# Changelog for cobot-io ## [Unreleased] ## [0.1.5.1] - 2023-01-17 - Update dependencies for Haskell LTS-20.4. ## [0.1.5.0] - 2022-09-30 ### Changed - Update FASTA parser to megaparsec. ## [0.1.4.4] - 2022-06-02 ### Changed - Update more dependencies; - Fix new warnings in GHC-9. ## [0.1.4.3] - 2022-03-23 ### Changed - Support GHC-9.2 packages in dependencies. ## [0.1.4.2] - 2021-10-14 ### Changed - More types of multiline properties are supported. ## [0.1.4.1] - 2021-10-07 ### Changed - CI fix ## [0.1.4.0] - 2021-09-27 ### Changed - Redesigned the Range type to reflect all possible cases. - Switched to Megaparsec. ## [0.1.3.25] - 2021-09-15 ### Added - Pedantic build and CI ## [0.1.3.24] - 2021-09-10 ### Changed - GB parser made more verbose. ## [0.1.3.23] - 2021-07-06 ### Added Added ASN hydrogen names sometimes set by Scho ## [0.1.3.22] - 2021-07-06 ### Changed - `*` -> `Type` for GHC-9. ## [0.1.3.21] - 2021-07-03 ### Changed - Update dependency versions. ## [0.1.3.20] - 2021-06-04 ### Changed - YLAB2-629: Fasta parser is now able to parse empty lines in the beginning. ## [0.1.3.19] - 2021-04-30 ### Changed - Exports and instances for Biosset. ## [0.1.3.18] - 2021-03-09 ### Fixed - Lowercase insertion code parsing in PDB. ## [0.1.3.17] - 2021-02-18 ### Fixed - PDB parsing. ## [0.1.3.16] - 2021-02-16 ### Fixed - Bad comment in GB parser. ## [0.1.3.15] - 2021-02-16 ### Fixed - Unknown fields in GB. ## [0.1.3.14] - 2021-02-10 ### Changed - Added ability to parse modifications in Fasta. ## [0.1.3.13] - 2021-01-02 ### Changed - Allow `QuickCheck-2.14`. ## [0.1.3.12] - 2020-11-11 ### Fixed - PDB parser error: it didn't account for segment identifier field. - Bond restoring in PDB for non-standard residue names. ## [0.1.3.11] - 2020-11-08 ### Changed - Allow `linear-0.21`. ## [0.1.3.10] - 2020-11-06 ### Fixed - `SOURCE` and `ORIGIN` in GB parser. ## [0.1.3.9] - 2020-10-27 ### Fixed - FASTA parser can now parse empty lines with spaces. ## [0.1.3.8] - 2020-10-22 ### Fixed - A couple of issues, that caused parametrization failures, fixed in bond restoring for PDB format. ## [0.1.3.7] - 2020-10-14 ### Added - Generic fasta parser. ## [0.1.3.6] - 2020-07-14 ### Added - Convertation from `Model`s to `PDB`. - Writer for `PDB`. - `renameChains` function that renames chains in a model. ## [0.1.3.5] - 2020-05-26 ### Fixed - Correctly clean `BasecalledSequenceWithRawData`, including inner quality. ## [0.1.3.4] - 2020-05-14 ### Added - `instance Cleanable BasecalledSequenceWithRawData`. ## [0.1.3.3] - 2020-05-07 ### Added - Type and decoder for `ab1` with raw channel data and peak locations. ### Fixed - Use supplied thresholds instead of default ones in the implementation of `cleanWith`; - Do not run `IO` in `hspec` `Spec` monad, use `beforeAll`. ## [0.1.3.2] - 2020-04-15 ### Changed - Resolver version up. - Moving from `less-wrong` to `biocad`. ## [0.1.3.1] - 2020-04-02 ### Fixed - Reading of insertion code for residues in MAE. ## [0.1.3.0] - 2020-03-27 ### Added - Residue index in `Structure`. - Atom input index in `Structure`. - Bond restoring for PDB. - Tests for PDB -> Model conversion. ### Changed - GlobalID now 0-based in mae, PDB, and MMTF. ### Fixed - A lot of things. ## [0.1.2.10] - 2020-03-27 ### Added - Lenses for `Structure`. ## [0.1.2.9] - 2020-03-12 ### Added - Function `filterAtomsOfModel` to filter atoms of model by the given predicate. ### Fixed - Grouping by residues when converting `Mae` to `Model`. ## [0.1.2.8] - 2020-03-12 ### Added - `instance Traversable (Sequence mk w)`. ## [0.1.2.7] - 2020-02-11 ### Changed - Support GHC-8.8. ## [0.1.2.6] - 2019-12-12 ### Fixed - Fixes for instance of `StructureModels` for `Mae` when working with structures without explicit chain names. ## [0.1.2.5] - 2019-12-24 ### Fixed - Possibility to have spaces in Fasta sequences. ## [0.1.2.4] - 2019-12-23 ### Added - Preprocessing for pdb-files. - Pdb parser. ## [0.1.2.3] - 2019-12-12 ### Fixed - Fixes for .mae pasrser. - Fixes for instance of `StructureModels` for `Mae`. ## [0.1.2.2] - 2019-11-27 ### Added - Instance of `StructureModels` for `Mae`. ### Fixed - Fix for .mae pasrser. ## [0.1.2.1] - 2019-11-25 ### Added - Parser for `MAE`. ## [0.1.2.0] - 2019-09-03 ### Added - Parser for `FASTA`. - Writer for `FASTA`. ## [0.1.1.1] - 2019-06-05 ### Changed - `length` on `Sequence` now works in O(1). ## [0.1.1.0] - 2019-05-13 ### Added - New version of module Bio.Sequence hat introduces `IsSequence` type class and `Sequence` datatype. - Type `GenBankSequence` describing structure of .gb file. - Parser for `GenBankSequence`. - Writer for `GenBankSequence`. ### Changed - ABI cleaner and decoder now work with type `ABIRaw`. ## [0.1.0.1] - 2019-02-28 ### Added - Field `chemCompType` in `Residue`. ### Fixed - `codec10`.