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#Python

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Python is an interpreted high-level programming language for general-purpose programming. Created by Guido van Rossum and first released in 1991, Python has a design philosophy that emphasizes code readability, notably using significant whitespace

Official site.

InterSystems Python Binding Documentation.

Contestant

Introduction

In some of the last few articles I've talked about types between IRIS and Python, and it is clear that it's not that easy to access objects from one side at another.

Fortunately, work has already been done to create SQLAlchemy-iris (follow the link to see it on Open Exchange), which makes everything much easier for Python to access IRIS' objects, and I'm going to show the starters for that.

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In article

https://community.intersystems.com/print/518106

Traceback (most recent call last):
File "c:\Users\rochesterd\PythonScripts\fhir_stuff\fhir-client-python-main\fhir-client-python-main\src\client.py", line 57, in <module>
patient0 = Patient.parse_obj(patients_resources.search(
AttributeError: 'NoneType' object has no attribute 'serialize'

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Article
Heloisa Paiva · Feb 17 2m read
Returning values with python

Why am I writting this?

Last year I made an article for starters on using embedded python. Later, it started a little discussion on how to return values with python and I found some interesting observations that are worth writing a little article. Also, hopefully I can reach more people by writing this.

Possible situations

There are two things you'll need to care about when returning a value with python. The first is the type you're trying to return and the second is where you're returning it.

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Hi Community,

This article is a continuation of my article about Getting to know Python Flask Web Framework

In this article, we will cover the basics of topics listed below:

1. Routing in Flask Framework
2. Folder structure for a Flask app (Static and Template)
3. Getting and displaying data in the Flask application from IRIS.

So, let's begin.

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Schematron is a rule-based validation language for making assertions about the presence or absence of certain patterns in XML documents. A schematron refers to a collection of one or more rules containing tests. Schematrons are written in a form of XML, making them relatively easy for everyone, even non-programmers, to inspect, understand, and write

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Let me introduce my new project, which is irissqlcli, REPL (Read-Eval-Print Loop) for InterSystems IRIS SQL

  • Syntax Highlighting
  • Suggestions (tables, functions)
  • 20+ output formats
  • stdin support
  • Output to files

Install it with pip

pip install irissqlcli

Or run with docker

docker run -it caretdev/irissqlcli irissqlcli iris://_SYSTEM:SYS@host.docker.internal:1972/USER

Connect to IRIS

$ irissqlcli iris://_SYSTEM@localhost:1972/USER -W
Password for _SYSTEM:
Server:  InterSystems IRIS Version 2022.3.0.606 xDBC Protocol Version 65
Version: 0.1.0
[SQL]_SYSTEM@localhost:USER> select $ZVERSION
+---------------------------------------------------------------------------------------------------------+
| Expression_1                                                                                            |
+---------------------------------------------------------------------------------------------------------+
| IRIS for UNIX (Ubuntu Server LTS for ARM64 Containers) 2022.3 (Build 606U) Mon Jan 30 2023 09:05:12 EST |
+---------------------------------------------------------------------------------------------------------+
1 row in set
Time: 0.063s
[SQL]_SYSTEM@localhost:USER> help
+----------+-------------------+------------------------------------------------------------+
| Command  | Shortcut          | Description                                                |
+----------+-------------------+------------------------------------------------------------+
| .exit    | \q                | Exit.                                                      |
| .mode    | \T                | Change the table format used to output results.            |
| .once    | \o [-o] filename  | Append next result to an output file (overwrite using -o). |
| .schemas | \ds               | List schemas.                                              |
| .tables  | \dt [schema]      | List tables.                                               |
| \e       | \e                | Edit command with editor (uses $EDITOR).                   |
| help     | \?                | Show this help.                                            |
| nopager  | \n                | Disable pager, print to stdout.                            |
| notee    | notee             | Stop writing results to an output file.                    |
| pager    | \P [command]      | Set PAGER. Print the query results via PAGER.              |
| prompt   | \R                | Change prompt format.                                      |
| quit     | \q                | Quit.                                                      |
| tee      | tee [-o] filename | Append all results to an output file (overwrite using -o). |
+----------+-------------------+------------------------------------------------------------+
Time: 0.012s
[SQL]_SYSTEM@localhost:USER>

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So, I know that I can return a SQL Error message from my SQL Procedure written in ObjectScript, with code like this

$ cat <<EOF | irissqlcli iris://_SYSTEM:SYS@localhost:1972/USER
CREATE or REPLACE PROCEDURE test()
LANGUAGE OBJECTSCRIPT
{
 SET %sqlcontext.%SQLCODE = 400
 SET %sqlcontext.%ROWCOUNT = -1
 SET %sqlcontext.%Message = "test error message"
};

CALL test();

EOF
[SQLCODE: <-400>:<Fatal error occurred>]
[Location: <SPFunction>]
[%msg: <test error message>]

But I did not find how to do it with Python. I can't find %sqlcontext variable available there

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Article
Guillaume Rongier · Dec 6, 2022 3m read
OCR DEMO

OCR DEMO

This is a demo of the OCR functionality of the pero-ocr library.

It used in the iris application server in python.

Demo

This is an example of input data :

input

This is the result of the OCR :

In this example you have the following information:

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If you are using Python, you can use the built-in venv module to create a virtual environment. This module is the recommended way to create and manage virtual environments.

A virtual environment is a tool that helps to keep dependencies required by different projects separate by creating isolated python virtual environments for them. It solves the “Project X depends on version 1.x but, Project Y needs 4.x” dilemma, and keeps your global site-packages directory clean and manageable.

So if like me you work a lot with Python, you can use the venv module to create a virtual environment for your project. This will allow you to install packages without affecting the global Python installation.

You will find here two neat alias to create and activate a virtual environment.

Python aliases

alias venv="python3 -m venv .venv; source .venv/bin/activate"
alias irisvenv="python3 -m venv .venv; source .venv/bin/activate; pip install https://github.com/grongierisc/iris-embedded-python-wrapper/releases/download/v0.0.3/iris-0.0.3-py3-none-any.whl"

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Hello everyone, this is with great pleasure that I announce the V2 of my application 'Contest-FHIR'.

In this new version, I used new tools and techniques I discovered at the EUROPEAN HEALTHCARE HACKATHON in which I was invited by InterSystems as a guest and as a mentor to display the multiple projects I did in my intership back in April 2022.

Today I present to you the V2 of my application, it can now transform CSV to FHIR to SQL to JUPYTER notebook.

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Article
Lucas Enard · Nov 27, 2022 9m read
Easy CSV TO FHIR - InterSystems Contest

Hello everyone, I’m a French student in academical exchange for my fifth year of engineering school and here is my participation in the FHIR for Women's Health contest.

This project is supposed to be seen as the backend of a bigger application. It can be plugged into a Front End app and help you gather information from your patients. It will read your data in local and use a Data Transformation to make it into a FHIR object before sending it to the included local FHIR server.

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Article
Renan Lourenco · Nov 18, 2022 1m read
Jupyter and IRIS - The Simple Version

There are several great articles in the community showing how to use Jupyter and InterSystems IRIS together, and I encourage you to check them out in the link at the end of this article for more in depth understanding.

This is just another one, the difference is on the simplicity. Do you want to just start a container where Jupyter is already connected to an IRIS instance? Then this is for you!

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I have table

CREATE TABLE nodes (
        name VARCHAR(50) NOT NULL, 
        parent VARCHAR(50), 
        PRIMARY KEY (name), 
        FOREIGN KEY(parent) REFERENCES nodes (name) ON UPDATE cascade
);

I put some data

INSERT INTO nodes (name, parent) VALUES ('n1', NULL);
INSERT INTO nodes (name, parent) VALUES ('n11', 'n1');
INSERT INTO nodes (name, parent) VALUES ('n12', 'n1');
INSERT INTO nodes (name, parent) VALUES ('n13', 'n1');

Let's delete all

DELETE FROM nodes;

Nope, no way.

SQL Error [124] [S1000]: [SQLCODE: <-124>:<FOREIGN KEY constraint failed referential check upon DELETE of row in referenced table>]
[Location: <ServerLoop>]
[%msg: <At least 1 Row exists in table 'SQLUser.nodes' which references key 'NODESPKey2' - Foreign Key Constraint 'NODESFKey3', Field(s) 'parent' failed on referential action of NO ACTION>]

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I have a table, with autoincremented id

CREATE TABLE users (
    id SERIAL NOT NULL,
    name VARCHAR(30) NOT NULL,
    PRIMARY KEY (id)
)

I can add a new item there with an explicit id 

INSERT INTO users (id, name) VALUES (2, 'fred')

And while my id is autoincremented, I can omit it

INSERT INTO users (name) VALUES ('ed')

So, this time, I don't know the id, and I want to somehow get it.

I could do it with LAST_IDENTITY() function, but it just uses %RowID, and have no relation to the primary id

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   _________ ___ ____  
  |__  /  _ \_ _|  _ \ 
    / /| |_) | || |_) |
   / /_|  __/| ||  __/ 
  /____|_|  |___|_|

Starting in version 2021.1, InterSystems IRIS began shipping with a python runtime in the engine's kernel. However, there was no way to install packages from within the instance. The main draw of python is its enormous package ecosystem. With that in mind, I introduce my side project zpip, a pip wrapper that is callable from the iris terminal.

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This is not an issue in ObjectScript, due to its typeless nature. But it's essential for external programming languages that care a bit more about types of variables.

And in any case, it's still reproducible in ObjectScript. I have table

CREATE TABLE some_table (
        id INTEGER NOT NULL, 
        x INTEGER, 
        y INTEGER, 
        z VARCHAR(50), 
        PRIMARY KEY (id)
)

And data

INSERT INTO some_table (id, x, y, z) VALUES (1, 1, 2, 'z1');
INSERT INTO some_table (id, x, y, z) VALUES (2, 2, 3, 'z2');
INSERT INTO some_table (id, x, y, z) VALUES (3, 3, 4, 'z3');
INSERT INTO some_table (id, x, y, z) VALUES (4, 4, 5, 'z4');

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I am demonstrating a use case of how we can create an IRIS Interoperability Production for special use in an external language. InterSystems IRIS, within Interoperability has a framework called Production Extension (PEX), using which we can create productions and program them as per their purpose using external languages like Java, Python etc, and also develop custom inbound and outbound adapters to communicate with other applications.

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Hi folks!

How can I refer to a classmethod of the same class while coding another classmethod with Embedded python?

I know that I can call it with iris.cls(classname).MethodName(), but it's more cumbersome even comparing with ObjectScript, where I can call ..MethodName().

Compare ObjectScript:

do ..SetupGame()

and the same call in EmbeddedPython:

    iris.cls('eshvarov.sample.SeaBattle.GamePython').SetupGame()

Thoughts?

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Here you'll find a simple program that uses Python in an IRIS environment and another simple program that uses ObjectScript in a Python environment. Also, I'd like to share a few of the troubles I went trough while learning to implement this.

Python in IRIS environment

Let's say, for example, you're in an IRIS environment and you want to solve a problem that you find easy, or more efficient with Python.

You can simply change the environment: create your method as any other, and in the end of it's name and specifications, you add [ Language = python ]:

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Hi Community,


In this article, I will introduce Python Flask Web Framework. Together we will create a minimal web application to connect to IRIS and get data from it.

Below you can find the steps we will need to follow:

  • Step 1 : Introduction to Python Flask Web Framework
  • Step 2 : Installation of Flask module
  • Step 3 : Creation of web application using Flask
  • Step 4 : Use of HTML Templates
  • Step 5 : Installation of IRIS Python Native module
  • Step 6 : Establishment of a connection with IRIS
  • Step 7 : Transferring data from IRIS to Flask and displaying it

So Let's start with step 1

Step1-Introduction to Python Flask Web Framework

Flask is a small and lightweight Python web framework that provides useful tools and features that make creating web applications in Python easier. It gives developers flexibility and is a more accessible framework for new developers since it allows to build a web application quickly using only a single Python file. Flask is also extensible and doesn’t requires a particular directory structure or complicated boilerplate code before getting started.


For more details please view Flask Documentations

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