typo and minor fix

steineggerlab · Aug 10, 2023 · a27b399 · a27b399
1 parent 6dbbe3d
commit a27b399
Show file tree

Hide file tree

Showing 2 changed files with 3 additions and 3 deletions.
diff --git a/src/module/TrainModule.java b/src/module/TrainModule.java
@@ -210,7 +210,7 @@ private static void printManual() {
 
  UFCGMainPipeline.printGeneral();
 
- System.out.println(ANSIHandler.wrapper("\n Following binaries should be on the enviornment PATH: ", 'y'));
+ System.out.println(ANSIHandler.wrapper("\n Following binaries should be on the environment PATH: ", 'y'));
  System.out.println(ANSIHandler.wrapper(" Binary Required by", 'c'));
  System.out.println(ANSIHandler.wrapper(" fastBlockSearch profile", 'x'));
  System.out.println(ANSIHandler.wrapper(" augustus profile", 'x'));
@@ -364,7 +364,7 @@ else if(SESSION_UID.equals(GenericConfig.SESSION_UID)){
  MARKERS.remove((int) remove.get(i));
  MNAMES.remove((int) remove.get(i));
  }
- if(MARKERS.size() == 0) break;
+ if(MARKERS.isEmpty()) break;
 
  // prepare next iteration
  seqs = new String[MARKERS.size()];

diff --git a/src/pipeline/ModuleHandler.java b/src/pipeline/ModuleHandler.java
@@ -26,7 +26,7 @@ public ModuleHandler(int module, String[] args) {
  if(argList.contains("-h") || argList.contains("-help") || argList.contains("--help")) {
  Prompt.SUPPRESS = true;
  help = true;
- } else if(module == UFCGMainPipeline.MODULE_PROFILE && (argList.contains("-hh") || argList.contains("--hh"))) {
+ } else if((module == UFCGMainPipeline.MODULE_PROFILE || module == UFCGMainPipeline.MODULE_PROFILE_RNA) && (argList.contains("-hh") || argList.contains("--hh"))) {
  Prompt.SUPPRESS = true;
  help = true;
  } else {