Convert-Pheno

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Changes  view on Meta::CPAN

 - Changed getpwuid to $ENV{'USERNAME'} to make 'MSWin32' compatible

0.11_2 2023-07-10T00:00:00Z (Manuel Rueda <mrueda@cpan.org>)

 - Modified Python binding to work in Conda env
 - Increased Perl version from 5.16 to 5.26

0.11_1 2023-07-09T00:00:00Z (Manuel Rueda <mrueda@cpan.org>)

 - Reverted change in Makefile.PL for 'IO::Socket::SSL'
 - IO::Socker::SSL only is used if installed

0.11  2023-07-09T00:00:00Z (Manuel Rueda <mrueda@cpan.org>)
 - Uncommented 'IO::Socket::SSL' in Makefile.PL to pass self-validation of mapping schema in t/
 - Changed cnag.crg.eu to cnag.eu
 
0.10  2023-07-03T00:00:00Z (Manuel Rueda <mrueda@cpan.org>)
 - Added share/db/{omim,hpo}.db SQLite databases
 - Modified source to accomodate such dbs

Note: Versions < 0.10 were primarily for testing deployment on CPAN

Makefile.PL  view on Meta::CPAN

        'Types::Standard'                => '2.004000',
         #'Test::Deep'                     => '1.204',
         #'Test::Exception'                => '0.43',
         #'Test::Warn'                     => '0.37',
        'Data::Leaf::Walker' => '0.21',
        'Hash::Fold'         => '1.0.0',
        'JSONLD'             => '0.006',
        'Devel::Size'        => '0.84',
        'DateTime::Format::ISO8601' => '0.17'

         #'IO::Socket::SSL'              => '2.083'
         #'Mojolicious::Plugin::OpenAPI' => '5.09'
    },
    EXE_FILES     => ['bin/convert-pheno'],
    TEST_REQUIRES => {
        'Test::More'      => '1.30',
        'Test::Deep'      => '1.204',
        'Test::Exception' => '0.43',
        'Test::Warn'      => '0.37'
    },
    test               => { TESTS => 't/*.t' },

cpanfile  view on Meta::CPAN

requires 'Text::CSV_XS';
requires 'Text::Similarity';
requires 'Text::Levenshtein::XS';
requires 'Sort::Naturally';
requires 'DBI';
requires 'Moo';
requires 'DBD::SQLite';
requires 'Mojolicious::Lite';
requires 'XML::Fast';
requires 'JSON::Validator';
requires 'IO::Socket::SSL';
requires 'Types::Standard';
requires 'File::ShareDir::ProjectDistDir';
requires 'Data::Leaf::Walker';
requires 'Hash::Fold';
requires 'JSONLD';
requires 'Devel::Size';
requires 'DateTime::Format::ISO8601';

# t
requires 'Test::Deep';

xt/self-validate-schema.t  view on Meta::CPAN

        Test::More::plan(
            skip_all => 'Skipping tests on ld architectures due to known issues'
        );
        exit;
    }
}

plan skip_all => 'Skipping self-validation test on Windows'
  if is_windows();

plan skip_all => 'Requires IO::Socket::SSL for schema self-validation'
  unless defined eval { require IO::Socket::SSL; 1 };

my $ok = eval {
    my $convert = build_convert(
        in_file              => 't/redcap2bff/in/redcap_data.csv',
        redcap_dictionary    => 't/redcap2bff/in/redcap_dictionary.csv',
        mapping_file         => 't/redcap2bff/in/redcap_mapping.yaml',
        schema_file          => 't/schema/malformed.json',
        self_validate_schema => 1,
        method               => 'redcap2bff',
    );