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path: root/gn3/computations/ctl.py
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2022-02-24gn3: Explicitly specify UTF-8 to be the file encoding.Arun Isaac
When the encoding is not specified explicitly, the system default encoding is used. This is not recommended. * gn3/computations/ctl.py (call_ctl_script), gn3/computations/gemma.py (generate_pheno_txt_file), gn3/computations/parsers.py (parse_genofile), gn3/computations/partial_correlations.py (partial_correlations_fast), gn3/computations/rqtl.py (process_rqtl_output, process_perm_output), gn3/computations/wgcna.py (dump_wgcna_data, call_wgcna_script), gn3/fs_helpers.py (jsonfile_to_dict): Explicitly specify UTF-8 to be the file encoding. * tests/unit/computations/test_gemma.py (TestGemma.test_generate_pheno_txt_file), tests/unit/computations/test_wgcna.py (TestWgcna.test_create_json_file): Test for call to open with encoding='utf-8' argument.
2022-02-02refactor code for invoking ctl scriptAlexander Kabui
2022-02-02pep8 formattingAlexander Kabui
2022-02-02new line fixAlexander Kabui
2022-02-02fix comprehension listAlexander Kabui
2022-01-22process ctl plot data imgAlexander Kabui
2022-01-22read stdout data;handle exceptionsAlexander Kabui
2022-01-22init file to call ctl scriptAlexander Kabui