domagi/tests/test_domagi.py, 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. Provide type and metavar for depth --bed-input. 2026-08-26T23:05:06+00:00 Arun Isaac 2026-08-26T22:40:18+00:00 urn:sha1:ce37e2302f0f4fa06225078b466c74332395e846 We also fix the test to pass in a string rather than a Path. Do not traverse graph when extracting segments in path range. 2026-08-26T01:50:29+00:00 Arun Isaac 2026-08-26T01:50:29+00:00 urn:sha1:b0277ae1da434d81a744a87f4152e6d7852ee4ed Traverse symmetrically in both directions with extract. 2026-08-25T23:47:34+00:00 Arun Isaac 2026-08-25T23:42:54+00:00 urn:sha1:76da978a3ba7aa5cc5c3b4a114fdfdf6dd775688 Test domagi extract on node extraction. 2026-08-25T23:42:05+00:00 Arun Isaac 2026-08-25T23:42:05+00:00 urn:sha1:2dde35499067e462635cad6bfd5173f45001c18a Build duckdb database only once in a setup fixture. 2026-08-21T03:03:21+00:00 Arun Isaac 2026-08-19T02:13:14+00:00 urn:sha1:44c75535f87b7db2f833b581c9c17671246631a9 Add chop subcommand. 2026-08-21T03:03:20+00:00 Arun Isaac 2026-08-18T13:44:46+00:00 urn:sha1:d2282f6b7453a023af92424309e8713f5c8f7ca7 When testing, canonicalize links before comparing them. 2026-08-21T03:03:20+00:00 Arun Isaac 2026-08-21T02:24:10+00:00 urn:sha1:5d65c47b0388b3e3fa50b8ddfbda4f417af4735f Error out if user-specified path does not exist. 2026-08-15T19:53:16+00:00 Arun Isaac 2026-08-15T00:49:20+00:00 urn:sha1:d9701953f6c755afea218bf10064e794a1167242