All
Accepted answers
Eduard Lebedyuk · Sep 28, 2022 go to post

You need to create HS.SDA3.Container object in Transform method before using it. Something like this:

Class Hosiptal.SDA3.DataTrans Extends Ens.DataTransform
{

ClassMethod Transform(source As EnsLib.HL7.Message, ByRef target As HS.SDA3.Container, aux) As %Status
{
    #Dim sc As %Status = $$$OK
    Set sc =  ##class(HS.Gateway.HL7.HL7ToSDA3).GetSDA(source, .xml)
    Quit:$$$ISERR(sc) sc
    Set target = ##class(HS.SDA3.Container).%New()
    Set sc = target.InitializeXMLParse(.xml)
    Quit sc
}

}
Eduard Lebedyuk · Sep 27, 2022 go to post

%String as defined by OP (without MAXLEN) only holds 50 characters, %VarString holds 3641144.

Eduard Lebedyuk · Sep 26, 2022 go to post

Great!

What's the purpose of:

C:\InterSystems\IRISHealth\bin>irispip install --target C:\InterSystems\IRISHealth\mgr\python numpy
Eduard Lebedyuk · Sep 23, 2022 go to post

Define a custom class query with Exec/Fetch methods in python, after that call this query from a method with ReturnResultsets enabled.

Or just call custom class query from SQL.

Eduard Lebedyuk · Sep 22, 2022 go to post

If I'm using an objectgenerator, is there a way to check the compile flags and have it behave differently based on which flags are set?

A very exciting way to introduce some unexpected behavior down the line.

What is your use case?

And as a tangent, is there a list somewhere of what compile flags there are?

Sure:

do $system.OBJ.ShowFlags()
do $system.OBJ.ShowQualifiers()
Eduard Lebedyuk · Sep 22, 2022 go to post

If you get access error on Linux:

javaldx failed! Warning: failed to read path from javaldx LibreOffice 7.3 - Fatal Error: The application cannot be started. User installation could not be completed.
LibreOffice user installation could not be processed due to missing access rights. Please make sure that you have sufficient access rights for the following location and restart LibreOffice.

Add this to LibreOffice parameters:

set args($i(args)) = "-env:UserInstallation=file:///tmp/libreofficehome/"

where /tmp/libreofficehome is any empty folder InterSystems IRIS has write access to.

Eduard Lebedyuk · Sep 22, 2022 go to post

If there's a text layer use LibreOffice to convert to txt (InterSystems IRIS wrapper), for OCR you'll need some thirdparty tool, for example Tesseract can be easily used with Embedded Python.

UPD: LibreOffice can't extract text from PDFs unfortunately. Here's Embedded Python solution:

Class User.PDF
{

/// zw ##class(User.PDF).GetText("/tmp/example.pdf", .text)
ClassMethod GetText(file, Output text) As %Status
{
  try {
    #dim sc As %Status = $$$OK
    kill text
    set dir = $system.Util.ManagerDirectory()_ "python"
    do ##class(%File).CreateDirectoryChain(dir)
    // pip3 install --target /data/db/mgr/python --ignore-requires-python typing==3.10.0.0
    try {
      set pypdf2 = $system.Python.Import("PyPDF2")
    } catch {
      set cmd = "pip3"
      set args($i(args)) = "install"
      set args($i(args)) = "--target"
      set args($i(args)) = dir
      set args($i(args)) = "PyPDF2==2.10.0"
      set args($i(args)) = "dataclasses"
      set args($i(args)) = "typing-extensions==3.10.0.1" 
      set args($i(args)) = "--upgrade"
      set sc = $ZF(-100,"", cmd, .args)
      set pypdf2 = $system.Python.Import("PyPDF2")
    }
    return:'$d(pypdf2) $$$ERROR($$$GeneralError, "Unable to load PyPDF2")
    kill pypdf2
    set text = ..GetTextPy(file)
  } catch ex {
    set sc = ex.AsStatus()
  }
  quit sc
}

ClassMethod GetTextPy(file) [ Language = python ]
{
  from PyPDF2 import PdfReader

  reader = PdfReader(file)
  text = ""
  for page in reader.pages:
    text += page.extract_text() + "\n"

  return text
}

}
Eduard Lebedyuk · Sep 22, 2022 go to post

1. I have a PDF file which I need to read  from a folder location as text and put data from PDF into HL7 message and send it to downstream system.

Do you mean OCR/text layer extraction?

2. I have a PDF file which I need to read  from a folder location encode it in base64 and put in OBX.5  of MDM message

Do it like this.

Eduard Lebedyuk · Sep 19, 2022 go to post

Have you tried executing the same code from the InterSystems terminal?

Also try:

text = self.db.run_class_method("%SYSTEM.Status", "GetErrorText", res)
print(text)
Eduard Lebedyuk · Sep 16, 2022 go to post

Try to reload like this:

set importlib = ##class(%SYS.Python).Import("importlib")
do importlib.reload(helloWorld)

Also, it not an IRIS-specific behavior, you'll get the same results in any python interpreter:

import helloWorld
helloWorld.helloWorld()
>'Hello world'
del helloWorld

# modify helloWorld.py in text editor

import helloWorld
helloWorld.helloWorld()
>'Hello world'
Eduard Lebedyuk · Sep 13, 2022 go to post

I'm sure pattern matching can do better but no idea how:

ClassMethod findShort(s) As %Integer [ ProcedureBlock = 0 ]
{
 s s=" "_s_" " for i=1:1 {x "s q=(s?.E1P"_i_"A1P.E)" q:q} q i
}
Eduard Lebedyuk · Sep 13, 2022 go to post

Check this example.

In short:

  1. Create class extending %SYS.Task.Definition
  2. Add properties - that's task settings
  3. Implement OnTask method, which returns %Status
  4. Set TaskName parameter

After that you can add a task of TaskName type from the SMP.

Eduard Lebedyuk · Sep 9, 2022 go to post

Will it run in the same Windows process?

Yes.

Will there be any issues with multitasking (considering python doesn't seem very good at this)?

GIL still exists and applies. If you write async code it would only be executed while control flow is on a python side of things. You can't spawn async task in python, go to InterSystems ObjectScript to do something else and then come to a completed python task.

Also, is there a performance penalty to pay for running embedded python vs "using IRIS APIs from Python". 

IRIS APIs from Python (Native SDK/Native API) can be invoked either in-shared-memory or over TCP. TCP comes with a performance penalty.

Another question is what python interpreter the embedded python is using? Is it an Intersystems one or the regular c.python?

CPython.

Version?

Use sys.version to check. Recently it was Python 3.9.5 on Windows and 3.8.10 on Linux.