Opened 3 years ago

Closed 3 years ago

#1017 closed enhancement (fixed)

Remove code for handling optional MaskedSequences

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: major Milestone: Reggie v4.16
Component: net.sf.basedb.reggie Keywords:
Cc:

Description (last modified by Nicklas Nordborg)

When the masking step has been introduced to the Hisat pipeline again (see #1015), all places in the code that works with MaskedSequences can be simplified since we no longer need to consider two different cases.

The "Delete unmasked Hisat alignments" wizard can also be removed.

Change History (6)

comment:1 Changed 3 years ago by Nicklas Nordborg

Description: modified (diff)

comment:2 Changed 3 years ago by Nicklas Nordborg

Milestone: Reggie v4.xReggie v4.16

comment:3 Changed 3 years ago by Nicklas Nordborg

Status: newassigned

comment:4 Changed 3 years ago by Nicklas Nordborg

(In [4685]) References #1017: Remove code for handling optional MaskedSequences?

Removed handling of the case where no masked item exists between the aligned and merged sequences.

comment:5 Changed 3 years ago by Nicklas Nordborg

(In [4686]) References #1017: Remove code for handling optional MaskedSequences?

Removed the "Delete unmasked Hisat alignments" wizard.

comment:6 Changed 3 years ago by Nicklas Nordborg

Resolution: fixed
Status: assignedclosed
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