Scenario 1: aligning to this alignment of several sequences, some of which contain only gaps
- Open "COI.aln" file.
- Click "Align sequence(s) to this alignment" button on the Alignment Editor toolbar.
- Select "_common_data\empty_sequences\multifasta_with_gap_seq.fa".
Current result: all sequences are aligned, "seq2" and "seq4" consists of gaps only. There are no any notifications.
Expected result: sequences made of gaps only are not aligned, i.e. "seq1", "seq3" and "seq5" are aligned. Also, a warning notification appears:The following sequence(s) were not aligned as they do not contain meaningful characters: "seq2", "seq4".
Scenario 2: aligning to this alignment of a sequence with gaps only
- Open "COI.aln" file.
- Click "Align sequence(s) to this alignment" button on the Alignment Editor toolbar.
- Select "_common_data\empty_sequences\gap_only_seq.fa".
Current result: the "gap-only-sequence" row is added to the alignment, it consists of gaps only. There are no any notifications.
Expected result: the alignment is not modified. A warning notification appears:The following sequence(s) were not aligned as they do not contain meaningful characters: "gap-only-sequence".
Scenario 3: aligning to this alignment a file without characters at all
- Open "COI.aln" file.
- Click "Align sequence(s) to this alignment" button on the Alignment Editor toolbar.
- Select "_common_data\empty_sequences\empty_file.fa".
Current result: the COI alignment is not modified, an error notification appears:'Load sequences and add to alignment task' task failed: Unknown format
Expected result: the COI alignment is not modified, but the error notification is the following:
Data from the "empty-file.fa" file can't be alignment to the "COI" alignment - the file is empty.
Scenario 4: aligning to this alignment an incorrect FASTA file that contains a header, but not a sequence
- Open "COI.aln" file.
- Click "Align sequence(s) to this alignment" button on the Alignment Editor toolbar.
- Select "_common_data\empty_sequences\incorrect_fasta_header_only.fa".
Current result: the COI alignment is not modified, an error notification appears:'Load sequences and add to alignment task' task failed: Document is empty.
Expected result: the COI alignment is not modified, but an error notification is the following:
Data from the "empty-file.fa" file can't be alignment to the "COI" alignment - the file format is invalid.
Scenario 5:
The same as Scenario 4, but use "incorrect_multifasta_with_empty_seq.fa" instead of "incorrect_fasta_header_only.fa". Make sure "seq1" is not aligned in this case!
- relates to
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UGENE-6541 Add possibility to realign sequence(s) to other sequences in an alignment
- Closed
-
UGENE-6731 "Warning" log level
- Closed
- mentioned in
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