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Improve aTRAM stability
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@rafelafrance rafelafrance released this 09 Feb 21:31
· 174 commits to master since this release
v2.1.0
b59075b

There were many minor improvements and bug fixes but the highlights of this release are:

  1. Improve the stability of SQLite when processing large files on fast machines. This issue was manifesting itself as an "sqlite3.OperationalError: database is locked" error.
  2. We changes how temporary files are handled. Most temporary files are now deleted between each aTRAM iteration. This reduces the disk footprint of aTRAM and helps with larger assemblies.
  3. aTRAM now displays the number of blast hits at each iteration. This gives you more information about how well aTRAM is progressing or why an assembly may fail.
  4. We added the new blast option --word-size. If entered, this is passed to directly to blast.
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