Running examples in ‘disprose-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: count_PhCh
> ### Title: Calculate physical and chemical properties
> ### Aliases: count_PhCh count_GC count_REP count_MFE count_TM
> 
> ### ** Examples
> 
> probes <- data.frame (ids = 1:3,  probes = c ("acacacacacaca", "aaaaagggggtttttccccc",
+                                              "atgcgctagctcagc"))
> probes <- count_GC (probe.var = probes$probes, trim.gc = FALSE, GCmin = 40, GCmax = 60,
+                    add.to.data = TRUE, data = probes)
> 
> probes <- count_REP (probe.var = probes$probes, trim.rep = FALSE, n.crit = 5,
+                     add.to.data = TRUE, data = probes)
> ## Not run: 
> ##D # This function is using ViennaRNA service. ViennaRNA Package must be installed.
> ##D MFE.files.dir <- tempdir()
> ##D probes <- count_MFE (probe.var = probes$probes, RNAfold.path = "D:/Vienna/RNAfold.exe",
> ##D                     temperature = 40, trim.mfe = FALSE, MFEmin = 0,
> ##D                     MFE.files.dir = MFE.files.dir, delete.MFE.files = TRUE,
> ##D                     add.to.data = TRUE, data = probes, mc.cores = 1)
> ##D unlink (MFE.files.dir, recursive = TRUE)
> ## End(Not run)
> probes <- count_TM (probe.var = probes$probes, TD.params = NULL, trim.tm = FALSE,
+                    TMmin = 55, TMmax = 60, add.to.data = TRUE, data = probes,
+                    digits = 4, mc.cores = 1)
Setting thermodynamic parameters. Default is: nn_table = DNA_NN4, tmm_table = DNA_TMM1,imm_table = DNA_IMM1, de_table = DNA_DE1
Error in salt_correction(Na = Na, K = K, Tris = Tris, Mg = Mg, dNTPs = dNTPs,  : 
  total ion concentration of zero is not allowed in this method
Calls: count_TM ... <Anonymous> -> lapply -> FUN -> <Anonymous> -> salt_correction
Execution halted
Running examples in ‘disprose-Ex.R’ failed
The error most likely occurred in:

> ### Name: count_PhCh
> ### Title: Calculate physical and chemical properties
> ### Aliases: count_PhCh count_GC count_REP count_MFE count_TM
> 
> ### ** Examples
> 
> probes <- data.frame (ids = 1:3,  probes = c ("acacacacacaca", "aaaaagggggtttttccccc",
+                                              "atgcgctagctcagc"))
> probes <- count_GC (probe.var = probes$probes, trim.gc = FALSE, GCmin = 40, GCmax = 60,
+                    add.to.data = TRUE, data = probes)
> 
> probes <- count_REP (probe.var = probes$probes, trim.rep = FALSE, n.crit = 5,
+                     add.to.data = TRUE, data = probes)
> ## Not run: 
> ##D # This function is using ViennaRNA service. ViennaRNA Package must be installed.
> ##D MFE.files.dir <- tempdir()
> ##D probes <- count_MFE (probe.var = probes$probes, RNAfold.path = "D:/Vienna/RNAfold.exe",
> ##D                     temperature = 40, trim.mfe = FALSE, MFEmin = 0,
> ##D                     MFE.files.dir = MFE.files.dir, delete.MFE.files = TRUE,
> ##D                     add.to.data = TRUE, data = probes, mc.cores = 1)
> ##D unlink (MFE.files.dir, recursive = TRUE)
> ## End(Not run)
> probes <- count_TM (probe.var = probes$probes, TD.params = NULL, trim.tm = FALSE,
+                    TMmin = 55, TMmax = 60, add.to.data = TRUE, data = probes,
+                    digits = 4, mc.cores = 1)
Setting thermodynamic parameters. Default is: nn_table = DNA_NN4, tmm_table = DNA_TMM1,imm_table = DNA_IMM1, de_table = DNA_DE1
Error in salt_correction(Na = Na, K = K, Tris = Tris, Mg = Mg, dNTPs = dNTPs,  : 
  total ion concentration of zero is not allowed in this method
Calls: count_TM ... <Anonymous> -> lapply -> FUN -> <Anonymous> -> salt_correction
Execution halted
Running examples in 'disprose-Ex.R' failed
The error most likely occurred in:

> ### Name: count_PhCh
> ### Title: Calculate physical and chemical properties
> ### Aliases: count_PhCh count_GC count_REP count_MFE count_TM
> 
> ### ** Examples
> 
> probes <- data.frame (ids = 1:3,  probes = c ("acacacacacaca", "aaaaagggggtttttccccc",
+                                              "atgcgctagctcagc"))
> probes <- count_GC (probe.var = probes$probes, trim.gc = FALSE, GCmin = 40, GCmax = 60,
+                    add.to.data = TRUE, data = probes)
> 
> probes <- count_REP (probe.var = probes$probes, trim.rep = FALSE, n.crit = 5,
+                     add.to.data = TRUE, data = probes)
> ## Not run: 
> ##D # This function is using ViennaRNA service. ViennaRNA Package must be installed.
> ##D MFE.files.dir <- tempdir()
> ##D probes <- count_MFE (probe.var = probes$probes, RNAfold.path = "D:/Vienna/RNAfold.exe",
> ##D                     temperature = 40, trim.mfe = FALSE, MFEmin = 0,
> ##D                     MFE.files.dir = MFE.files.dir, delete.MFE.files = TRUE,
> ##D                     add.to.data = TRUE, data = probes, mc.cores = 1)
> ##D unlink (MFE.files.dir, recursive = TRUE)
> ## End(Not run)
> probes <- count_TM (probe.var = probes$probes, TD.params = NULL, trim.tm = FALSE,
+                    TMmin = 55, TMmax = 60, add.to.data = TRUE, data = probes,
+                    digits = 4, mc.cores = 1)
Setting thermodynamic parameters. Default is: nn_table = DNA_NN4, tmm_table = DNA_TMM1,imm_table = DNA_IMM1, de_table = DNA_DE1
Error in salt_correction(Na = Na, K = K, Tris = Tris, Mg = Mg, dNTPs = dNTPs,  : 
  total ion concentration of zero is not allowed in this method
Calls: count_TM ... <Anonymous> -> lapply -> FUN -> <Anonymous> -> salt_correction
Execution halted
Running examples in 'disprose-Ex.R' failed
The error most likely occurred in:

> ### Name: count_PhCh
> ### Title: Calculate physical and chemical properties
> ### Aliases: count_PhCh count_GC count_REP count_MFE count_TM
> 
> ### ** Examples
> 
> probes <- data.frame (ids = 1:3,  probes = c ("acacacacacaca", "aaaaagggggtttttccccc",
+                                              "atgcgctagctcagc"))
> probes <- count_GC (probe.var = probes$probes, trim.gc = FALSE, GCmin = 40, GCmax = 60,
+                    add.to.data = TRUE, data = probes)
> 
> probes <- count_REP (probe.var = probes$probes, trim.rep = FALSE, n.crit = 5,
+                     add.to.data = TRUE, data = probes)
> ## Not run: 
> ##D # This function is using ViennaRNA service. ViennaRNA Package must be installed.
> ##D MFE.files.dir <- tempdir()
> ##D probes <- count_MFE (probe.var = probes$probes, RNAfold.path = "D:/Vienna/RNAfold.exe",
> ##D                     temperature = 40, trim.mfe = FALSE, MFEmin = 0,
> ##D                     MFE.files.dir = MFE.files.dir, delete.MFE.files = TRUE,
> ##D                     add.to.data = TRUE, data = probes, mc.cores = 1)
> ##D unlink (MFE.files.dir, recursive = TRUE)
> ## End(Not run)
> probes <- count_TM (probe.var = probes$probes, TD.params = NULL, trim.tm = FALSE,
+                    TMmin = 55, TMmax = 60, add.to.data = TRUE, data = probes,
+                    digits = 4, mc.cores = 1)
Setting thermodynamic parameters. Default is: nn_table = DNA_NN4, tmm_table = DNA_TMM1,imm_table = DNA_IMM1, de_table = DNA_DE1
Error in salt_correction(Na = Na, K = K, Tris = Tris, Mg = Mg, dNTPs = dNTPs,  : 
  total ion concentration of zero is not allowed in this method
Calls: count_TM ... <Anonymous> -> lapply -> FUN -> <Anonymous> -> salt_correction
Execution halted
Running examples in ‘disprose-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: count_PhCh
> ### Title: Calculate physical and chemical properties
> ### Aliases: count_PhCh count_GC count_REP count_MFE count_TM
> 
> ### ** Examples
> 
> probes <- data.frame (ids = 1:3,  probes = c ("acacacacacaca", "aaaaagggggtttttccccc",
+                                              "atgcgctagctcagc"))
> probes <- count_GC (probe.var = probes$probes, trim.gc = FALSE, GCmin = 40, GCmax = 60,
+                    add.to.data = TRUE, data = probes)
> 
> probes <- count_REP (probe.var = probes$probes, trim.rep = FALSE, n.crit = 5,
+                     add.to.data = TRUE, data = probes)
> ## Not run: 
> ##D # This function is using ViennaRNA service. ViennaRNA Package must be installed.
> ##D MFE.files.dir <- tempdir()
> ##D probes <- count_MFE (probe.var = probes$probes, RNAfold.path = "D:/Vienna/RNAfold.exe",
> ##D                     temperature = 40, trim.mfe = FALSE, MFEmin = 0,
> ##D                     MFE.files.dir = MFE.files.dir, delete.MFE.files = TRUE,
> ##D                     add.to.data = TRUE, data = probes, mc.cores = 1)
> ##D unlink (MFE.files.dir, recursive = TRUE)
> ## End(Not run)
> probes <- count_TM (probe.var = probes$probes, TD.params = NULL, trim.tm = FALSE,
+                    TMmin = 55, TMmax = 60, add.to.data = TRUE, data = probes,
+                    digits = 4, mc.cores = 1)
Setting thermodynamic parameters. Default is: nn_table = DNA_NN4, tmm_table = DNA_TMM1,imm_table = DNA_IMM1, de_table = DNA_DE1
Error in salt_correction(Na = Na, K = K, Tris = Tris, Mg = Mg, dNTPs = dNTPs,  : 
  total ion concentration of zero is not allowed in this method
Calls: count_TM ... <Anonymous> -> lapply -> FUN -> <Anonymous> -> salt_correction
Execution halted
Running examples in ‘disprose-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: count_PhCh
> ### Title: Calculate physical and chemical properties
> ### Aliases: count_PhCh count_GC count_REP count_MFE count_TM
> 
> ### ** Examples
> 
> probes <- data.frame (ids = 1:3,  probes = c ("acacacacacaca", "aaaaagggggtttttccccc",
+                                              "atgcgctagctcagc"))
> probes <- count_GC (probe.var = probes$probes, trim.gc = FALSE, GCmin = 40, GCmax = 60,
+                    add.to.data = TRUE, data = probes)
> 
> probes <- count_REP (probe.var = probes$probes, trim.rep = FALSE, n.crit = 5,
+                     add.to.data = TRUE, data = probes)
> ## Not run: 
> ##D # This function is using ViennaRNA service. ViennaRNA Package must be installed.
> ##D MFE.files.dir <- tempdir()
> ##D probes <- count_MFE (probe.var = probes$probes, RNAfold.path = "D:/Vienna/RNAfold.exe",
> ##D                     temperature = 40, trim.mfe = FALSE, MFEmin = 0,
> ##D                     MFE.files.dir = MFE.files.dir, delete.MFE.files = TRUE,
> ##D                     add.to.data = TRUE, data = probes, mc.cores = 1)
> ##D unlink (MFE.files.dir, recursive = TRUE)
> ## End(Not run)
> probes <- count_TM (probe.var = probes$probes, TD.params = NULL, trim.tm = FALSE,
+                    TMmin = 55, TMmax = 60, add.to.data = TRUE, data = probes,
+                    digits = 4, mc.cores = 1)
Setting thermodynamic parameters. Default is: nn_table = DNA_NN4, tmm_table = DNA_TMM1,imm_table = DNA_IMM1, de_table = DNA_DE1
Error in salt_correction(Na = Na, K = K, Tris = Tris, Mg = Mg, dNTPs = dNTPs,  : 
  total ion concentration of zero is not allowed in this method
Calls: count_TM ... <Anonymous> -> lapply -> FUN -> <Anonymous> -> salt_correction
Execution halted