Mercurial > repos > fubar > jbrowse2
comparison jbrowse2.py @ 75:9c8459ce7d88 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit d03454f949af9f3fff638f6a3e52fe42bc96be3b-dirty
| author | fubar |
|---|---|
| date | Mon, 01 Apr 2024 04:03:16 +0000 |
| parents | 13ede71c3a4b |
| children | 9e3eb6b26f85 |
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| 74:13ede71c3a4b | 75:9c8459ce7d88 |
|---|---|
| 1485 """ | 1485 """ |
| 1486 new_index = "Nothing written" | 1486 new_index = "Nothing written" |
| 1487 session_spec = {"views": []} | 1487 session_spec = {"views": []} |
| 1488 logging.debug("def ass_first=%s\ndata=%s" % (self.ass_first_contigs, data)) | 1488 logging.debug("def ass_first=%s\ndata=%s" % (self.ass_first_contigs, data)) |
| 1489 for first_contig in self.ass_first_contigs: | 1489 for first_contig in self.ass_first_contigs: |
| 1490 gnome, refName, end = first_contig | 1490 logging.debug("first contig=%s" % self.ass_first_contigs) |
| 1491 [gnome, refName, end] = first_contig | |
| 1491 start = 0 | 1492 start = 0 |
| 1492 if False or data.get("defaultLocation", ""): | 1493 if False or data.get("defaultLocation", ""): |
| 1493 loc_match = re.search( | 1494 loc_match = re.search( |
| 1494 r"^([^:]+):([\d,]*)\.*([\d,]*)$", data["defaultLocation"] | 1495 r"^([^:]+):([\d,]*)\.*([\d,]*)$", data["defaultLocation"] |
| 1495 ) | 1496 ) |