Download - Current deposition features
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Current deposition features
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Auto-completion
Yes, absolutely improtant.
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Clear indication of incomplete sections
NO: All the statistics should be harvested at the time of upload. The harvest tool (pdb_extract) should be embedded as first step to extract all the values including phases and refinement log file.
Upload → Extract (harvest tool) → Populate valuesAfter above steps, then the interface can show completeness (should be all green if above process is implemented).
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Clear indication of incomplete fields
Upload → Extract (harvest tool) → Populate valuesMost of the values should be in. It would only be red if harvest tool fails to extract some data for some format reason.
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Live preview of deposition
Yes, but suggest to be in a report form instead of format specific.
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Data harvested automatically from files that are uploaded
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http://www.domain.org/pdb/future_deposition_system?param=QovCsvhNv04DkRW4SMO3Ipy8FMFS2TSPXWLUBGXNtNZJYQEgGTOsHNCk96bn8DKfdcVj1CXiLIQ%3D
Encrypted URLs
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Regular expression patterns used to validate fields
Excellent.
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Duplication of completed sections to minimize manual input of data
Not sure why duplication would apply to heterogens. This function would be very useful for author's information: contact info, author names in both entry and citation list.
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Database lookup of certain data for improved auto-completion
Good idea. But can author edit this field if the database information is not what is in the file?
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Password protection of deposition
Absolutely. We need to think about the group privilege. If a student who knows the pwd has left, do we allow the same group to reset pwd?
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Validation of data between fields on the same page and also between fields that appear in different sections.
Yes. Also needs to check across the file- resolution high in both refinement and data collection for both overall and highest shell.
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Validation of deposition prior to submission
Should be part of deposition system (integrated).In addition have stone alone validation for dep preparation.
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Validation prior to submission
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Validation (serious errors)
What are considered as serious errors? Need to lay out more.
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Validation summary
Aren't we going to use Task Force recommended one?
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Feedback of curation issues and data to depositor in the same interface
(Processed files and reports)
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Needs to add download for mmCIF fileSuggest to add:
1. Issues to be addressed 2. Summary report in the above links
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I assume we will incorporate new validation from Task Force.
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PISA not PQS?
Suggest to have Asym unit image side by side with BU fpr comparison
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Seq Cross Ref