Cblaster

Latest version: v1.3.18

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1.3.18

* Fix NoneType error during result formatting (90)
* Some bug fixes for stability (87)

1.3.17

* Fix off-by-one issues in extract_clusters module with intermediate genes (83)
* Check for empty fields in IPG table (85)

1.3.16

* Fixes broken identical protein groups efetch request by setting db=ipg instead of db=protein (https://github.com/gamcil/cblaster/issues/84)
* Convert coordinates from IPG table to zero-based

1.3.15

* Catch ValueError when parsing GFF sequence-region directive without coordinates
* Do not install genomicsqlite if installing cblaster on arm64

1.3.14

* Fall back to built-in `sqlite3` module when importing `genomicsqlite` fails

1.3.13

Thanks to brymerr921:

**Bug fixes:**
- By default, diamond blastp only saves a maximum of 25 hits per query, severely limiting the number of blast hits reported. Large databases are especially impacted. To solve this, the `--hitlist_size` is now passed on `diamond` inside `cblaster search -m local`. (1c16caa) (See issue 75)
- Added an option to `cblaster makedb` allowing users to provide a single `txt` file containing a list of input files. This solves the issue where the operating system limits the length of wildcard expansion on the command line. (bb9085c)
- Fixed error that arose when specifying `sum` or `max` for `-bkey` (fee315e) (see issue 76, thanks to chasemc)

**Enhancements:**
- `diamond makedb` now uses the number of CPUs requested by the user (instead of all available CPUs) (0db55cc)

**File compression:**
- Use genomcsqlite3 to reduce the size of the final sqlite3 database by 40-60% (bae6b31)
- `cblaster makedb` accepts gzipped input files (241894d)
- `cblaster makedb` now writes a fasta.gz output file (241894d) and informs users they will need to decompress first if running `hmmsearch` (4c63fa5)

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