: 17 of 20 
Fitting Models: 18 of 20 
Fitting Models: 19 of 20 
Fitting Models: 20 of 20 
> envelope(ppm.fit, Kinhom, nsim = 20)
Error in UseMethod("envelope") : 
  no applicable method for 'envelope' applied to an object of class "c('ppmlasso', 'list')"
Calls: envelope
Execution halted
Running examples in 'ppmlasso-Ex.R' failed
The error most likely occurred in:

> ### Name: envelope.ppmlasso
> ### Title: Calculates simulation envelopes for goodness-of-fit
> ### Aliases: envelope.ppmlasso
> 
> ### ** Examples
> 
> data(BlueMountains)
> sub.env = BlueMountains$env[BlueMountains$env$Y > 6270 & BlueMountains$env$X > 300,]
> sub.euc = BlueMountains$eucalypt[BlueMountains$eucalypt$Y > 6270 & BlueMountains$eucalypt$X > 300,]
> ppm.form = ~poly(FC, TMP_MIN, TMP_MAX, RAIN_ANN, degree = 2) + poly(D_MAIN_RDS, D_URBAN, degree = 2)
> ppm.fit  = ppmlasso(ppm.form, sp.xy = sub.euc, env.grid = sub.env, sp.scale = 1, n.fits = 20,
+ writefile = FALSE)
Calculating species environmental data for variable: FC 
Calculating species environmental data for variable: D_MAIN_RDS 
Calculating species environmental data for variable: D_URBAN 
Calculating species environmental data for variable: RAIN_ANN 
Calculating species environmental data for variable: TMP_MAX 
Calculating species environmental data for variable: TMP_MIN 
Fitting Models: 1 of 20 
Fitting Models: 2 of 20 
Fitting Models: 3 of 20 
Fitting Models: 4 of 20 
Fitting Models: 5 of 20 
Fitting Models: 6 of 20 
Fitting Models: 7 of 20 
Fitting Models: 8 of 20 
Fitting Models: 9 of 20 
Fitting Models: 10 of 20 
Fitting Models: 11 of 20 
Fitting Models: 12 of 20 
Fitting Models: 13 of 20 
Fitting Models: 14 of 20 
Fitting Models: 15 of 20 
Fitting Models: 16 of 20 
Fitting Models: 17 of 20 
Fitting Models: 18 of 20 
Fitting Models: 19 of 20 
Fitting Models: 20 of 20 
> envelope(ppm.fit, Kinhom, nsim = 20)
Error in UseMethod("envelope") : 
  no applicable method for 'envelope' applied to an object of class "c('ppmlasso', 'list')"
Calls: envelope
Execution halted