Training Models using Federated Learning (Part 3)

Through the first 2 parts of our federated learning demo project, we created a client-server application in Python using socket programming. In part 1, the client-server application was able to handle only a single connection at a time. In other words, the server was able to only receive a single message from the client per connection.

Federated Learning Demo in Python (Part 1): Client-Server Application

Implementing a client-server application using socket programming

heartbeat.fritz.ai

In part 2, we extended the application was extended to allow multiple messages to be sent within the same connection. The server can handle multiple connections simultaneously:

Federated Learning Demo in Python (Part 2): Multiple Connections using Threading

Enabling our server to receive multiple incoming connections

heartbeat.fritz.ai

The code for this project is available at the Federated Learning GitHub project under the TutorialProject directory.

In this tutorial, we’ll create a machine learning model (neural network) will using a library named PyGAD at the server. But the model actually won’t be trained at the server. Instead, the model will be sent to the connected clients where it will be trained by each client’s local data. PyGAD uses a genetic algorithm for training these models.

Each client sends its version of the model back to the server. The server aggregates the parameters of all models to create a single model. Such a model is then tested to make sure it has an acceptable accuracy/error.

In case the model needs further training using the clients’ local data, the model will be sent back to the clients where its parameters are tuned, and finally sent back to the server. The process continues until the model does performs sufficiently well on the test data.

The code for this tutorial is available in the Federated Learning GitHub project under the TutorialProject/Part3 directory. Future tutorials will build upon this application.

Here are the sections covered in this tutorial:

  • Installing PyGAD
  • Creating a population of neural networks using PyGAD
  • Sending the population to connected clients
  • Receiving the population at the client
  • Training the network using the genetic algorithm
  • Sending the client’s trained network back to the server
  • Final client code
  • Aggregating models’ parameters at the server
  • Final server code
  • Running the server and the clients

Let’s get started.

Installing PyGAD

PyGAD is an open-source Python library for building genetic algorithms (GA). It supports many parameters that customize GA for various problems.

PyGAD is available via PyPI, and thus it can be installed using the pip installer. For Windows, use the following CMD command:

pip install pygad

For Linux and Mac, replace pip by pip3 (PyGAD uses Python 3):

pip3 install pygad

Once installed, make sure it works correctly by importing it. The latest version at the time of writing this tutorial is 2.3.0.

import pygad
​
print(pygad.__version__)

If everything is working properly, then we can proceed into the next section to create a neural network using PyGAD.

Creating a Population of Neural Networks using PyGAD

PyGAD uses a GA for training machine learning models. Currently, the models it supports are neural networks and convolutional neural networks.

The GA starts with a random initial population of solutions for the problem being optimized. For some generations, the solutions are evolved by applying mutation and crossover. PyGAD creates an initial population of networks using its pygad.gann module. In this section, we’ll discuss how to use this module for creating the initial population of networks.

The pygad.gann module has a class named GANN. Check the documentation of this module in in the official docs. An instance of this class represents a population of neural networks. All the neural networks have the same architecture. Later, this population will be evolved using the genetic algorithm.

The constructor of the pygad.gann.GANN class accepts the following parameters:

  • num_solutions: Population size (i.e. number of solutions in the population).
  • num_neurons_input: Number of input layer neurons.
  • num_neurons_output: Number of output layer neurons.
  • num_neurons_hidden_layers=[]: A list representing the number of neurons in the hidden layer. If the list has N elements, then it will have N hidden layers. The number of neurons for the hidden layers are specified according to the list values.
  • output_activation="softmax": A string representing the activation function in the output layer.
  • hidden_activations="relu": A string or list of strings representing the activation function in the hidden layer(s). If a list is specified, then its length must be equal to the length of the num_neurons_hidden_layers parameter.

For more information about these parameters, check out the documentation.

The problem that will be modeled in this tutorial is the XOR problem. The samples for this problem are listed below. For each sample, there are 2 inputs and 1 output. Thus, the num_neurons_input parameter will be set to 2, and the num_neurons_output will be set to 1.

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Training Models using Federated Learning (Part 3)
Veronica  Roob

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A Pure PHP Implementation Of The MessagePack Serialization Format

msgpack.php

A pure PHP implementation of the MessagePack serialization format.

Features

Installation

The recommended way to install the library is through Composer:

composer require rybakit/msgpack

Usage

Packing

To pack values you can either use an instance of a Packer:

$packer = new Packer();
$packed = $packer->pack($value);

or call a static method on the MessagePack class:

$packed = MessagePack::pack($value);

In the examples above, the method pack automatically packs a value depending on its type. However, not all PHP types can be uniquely translated to MessagePack types. For example, the MessagePack format defines map and array types, which are represented by a single array type in PHP. By default, the packer will pack a PHP array as a MessagePack array if it has sequential numeric keys, starting from 0 and as a MessagePack map otherwise:

$mpArr1 = $packer->pack([1, 2]);               // MP array [1, 2]
$mpArr2 = $packer->pack([0 => 1, 1 => 2]);     // MP array [1, 2]
$mpMap1 = $packer->pack([0 => 1, 2 => 3]);     // MP map {0: 1, 2: 3}
$mpMap2 = $packer->pack([1 => 2, 2 => 3]);     // MP map {1: 2, 2: 3}
$mpMap3 = $packer->pack(['a' => 1, 'b' => 2]); // MP map {a: 1, b: 2}

However, sometimes you need to pack a sequential array as a MessagePack map. To do this, use the packMap method:

$mpMap = $packer->packMap([1, 2]); // {0: 1, 1: 2}

Here is a list of type-specific packing methods:

$packer->packNil();           // MP nil
$packer->packBool(true);      // MP bool
$packer->packInt(42);         // MP int
$packer->packFloat(M_PI);     // MP float (32 or 64)
$packer->packFloat32(M_PI);   // MP float 32
$packer->packFloat64(M_PI);   // MP float 64
$packer->packStr('foo');      // MP str
$packer->packBin("\x80");     // MP bin
$packer->packArray([1, 2]);   // MP array
$packer->packMap(['a' => 1]); // MP map
$packer->packExt(1, "\xaa");  // MP ext

Check the "Custom types" section below on how to pack custom types.

Packing options

The Packer object supports a number of bitmask-based options for fine-tuning the packing process (defaults are in bold):

NameDescription
FORCE_STRForces PHP strings to be packed as MessagePack UTF-8 strings
FORCE_BINForces PHP strings to be packed as MessagePack binary data
DETECT_STR_BINDetects MessagePack str/bin type automatically
  
FORCE_ARRForces PHP arrays to be packed as MessagePack arrays
FORCE_MAPForces PHP arrays to be packed as MessagePack maps
DETECT_ARR_MAPDetects MessagePack array/map type automatically
  
FORCE_FLOAT32Forces PHP floats to be packed as 32-bits MessagePack floats
FORCE_FLOAT64Forces PHP floats to be packed as 64-bits MessagePack floats

The type detection mode (DETECT_STR_BIN/DETECT_ARR_MAP) adds some overhead which can be noticed when you pack large (16- and 32-bit) arrays or strings. However, if you know the value type in advance (for example, you only work with UTF-8 strings or/and associative arrays), you can eliminate this overhead by forcing the packer to use the appropriate type, which will save it from running the auto-detection routine. Another option is to explicitly specify the value type. The library provides 2 auxiliary classes for this, Map and Bin. Check the "Custom types" section below for details.

Examples:

// detect str/bin type and pack PHP 64-bit floats (doubles) to MP 32-bit floats
$packer = new Packer(PackOptions::DETECT_STR_BIN | PackOptions::FORCE_FLOAT32);

// these will throw MessagePack\Exception\InvalidOptionException
$packer = new Packer(PackOptions::FORCE_STR | PackOptions::FORCE_BIN);
$packer = new Packer(PackOptions::FORCE_FLOAT32 | PackOptions::FORCE_FLOAT64);

Unpacking

To unpack data you can either use an instance of a BufferUnpacker:

$unpacker = new BufferUnpacker();

$unpacker->reset($packed);
$value = $unpacker->unpack();

or call a static method on the MessagePack class:

$value = MessagePack::unpack($packed);

If the packed data is received in chunks (e.g. when reading from a stream), use the tryUnpack method, which attempts to unpack data and returns an array of unpacked messages (if any) instead of throwing an InsufficientDataException:

while ($chunk = ...) {
    $unpacker->append($chunk);
    if ($messages = $unpacker->tryUnpack()) {
        return $messages;
    }
}

If you want to unpack from a specific position in a buffer, use seek:

$unpacker->seek(42); // set position equal to 42 bytes
$unpacker->seek(-8); // set position to 8 bytes before the end of the buffer

To skip bytes from the current position, use skip:

$unpacker->skip(10); // set position to 10 bytes ahead of the current position

To get the number of remaining (unread) bytes in the buffer:

$unreadBytesCount = $unpacker->getRemainingCount();

To check whether the buffer has unread data:

$hasUnreadBytes = $unpacker->hasRemaining();

If needed, you can remove already read data from the buffer by calling:

$releasedBytesCount = $unpacker->release();

With the read method you can read raw (packed) data:

$packedData = $unpacker->read(2); // read 2 bytes

Besides the above methods BufferUnpacker provides type-specific unpacking methods, namely:

$unpacker->unpackNil();   // PHP null
$unpacker->unpackBool();  // PHP bool
$unpacker->unpackInt();   // PHP int
$unpacker->unpackFloat(); // PHP float
$unpacker->unpackStr();   // PHP UTF-8 string
$unpacker->unpackBin();   // PHP binary string
$unpacker->unpackArray(); // PHP sequential array
$unpacker->unpackMap();   // PHP associative array
$unpacker->unpackExt();   // PHP MessagePack\Type\Ext object

Unpacking options

The BufferUnpacker object supports a number of bitmask-based options for fine-tuning the unpacking process (defaults are in bold):

NameDescription
BIGINT_AS_STRConverts overflowed integers to strings [1]
BIGINT_AS_GMPConverts overflowed integers to GMP objects [2]
BIGINT_AS_DECConverts overflowed integers to Decimal\Decimal objects [3]

1. The binary MessagePack format has unsigned 64-bit as its largest integer data type, but PHP does not support such integers, which means that an overflow can occur during unpacking.

2. Make sure the GMP extension is enabled.

3. Make sure the Decimal extension is enabled.

Examples:

$packedUint64 = "\xcf"."\xff\xff\xff\xff"."\xff\xff\xff\xff";

$unpacker = new BufferUnpacker($packedUint64);
var_dump($unpacker->unpack()); // string(20) "18446744073709551615"

$unpacker = new BufferUnpacker($packedUint64, UnpackOptions::BIGINT_AS_GMP);
var_dump($unpacker->unpack()); // object(GMP) {...}

$unpacker = new BufferUnpacker($packedUint64, UnpackOptions::BIGINT_AS_DEC);
var_dump($unpacker->unpack()); // object(Decimal\Decimal) {...}

Custom types

In addition to the basic types, the library provides functionality to serialize and deserialize arbitrary types. This can be done in several ways, depending on your use case. Let's take a look at them.

Type objects

If you need to serialize an instance of one of your classes into one of the basic MessagePack types, the best way to do this is to implement the CanBePacked interface in the class. A good example of such a class is the Map type class that comes with the library. This type is useful when you want to explicitly specify that a given PHP array should be packed as a MessagePack map without triggering an automatic type detection routine:

$packer = new Packer();

$packedMap = $packer->pack(new Map([1, 2, 3]));
$packedArray = $packer->pack([1, 2, 3]);

More type examples can be found in the src/Type directory.

Type transformers

As with type objects, type transformers are only responsible for serializing values. They should be used when you need to serialize a value that does not implement the CanBePacked interface. Examples of such values could be instances of built-in or third-party classes that you don't own, or non-objects such as resources.

A transformer class must implement the CanPack interface. To use a transformer, it must first be registered in the packer. Here is an example of how to serialize PHP streams into the MessagePack bin format type using one of the supplied transformers, StreamTransformer:

$packer = new Packer(null, [new StreamTransformer()]);

$packedBin = $packer->pack(fopen('/path/to/file', 'r+'));

More type transformer examples can be found in the src/TypeTransformer directory.

Extensions

In contrast to the cases described above, extensions are intended to handle extension types and are responsible for both serialization and deserialization of values (types).

An extension class must implement the Extension interface. To use an extension, it must first be registered in the packer and the unpacker.

The MessagePack specification divides extension types into two groups: predefined and application-specific. Currently, there is only one predefined type in the specification, Timestamp.

Timestamp

The Timestamp extension type is a predefined type. Support for this type in the library is done through the TimestampExtension class. This class is responsible for handling Timestamp objects, which represent the number of seconds and optional adjustment in nanoseconds:

$timestampExtension = new TimestampExtension();

$packer = new Packer();
$packer = $packer->extendWith($timestampExtension);

$unpacker = new BufferUnpacker();
$unpacker = $unpacker->extendWith($timestampExtension);

$packedTimestamp = $packer->pack(Timestamp::now());
$timestamp = $unpacker->reset($packedTimestamp)->unpack();

$seconds = $timestamp->getSeconds();
$nanoseconds = $timestamp->getNanoseconds();

When using the MessagePack class, the Timestamp extension is already registered:

$packedTimestamp = MessagePack::pack(Timestamp::now());
$timestamp = MessagePack::unpack($packedTimestamp);

Application-specific extensions

In addition, the format can be extended with your own types. For example, to make the built-in PHP DateTime objects first-class citizens in your code, you can create a corresponding extension, as shown in the example. Please note, that custom extensions have to be registered with a unique extension ID (an integer from 0 to 127).

More extension examples can be found in the examples/MessagePack directory.

To learn more about how extension types can be useful, check out this article.

Exceptions

If an error occurs during packing/unpacking, a PackingFailedException or an UnpackingFailedException will be thrown, respectively. In addition, an InsufficientDataException can be thrown during unpacking.

An InvalidOptionException will be thrown in case an invalid option (or a combination of mutually exclusive options) is used.

Tests

Run tests as follows:

vendor/bin/phpunit

Also, if you already have Docker installed, you can run the tests in a docker container. First, create a container:

./dockerfile.sh | docker build -t msgpack -

The command above will create a container named msgpack with PHP 8.1 runtime. You may change the default runtime by defining the PHP_IMAGE environment variable:

PHP_IMAGE='php:8.0-cli' ./dockerfile.sh | docker build -t msgpack -

See a list of various images here.

Then run the unit tests:

docker run --rm -v $PWD:/msgpack -w /msgpack msgpack

Fuzzing

To ensure that the unpacking works correctly with malformed/semi-malformed data, you can use a testing technique called Fuzzing. The library ships with a help file (target) for PHP-Fuzzer and can be used as follows:

php-fuzzer fuzz tests/fuzz_buffer_unpacker.php

Performance

To check performance, run:

php -n -dzend_extension=opcache.so \
-dpcre.jit=1 -dopcache.enable=1 -dopcache.enable_cli=1 \
tests/bench.php

Example output

Filter: MessagePack\Tests\Perf\Filter\ListFilter
Rounds: 3
Iterations: 100000

=============================================
Test/Target            Packer  BufferUnpacker
---------------------------------------------
nil .................. 0.0030 ........ 0.0139
false ................ 0.0037 ........ 0.0144
true ................. 0.0040 ........ 0.0137
7-bit uint #1 ........ 0.0052 ........ 0.0120
7-bit uint #2 ........ 0.0059 ........ 0.0114
7-bit uint #3 ........ 0.0061 ........ 0.0119
5-bit sint #1 ........ 0.0067 ........ 0.0126
5-bit sint #2 ........ 0.0064 ........ 0.0132
5-bit sint #3 ........ 0.0066 ........ 0.0135
8-bit uint #1 ........ 0.0078 ........ 0.0200
8-bit uint #2 ........ 0.0077 ........ 0.0212
8-bit uint #3 ........ 0.0086 ........ 0.0203
16-bit uint #1 ....... 0.0111 ........ 0.0271
16-bit uint #2 ....... 0.0115 ........ 0.0260
16-bit uint #3 ....... 0.0103 ........ 0.0273
32-bit uint #1 ....... 0.0116 ........ 0.0326
32-bit uint #2 ....... 0.0118 ........ 0.0332
32-bit uint #3 ....... 0.0127 ........ 0.0325
64-bit uint #1 ....... 0.0140 ........ 0.0277
64-bit uint #2 ....... 0.0134 ........ 0.0294
64-bit uint #3 ....... 0.0134 ........ 0.0281
8-bit int #1 ......... 0.0086 ........ 0.0241
8-bit int #2 ......... 0.0089 ........ 0.0225
8-bit int #3 ......... 0.0085 ........ 0.0229
16-bit int #1 ........ 0.0118 ........ 0.0280
16-bit int #2 ........ 0.0121 ........ 0.0270
16-bit int #3 ........ 0.0109 ........ 0.0274
32-bit int #1 ........ 0.0128 ........ 0.0346
32-bit int #2 ........ 0.0118 ........ 0.0339
32-bit int #3 ........ 0.0135 ........ 0.0368
64-bit int #1 ........ 0.0138 ........ 0.0276
64-bit int #2 ........ 0.0132 ........ 0.0286
64-bit int #3 ........ 0.0137 ........ 0.0274
64-bit int #4 ........ 0.0180 ........ 0.0285
64-bit float #1 ...... 0.0134 ........ 0.0284
64-bit float #2 ...... 0.0125 ........ 0.0275
64-bit float #3 ...... 0.0126 ........ 0.0283
fix string #1 ........ 0.0035 ........ 0.0133
fix string #2 ........ 0.0094 ........ 0.0216
fix string #3 ........ 0.0094 ........ 0.0222
fix string #4 ........ 0.0091 ........ 0.0241
8-bit string #1 ...... 0.0122 ........ 0.0301
8-bit string #2 ...... 0.0118 ........ 0.0304
8-bit string #3 ...... 0.0119 ........ 0.0315
16-bit string #1 ..... 0.0150 ........ 0.0388
16-bit string #2 ..... 0.1545 ........ 0.1665
32-bit string ........ 0.1570 ........ 0.1756
wide char string #1 .. 0.0091 ........ 0.0236
wide char string #2 .. 0.0122 ........ 0.0313
8-bit binary #1 ...... 0.0100 ........ 0.0302
8-bit binary #2 ...... 0.0123 ........ 0.0324
8-bit binary #3 ...... 0.0126 ........ 0.0327
16-bit binary ........ 0.0168 ........ 0.0372
32-bit binary ........ 0.1588 ........ 0.1754
fix array #1 ......... 0.0042 ........ 0.0131
fix array #2 ......... 0.0294 ........ 0.0367
fix array #3 ......... 0.0412 ........ 0.0472
16-bit array #1 ...... 0.1378 ........ 0.1596
16-bit array #2 ........... S ............. S
32-bit array .............. S ............. S
complex array ........ 0.1865 ........ 0.2283
fix map #1 ........... 0.0725 ........ 0.1048
fix map #2 ........... 0.0319 ........ 0.0405
fix map #3 ........... 0.0356 ........ 0.0665
fix map #4 ........... 0.0465 ........ 0.0497
16-bit map #1 ........ 0.2540 ........ 0.3028
16-bit map #2 ............. S ............. S
32-bit map ................ S ............. S
complex map .......... 0.2372 ........ 0.2710
fixext 1 ............. 0.0283 ........ 0.0358
fixext 2 ............. 0.0291 ........ 0.0371
fixext 4 ............. 0.0302 ........ 0.0355
fixext 8 ............. 0.0288 ........ 0.0384
fixext 16 ............ 0.0293 ........ 0.0359
8-bit ext ............ 0.0302 ........ 0.0439
16-bit ext ........... 0.0334 ........ 0.0499
32-bit ext ........... 0.1845 ........ 0.1888
32-bit timestamp #1 .. 0.0337 ........ 0.0547
32-bit timestamp #2 .. 0.0335 ........ 0.0560
64-bit timestamp #1 .. 0.0371 ........ 0.0575
64-bit timestamp #2 .. 0.0374 ........ 0.0542
64-bit timestamp #3 .. 0.0356 ........ 0.0533
96-bit timestamp #1 .. 0.0362 ........ 0.0699
96-bit timestamp #2 .. 0.0381 ........ 0.0701
96-bit timestamp #3 .. 0.0367 ........ 0.0687
=============================================
Total                  2.7618          4.0820
Skipped                     4               4
Failed                      0               0
Ignored                     0               0

With JIT:

php -n -dzend_extension=opcache.so \
-dpcre.jit=1 -dopcache.jit_buffer_size=64M -dopcache.jit=tracing -dopcache.enable=1 -dopcache.enable_cli=1 \
tests/bench.php

Example output

Filter: MessagePack\Tests\Perf\Filter\ListFilter
Rounds: 3
Iterations: 100000

=============================================
Test/Target            Packer  BufferUnpacker
---------------------------------------------
nil .................. 0.0005 ........ 0.0054
false ................ 0.0004 ........ 0.0059
true ................. 0.0004 ........ 0.0059
7-bit uint #1 ........ 0.0010 ........ 0.0047
7-bit uint #2 ........ 0.0010 ........ 0.0046
7-bit uint #3 ........ 0.0010 ........ 0.0046
5-bit sint #1 ........ 0.0025 ........ 0.0046
5-bit sint #2 ........ 0.0023 ........ 0.0046
5-bit sint #3 ........ 0.0024 ........ 0.0045
8-bit uint #1 ........ 0.0043 ........ 0.0081
8-bit uint #2 ........ 0.0043 ........ 0.0079
8-bit uint #3 ........ 0.0041 ........ 0.0080
16-bit uint #1 ....... 0.0064 ........ 0.0095
16-bit uint #2 ....... 0.0064 ........ 0.0091
16-bit uint #3 ....... 0.0064 ........ 0.0094
32-bit uint #1 ....... 0.0085 ........ 0.0114
32-bit uint #2 ....... 0.0077 ........ 0.0122
32-bit uint #3 ....... 0.0077 ........ 0.0120
64-bit uint #1 ....... 0.0085 ........ 0.0159
64-bit uint #2 ....... 0.0086 ........ 0.0157
64-bit uint #3 ....... 0.0086 ........ 0.0158
8-bit int #1 ......... 0.0042 ........ 0.0080
8-bit int #2 ......... 0.0042 ........ 0.0080
8-bit int #3 ......... 0.0042 ........ 0.0081
16-bit int #1 ........ 0.0065 ........ 0.0095
16-bit int #2 ........ 0.0065 ........ 0.0090
16-bit int #3 ........ 0.0056 ........ 0.0085
32-bit int #1 ........ 0.0067 ........ 0.0107
32-bit int #2 ........ 0.0066 ........ 0.0106
32-bit int #3 ........ 0.0063 ........ 0.0104
64-bit int #1 ........ 0.0072 ........ 0.0162
64-bit int #2 ........ 0.0073 ........ 0.0174
64-bit int #3 ........ 0.0072 ........ 0.0164
64-bit int #4 ........ 0.0077 ........ 0.0161
64-bit float #1 ...... 0.0053 ........ 0.0135
64-bit float #2 ...... 0.0053 ........ 0.0135
64-bit float #3 ...... 0.0052 ........ 0.0135
fix string #1 ....... -0.0002 ........ 0.0044
fix string #2 ........ 0.0035 ........ 0.0067
fix string #3 ........ 0.0035 ........ 0.0077
fix string #4 ........ 0.0033 ........ 0.0078
8-bit string #1 ...... 0.0059 ........ 0.0110
8-bit string #2 ...... 0.0063 ........ 0.0121
8-bit string #3 ...... 0.0064 ........ 0.0124
16-bit string #1 ..... 0.0099 ........ 0.0146
16-bit string #2 ..... 0.1522 ........ 0.1474
32-bit string ........ 0.1511 ........ 0.1483
wide char string #1 .. 0.0039 ........ 0.0084
wide char string #2 .. 0.0073 ........ 0.0123
8-bit binary #1 ...... 0.0040 ........ 0.0112
8-bit binary #2 ...... 0.0075 ........ 0.0123
8-bit binary #3 ...... 0.0077 ........ 0.0129
16-bit binary ........ 0.0096 ........ 0.0145
32-bit binary ........ 0.1535 ........ 0.1479
fix array #1 ......... 0.0008 ........ 0.0061
fix array #2 ......... 0.0121 ........ 0.0165
fix array #3 ......... 0.0193 ........ 0.0222
16-bit array #1 ...... 0.0607 ........ 0.0479
16-bit array #2 ........... S ............. S
32-bit array .............. S ............. S
complex array ........ 0.0749 ........ 0.0824
fix map #1 ........... 0.0329 ........ 0.0431
fix map #2 ........... 0.0161 ........ 0.0189
fix map #3 ........... 0.0205 ........ 0.0262
fix map #4 ........... 0.0252 ........ 0.0205
16-bit map #1 ........ 0.1016 ........ 0.0927
16-bit map #2 ............. S ............. S
32-bit map ................ S ............. S
complex map .......... 0.1096 ........ 0.1030
fixext 1 ............. 0.0157 ........ 0.0161
fixext 2 ............. 0.0175 ........ 0.0183
fixext 4 ............. 0.0156 ........ 0.0185
fixext 8 ............. 0.0163 ........ 0.0184
fixext 16 ............ 0.0164 ........ 0.0182
8-bit ext ............ 0.0158 ........ 0.0207
16-bit ext ........... 0.0203 ........ 0.0219
32-bit ext ........... 0.1614 ........ 0.1539
32-bit timestamp #1 .. 0.0195 ........ 0.0249
32-bit timestamp #2 .. 0.0188 ........ 0.0260
64-bit timestamp #1 .. 0.0207 ........ 0.0281
64-bit timestamp #2 .. 0.0212 ........ 0.0291
64-bit timestamp #3 .. 0.0207 ........ 0.0295
96-bit timestamp #1 .. 0.0222 ........ 0.0358
96-bit timestamp #2 .. 0.0228 ........ 0.0353
96-bit timestamp #3 .. 0.0210 ........ 0.0319
=============================================
Total                  1.6432          1.9674
Skipped                     4               4
Failed                      0               0
Ignored                     0               0

You may change default benchmark settings by defining the following environment variables:

NameDefault
MP_BENCH_TARGETSpure_p,pure_u, see a list of available targets
MP_BENCH_ITERATIONS100_000
MP_BENCH_DURATIONnot set
MP_BENCH_ROUNDS3
MP_BENCH_TESTS-@slow, see a list of available tests

For example:

export MP_BENCH_TARGETS=pure_p
export MP_BENCH_ITERATIONS=1000000
export MP_BENCH_ROUNDS=5
# a comma separated list of test names
export MP_BENCH_TESTS='complex array, complex map'
# or a group name
# export MP_BENCH_TESTS='-@slow' // @pecl_comp
# or a regexp
# export MP_BENCH_TESTS='/complex (array|map)/'

Another example, benchmarking both the library and the PECL extension:

MP_BENCH_TARGETS=pure_p,pure_u,pecl_p,pecl_u \
php -n -dextension=msgpack.so -dzend_extension=opcache.so \
-dpcre.jit=1 -dopcache.enable=1 -dopcache.enable_cli=1 \
tests/bench.php

Example output

Filter: MessagePack\Tests\Perf\Filter\ListFilter
Rounds: 3
Iterations: 100000

===========================================================================
Test/Target            Packer  BufferUnpacker  msgpack_pack  msgpack_unpack
---------------------------------------------------------------------------
nil .................. 0.0031 ........ 0.0141 ...... 0.0055 ........ 0.0064
false ................ 0.0039 ........ 0.0154 ...... 0.0056 ........ 0.0053
true ................. 0.0038 ........ 0.0139 ...... 0.0056 ........ 0.0044
7-bit uint #1 ........ 0.0061 ........ 0.0110 ...... 0.0059 ........ 0.0046
7-bit uint #2 ........ 0.0065 ........ 0.0119 ...... 0.0042 ........ 0.0029
7-bit uint #3 ........ 0.0054 ........ 0.0117 ...... 0.0045 ........ 0.0025
5-bit sint #1 ........ 0.0047 ........ 0.0103 ...... 0.0038 ........ 0.0022
5-bit sint #2 ........ 0.0048 ........ 0.0117 ...... 0.0038 ........ 0.0022
5-bit sint #3 ........ 0.0046 ........ 0.0102 ...... 0.0038 ........ 0.0023
8-bit uint #1 ........ 0.0063 ........ 0.0174 ...... 0.0039 ........ 0.0031
8-bit uint #2 ........ 0.0063 ........ 0.0167 ...... 0.0040 ........ 0.0029
8-bit uint #3 ........ 0.0063 ........ 0.0168 ...... 0.0039 ........ 0.0030
16-bit uint #1 ....... 0.0092 ........ 0.0222 ...... 0.0049 ........ 0.0030
16-bit uint #2 ....... 0.0096 ........ 0.0227 ...... 0.0042 ........ 0.0046
16-bit uint #3 ....... 0.0123 ........ 0.0274 ...... 0.0059 ........ 0.0051
32-bit uint #1 ....... 0.0136 ........ 0.0331 ...... 0.0060 ........ 0.0048
32-bit uint #2 ....... 0.0130 ........ 0.0336 ...... 0.0070 ........ 0.0048
32-bit uint #3 ....... 0.0127 ........ 0.0329 ...... 0.0051 ........ 0.0048
64-bit uint #1 ....... 0.0126 ........ 0.0268 ...... 0.0055 ........ 0.0049
64-bit uint #2 ....... 0.0135 ........ 0.0281 ...... 0.0052 ........ 0.0046
64-bit uint #3 ....... 0.0131 ........ 0.0274 ...... 0.0069 ........ 0.0044
8-bit int #1 ......... 0.0077 ........ 0.0236 ...... 0.0058 ........ 0.0044
8-bit int #2 ......... 0.0087 ........ 0.0244 ...... 0.0058 ........ 0.0048
8-bit int #3 ......... 0.0084 ........ 0.0241 ...... 0.0055 ........ 0.0049
16-bit int #1 ........ 0.0112 ........ 0.0271 ...... 0.0048 ........ 0.0045
16-bit int #2 ........ 0.0124 ........ 0.0292 ...... 0.0057 ........ 0.0049
16-bit int #3 ........ 0.0118 ........ 0.0270 ...... 0.0058 ........ 0.0050
32-bit int #1 ........ 0.0137 ........ 0.0366 ...... 0.0058 ........ 0.0051
32-bit int #2 ........ 0.0133 ........ 0.0366 ...... 0.0056 ........ 0.0049
32-bit int #3 ........ 0.0129 ........ 0.0350 ...... 0.0052 ........ 0.0048
64-bit int #1 ........ 0.0145 ........ 0.0254 ...... 0.0034 ........ 0.0025
64-bit int #2 ........ 0.0097 ........ 0.0214 ...... 0.0034 ........ 0.0025
64-bit int #3 ........ 0.0096 ........ 0.0287 ...... 0.0059 ........ 0.0050
64-bit int #4 ........ 0.0143 ........ 0.0277 ...... 0.0059 ........ 0.0046
64-bit float #1 ...... 0.0134 ........ 0.0281 ...... 0.0057 ........ 0.0052
64-bit float #2 ...... 0.0141 ........ 0.0281 ...... 0.0057 ........ 0.0050
64-bit float #3 ...... 0.0144 ........ 0.0282 ...... 0.0057 ........ 0.0050
fix string #1 ........ 0.0036 ........ 0.0143 ...... 0.0066 ........ 0.0053
fix string #2 ........ 0.0107 ........ 0.0222 ...... 0.0065 ........ 0.0068
fix string #3 ........ 0.0116 ........ 0.0245 ...... 0.0063 ........ 0.0069
fix string #4 ........ 0.0105 ........ 0.0253 ...... 0.0083 ........ 0.0077
8-bit string #1 ...... 0.0126 ........ 0.0318 ...... 0.0075 ........ 0.0088
8-bit string #2 ...... 0.0121 ........ 0.0295 ...... 0.0076 ........ 0.0086
8-bit string #3 ...... 0.0125 ........ 0.0293 ...... 0.0130 ........ 0.0093
16-bit string #1 ..... 0.0159 ........ 0.0368 ...... 0.0117 ........ 0.0086
16-bit string #2 ..... 0.1547 ........ 0.1686 ...... 0.1516 ........ 0.1373
32-bit string ........ 0.1558 ........ 0.1729 ...... 0.1511 ........ 0.1396
wide char string #1 .. 0.0098 ........ 0.0237 ...... 0.0066 ........ 0.0065
wide char string #2 .. 0.0128 ........ 0.0291 ...... 0.0061 ........ 0.0082
8-bit binary #1 ........... I ............. I ........... F ............. I
8-bit binary #2 ........... I ............. I ........... F ............. I
8-bit binary #3 ........... I ............. I ........... F ............. I
16-bit binary ............. I ............. I ........... F ............. I
32-bit binary ............. I ............. I ........... F ............. I
fix array #1 ......... 0.0040 ........ 0.0129 ...... 0.0120 ........ 0.0058
fix array #2 ......... 0.0279 ........ 0.0390 ...... 0.0143 ........ 0.0165
fix array #3 ......... 0.0415 ........ 0.0463 ...... 0.0162 ........ 0.0187
16-bit array #1 ...... 0.1349 ........ 0.1628 ...... 0.0334 ........ 0.0341
16-bit array #2 ........... S ............. S ........... S ............. S
32-bit array .............. S ............. S ........... S ............. S
complex array ............. I ............. I ........... F ............. F
fix map #1 ................ I ............. I ........... F ............. I
fix map #2 ........... 0.0345 ........ 0.0391 ...... 0.0143 ........ 0.0168
fix map #3 ................ I ............. I ........... F ............. I
fix map #4 ........... 0.0459 ........ 0.0473 ...... 0.0151 ........ 0.0163
16-bit map #1 ........ 0.2518 ........ 0.2962 ...... 0.0400 ........ 0.0490
16-bit map #2 ............. S ............. S ........... S ............. S
32-bit map ................ S ............. S ........... S ............. S
complex map .......... 0.2380 ........ 0.2682 ...... 0.0545 ........ 0.0579
fixext 1 .................. I ............. I ........... F ............. F
fixext 2 .................. I ............. I ........... F ............. F
fixext 4 .................. I ............. I ........... F ............. F
fixext 8 .................. I ............. I ........... F ............. F
fixext 16 ................. I ............. I ........... F ............. F
8-bit ext ................. I ............. I ........... F ............. F
16-bit ext ................ I ............. I ........... F ............. F
32-bit ext ................ I ............. I ........... F ............. F
32-bit timestamp #1 ....... I ............. I ........... F ............. F
32-bit timestamp #2 ....... I ............. I ........... F ............. F
64-bit timestamp #1 ....... I ............. I ........... F ............. F
64-bit timestamp #2 ....... I ............. I ........... F ............. F
64-bit timestamp #3 ....... I ............. I ........... F ............. F
96-bit timestamp #1 ....... I ............. I ........... F ............. F
96-bit timestamp #2 ....... I ............. I ........... F ............. F
96-bit timestamp #3 ....... I ............. I ........... F ............. F
===========================================================================
Total                  1.5625          2.3866        0.7735          0.7243
Skipped                     4               4             4               4
Failed                      0               0            24              17
Ignored                    24              24             0               7

With JIT:

MP_BENCH_TARGETS=pure_p,pure_u,pecl_p,pecl_u \
php -n -dextension=msgpack.so -dzend_extension=opcache.so \
-dpcre.jit=1 -dopcache.jit_buffer_size=64M -dopcache.jit=tracing -dopcache.enable=1 -dopcache.enable_cli=1 \
tests/bench.php

Example output

Filter: MessagePack\Tests\Perf\Filter\ListFilter
Rounds: 3
Iterations: 100000

===========================================================================
Test/Target            Packer  BufferUnpacker  msgpack_pack  msgpack_unpack
---------------------------------------------------------------------------
nil .................. 0.0001 ........ 0.0052 ...... 0.0053 ........ 0.0042
false ................ 0.0007 ........ 0.0060 ...... 0.0057 ........ 0.0043
true ................. 0.0008 ........ 0.0060 ...... 0.0056 ........ 0.0041
7-bit uint #1 ........ 0.0031 ........ 0.0046 ...... 0.0062 ........ 0.0041
7-bit uint #2 ........ 0.0021 ........ 0.0043 ...... 0.0062 ........ 0.0041
7-bit uint #3 ........ 0.0022 ........ 0.0044 ...... 0.0061 ........ 0.0040
5-bit sint #1 ........ 0.0030 ........ 0.0048 ...... 0.0062 ........ 0.0040
5-bit sint #2 ........ 0.0032 ........ 0.0046 ...... 0.0062 ........ 0.0040
5-bit sint #3 ........ 0.0031 ........ 0.0046 ...... 0.0062 ........ 0.0040
8-bit uint #1 ........ 0.0054 ........ 0.0079 ...... 0.0062 ........ 0.0050
8-bit uint #2 ........ 0.0051 ........ 0.0079 ...... 0.0064 ........ 0.0044
8-bit uint #3 ........ 0.0051 ........ 0.0082 ...... 0.0062 ........ 0.0044
16-bit uint #1 ....... 0.0077 ........ 0.0094 ...... 0.0065 ........ 0.0045
16-bit uint #2 ....... 0.0077 ........ 0.0094 ...... 0.0063 ........ 0.0045
16-bit uint #3 ....... 0.0077 ........ 0.0095 ...... 0.0064 ........ 0.0047
32-bit uint #1 ....... 0.0088 ........ 0.0119 ...... 0.0063 ........ 0.0043
32-bit uint #2 ....... 0.0089 ........ 0.0117 ...... 0.0062 ........ 0.0039
32-bit uint #3 ....... 0.0089 ........ 0.0118 ...... 0.0063 ........ 0.0044
64-bit uint #1 ....... 0.0097 ........ 0.0155 ...... 0.0063 ........ 0.0045
64-bit uint #2 ....... 0.0095 ........ 0.0153 ...... 0.0061 ........ 0.0045
64-bit uint #3 ....... 0.0096 ........ 0.0156 ...... 0.0063 ........ 0.0047
8-bit int #1 ......... 0.0053 ........ 0.0083 ...... 0.0062 ........ 0.0044
8-bit int #2 ......... 0.0052 ........ 0.0080 ...... 0.0062 ........ 0.0044
8-bit int #3 ......... 0.0052 ........ 0.0080 ...... 0.0062 ........ 0.0043
16-bit int #1 ........ 0.0089 ........ 0.0097 ...... 0.0069 ........ 0.0046
16-bit int #2 ........ 0.0075 ........ 0.0093 ...... 0.0063 ........ 0.0043
16-bit int #3 ........ 0.0075 ........ 0.0094 ...... 0.0062 ........ 0.0046
32-bit int #1 ........ 0.0086 ........ 0.0122 ...... 0.0063 ........ 0.0044
32-bit int #2 ........ 0.0087 ........ 0.0120 ...... 0.0066 ........ 0.0046
32-bit int #3 ........ 0.0086 ........ 0.0121 ...... 0.0060 ........ 0.0044
64-bit int #1 ........ 0.0096 ........ 0.0149 ...... 0.0060 ........ 0.0045
64-bit int #2 ........ 0.0096 ........ 0.0157 ...... 0.0062 ........ 0.0044
64-bit int #3 ........ 0.0096 ........ 0.0160 ...... 0.0063 ........ 0.0046
64-bit int #4 ........ 0.0097 ........ 0.0157 ...... 0.0061 ........ 0.0044
64-bit float #1 ...... 0.0079 ........ 0.0153 ...... 0.0056 ........ 0.0044
64-bit float #2 ...... 0.0079 ........ 0.0152 ...... 0.0057 ........ 0.0045
64-bit float #3 ...... 0.0079 ........ 0.0155 ...... 0.0057 ........ 0.0044
fix string #1 ........ 0.0010 ........ 0.0045 ...... 0.0071 ........ 0.0044
fix string #2 ........ 0.0048 ........ 0.0075 ...... 0.0070 ........ 0.0060
fix string #3 ........ 0.0048 ........ 0.0086 ...... 0.0068 ........ 0.0060
fix string #4 ........ 0.0050 ........ 0.0088 ...... 0.0070 ........ 0.0059
8-bit string #1 ...... 0.0081 ........ 0.0129 ...... 0.0069 ........ 0.0062
8-bit string #2 ...... 0.0086 ........ 0.0128 ...... 0.0069 ........ 0.0065
8-bit string #3 ...... 0.0086 ........ 0.0126 ...... 0.0115 ........ 0.0065
16-bit string #1 ..... 0.0105 ........ 0.0137 ...... 0.0128 ........ 0.0068
16-bit string #2 ..... 0.1510 ........ 0.1486 ...... 0.1526 ........ 0.1391
32-bit string ........ 0.1517 ........ 0.1475 ...... 0.1504 ........ 0.1370
wide char string #1 .. 0.0044 ........ 0.0085 ...... 0.0067 ........ 0.0057
wide char string #2 .. 0.0081 ........ 0.0125 ...... 0.0069 ........ 0.0063
8-bit binary #1 ........... I ............. I ........... F ............. I
8-bit binary #2 ........... I ............. I ........... F ............. I
8-bit binary #3 ........... I ............. I ........... F ............. I
16-bit binary ............. I ............. I ........... F ............. I
32-bit binary ............. I ............. I ........... F ............. I
fix array #1 ......... 0.0014 ........ 0.0059 ...... 0.0132 ........ 0.0055
fix array #2 ......... 0.0146 ........ 0.0156 ...... 0.0155 ........ 0.0148
fix array #3 ......... 0.0211 ........ 0.0229 ...... 0.0179 ........ 0.0180
16-bit array #1 ...... 0.0673 ........ 0.0498 ...... 0.0343 ........ 0.0388
16-bit array #2 ........... S ............. S ........... S ............. S
32-bit array .............. S ............. S ........... S ............. S
complex array ............. I ............. I ........... F ............. F
fix map #1 ................ I ............. I ........... F ............. I
fix map #2 ........... 0.0148 ........ 0.0180 ...... 0.0156 ........ 0.0179
fix map #3 ................ I ............. I ........... F ............. I
fix map #4 ........... 0.0252 ........ 0.0201 ...... 0.0214 ........ 0.0167
16-bit map #1 ........ 0.1027 ........ 0.0836 ...... 0.0388 ........ 0.0510
16-bit map #2 ............. S ............. S ........... S ............. S
32-bit map ................ S ............. S ........... S ............. S
complex map .......... 0.1104 ........ 0.1010 ...... 0.0556 ........ 0.0602
fixext 1 .................. I ............. I ........... F ............. F
fixext 2 .................. I ............. I ........... F ............. F
fixext 4 .................. I ............. I ........... F ............. F
fixext 8 .................. I ............. I ........... F ............. F
fixext 16 ................. I ............. I ........... F ............. F
8-bit ext ................. I ............. I ........... F ............. F
16-bit ext ................ I ............. I ........... F ............. F
32-bit ext ................ I ............. I ........... F ............. F
32-bit timestamp #1 ....... I ............. I ........... F ............. F
32-bit timestamp #2 ....... I ............. I ........... F ............. F
64-bit timestamp #1 ....... I ............. I ........... F ............. F
64-bit timestamp #2 ....... I ............. I ........... F ............. F
64-bit timestamp #3 ....... I ............. I ........... F ............. F
96-bit timestamp #1 ....... I ............. I ........... F ............. F
96-bit timestamp #2 ....... I ............. I ........... F ............. F
96-bit timestamp #3 ....... I ............. I ........... F ............. F
===========================================================================
Total                  0.9642          1.0909        0.8224          0.7213
Skipped                     4               4             4               4
Failed                      0               0            24              17
Ignored                    24              24             0               7

Note that the msgpack extension (v2.1.2) doesn't support ext, bin and UTF-8 str types.

License

The library is released under the MIT License. See the bundled LICENSE file for details.

Author: rybakit
Source Code: https://github.com/rybakit/msgpack.php
License: MIT License

#php 

Chloe  Butler

Chloe Butler

1667425440

Pdf2gerb: Perl Script Converts PDF Files to Gerber format

pdf2gerb

Perl script converts PDF files to Gerber format

Pdf2Gerb generates Gerber 274X photoplotting and Excellon drill files from PDFs of a PCB. Up to three PDFs are used: the top copper layer, the bottom copper layer (for 2-sided PCBs), and an optional silk screen layer. The PDFs can be created directly from any PDF drawing software, or a PDF print driver can be used to capture the Print output if the drawing software does not directly support output to PDF.

The general workflow is as follows:

  1. Design the PCB using your favorite CAD or drawing software.
  2. Print the top and bottom copper and top silk screen layers to a PDF file.
  3. Run Pdf2Gerb on the PDFs to create Gerber and Excellon files.
  4. Use a Gerber viewer to double-check the output against the original PCB design.
  5. Make adjustments as needed.
  6. Submit the files to a PCB manufacturer.

Please note that Pdf2Gerb does NOT perform DRC (Design Rule Checks), as these will vary according to individual PCB manufacturer conventions and capabilities. Also note that Pdf2Gerb is not perfect, so the output files must always be checked before submitting them. As of version 1.6, Pdf2Gerb supports most PCB elements, such as round and square pads, round holes, traces, SMD pads, ground planes, no-fill areas, and panelization. However, because it interprets the graphical output of a Print function, there are limitations in what it can recognize (or there may be bugs).

See docs/Pdf2Gerb.pdf for install/setup, config, usage, and other info.


pdf2gerb_cfg.pm

#Pdf2Gerb config settings:
#Put this file in same folder/directory as pdf2gerb.pl itself (global settings),
#or copy to another folder/directory with PDFs if you want PCB-specific settings.
#There is only one user of this file, so we don't need a custom package or namespace.
#NOTE: all constants defined in here will be added to main namespace.
#package pdf2gerb_cfg;

use strict; #trap undef vars (easier debug)
use warnings; #other useful info (easier debug)


##############################################################################################
#configurable settings:
#change values here instead of in main pfg2gerb.pl file

use constant WANT_COLORS => ($^O !~ m/Win/); #ANSI colors no worky on Windows? this must be set < first DebugPrint() call

#just a little warning; set realistic expectations:
#DebugPrint("${\(CYAN)}Pdf2Gerb.pl ${\(VERSION)}, $^O O/S\n${\(YELLOW)}${\(BOLD)}${\(ITALIC)}This is EXPERIMENTAL software.  \nGerber files MAY CONTAIN ERRORS.  Please CHECK them before fabrication!${\(RESET)}", 0); #if WANT_DEBUG

use constant METRIC => FALSE; #set to TRUE for metric units (only affect final numbers in output files, not internal arithmetic)
use constant APERTURE_LIMIT => 0; #34; #max #apertures to use; generate warnings if too many apertures are used (0 to not check)
use constant DRILL_FMT => '2.4'; #'2.3'; #'2.4' is the default for PCB fab; change to '2.3' for CNC

use constant WANT_DEBUG => 0; #10; #level of debug wanted; higher == more, lower == less, 0 == none
use constant GERBER_DEBUG => 0; #level of debug to include in Gerber file; DON'T USE FOR FABRICATION
use constant WANT_STREAMS => FALSE; #TRUE; #save decompressed streams to files (for debug)
use constant WANT_ALLINPUT => FALSE; #TRUE; #save entire input stream (for debug ONLY)

#DebugPrint(sprintf("${\(CYAN)}DEBUG: stdout %d, gerber %d, want streams? %d, all input? %d, O/S: $^O, Perl: $]${\(RESET)}\n", WANT_DEBUG, GERBER_DEBUG, WANT_STREAMS, WANT_ALLINPUT), 1);
#DebugPrint(sprintf("max int = %d, min int = %d\n", MAXINT, MININT), 1); 

#define standard trace and pad sizes to reduce scaling or PDF rendering errors:
#This avoids weird aperture settings and replaces them with more standardized values.
#(I'm not sure how photoplotters handle strange sizes).
#Fewer choices here gives more accurate mapping in the final Gerber files.
#units are in inches
use constant TOOL_SIZES => #add more as desired
(
#round or square pads (> 0) and drills (< 0):
    .010, -.001,  #tiny pads for SMD; dummy drill size (too small for practical use, but needed so StandardTool will use this entry)
    .031, -.014,  #used for vias
    .041, -.020,  #smallest non-filled plated hole
    .051, -.025,
    .056, -.029,  #useful for IC pins
    .070, -.033,
    .075, -.040,  #heavier leads
#    .090, -.043,  #NOTE: 600 dpi is not high enough resolution to reliably distinguish between .043" and .046", so choose 1 of the 2 here
    .100, -.046,
    .115, -.052,
    .130, -.061,
    .140, -.067,
    .150, -.079,
    .175, -.088,
    .190, -.093,
    .200, -.100,
    .220, -.110,
    .160, -.125,  #useful for mounting holes
#some additional pad sizes without holes (repeat a previous hole size if you just want the pad size):
    .090, -.040,  #want a .090 pad option, but use dummy hole size
    .065, -.040, #.065 x .065 rect pad
    .035, -.040, #.035 x .065 rect pad
#traces:
    .001,  #too thin for real traces; use only for board outlines
    .006,  #minimum real trace width; mainly used for text
    .008,  #mainly used for mid-sized text, not traces
    .010,  #minimum recommended trace width for low-current signals
    .012,
    .015,  #moderate low-voltage current
    .020,  #heavier trace for power, ground (even if a lighter one is adequate)
    .025,
    .030,  #heavy-current traces; be careful with these ones!
    .040,
    .050,
    .060,
    .080,
    .100,
    .120,
);
#Areas larger than the values below will be filled with parallel lines:
#This cuts down on the number of aperture sizes used.
#Set to 0 to always use an aperture or drill, regardless of size.
use constant { MAX_APERTURE => max((TOOL_SIZES)) + .004, MAX_DRILL => -min((TOOL_SIZES)) + .004 }; #max aperture and drill sizes (plus a little tolerance)
#DebugPrint(sprintf("using %d standard tool sizes: %s, max aper %.3f, max drill %.3f\n", scalar((TOOL_SIZES)), join(", ", (TOOL_SIZES)), MAX_APERTURE, MAX_DRILL), 1);

#NOTE: Compare the PDF to the original CAD file to check the accuracy of the PDF rendering and parsing!
#for example, the CAD software I used generated the following circles for holes:
#CAD hole size:   parsed PDF diameter:      error:
#  .014                .016                +.002
#  .020                .02267              +.00267
#  .025                .026                +.001
#  .029                .03167              +.00267
#  .033                .036                +.003
#  .040                .04267              +.00267
#This was usually ~ .002" - .003" too big compared to the hole as displayed in the CAD software.
#To compensate for PDF rendering errors (either during CAD Print function or PDF parsing logic), adjust the values below as needed.
#units are pixels; for example, a value of 2.4 at 600 dpi = .0004 inch, 2 at 600 dpi = .0033"
use constant
{
    HOLE_ADJUST => -0.004 * 600, #-2.6, #holes seemed to be slightly oversized (by .002" - .004"), so shrink them a little
    RNDPAD_ADJUST => -0.003 * 600, #-2, #-2.4, #round pads seemed to be slightly oversized, so shrink them a little
    SQRPAD_ADJUST => +0.001 * 600, #+.5, #square pads are sometimes too small by .00067, so bump them up a little
    RECTPAD_ADJUST => 0, #(pixels) rectangular pads seem to be okay? (not tested much)
    TRACE_ADJUST => 0, #(pixels) traces seemed to be okay?
    REDUCE_TOLERANCE => .001, #(inches) allow this much variation when reducing circles and rects
};

#Also, my CAD's Print function or the PDF print driver I used was a little off for circles, so define some additional adjustment values here:
#Values are added to X/Y coordinates; units are pixels; for example, a value of 1 at 600 dpi would be ~= .002 inch
use constant
{
    CIRCLE_ADJUST_MINX => 0,
    CIRCLE_ADJUST_MINY => -0.001 * 600, #-1, #circles were a little too high, so nudge them a little lower
    CIRCLE_ADJUST_MAXX => +0.001 * 600, #+1, #circles were a little too far to the left, so nudge them a little to the right
    CIRCLE_ADJUST_MAXY => 0,
    SUBST_CIRCLE_CLIPRECT => FALSE, #generate circle and substitute for clip rects (to compensate for the way some CAD software draws circles)
    WANT_CLIPRECT => TRUE, #FALSE, #AI doesn't need clip rect at all? should be on normally?
    RECT_COMPLETION => FALSE, #TRUE, #fill in 4th side of rect when 3 sides found
};

#allow .012 clearance around pads for solder mask:
#This value effectively adjusts pad sizes in the TOOL_SIZES list above (only for solder mask layers).
use constant SOLDER_MARGIN => +.012; #units are inches

#line join/cap styles:
use constant
{
    CAP_NONE => 0, #butt (none); line is exact length
    CAP_ROUND => 1, #round cap/join; line overhangs by a semi-circle at either end
    CAP_SQUARE => 2, #square cap/join; line overhangs by a half square on either end
    CAP_OVERRIDE => FALSE, #cap style overrides drawing logic
};
    
#number of elements in each shape type:
use constant
{
    RECT_SHAPELEN => 6, #x0, y0, x1, y1, count, "rect" (start, end corners)
    LINE_SHAPELEN => 6, #x0, y0, x1, y1, count, "line" (line seg)
    CURVE_SHAPELEN => 10, #xstart, ystart, x0, y0, x1, y1, xend, yend, count, "curve" (bezier 2 points)
    CIRCLE_SHAPELEN => 5, #x, y, 5, count, "circle" (center + radius)
};
#const my %SHAPELEN =
#Readonly my %SHAPELEN =>
our %SHAPELEN =
(
    rect => RECT_SHAPELEN,
    line => LINE_SHAPELEN,
    curve => CURVE_SHAPELEN,
    circle => CIRCLE_SHAPELEN,
);

#panelization:
#This will repeat the entire body the number of times indicated along the X or Y axes (files grow accordingly).
#Display elements that overhang PCB boundary can be squashed or left as-is (typically text or other silk screen markings).
#Set "overhangs" TRUE to allow overhangs, FALSE to truncate them.
#xpad and ypad allow margins to be added around outer edge of panelized PCB.
use constant PANELIZE => {'x' => 1, 'y' => 1, 'xpad' => 0, 'ypad' => 0, 'overhangs' => TRUE}; #number of times to repeat in X and Y directions

# Set this to 1 if you need TurboCAD support.
#$turboCAD = FALSE; #is this still needed as an option?

#CIRCAD pad generation uses an appropriate aperture, then moves it (stroke) "a little" - we use this to find pads and distinguish them from PCB holes. 
use constant PAD_STROKE => 0.3; #0.0005 * 600; #units are pixels
#convert very short traces to pads or holes:
use constant TRACE_MINLEN => .001; #units are inches
#use constant ALWAYS_XY => TRUE; #FALSE; #force XY even if X or Y doesn't change; NOTE: needs to be TRUE for all pads to show in FlatCAM and ViewPlot
use constant REMOVE_POLARITY => FALSE; #TRUE; #set to remove subtractive (negative) polarity; NOTE: must be FALSE for ground planes

#PDF uses "points", each point = 1/72 inch
#combined with a PDF scale factor of .12, this gives 600 dpi resolution (1/72 * .12 = 600 dpi)
use constant INCHES_PER_POINT => 1/72; #0.0138888889; #multiply point-size by this to get inches

# The precision used when computing a bezier curve. Higher numbers are more precise but slower (and generate larger files).
#$bezierPrecision = 100;
use constant BEZIER_PRECISION => 36; #100; #use const; reduced for faster rendering (mainly used for silk screen and thermal pads)

# Ground planes and silk screen or larger copper rectangles or circles are filled line-by-line using this resolution.
use constant FILL_WIDTH => .01; #fill at most 0.01 inch at a time

# The max number of characters to read into memory
use constant MAX_BYTES => 10 * M; #bumped up to 10 MB, use const

use constant DUP_DRILL1 => TRUE; #FALSE; #kludge: ViewPlot doesn't load drill files that are too small so duplicate first tool

my $runtime = time(); #Time::HiRes::gettimeofday(); #measure my execution time

print STDERR "Loaded config settings from '${\(__FILE__)}'.\n";
1; #last value must be truthful to indicate successful load


#############################################################################################
#junk/experiment:

#use Package::Constants;
#use Exporter qw(import); #https://perldoc.perl.org/Exporter.html

#my $caller = "pdf2gerb::";

#sub cfg
#{
#    my $proto = shift;
#    my $class = ref($proto) || $proto;
#    my $settings =
#    {
#        $WANT_DEBUG => 990, #10; #level of debug wanted; higher == more, lower == less, 0 == none
#    };
#    bless($settings, $class);
#    return $settings;
#}

#use constant HELLO => "hi there2"; #"main::HELLO" => "hi there";
#use constant GOODBYE => 14; #"main::GOODBYE" => 12;

#print STDERR "read cfg file\n";

#our @EXPORT_OK = Package::Constants->list(__PACKAGE__); #https://www.perlmonks.org/?node_id=1072691; NOTE: "_OK" skips short/common names

#print STDERR scalar(@EXPORT_OK) . " consts exported:\n";
#foreach(@EXPORT_OK) { print STDERR "$_\n"; }
#my $val = main::thing("xyz");
#print STDERR "caller gave me $val\n";
#foreach my $arg (@ARGV) { print STDERR "arg $arg\n"; }

Download Details:

Author: swannman
Source Code: https://github.com/swannman/pdf2gerb

License: GPL-3.0 license

#perl 

Training Models using Federated Learning (Part 3)

Through the first 2 parts of our federated learning demo project, we created a client-server application in Python using socket programming. In part 1, the client-server application was able to handle only a single connection at a time. In other words, the server was able to only receive a single message from the client per connection.

Federated Learning Demo in Python (Part 1): Client-Server Application

Implementing a client-server application using socket programming

heartbeat.fritz.ai

In part 2, we extended the application was extended to allow multiple messages to be sent within the same connection. The server can handle multiple connections simultaneously:

Federated Learning Demo in Python (Part 2): Multiple Connections using Threading

Enabling our server to receive multiple incoming connections

heartbeat.fritz.ai

The code for this project is available at the Federated Learning GitHub project under the TutorialProject directory.

In this tutorial, we’ll create a machine learning model (neural network) will using a library named PyGAD at the server. But the model actually won’t be trained at the server. Instead, the model will be sent to the connected clients where it will be trained by each client’s local data. PyGAD uses a genetic algorithm for training these models.

Each client sends its version of the model back to the server. The server aggregates the parameters of all models to create a single model. Such a model is then tested to make sure it has an acceptable accuracy/error.

In case the model needs further training using the clients’ local data, the model will be sent back to the clients where its parameters are tuned, and finally sent back to the server. The process continues until the model does performs sufficiently well on the test data.

The code for this tutorial is available in the Federated Learning GitHub project under the TutorialProject/Part3 directory. Future tutorials will build upon this application.

Here are the sections covered in this tutorial:

  • Installing PyGAD
  • Creating a population of neural networks using PyGAD
  • Sending the population to connected clients
  • Receiving the population at the client
  • Training the network using the genetic algorithm
  • Sending the client’s trained network back to the server
  • Final client code
  • Aggregating models’ parameters at the server
  • Final server code
  • Running the server and the clients

Let’s get started.

Installing PyGAD

PyGAD is an open-source Python library for building genetic algorithms (GA). It supports many parameters that customize GA for various problems.

PyGAD is available via PyPI, and thus it can be installed using the pip installer. For Windows, use the following CMD command:

pip install pygad

For Linux and Mac, replace pip by pip3 (PyGAD uses Python 3):

pip3 install pygad

Once installed, make sure it works correctly by importing it. The latest version at the time of writing this tutorial is 2.3.0.

import pygad
​
print(pygad.__version__)

If everything is working properly, then we can proceed into the next section to create a neural network using PyGAD.

Creating a Population of Neural Networks using PyGAD

PyGAD uses a GA for training machine learning models. Currently, the models it supports are neural networks and convolutional neural networks.

The GA starts with a random initial population of solutions for the problem being optimized. For some generations, the solutions are evolved by applying mutation and crossover. PyGAD creates an initial population of networks using its pygad.gann module. In this section, we’ll discuss how to use this module for creating the initial population of networks.

The pygad.gann module has a class named GANN. Check the documentation of this module in in the official docs. An instance of this class represents a population of neural networks. All the neural networks have the same architecture. Later, this population will be evolved using the genetic algorithm.

The constructor of the pygad.gann.GANN class accepts the following parameters:

  • num_solutions: Population size (i.e. number of solutions in the population).
  • num_neurons_input: Number of input layer neurons.
  • num_neurons_output: Number of output layer neurons.
  • num_neurons_hidden_layers=[]: A list representing the number of neurons in the hidden layer. If the list has N elements, then it will have N hidden layers. The number of neurons for the hidden layers are specified according to the list values.
  • output_activation="softmax": A string representing the activation function in the output layer.
  • hidden_activations="relu": A string or list of strings representing the activation function in the hidden layer(s). If a list is specified, then its length must be equal to the length of the num_neurons_hidden_layers parameter.

For more information about these parameters, check out the documentation.

The problem that will be modeled in this tutorial is the XOR problem. The samples for this problem are listed below. For each sample, there are 2 inputs and 1 output. Thus, the num_neurons_input parameter will be set to 2, and the num_neurons_output will be set to 1.

#artificial-intelligence #python #heartbeat #machine-learning #federated-learning #deep learning

Garry Taylor

Garry Taylor

1669952228

Dijkstra's Algorithm Explained with Examples

In this tutorial, you'll learn: What is Dijkstra's Algorithm and how Dijkstra's algorithm works with the help of visual guides.

You can use algorithms in programming to solve specific problems through a set of precise instructions or procedures.

Dijkstra's algorithm is one of many graph algorithms you'll come across. It is used to find the shortest path from a fixed node to all other nodes in a graph.

There are different representations of Dijkstra's algorithm. You can either find the shortest path between two nodes, or the shortest path from a fixed node to the rest of the nodes in a graph.

In this article, you'll learn how Dijkstra's algorithm works with the help of visual guides.

How Does Dijkstra’s Algorithm Work?

Before we dive into more detailed visual examples, you need to understand how Dijkstra's algorithm works.

Although the theoretical explanation may seem a bit abstract, it'll help you understand the practical aspect better.

In a given graph containing different nodes, we are required to get the shortest path from a given node to the rest of the nodes.

These nodes can represent any object like the names of cities, letters, and so on.

Between each node is a number denoting the distance between two nodes, as you can see in the image below:

nodes-1

We usually work with two arrays – one for visited nodes, and another for unvisited nodes. You'll learn more about the arrays in the next section.

When a node is visited, the algorithm calculates how long it took to get to the node and stores the distance. If a shorter path to a node is found, the initial value assigned for the distance is updated.

Note that a node cannot be visited twice.

The algorithm runs recursively until all the nodes have been visited.

Dijkstra's Algorithm Example

In this section, we'll take a look at a practical example that shows how Dijkstra's algorithm works.

Here's the graph we'll be working with:

nodes

We'll use the table below to put down the visited nodes and their distance from the fixed node:

NODESHORTEST DISTANCE FROM FIXED NODE
A
B
C
D
E

Visited nodes = []
Unvisited nodes = [A,B,C,D,E]

Above, we have a table showing each node and the shortest distance from the that node to the fixed node. We are yet to choose the fixed node.

Note that the distance for each node in the table is currently denoted as infinity (∞). This is because we don't know the shortest distance yet.

We also have two arrays – visited and unvisited. Whenever a node is visited, it is added to the visited nodes array.

Let's get started!

To simplify things, I'll break the process down into iterations. You'll see what happens in each step with the aid of diagrams.

Iteration #1

The first iteration might seem confusing, but that's totally fine. Once we start repeating the process in each iteration, you'll have a clearer picture of how the algorithm works.

Step #1 - Pick an unvisited node

We'll choose A as the fixed node. So we'll find the shortest distance from A to every other node in the graph.

node1-1

We're going to give A a distance of 0 because it is the initial node. So the table would look like this:

NODESHORTEST DISTANCE FROM FIXED NODE
A0
B
C
D
E

Step #2 - Find the distance from current nodenode1a-3

The next thing to do after choosing a node is to find the distance from it to the unvisited nodes around it.

The two unvisited nodes directly linked to A are B and C.

To get the distance from A to B:

0 + 4 = 4

0 being the value of the current node (A), and 4 being the distance between A and B in the graph.

To get the distance from A to C:

0 + 2 = 2

Step #3 - Update table with known distances

In the last step, we got 4 and 2 as the values of B and C respectively. So we'll update the table with those values:

NODESHORTEST DISTANCE FROM FIXED NODE
A0
B4
C2
D
E

Step #4 - Update arrays

At this point, the first iteration is complete. We'll move node A to the visited nodes array:

Visited nodes = [A]
Unvisited nodes = [B,C,D,E]

Before we proceed to the next iteration, you should know the following:

  • Once a node has been visited, it cannot be linked to the current node. Refer to step #2 in the iteration above and step #2 in the next iteration.
  • A node cannot be visited twice.
  • You can only update the shortest known distance if you get a value smaller than the recorded distance.

Iteration #2

Step #1 - Pick an unvisited node

We have four unvisited nodes — [B,C,D,E]. So how do you know which node to pick for the next iteration?

Well, we pick the node with the smallest known distance recorded in the table. Here's the table:

NODESHORTEST DISTANCE FROM FIXED NODE
A0
B4
C2
D
E

So we're going with node C.

node2-2

Step #2 - Find the distance from current node

To find the distance from the current node to the fixed node, we have to consider the nodes linked to the current node.

The nodes linked to the current node are A and B.

But A has been visited in the previous iteration so it will not be linked to the current node. That is:

node2a-1

From the diagram above,

  • The green color denotes the current node.
  • The blue color denotes the visited nodes. We cannot link to them or visit them again.
  • The red color shows the link from the unvisited nodes to the current node.

To find the distance from C to B:

2 + 1 = 3

2 above is recorded distance for node C while 1 is the distance between C and B in the graph.

Step #3 - Update table with known distances

In the last step, we got the value of B to be 3. In the first iteration, it was 4.

We're going to update the distance in the table to 3.

NODESHORTEST DISTANCE FROM FIXED NODE
A0
B3
C2
D
E

So, A --> B = 4 (First iteration).

A --> C --> B = 3 (Second iteration).

The algorithm has helped us find the shortest path to B from A.

Step #4 - Update arrays

We're done with the last visited node. Let's add it to the visited nodes array:

Visited nodes = [A,C]
Unvisited nodes = [B,D,E]

Iteration #3

Step #1 - Pick an unvisited node

We're down to three unvisited nodes — [B,D,E]. From the array, B has the shortest known distance.

node3-2

To restate what is going on in the diagram above:

  • The green color denotes the current node.
  • The blue color denotes the visited nodes. We cannot link to them or visit them again.
  • The red color shows the link from the unvisited nodes to the current node.

Step #2 - Find the distance from current node

The nodes linked to the current node are D and E.

B (the current node) has a value of 3. Therefore,

For node D, 3 + 3 = 6.

For node E, 3 + 2 = 5.

Step #3 - Update table with known distances

NODESHORTEST DISTANCE FROM FIXED NODE
A0
B3
C2
D6
E5

Step #4 - Update arrays

Visited nodes = [A,C,B]
Unvisited nodes = [D,E]

Iteration #4

Step #1 - Pick an unvisited node

Like other iterations, we'll go with the unvisited node with the shortest known distance. That is E.

node4-1

Step #2 - Find the distance from current node

According to our table, E has a value of 5.

For D in the current iteration,

5 + 5 = 10.

The value gotten for D here is 10, which is greater than the recorded value of 6 in the previous iteration. For this reason, we'll not update the table.

Step #3 - Update table with known distances

Our table remains the same:

NODESHORTEST DISTANCE FROM FIXED NODE
A0
B3
C2
D6
E5

Step #4 - Update arrays

Visited nodes = [A,C,B,E]
Unvisited nodes = [D]

Iteration #5

Step #1 - Pick an unvisited node

We're currently left with one node in the unvisited array — D.

node5-1

Step #2 - Find the distance from current node

The algorithm has gotten to the last iteration. This is because all nodes linked to the current node have been visited already so we can't link to them.

Step #3 - Update table with known distances

Our table remains the same:

NODESHORTEST DISTANCE FROM FIXED NODE
A0
B3
C2
D6
E5

At this point, we have updated the table with the shortest distance from the fixed node to every other node in the graph.

Step #4 - Update arrays

Visited nodes = [A,C,B,E,D]
Unvisited nodes = []

As can be seen above, we have no nodes left to visit. Using Dijkstra's algorithm, we've found the shortest distance from the fixed node to others nodes in the graph.

Dijkstra's Algorithm Pseudocode Example

The pseudocode example in this section was gotten from Wikipedia. Here it is:

 1  function Dijkstra(Graph, source):
 2      
 3      for each vertex v in Graph.Vertices:
 4          dist[v] ← INFINITY
 5          prev[v] ← UNDEFINED
 6          add v to Q
 7      dist[source] ← 0
 8      
 9      while Q is not empty:
10          u ← vertex in Q with min dist[u]
11          remove u from Q
12          
13          for each neighbor v of u still in Q:
14              alt ← dist[u] + Graph.Edges(u, v)
15              if alt < dist[v]:
16                  dist[v] ← alt
17                  prev[v] ← u
18
19      return dist[], prev[]

Applications of Dijkstra's Algorithm

Here are some of the common applications of Dijkstra's algorithm:

  • In maps to get the shortest distance between locations. An example is Google Maps.
  • In telecommunications to determine transmission rate.
  • In robotic design to determine shortest path for automated robots.

Summary

In this article, we talked about Dijkstra's algorithm. It is used to find the shortest distance from a fixed node to all other nodes in a graph.

We started by giving a brief summary of how the algorithm works.

We then had a look at an example that further explained Dijkstra's algorithm in steps using visual guides.

We concluded with a pseudocode example and some of the applications of Dijkstra's algorithm.

Happy coding!

Original article source at https://www.freecodecamp.org

#algorithm #datastructures

A Wrapper for Sembast and SQFlite to Enable Easy

FHIR_DB

This is really just a wrapper around Sembast_SQFLite - so all of the heavy lifting was done by Alex Tekartik. I highly recommend that if you have any questions about working with this package that you take a look at Sembast. He's also just a super nice guy, and even answered a question for me when I was deciding which sembast version to use. As usual, ResoCoder also has a good tutorial.

I have an interest in low-resource settings and thus a specific reason to be able to store data offline. To encourage this use, there are a number of other packages I have created based around the data format FHIR. FHIR® is the registered trademark of HL7 and is used with the permission of HL7. Use of the FHIR trademark does not constitute endorsement of this product by HL7.

Using the Db

So, while not absolutely necessary, I highly recommend that you use some sort of interface class. This adds the benefit of more easily handling errors, plus if you change to a different database in the future, you don't have to change the rest of your app, just the interface.

I've used something like this in my projects:

class IFhirDb {
  IFhirDb();
  final ResourceDao resourceDao = ResourceDao();

  Future<Either<DbFailure, Resource>> save(Resource resource) async {
    Resource resultResource;
    try {
      resultResource = await resourceDao.save(resource);
    } catch (error) {
      return left(DbFailure.unableToSave(error: error.toString()));
    }
    return right(resultResource);
  }

  Future<Either<DbFailure, List<Resource>>> returnListOfSingleResourceType(
      String resourceType) async {
    List<Resource> resultList;
    try {
      resultList =
          await resourceDao.getAllSortedById(resourceType: resourceType);
    } catch (error) {
      return left(DbFailure.unableToObtainList(error: error.toString()));
    }
    return right(resultList);
  }

  Future<Either<DbFailure, List<Resource>>> searchFunction(
      String resourceType, String searchString, String reference) async {
    List<Resource> resultList;
    try {
      resultList =
          await resourceDao.searchFor(resourceType, searchString, reference);
    } catch (error) {
      return left(DbFailure.unableToObtainList(error: error.toString()));
    }
    return right(resultList);
  }
}

I like this because in case there's an i/o error or something, it won't crash your app. Then, you can call this interface in your app like the following:

final patient = Patient(
    resourceType: 'Patient',
    name: [HumanName(text: 'New Patient Name')],
    birthDate: Date(DateTime.now()),
);

final saveResult = await IFhirDb().save(patient);

This will save your newly created patient to the locally embedded database.

IMPORTANT: this database will expect that all previously created resources have an id. When you save a resource, it will check to see if that resource type has already been stored. (Each resource type is saved in it's own store in the database). It will then check if there is an ID. If there's no ID, it will create a new one for that resource (along with metadata on version number and creation time). It will save it, and return the resource. If it already has an ID, it will copy the the old version of the resource into a _history store. It will then update the metadata of the new resource and save that version into the appropriate store for that resource. If, for instance, we have a previously created patient:

{
    "resourceType": "Patient",
    "id": "fhirfli-294057507-6811107",
    "meta": {
        "versionId": "1",
        "lastUpdated": "2020-10-16T19:41:28.054369Z"
    },
    "name": [
        {
            "given": ["New"],
            "family": "Patient"
        }
    ],
    "birthDate": "2020-10-16"
}

And we update the last name to 'Provider'. The above version of the patient will be kept in _history, while in the 'Patient' store in the db, we will have the updated version:

{
    "resourceType": "Patient",
    "id": "fhirfli-294057507-6811107",
    "meta": {
        "versionId": "2",
        "lastUpdated": "2020-10-16T19:45:07.316698Z"
    },
    "name": [
        {
            "given": ["New"],
            "family": "Provider"
        }
    ],
    "birthDate": "2020-10-16"
}

This way we can keep track of all previous version of all resources (which is obviously important in medicine).

For most of the interactions (saving, deleting, etc), they work the way you'd expect. The only difference is search. Because Sembast is NoSQL, we can search on any of the fields in a resource. If in our interface class, we have the following function:

  Future<Either<DbFailure, List<Resource>>> searchFunction(
      String resourceType, String searchString, String reference) async {
    List<Resource> resultList;
    try {
      resultList =
          await resourceDao.searchFor(resourceType, searchString, reference);
    } catch (error) {
      return left(DbFailure.unableToObtainList(error: error.toString()));
    }
    return right(resultList);
  }

You can search for all immunizations of a certain patient:

searchFunction(
        'Immunization', 'patient.reference', 'Patient/$patientId');

This function will search through all entries in the 'Immunization' store. It will look at all 'patient.reference' fields, and return any that match 'Patient/$patientId'.

The last thing I'll mention is that this is a password protected db, using AES-256 encryption (although it can also use Salsa20). Anytime you use the db, you have the option of using a password for encryption/decryption. Remember, if you setup the database using encryption, you will only be able to access it using that same password. When you're ready to change the password, you will need to call the update password function. If we again assume we created a change password method in our interface, it might look something like this:

class IFhirDb {
  IFhirDb();
  final ResourceDao resourceDao = ResourceDao();
  ...
    Future<Either<DbFailure, Unit>> updatePassword(String oldPassword, String newPassword) async {
    try {
      await resourceDao.updatePw(oldPassword, newPassword);
    } catch (error) {
      return left(DbFailure.unableToUpdatePassword(error: error.toString()));
    }
    return right(Unit);
  }

You don't have to use a password, and in that case, it will save the db file as plain text. If you want to add a password later, it will encrypt it at that time.

General Store

After using this for a while in an app, I've realized that it needs to be able to store data apart from just FHIR resources, at least on occasion. For this, I've added a second class for all versions of the database called GeneralDao. This is similar to the ResourceDao, but fewer options. So, in order to save something, it would look like this:

await GeneralDao().save('password', {'new':'map'});
await GeneralDao().save('password', {'new':'map'}, 'key');

The difference between these two options is that the first one will generate a key for the map being stored, while the second will store the map using the key provided. Both will return the key after successfully storing the map.

Other functions available include:

// deletes everything in the general store
await GeneralDao().deleteAllGeneral('password'); 

// delete specific entry
await GeneralDao().delete('password','key'); 

// returns map with that key
await GeneralDao().find('password', 'key'); 

FHIR® is a registered trademark of Health Level Seven International (HL7) and its use does not constitute an endorsement of products by HL7®

Use this package as a library

Depend on it

Run this command:

With Flutter:

 $ flutter pub add fhir_db

This will add a line like this to your package's pubspec.yaml (and run an implicit flutter pub get):

dependencies:
  fhir_db: ^0.4.3

Alternatively, your editor might support or flutter pub get. Check the docs for your editor to learn more.

Import it

Now in your Dart code, you can use:

import 'package:fhir_db/dstu2.dart';
import 'package:fhir_db/dstu2/fhir_db.dart';
import 'package:fhir_db/dstu2/general_dao.dart';
import 'package:fhir_db/dstu2/resource_dao.dart';
import 'package:fhir_db/encrypt/aes.dart';
import 'package:fhir_db/encrypt/salsa.dart';
import 'package:fhir_db/r4.dart';
import 'package:fhir_db/r4/fhir_db.dart';
import 'package:fhir_db/r4/general_dao.dart';
import 'package:fhir_db/r4/resource_dao.dart';
import 'package:fhir_db/r5.dart';
import 'package:fhir_db/r5/fhir_db.dart';
import 'package:fhir_db/r5/general_dao.dart';
import 'package:fhir_db/r5/resource_dao.dart';
import 'package:fhir_db/stu3.dart';
import 'package:fhir_db/stu3/fhir_db.dart';
import 'package:fhir_db/stu3/general_dao.dart';
import 'package:fhir_db/stu3/resource_dao.dart'; 

example/lib/main.dart

import 'package:fhir/r4.dart';
import 'package:fhir_db/r4.dart';
import 'package:flutter/material.dart';
import 'package:test/test.dart';

Future<void> main() async {
  WidgetsFlutterBinding.ensureInitialized();

  final resourceDao = ResourceDao();

  // await resourceDao.updatePw('newPw', null);
  await resourceDao.deleteAllResources(null);

  group('Playing with passwords', () {
    test('Playing with Passwords', () async {
      final patient = Patient(id: Id('1'));

      final saved = await resourceDao.save(null, patient);

      await resourceDao.updatePw(null, 'newPw');
      final search1 = await resourceDao.find('newPw',
          resourceType: R4ResourceType.Patient, id: Id('1'));
      expect(saved, search1[0]);

      await resourceDao.updatePw('newPw', 'newerPw');
      final search2 = await resourceDao.find('newerPw',
          resourceType: R4ResourceType.Patient, id: Id('1'));
      expect(saved, search2[0]);

      await resourceDao.updatePw('newerPw', null);
      final search3 = await resourceDao.find(null,
          resourceType: R4ResourceType.Patient, id: Id('1'));
      expect(saved, search3[0]);

      await resourceDao.deleteAllResources(null);
    });
  });

  final id = Id('12345');
  group('Saving Things:', () {
    test('Save Patient', () async {
      final humanName = HumanName(family: 'Atreides', given: ['Duke']);
      final patient = Patient(id: id, name: [humanName]);
      final saved = await resourceDao.save(null, patient);

      expect(saved.id, id);

      expect((saved as Patient).name?[0], humanName);
    });

    test('Save Organization', () async {
      final organization = Organization(id: id, name: 'FhirFli');
      final saved = await resourceDao.save(null, organization);

      expect(saved.id, id);

      expect((saved as Organization).name, 'FhirFli');
    });

    test('Save Observation1', () async {
      final observation1 = Observation(
        id: Id('obs1'),
        code: CodeableConcept(text: 'Observation #1'),
        effectiveDateTime: FhirDateTime(DateTime(1981, 09, 18)),
      );
      final saved = await resourceDao.save(null, observation1);

      expect(saved.id, Id('obs1'));

      expect((saved as Observation).code.text, 'Observation #1');
    });

    test('Save Observation1 Again', () async {
      final observation1 = Observation(
          id: Id('obs1'),
          code: CodeableConcept(text: 'Observation #1 - Updated'));
      final saved = await resourceDao.save(null, observation1);

      expect(saved.id, Id('obs1'));

      expect((saved as Observation).code.text, 'Observation #1 - Updated');

      expect(saved.meta?.versionId, Id('2'));
    });

    test('Save Observation2', () async {
      final observation2 = Observation(
        id: Id('obs2'),
        code: CodeableConcept(text: 'Observation #2'),
        effectiveDateTime: FhirDateTime(DateTime(1981, 09, 18)),
      );
      final saved = await resourceDao.save(null, observation2);

      expect(saved.id, Id('obs2'));

      expect((saved as Observation).code.text, 'Observation #2');
    });

    test('Save Observation3', () async {
      final observation3 = Observation(
        id: Id('obs3'),
        code: CodeableConcept(text: 'Observation #3'),
        effectiveDateTime: FhirDateTime(DateTime(1981, 09, 18)),
      );
      final saved = await resourceDao.save(null, observation3);

      expect(saved.id, Id('obs3'));

      expect((saved as Observation).code.text, 'Observation #3');
    });
  });

  group('Finding Things:', () {
    test('Find 1st Patient', () async {
      final search = await resourceDao.find(null,
          resourceType: R4ResourceType.Patient, id: id);
      final humanName = HumanName(family: 'Atreides', given: ['Duke']);

      expect(search.length, 1);

      expect((search[0] as Patient).name?[0], humanName);
    });

    test('Find 3rd Observation', () async {
      final search = await resourceDao.find(null,
          resourceType: R4ResourceType.Observation, id: Id('obs3'));

      expect(search.length, 1);

      expect(search[0].id, Id('obs3'));

      expect((search[0] as Observation).code.text, 'Observation #3');
    });

    test('Find All Observations', () async {
      final search = await resourceDao.getResourceType(
        null,
        resourceTypes: [R4ResourceType.Observation],
      );

      expect(search.length, 3);

      final idList = [];
      for (final obs in search) {
        idList.add(obs.id.toString());
      }

      expect(idList.contains('obs1'), true);

      expect(idList.contains('obs2'), true);

      expect(idList.contains('obs3'), true);
    });

    test('Find All (non-historical) Resources', () async {
      final search = await resourceDao.getAll(null);

      expect(search.length, 5);
      final patList = search.toList();
      final orgList = search.toList();
      final obsList = search.toList();
      patList.retainWhere(
          (resource) => resource.resourceType == R4ResourceType.Patient);
      orgList.retainWhere(
          (resource) => resource.resourceType == R4ResourceType.Organization);
      obsList.retainWhere(
          (resource) => resource.resourceType == R4ResourceType.Observation);

      expect(patList.length, 1);

      expect(orgList.length, 1);

      expect(obsList.length, 3);
    });
  });

  group('Deleting Things:', () {
    test('Delete 2nd Observation', () async {
      await resourceDao.delete(
          null, null, R4ResourceType.Observation, Id('obs2'), null, null);

      final search = await resourceDao.getResourceType(
        null,
        resourceTypes: [R4ResourceType.Observation],
      );

      expect(search.length, 2);

      final idList = [];
      for (final obs in search) {
        idList.add(obs.id.toString());
      }

      expect(idList.contains('obs1'), true);

      expect(idList.contains('obs2'), false);

      expect(idList.contains('obs3'), true);
    });

    test('Delete All Observations', () async {
      await resourceDao.deleteSingleType(null,
          resourceType: R4ResourceType.Observation);

      final search = await resourceDao.getAll(null);

      expect(search.length, 2);

      final patList = search.toList();
      final orgList = search.toList();
      patList.retainWhere(
          (resource) => resource.resourceType == R4ResourceType.Patient);
      orgList.retainWhere(
          (resource) => resource.resourceType == R4ResourceType.Organization);

      expect(patList.length, 1);

      expect(patList.length, 1);
    });

    test('Delete All Resources', () async {
      await resourceDao.deleteAllResources(null);

      final search = await resourceDao.getAll(null);

      expect(search.length, 0);
    });
  });

  group('Password - Saving Things:', () {
    test('Save Patient', () async {
      await resourceDao.updatePw(null, 'newPw');
      final humanName = HumanName(family: 'Atreides', given: ['Duke']);
      final patient = Patient(id: id, name: [humanName]);
      final saved = await resourceDao.save('newPw', patient);

      expect(saved.id, id);

      expect((saved as Patient).name?[0], humanName);
    });

    test('Save Organization', () async {
      final organization = Organization(id: id, name: 'FhirFli');
      final saved = await resourceDao.save('newPw', organization);

      expect(saved.id, id);

      expect((saved as Organization).name, 'FhirFli');
    });

    test('Save Observation1', () async {
      final observation1 = Observation(
        id: Id('obs1'),
        code: CodeableConcept(text: 'Observation #1'),
        effectiveDateTime: FhirDateTime(DateTime(1981, 09, 18)),
      );
      final saved = await resourceDao.save('newPw', observation1);

      expect(saved.id, Id('obs1'));

      expect((saved as Observation).code.text, 'Observation #1');
    });

    test('Save Observation1 Again', () async {
      final observation1 = Observation(
          id: Id('obs1'),
          code: CodeableConcept(text: 'Observation #1 - Updated'));
      final saved = await resourceDao.save('newPw', observation1);

      expect(saved.id, Id('obs1'));

      expect((saved as Observation).code.text, 'Observation #1 - Updated');

      expect(saved.meta?.versionId, Id('2'));
    });

    test('Save Observation2', () async {
      final observation2 = Observation(
        id: Id('obs2'),
        code: CodeableConcept(text: 'Observation #2'),
        effectiveDateTime: FhirDateTime(DateTime(1981, 09, 18)),
      );
      final saved = await resourceDao.save('newPw', observation2);

      expect(saved.id, Id('obs2'));

      expect((saved as Observation).code.text, 'Observation #2');
    });

    test('Save Observation3', () async {
      final observation3 = Observation(
        id: Id('obs3'),
        code: CodeableConcept(text: 'Observation #3'),
        effectiveDateTime: FhirDateTime(DateTime(1981, 09, 18)),
      );
      final saved = await resourceDao.save('newPw', observation3);

      expect(saved.id, Id('obs3'));

      expect((saved as Observation).code.text, 'Observation #3');
    });
  });

  group('Password - Finding Things:', () {
    test('Find 1st Patient', () async {
      final search = await resourceDao.find('newPw',
          resourceType: R4ResourceType.Patient, id: id);
      final humanName = HumanName(family: 'Atreides', given: ['Duke']);

      expect(search.length, 1);

      expect((search[0] as Patient).name?[0], humanName);
    });

    test('Find 3rd Observation', () async {
      final search = await resourceDao.find('newPw',
          resourceType: R4ResourceType.Observation, id: Id('obs3'));

      expect(search.length, 1);

      expect(search[0].id, Id('obs3'));

      expect((search[0] as Observation).code.text, 'Observation #3');
    });

    test('Find All Observations', () async {
      final search = await resourceDao.getResourceType(
        'newPw',
        resourceTypes: [R4ResourceType.Observation],
      );

      expect(search.length, 3);

      final idList = [];
      for (final obs in search) {
        idList.add(obs.id.toString());
      }

      expect(idList.contains('obs1'), true);

      expect(idList.contains('obs2'), true);

      expect(idList.contains('obs3'), true);
    });

    test('Find All (non-historical) Resources', () async {
      final search = await resourceDao.getAll('newPw');

      expect(search.length, 5);
      final patList = search.toList();
      final orgList = search.toList();
      final obsList = search.toList();
      patList.retainWhere(
          (resource) => resource.resourceType == R4ResourceType.Patient);
      orgList.retainWhere(
          (resource) => resource.resourceType == R4ResourceType.Organization);
      obsList.retainWhere(
          (resource) => resource.resourceType == R4ResourceType.Observation);

      expect(patList.length, 1);

      expect(orgList.length, 1);

      expect(obsList.length, 3);
    });
  });

  group('Password - Deleting Things:', () {
    test('Delete 2nd Observation', () async {
      await resourceDao.delete(
          'newPw', null, R4ResourceType.Observation, Id('obs2'), null, null);

      final search = await resourceDao.getResourceType(
        'newPw',
        resourceTypes: [R4ResourceType.Observation],
      );

      expect(search.length, 2);

      final idList = [];
      for (final obs in search) {
        idList.add(obs.id.toString());
      }

      expect(idList.contains('obs1'), true);

      expect(idList.contains('obs2'), false);

      expect(idList.contains('obs3'), true);
    });

    test('Delete All Observations', () async {
      await resourceDao.deleteSingleType('newPw',
          resourceType: R4ResourceType.Observation);

      final search = await resourceDao.getAll('newPw');

      expect(search.length, 2);

      final patList = search.toList();
      final orgList = search.toList();
      patList.retainWhere(
          (resource) => resource.resourceType == R4ResourceType.Patient);
      orgList.retainWhere(
          (resource) => resource.resourceType == R4ResourceType.Organization);

      expect(patList.length, 1);

      expect(patList.length, 1);
    });

    test('Delete All Resources', () async {
      await resourceDao.deleteAllResources('newPw');

      final search = await resourceDao.getAll('newPw');

      expect(search.length, 0);

      await resourceDao.updatePw('newPw', null);
    });
  });
} 

Download Details:

Author: MayJuun

Source Code: https://github.com/MayJuun/fhir/tree/main/fhir_db

#sqflite  #dart  #flutter