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View Code? Open in Web Editor NEWDNA processing and manipulating for PHP 8.3
Home Page: https://www.liberu.co.uk
License: MIT License
DNA processing and manipulating for PHP 8.3
Home Page: https://www.liberu.co.uk
License: MIT License
src/Snps/IO/Reader.php
✓ 937ceab Editsrc/Snps/IO/Reader.php
✓ Editsrc/Snps/IO/Writer.php
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✓ Editsrc/Snps/Utils.php
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✓ Edittests/Snps/ResourcesTest.php
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✓ Editsrc/Snps/IO/ExtraTabsFilter.php
✓ a73943b Editsrc/Snps/IO/ExtraTabsFilter.php
✓ Editsrc/Snps/EnsemblRestClient.php
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✓ Editsrc/Snps/SNPs.php
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✓ Editsrc/Snps/ReferenceSequence.php
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✓ EditConvert the following files from python 3 into php 8.3 and refactor:
https://raw.githubusercontent.com/apriha/snps/master/src/snps/snps.py
Update src/Snps/Snps.php
Do this so that matchkits still works or will now work
Convert the following files from python 3 into php 8.3 and refactor:
https://raw.githubusercontent.com/apriha/snps/master/src/snps/resources.py
Update src/Snps/Resources.php
composer.json
✓ d576635 Editcomposer.json
✓ Editsrc/Snps/SNPs.php
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✓ Editsrc/Snps/EnsemblRestClient.php
! No changes made Editsrc/Snps/EnsemblRestClient.php
✗ Editsrc/Snps/IO/Reader.php
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✓ Editsrc/Snps/Utils.php
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✓ EditFinish converting the python 3 file at https://github.com/apriha/lineage/blob/master/src%2Flineage%2Fvisualization.py to the php 8.3 file at src/Visualization.php
Finish converting the python 3 file at https://github.com/apriha/lineage/blob/master/src%2Flineage%2Fresources.py to the php 8.3 file at src/Resources.php
Finish converting from python 3 into php 8.3 the following file https://github.com/apriha/snps/blob/master/src%2Fsnps%2Fio%2Freader.py and update src/Snps/IO/Reader.php also convert all the python called external files into php 8.3 and place in src/Snps/IO
src/Snps/IO/Reader.php
✓ 26719e9 Editsrc/Snps/IO/Reader.php
✓ Editsrc/Snps/IO/ExtraTabsFilter.php
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✓ Editsrc/Snps/SNPsResources.php
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✗ Editsrc/Snps/IO/CsvReader.php
✓ e5ebcc9 Editsrc/Snps/IO/CsvReader.php
✓ EditConvert the following files from python 3 into php 8.3 and refactor:
https://raw.githubusercontent.com/apriha/snps/master/src/snps/snps.py
Update src/Snps/Snps.php
Do this so that matchkits still works or will now work
src/Snps/PythonDependencyAdapter.php
✓ 56fda3c Editsrc/Snps/PythonDependencyAdapter.php
✓ Editsrc/Snps/Utils.php
✓ 31315be Editsrc/Snps/Utils.php
✓ Editsrc/Snps/SNPs.php
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✓ Editsrc/Snps/IO/Reader.php
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✓ Editsrc/Snps/IO/Writer.php
✓ a50a107 Editsrc/Snps/IO/Writer.php
✓ EditConvert the following file from python 3 into php 8.3:
https://raw.githubusercontent.com/apriha/snps/master/src/snps/snps.py
Update src/Snps/Snps.php in this project and refactor for php 8.3
src/Snps/SNPs.php
! No changes made Editsrc/Snps/SNPs.php
✗ Editsrc/Snps/Utils.php
✓ b5cdfd8 Editsrc/Snps/Utils.php
✓ Editsrc/Snps/IO/DataParser.php
✓ 08c6015 Editsrc/Snps/IO/DataParser.php
✓ EditImprove and add php GD image library support to src/Visualization.php so that beautiful chromosome outputs are generated using png and svg. Also generate a csv with information of the matching data
src/Visualization.php
✓ 9a2699f Editsrc/Visualization.php
✓ Editsrc/MatchKits.php
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✓ Editsrc/Helpers/CSVGenerator.php
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✓ Editsrc/Visualization.php
✓ 0665716 Editsrc/Visualization.php
✓ EditFinish converting the python 3 file at https://github.com/apriha/lineage/blob/master/src%2Flineage%2Fvisualization.py to the php 8.3 file at src/Visualisation.php
src/Snps/ReferenceSequenceManager.php
✓ 822b8b7 Editsrc/Snps/ReferenceSequenceManager.php
✓ Editsrc/Snps/AssemblyMappingManager.php
✓ 129c643 Editsrc/Snps/AssemblyMappingManager.php
✓ Editsrc/Snps/DatasetDownloader.php
✓ 6f94880 Editsrc/Snps/DatasetDownloader.php
✓ Editsrc/Snps/SNPsResources.php
! No changes made Editsrc/Snps/SNPsResources.php
✗ EditRefactor src/Snps/Snps.php to be more modular and efficient
src/Snps/IO/SnpFileReader.php
✓ 8bd4255 Editsrc/Snps/IO/SnpFileReader.php
✓ Editsrc/Snps/Analysis/BuildDetector.php
✓ 2f1e204 Editsrc/Snps/Analysis/BuildDetector.php
✓ Editsrc/Snps/Analysis/ClusterOverlapCalculator.php
✓ 61b745c Editsrc/Snps/Analysis/ClusterOverlapCalculator.php
✓ Editsrc/Snps/SNPs.php
✓ 9ed4e94 Editsrc/Snps/SNPs.php
✓ EditConvert the following files from python 3 into php 8.3 and refactor:
https://raw.githubusercontent.com/apriha/snps/master/src/snps/snps.py
Update src/Snps/Snps.php
src/Snps/SNPs.php
✓ 95dbafd Editsrc/Snps/SNPs.php
✓ Editsrc/Snps/Utils/MathOperations.php
✓ 09cab11 Editsrc/Snps/Utils/MathOperations.php
✓ Editsrc/Snps/Utils/DataFrame.php
✓ c5ffadd Editsrc/Snps/Utils/DataFrame.php
✓ Editsrc/Snps/IO/Reader.php
✓ 018aa34 Editsrc/Snps/IO/Reader.php
✓ Editsrc/Snps/IO/Writer.php
✓ 850d6a2 Editsrc/Snps/IO/Writer.php
✓ EditCreate entry point to match two kits using the current code
Convert the following files from python 3 into php 8.3 and refactor:
https://raw.githubusercontent.com/apriha/snps/master/src/snps/utils.py
Update src/Snps/Utils.php
Convert the following files from python 3 into php 8.3 and refactor:
https://raw.githubusercontent.com/apriha/snps/master/src/snps/ensembl.py
Update src/Snps/Ensembl.php
src/Snps/VariedicInherit.php
✓ f4afb22 Editsrc/Snps/VariedicInherit.php
✓ f4afb22 Editsrc/Snps/VariedicInherit.php
✓ f4afb22 Editsrc/Snps/VariedicInherit.php
✓ f4afb22 Editsrc/Snps/VariedicInherit.php
✓ f4afb22 Editsrc/Snps/VariedicInherit.php
✓ f4afb22 Editsrc/Snps/VariedicInherit.php
✓ f4afb22 EditDetails
Convert the following file from python 3 into php 8.3:
https://raw.githubusercontent.com/apriha/snps/master/src/snps/snps.py
Update src/Snps/Snps.php in this project and refactor for php 8.3
Finish converting from python 3 into php 8.3 the following file https://github.com/apriha/snps/blob/master/src%2Fsnps%2Fio%2Fwriter.py and update src/Snps/IO/Wruter.php also convert all the python called external files into php 8.3 and place in src/Snps/IO
Finish converting from python 3 into php 8.3 the following file https://github.com/apriha/snps/blob/master/src%2Fsnps%2Fio%2Fwriter.py and update src/Snps/IO/Writer.php also convert all the python called external files into php 8.3 and place in src/Snps/IO
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