Rework update submissions to allow re-submissions#256

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jessicarowell wants to merge 13 commits intodevfrom issue231

+304-126

Commits on Jan 12, 2025

fix submission_report.csv to have a header and to correctly get target_db data

Jessica Rowell
authored and
Jessica Rowell
committed

Commits on Jan 14, 2025

initial attempt to add an update_submissions workflow to resubmit metadata

Jessica Rowell
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Jessica Rowell
committed
put submission pieces into separate modules, can't call same module more than once

Jessica Rowell
authored and
Jessica Rowell
committed
Fix error in the SRA submission.xml Attributes heading

Jessica Rowell
authored and
Jessica Rowell
committed

Commits on Jan 15, 2025

a lot of code rearrangement and simplification to correct the submission report

Jessica Rowell
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Jessica Rowell
committed
return the report as a df not a dict

Jessica Rowell
authored and
Jessica Rowell
committed
shorten consolidated_report to report

Jessica Rowell
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Jessica Rowell
committed
corrected the reference to report_csv_file

Jessica Rowell
authored and
Jessica Rowell
committed

Commits on Jan 16, 2025

fix the report fetching function

Jessica Rowell
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Jessica Rowell
committed
correct and simplify the report fetching loop

Jessica Rowell
authored and
Jessica Rowell
committed
correct csv output paths

Jessica Rowell
authored and
Jessica Rowell
committed
report parsing was not fetching the message when it exists

Jessica Rowell
authored and
Jessica Rowell
committed

Commits on Jan 17, 2025

some fixes to allow fetch_submission to run independently

Jessica Rowell
authored and
Jessica Rowell
committed