376 refactor mail jira reply notebook config - #406
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cfuke1
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Was able to run everything.
| @@ -0,0 +1,148 @@ | |||
| # -*- yaml -*- | |||
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analysisE and analysisI look the same just comments out different parts
| save_folder_path: ../../rawdata/geronimo/mod_mbox/save_mbox_mail/ | ||
| # mbox_file_path is for use only with parse_mbox() function. It is the file to parse | ||
| # mbox_file_path: ../../rawdata/geronimo/mod_mbox/save_mbox_mail/geronimo.mbox | ||
| project_key_2: |
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Only difference besides for links between geronimo and openssl is lines 55 to 70, format looks like a copy and paste otherwise.
john-a-flinn
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Code between similar files has the same structure and all files share a similar the overall structure.
Signed-off-by: Michelle4929 <giyoung7@hawaii.edu>
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Purpose
Refactoring mail, jira, and reply configurations into taking 2 configurations (project vs analysis), more details in issue #376 .
New Implementations
Project: Configurations that typically do not change between analyses
Analysis Specific: Configurations that do change depending on the analysis
analysisE.yml
analysisI.yml
Changed Notebooks: These notebooks now read 2 configs
Example
Before:
conf <- parse_config("../conf/geronimo.yml")
After:
project <- parse_config("../conf/geronimo_project.yml")
analysis <- parse_config("../conf/analysisE.yml")