[UGENE-5981] GZ: RefSeq for CLARK Created: 23/Jan/18 Updated: 31/Oct/18 Resolved: 25/Jul/18 |
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| Status: | Closed |
| Project: | UGENE |
| Component/s: | NGS, Workflow |
| Affects Version/s: | virogenesis |
| Fix Version/s: | 1.31 |
| Type: | Improvement | Priority: | Critical |
| Reporter: | Olga Golosova | Assignee: | Aleksey Tiunov [X] (Inactive) |
| Resolution: | Fixed | ||
| Labels: | formats, usability | ||
| Remaining Estimate: | Not Specified | ||
| Time Spent: | Not Specified | ||
| Original Estimate: | Not Specified | ||
| Issue Links: |
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| Story Points: | 5 | ||||||||
| Assigned Tester: | Dmitrii Sukhomlinov | ||||||||
| Epic Link: | VIROGENESIS-GZ | ||||||||
| Sprint: | DEV-30-6, DEV-30-7, DEV-30-8-RELEASE, DEV-31-2, DEV-31-3, DEV-31-4 | ||||||||
| Affect Type: | Userdefined | ||||||||
| Description |
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Support the GZ format as input for CLARK. Make sure an archived multi-FASTA can also be processed (see |
| Comments |
| Comment by Alexey Varlamov [ 10/Apr/18 ] |
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Implemented GZ for reference data (i.e. used to build DB) + fixed most prominent performance bottlenecks. |
| Comment by Dmitrii Sukhomlinov [ 24/Jul/18 ] |
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Archived sequence doesn't pass in CLARK, when the same non-archived passes correctly |
| Comment by Aleksey Tiunov [X] (Inactive) [ 25/Jul/18 ] |
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CLARK can process compressed files during the database building. It can't classify compressed reads now, there is another issue for this: |