I have a VBA that creates a new directory folder and creates a new text file in that directory. I am trying to run a perl script from the VBA and have created a batch file that gets called from the VBA. That bat file uses a shell file to run a script. When the batch file is called I get the error below and not sure how to fix it. I understand the first part of the error, but the directory it uses is the batch, so I am confused. I apologize for the long post, just wanted to be complete. Thank you :).
Error:
'\\path\users\C\CMcCabe'
CMD.EXE was started with the above path as the current directory.
UNC paths are not supported. Defaulting to Windows directory.
'C:\Users\cmccabe\Desktop\NxClinical.bat' is not recognized as an internal or ex
ternal command,
operable program or batch file.
VBA
Private Sub CommandButton3_Click()
Dim MyBarCode As String ' Enter Barcode
Dim MyScan As String ' Enter ScanDate
Dim MyDirectory As String
MyBarCode = Application.InputBox("Please enter the barcode", "Bar Code", Type:=2)
If MyBarCode = "False" Then Exit Sub 'user canceled
Do
MyScan = Application.InputBox("Please enter scan date", "Scan Date", Date, Type:=2)
If MyScan = "False" Then Exit Sub 'user canceled
If IsDate(MyScan) Then Exit Do
MsgBox "Please enter a valid date format. ", vbExclamation, "Invalid Date Entry"
Loop
Range("B20").Value = MyBarCode
Range("B21").Value = CDate(MyScan)
MyDirectory = "N:\1_DATA\MicroArray\NexusData\" & MyBarCode & "_" & Format(CDate(MyScan), "m-d-yyyy") & "\"
' Create nexus directory and folder
If Dir(MyDirectory, vbDirectory) = "" Then MkDir MyDirectory
If MsgBox("The project file has been created. " & _
"Do you want to create a template for analysis now?", _
vbQuestion + vbYesNo) = vbYes Then
'Write to text file
Open MyDirectory & "sample_descriptor.txt" For Output As #1
Print #1, "Experiment Sample" & vbTab & "Control Sample" & vbTab & "Display Name" & vbTab & "Gender" & vbTab & "Control Gender" & vbTab & "Spikein" & vbTab & "SpikeIn Location" & vbTab & "Barcode"
Print #1, MyBarCode & "_532Block1.txt" & vbTab & MyBarCode & "_635Block1.txt" & vbTab & ActiveSheet.Range("B8").Value & " " & ActiveSheet.Range("B9").Value & vbTab & ActiveSheet.Range("B10").Value & vbTab & ActiveSheet.Range("B5").Value & vbTab & ActiveSheet.Range("B11").Value & vbTab & ActiveSheet.Range("B12").Value & vbTab & ActiveSheet.Range("B20").Value
Print #1, MyBarCode & "_532Block2.txt" & vbTab & MyBarCode & "_635Block2.txt" & vbTab & ActiveSheet.Range("C8").Value & " " & ActiveSheet.Range("C9").Value & vbTab & ActiveSheet.Range("C10").Value & vbTab & ActiveSheet.Range("C5").Value & vbTab & ActiveSheet.Range("C11").Value & vbTab & ActiveSheet.Range("C12").Value & vbTab & ActiveSheet.Range("B20").Value
Print #1, MyBarCode & "_532Block3.txt" & vbTab & MyBarCode & "_635Block3.txt" & vbTab & ActiveSheet.Range("D8").Value & " " & ActiveSheet.Range("D9").Value & vbTab & ActiveSheet.Range("D10").Value & vbTab & ActiveSheet.Range("D5").Value & vbTab & ActiveSheet.Range("D11").Value & vbTab & ActiveSheet.Range("D12").Value & vbTab & ActiveSheet.Range("B20").Value
Print #1, MyBarCode & "_532Block4.txt" & vbTab & MyBarCode & "_635Block4.txt" & vbTab & ActiveSheet.Range("E8").Value & " " & ActiveSheet.Range("E9").Value & vbTab & ActiveSheet.Range("E10").Value & vbTab & ActiveSheet.Range("E5").Value & vbTab & ActiveSheet.Range("E11").Value & vbTab & ActiveSheet.Range("E12").Value & vbTab & ActiveSheet.Range("B20").Value
Close #1
'Run ImaGene
If MsgBox("Please run the ImaGene analysis. " & _
"and click yes after it completes to verify the spike-ins.", _
vbQuestion + vbYesNo) = vbYes Then
'Update folder structure and call perl
Dim PathCrnt As String
Dim wsh As Object
PathCrnt = MyDirectory
Set wsh = VBA.CreateObject("WScript.Shell")
Dim waitOnReturn As Boolean: waitOnReturn = True
Dim windowStyle As Integer: windowStyle = 1
Dim errrCode As Long
errrCode = wsh.Run("cmd /K ""C:\Users\cmccabe\Desktop\NxClinical.bat""" _
, windowStyle, waitOnReturn)
If errrCode = 0 Then
MsgBox "Done! No error to report."
Else
MsgBox "Program exited with error code " & errrCode & "."
End If
End If
Else
MsgBox "Nothing has been done. ", vbExclamation, "Goodbye!"
End If
Application.DisplayAlerts = False
Application.Quit
End Sub
Bat that calls perl script
C:\cygwin\bin\bash --login -i ./Run_probes.sh
Run_probes.sh (the underlined portion of the could is what changes)
perl ~/get_imagene_spikein_probe_values.pl . ./sample_descriptor.txt < ~/test_probes8.txt > ./output.txt