ssi-analysis-result-parsers 0.0.9__py3-none-any.whl → 0.0.11__py3-none-any.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (22) hide show
  1. ssi_analysis_result_parsers/Ecoli_parser.py +669 -0
  2. ssi_analysis_result_parsers/Legionella_parser.py +3 -1
  3. ssi_analysis_result_parsers/Nmeningitidis_parser.py +178 -0
  4. ssi_analysis_result_parsers/Spyogenes_parser.py +0 -1
  5. ssi_analysis_result_parsers/__init__.py +1 -1
  6. ssi_analysis_result_parsers/_modidx.py +43 -1
  7. {ssi_analysis_result_parsers-0.0.9.dist-info → ssi_analysis_result_parsers-0.0.11.dist-info}/METADATA +1 -1
  8. {ssi_analysis_result_parsers-0.0.9.dist-info → ssi_analysis_result_parsers-0.0.11.dist-info}/RECORD +22 -10
  9. {ssi_analysis_result_parsers-0.0.9.dist-info → ssi_analysis_result_parsers-0.0.11.dist-info}/entry_points.txt +3 -0
  10. {ssi_analysis_result_parsers-0.0.9.dist-info → ssi_analysis_result_parsers-0.0.11.dist-info}/top_level.txt +1 -0
  11. test_input/Ecoli/ERR14229029.res +1 -0
  12. test_input/Ecoli/ERR3528110.res +4 -0
  13. test_input/Ecoli/samplesheet.tsv +3 -0
  14. test_input/Legionella/test.tsv +2 -0
  15. test_input/Nmeningitidis/batch_parser_file_paths.tsv +6 -0
  16. test_input/Nmeningitidis/meningotype/meningotype1.tsv +2 -0
  17. test_input/Nmeningitidis/meningotype/meningotype2.tsv +2 -0
  18. test_input/Nmeningitidis/meningotype/meningotype3.tsv +2 -0
  19. test_input/Nmeningitidis/neisseria_mlst_scheme.tsv +18415 -0
  20. test_output/Ecoli/KMA_cases_parser.tsv +3 -0
  21. {ssi_analysis_result_parsers-0.0.9.dist-info → ssi_analysis_result_parsers-0.0.11.dist-info}/WHEEL +0 -0
  22. {ssi_analysis_result_parsers-0.0.9.dist-info → ssi_analysis_result_parsers-0.0.11.dist-info}/licenses/LICENSE +0 -0
test_output/Ecoli/KMA_cases_parser.tsv ADDED
@@ -0,0 +1,3 @@
1
+ sample_name Illumina_read_files Nanopore_read_file assembly_file organism variant notes stx OH wzx wzy wzt wzm eae ehxA Other verbose
2
+ ERR3528110 examples/Dataset/reads/ERR3528110_1.fastq.gz,examples/Dataset/reads/ERR3528110_2.fastq.gz Na examples/Dataset/assemblies/ERR3528110.fasta E.coli Na Na - O6;H1 - - - - - - - wzx_O6_16.07_100.00_99.92;wzy_O6_17.35_100.00_100.00;fliC_H1_62.14_100.00_100.00
3
+ ERR14229029 examples/Dataset/reads/ERR14229029_1.fastq.gz,examples/Dataset/reads/ERR14229029_2.fastq.gz Na examples/Dataset/assemblies/ERR14229029.fasta E.coli Na Na - -;- - - - - - - -