update export script

waldronlab · Nov 8, 2023 · fcd350e · fcd350e
1 parent f23f314
commit fcd350e
Showing 1 changed file with 28 additions and 28 deletions.
diff --git a/misc/half_propagation/export_bugphyzz.R b/misc/half_propagation/export_bugphyzz.R
@@ -18,45 +18,45 @@ lf <- log_open(logfile, logdir = FALSE, compact = TRUE, show_notes = FALSE)
 
 phys_names <- c(
     ## multistate-intersection
-     # 'aerophilicity',
-     # 'gram stain',
-     # 'biosafety level',
-     # 'COGEM pathogenicity rating',
-     # 'shape',
-     # 'spore shape',
-     # 'arrangement',
+     'aerophilicity',
+     'gram stain',
+     'biosafety level',
+     'COGEM pathogenicity rating',
+     'shape',
+     'spore shape',
+     'arrangement',
 
     ## multistate-union
-     'habitat'
+     # 'habitat'
 #    'isolation site',
 #    'disease association',
      # 'antimicrobial resistance',
 
     # 'growth medium',
 
     ## binary
-     # 'plant pathogenicity',
-     # 'acetate producing',
-     # 'sphingolipid producing',
-     # 'lactate producing',
-     # 'butyrate producing',
-     # 'hydrogen gas producing',
-     # 'pathogenicity human',
-     # 'motility',
-     # 'biofilm forming',
-     # 'extreme environment',
-     # 'animal pathogen',
-     # 'antimicrobial sensitivity',
+     'plant pathogenicity',
+     'acetate producing',
+     'sphingolipid producing',
+     'lactate producing',
+     'butyrate producing',
+     'hydrogen gas producing',
+     'pathogenicity human',
+     'motility',
+     'biofilm forming',
+     'extreme environment',
+     'animal pathogen',
+     'antimicrobial sensitivity',
 
     ## numeric/range
-     # 'growth temperature',
-     # 'optimal ph',
-     # 'width',
-     # 'length',
-     # 'genome size',
-     # 'coding genes',
-     # 'mutation rate per site per generation',
-     # 'mutation rate per site per year'
+     'growth temperature',
+     'optimal ph',
+     'width',
+     'length',
+     'genome size',
+     'coding genes',
+     'mutation rate per site per generation',
+     'mutation rate per site per year'
 )
 
 msg <- paste0(