remove file operations module

src/Trajectory.jl

@@ -33,7 +33,7 @@ function Trajectory(
     format::String = "",
     chemfiles = false,
 )
-    if !chemfiles && (format == "dcd" || FileOperations.file_extension(filename) == "dcd")
+    if !chemfiles && (format == "dcd" || split(filename, '.')[end] == "dcd")
         trajectory = NamdDCD(filename, solute, solvent)
     elseif !chemfiles && format == "PDBTraj"
         trajectory = PDBTraj(filename, solute, solvent)

src/io.jl

@@ -1,54 +1,3 @@
-
-module FileOperations
-
-#
-# Function that removes the extension of a file name
-#
-remove_extension(file::String) = file[1:findlast(==('.'), file)-1]
-
-#
-# Function that determines the basename of a file, removing the path and the extension
-#
-clearname(filename::String) = remove_extension(basename(filename))
-
-#
-# Function that return only the extension of the file
-#
-file_extension(file::String) = file[findlast(==('.'), file)+1:end]
-
-#
-# Function that determines if a character is empty
-#
-empty_char(c::Char) = in(c, (Char(9), Char(32)))
-
-#
-# Function that checks if a line is a comment line or if it is empty
-#
-function commentary(s::String)
-    i = findfirst(c -> !(empty_char(c)), s)
-    return isnothing(i) || s[i] == '#'
-end
-
-end # module
-
-
-"""
-
-$(INTERNAL)
-
-$(TYPEDEF)
-
-Structure to contain the names of the output files.
-
-$(TYPEDFIELDS)
-
-"""
-@kwdef mutable struct OutputFiles
-    output::String
-    solute_atoms::String
-    solvent_atoms::String
-end
-
 """
 
 $(INTERNAL)

src/legacy/write_results.jl

@@ -31,14 +31,14 @@ function write(
 
     # Names of output files containing atomic contibutions
     atom_contributions_solvent = normpath(
-        FileOperations.remove_extension(filename) *
+        filename[1:findlast(==('.'), filename)-1] *
         "-ATOM_CONTRIBUTIONS_SOLVENT." *
-        FileOperations.file_extension(filename)
+        split(filename, '.')[end]
     )
     atom_contributions_solute = normpath(
-        FileOperations.remove_extension(filename) *
+        filename[1:findlast(==('.'), filename)-1] *
         "-ATOM_CONTRIBUTIONS_SOLUTE." *
-        FileOperations.file_extension(filename)
+        split(filename, '.')[end]
     )
 
     #