Changelogs » Cathpy

PyUp Safety actively tracks 232,000 Python packages for vulnerabilities and notifies you when to upgrade.

Cathpy

0.3.8

*Release date: 10/01/2020*
  
  * make subprocess usage compatible with python < 3.7

0.3.7

*Release date: 10/01/2020*
  
  * fix minor bugs with `cath-cli ssap-batch`
  * add tests

0.3.5

*Release date: 08/01/2020*
  
  * update dependencies
  * correct bug in `cath-align-scorecons` if old alignment does not have DOPS

0.3.4

*Release date: 07/01/2020*
  
  * correct setup for namespace packages and tools

0.3.1

*Release date: 27/11/2019*
  
  * correct setup for namespace packages

0.3.0

*Release date: 27/11/2019*
  
  * move cathpy.* to cathpy.core.* (allow namespace packages)
  * add `cath-cli`
  * add batch processing for ssaps

0.2.2

*Release date: 11/10/2019*
  
  * improved amino acid checks
  * fixed bug with warning message when parsing stockholm alignments from string

0.2.1

*Release date: 21/06/2019*
  
  * changed new_from_(file|string|io) to from_(file|string|io)
  * cathpy.release container classes retrieve via primary key (eg. domainlist[0] === domainlist['1cukA01'])
  * added codecov

0.1.14

*Release date: 20/06/2019*
  
  * added `cathpy.release` to read/write/query CATH release files

0.1.13

*Release date: 12/06/2019*
  
  * allow for null results from funfhmmer scan

0.1.12

*Release date: 30/05/2019*
  
  * results from `align.get_meta_summary` now returns as AlignMetaSummary

0.1.11

*Release date: 30/05/2019*
  
  * generate summary of alignment meta data `align.get_meta_summary`

0.1.10

*Release date: 21/05/2019*
  
  * stockholm parser can now process meta data in Pfam alignments
  * use `uid` rather than `id` in `cathpy.align`

0.1.9

*Release date: 16/05/2019*
  
  * minor improvements to Sequence and Alignment
  * align.add_sequence() now accepts `offset`
  * len(Sequence) works as expected
  * Segment start/stop can be accessed with seg[0], seg[1]

0.1.8

*Release date: 09/05/2019*
  
  * align:
  * handle `.gz` align files
  * use start/stop (in params) rather than start/end

0.1.7

*Release date: 02/05/2019*

0.1.6

*Release date: 02/05/2019*
  
  * funfhmmer:
  * allow custom queues
  * incorporate resolved scans
  
  * Make sure matrix data is included in package

0.1.5

*Release date: 24/04/2019*
  
  * Added required matrix data for `scorecons` binary

0.1.4

*Release date: 16/04/2019*
  
  * Added binaries to allow scripts to work on Mac (darwin) and Linux

0.1.1

*Release date: 15/04/2019*
  
  * Improved how version numbers are stored

0.1.0

*Release date: 15/04/2019*
  
  General
  
  * Improved handling of STOCKHOLM parser (f52b9a1, 4fc0069)
  * Added Sphinx docs
  * Refactor `cathpy.utils`:
  * `CathVersion` to `cathpy.version`
  * simple classes to `cathpy.models`
  * util functions to `cathpy.tests`

0.0.1

General
  
  * first release