| Age | Commit message (Expand) | Author |
|---|
| 2022-02-24 | gn3: computations: Call Popen with context manager....Context managers should be preferred when allocating resources.
* gn3/computations/wgcna.py (stream_cmd_output): Call Popen with context
manager.
| Arun Isaac |
| 2022-02-24 | gn3: Explicitly specify UTF-8 to be the file encoding....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.
| Arun Isaac |
| 2021-10-25 | mypy:Incompatible types in assignment fix | Alexander Kabui |
| 2021-10-25 | mypy fix for none stdout | Alexander Kabui |
| 2021-10-25 | pylint and pep8 formatting | Alexander Kabui |
| 2021-10-25 | fix unittests | Alexander Kabui |
| 2021-10-25 | minor modification for emitting data:add namespaces | Alexander Kabui |
| 2021-10-25 | pep8 formatting,pylint fixes | Alexander Kabui |
| 2021-10-25 | add socket obj and emit process | Alexander Kabui |
| 2021-10-25 | fix issues serializing byte string | Alexander Kabui |
| 2021-10-25 | rename key to image_data | Alexander Kabui |
| 2021-10-25 | add function to process images | Alexander Kabui |
| 2021-10-25 | add function to capture output in real time | Alexander Kabui |
| 2021-09-27 | add file not found exception | Alexander Kabui |
| 2021-09-27 | return str error for exception | Alexander Kabui |
| 2021-09-23 | minor fixes for endpoint | Alexander Kabui |
| 2021-09-23 | Return r error if returncode!=0 | Alexander Kabui |
| 2021-09-23 | read generated files from r and return output | Alexander Kabui |
| 2021-09-16 | run cmd and add exception handler | Alexander Kabui |
| 2021-09-16 | add function to compose and run wgcna script | Alexander Kabui |
| 2021-09-16 | function to parse form data and write to json file | Alexander Kabui |
| 2021-09-15 | init wgcna file to run r script and preprocess data | Alexander Kabui |
