domagi, branch main DuckDB-powered pangenome Swiss Army knife http://git.systemreboot.net/domagi/atom?h=main 2026-08-28T13:45:26+00:00 Bridge extracted subpaths. 2026-08-28T13:45:26+00:00 Arun Isaac 2026-08-28T02:05:32+00:00 urn:sha1:586428723f40d929f3ef9402352378c6d6629841 Split subpaths selected by extract path range into discrete fragments. 2026-08-28T02:01:35+00:00 Arun Isaac 2026-08-27T23:46:37+00:00 urn:sha1:1783136fa37cb502d07ce2e4bb0474cd3a0ff1f2 When `domagi extract` is given a path range, it may select discontinuous fragments of other paths. These fragments must be output as separate paths, not erroneously merged together. Symlink in docbook schema from the guix shell environment. 2026-08-27T15:43:08+00:00 Arun Isaac 2026-08-27T15:43:08+00:00 urn:sha1:427d6d4f08be08864a414655786368d58b8d6485 Add docbook dependencies to manifest. 2026-08-27T15:36:42+00:00 Arun Isaac 2026-08-27T15:36:42+00:00 urn:sha1:4e4cd7976822db1fce58146f721eeeb9f1d7a661 Detach output database after extract. 2026-08-27T13:39:39+00:00 Arun Isaac 2026-08-27T13:39:39+00:00 urn:sha1:09d1849b0daf3a89b5fca3d2f8f2026fc2a3a374 Order path_segment by the output coordinates, not the input. 2026-08-27T13:37:27+00:00 Arun Isaac 2026-08-27T13:37:27+00:00 urn:sha1:b3d924c02b8f0f7921f768f747b7f6297e379fa2 In domagi extract, order path_segment by the output start and end coordinates, not the input start and end coordinates. We achieve this by renaming the output coordinates "start" and "end" respectively. End meson.build with a newline. 2026-08-27T13:31:23+00:00 Arun Isaac 2026-08-27T13:31:23+00:00 urn:sha1:7a88ec86e728936920fc0ffdd4e0b0df4d7ab1f1 Move extract --context-steps option close to --node. 2026-08-27T00:12:07+00:00 Arun Isaac 2026-08-27T00:11:28+00:00 urn:sha1:ff40d448e277aff062b7b2cf7b61548dc898cf87 Refactor extract --path-range query into extract-path-range.sql. 2026-08-27T00:12:03+00:00 Arun Isaac 2026-08-27T00:04:26+00:00 urn:sha1:a8cf19418b66751760182952d80b327d7131f438 Comment on extract-node-traversal.sql. 2026-08-27T00:10:12+00:00 Arun Isaac 2026-08-27T00:04:01+00:00 urn:sha1:07e70427718f673a332b8a2a9dc74f80284e115e