Mess with Protection levels

[fog]

1. Delete sequences with S3 in ali_16S/data is possible in 'Search and Query' with own Protection level 0

2. Protection level selector in Import Mask has no effect - sequences are always imported with protection level 0

3. Sequences with higher protection levels are overwritten by importer

4. Protection level in 'Create new Database' has always S4 in XY/data

[westram]

• see also #32 and #34

[westram]

Replying to fog:

3. Sequences with higher protection levels are overwritten by importer

What would you prefere to happen here? Another "Are you sure?" question?

4. Protection level in 'Create new Database' has always S4 in XY/data

Do you mean "regardless of level selected in importer"?

[westram]

3. + 4.: protection level selected in import window shall be used

[westram]

[After hours of code inspection]

• The protection level which can be selected in import window is the "Default write protection" (see "Sequence/Alignment? admin") and it is currently only used when creating a new alignment (aka 'Import sequences to new database')
• If importing into an existing alignment, the protection toggle defaults to the protection level of the currently selected alignment and sets the "Default write protection" of the alignment in the temporary database.
  During following (automatic) merge it does not overwrite the value already existing in the destination (would be wrong) - so it has no effect.

The protection handling for sequence data is incomplete:

• The "Default write protection" is currently only used to set the delete-protection of the species (this has no real effect, cause deleting complete species is intentionally easy).
• There was some commented-out code setting the write protection (​here), but activating that code would always set the protection of all data existing in the alignment (done by GBT_check_alignment).

Needed changes:

• When importing sequence data use "Default write protection" (of the current alignment), which is either the default of the newly created alignment or the level selected for this import into existing alignment.
• Afterwards, when auto-merging, copy over all protection levels to main

Check:

• What happens when calling external aligner?

[westram]

• 2. + 4. are fixed by [6077]