test nar PR #175
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test nar PR #175
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…h amino acid in each position of all sequences in a dataset (any dataset type) - small fix in SequenceLengthDistribution (set output_written=False to ensure correct error message, since this report writes no data file)
…o_dev � Conflicts: � immuneML/IO/dataset_import/OLGAImport.py � immuneML/encodings/abundance_encoding/CompAIRRSequenceAbundanceEncoder.py � immuneML/encodings/reference_encoding/MatchedRegexRepertoireEncoder.py � immuneML/simulation/signal_implanting/FullSequenceImplanting.py � setup.py � test/IO/dataset_import/test_genericImport.py � test/simulation/signal_implanting/test_FullSequenceImplanting.py
# Conflicts: # immuneML/dsl/import_parsers/ImportParser.py # immuneML/environment/Constants.py # immuneML/preprocessing/ReferenceSequenceAnnotator.py # requirements.txt # setup.py
# Conflicts: # .github/workflows/publish-to-pypi.yml # Dockerfile # immuneML/__init__.py
* made test * pre getting kl code from stash * kl dist stuff from stash * Writing kmer dist to file * working test * renamed files * KL divergence report * cleaning up * actually print the kl divergence * class doc for klgenmodel * removed comment
…bution report to make it clearer for us internally what it can be used for.
- Added SequenceLengthDistribution report, allow seq counts option to be accessible in galaxy tool
added chain option to galaxy tool
# Conflicts: # docs/source/_static/images/definitions_instructions_overview.png # immuneML/ml_methods/generative_models/SoNNia.py # immuneML/reports/data_reports/AminoAcidFrequencyDistribution.py # immuneML/reports/data_reports/DataReport.py # immuneML/reports/data_reports/SequenceLengthDistribution.py # immuneML/reports/data_reports/VJGeneDistribution.py # immuneML/reports/encoding_reports/FeatureDistribution.py # immuneML/reports/gen_model_reports/VAESummary.py # immuneML/reports/ml_reports/Coefficients.py # immuneML/reports/ml_reports/DeepRCMotifDiscovery.py # immuneML/reports/ml_reports/TCRdistMotifDiscovery.py # immuneML/workflows/instructions/train_gen_model/TrainGenModelInstruction.py
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not meant for merging, but tests have strange inconsistent behavior locally