elynx-seq 0.8.0.0 → 0.9.0.0
raw patch · 5 files changed
+17/−11 lines, 5 filesPVP ok
version bump matches the API change (PVP)
API changes (from Hackage documentation)
- ELynx.Character.Character: class (CharacterX a) => CharacterI a
+ ELynx.Character.Character: class CharacterX a => CharacterI a
- ELynx.Character.Character: class (Character a) => CharacterX a
+ ELynx.Character.Character: class Character a => CharacterX a
Files
- ChangeLog.md +6/−0
- README.md +5/−5
- elynx-seq.cabal +1/−1
- src/ELynx/Sequence/Alignment.hs +2/−2
- src/ELynx/Sequence/Divergence.hs +3/−3
ChangeLog.md view
@@ -5,6 +5,12 @@ ## Unreleased changes +## Version 0.9.0.0++- Toolchain update+- Update to random version 1.3++ ## Version 0.8.0.0 - Adapt to breaking changes in upstream libraries (`data-default`).
README.md view
@@ -2,7 +2,7 @@ # The ELynx Suite -Version: 0.8.0.0.+Version: 0.9.0.0. Reproducible evolution made easy. <p align="center"><img src="https://travis-ci.org/dschrempf/elynx.svg?branch=master"/></p>@@ -73,9 +73,9 @@ # OR: stack exec slynx -- --help # OR: slynx --help - ELynx Suite version 0.8.0.0.+ ELynx Suite version 0.9.0.0. Developed by Dominik Schrempf.- Compiled on October 27, 2024, at 07:14 am, UTC.+ Compiled on August 11, 2025, at 07:19 am, UTC. Usage: slynx [-v|--verbosity VALUE] [-o|--output-file-basename NAME] [-f|--force] [--no-elynx-file] COMMAND@@ -143,9 +143,9 @@ # OR: stack exec slynx -- simulate --help # OR: slynx simulate --help - ELynx Suite version 0.8.0.0.+ ELynx Suite version 0.9.0.0. Developed by Dominik Schrempf.- Compiled on October 27, 2024, at 07:14 am, UTC.+ Compiled on August 11, 2025, at 07:19 am, UTC. Usage: slynx simulate (-t|--tree-file Name) [-s|--substitution-model MODEL] [-m|--mixture-model MODEL] [-n|--global-normalization]
elynx-seq.cabal view
@@ -1,6 +1,6 @@ cabal-version: 3.0 name: elynx-seq-version: 0.8.0.0+version: 0.9.0.0 synopsis: Handle molecular sequences description: Examine, modify, and simulate molecular sequences in a reproducible way. Please see the README on GitHub at <https://github.com/dschrempf/elynx>.
src/ELynx/Sequence/Alignment.hs view
@@ -124,7 +124,7 @@ "For each sequence, the " ++ show summaryLength ++ " first bases are shown."- | length a > summaryLength+ | length a > summaryLength ] reportNumberSummary = [ BL.pack $@@ -132,7 +132,7 @@ ++ " out of " ++ show (nSequences a) ++ " sequences are shown."- | nSequences a > summaryNSequences+ | nSequences a > summaryNSequences ] -- | Similar to 'S.summarizeSequenceList' but with different Header.
src/ELynx/Sequence/Divergence.hs view
@@ -51,9 +51,9 @@ i <- mi j <- mj Just $ modify m (i, j) (+ 1)- | (x, y) <- zip (VU.toList cs1) (VU.toList cs2),- let mi = S.lookupIndex x a,- let mj = S.lookupIndex y a+ | (x, y) <- zip (VU.toList cs1) (VU.toList cs2),+ let mi = S.lookupIndex x a,+ let mj = S.lookupIndex y a ] return m where