elynx 0.3.2 → 0.3.3
raw patch · 3 files changed
+33/−28 lines, 3 files
Files
- ChangeLog.md +5/−0
- README.md +27/−27
- elynx.cabal +1/−1
ChangeLog.md view
@@ -5,6 +5,11 @@ ## Unreleased changes +## Version 0.3.3++- Fix test suites.++ ## Version 0.3.2 - Remove llvm dependency.
README.md view
@@ -2,7 +2,7 @@ # The ELynx Suite -Version: 0.3.2.+Version: 0.3.3. Reproducible evolution made easy. <p align="center"><img src="https://travis-ci.org/dschrempf/elynx.svg?branch=master"/></p>@@ -90,9 +90,9 @@ slynx --help | head -n -16 - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: slynx [-v|--verbosity VALUE] [-o|--output-file-basename NAME] [-f|--force] COMMAND@@ -136,9 +136,9 @@ slynx concatenate --help - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: slynx concatenate (-a|--alphabet NAME) INPUT-FILE Concatenate sequences found in input files.@@ -157,9 +157,9 @@ slynx examine --help - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: slynx examine (-a|--alphabet NAME) INPUT-FILE [--per-site] Examine sequences. If data is a multi sequence alignment, additionally analyze columns.@@ -179,9 +179,9 @@ slynx filter-rows --help - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: slynx filter-rows (-a|--alphabet NAME) INPUT-FILE [--longer-than LENGTH] [--shorter-than LENGTH] [--standard-characters]@@ -202,9 +202,9 @@ slynx filter-columns --help - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: slynx filter-columns (-a|--alphabet NAME) INPUT-FILE [--standard-chars DOUBLE]@@ -226,9 +226,9 @@ slynx simulate --help - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: slynx simulate (-t|--tree-file Name) [-s|--substitution-model MODEL] [-m|--mixture-model MODEL] [-e|--edm-file NAME] @@ -305,9 +305,9 @@ slynx sub-sample --help - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: slynx sub-sample (-a|--alphabet NAME) INPUT-FILE (-n|--number-of-sites INT)@@ -335,9 +335,9 @@ slynx translate --help - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: slynx translate (-a|--alphabet NAME) INPUT-FILE (-r|--reading-frame INT) (-u|--universal-code CODE)@@ -360,9 +360,9 @@ tlynx --help | head -n -16 - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: tlynx [-v|--verbosity VALUE] [-o|--output-file-basename NAME] [-f|--force] COMMAND@@ -399,9 +399,9 @@ tlynx compare --help - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: tlynx compare [-n|--normalize] [-b|--bipartitions] [-t|--intersect] [-f|--newick-format FORMAT] NAMES@@ -428,9 +428,9 @@ tlynx examine --help - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: tlynx examine INPUT-FILE [-f|--newick-format FORMAT] Compute summary statistics of phylogenetic trees.@@ -452,9 +452,9 @@ tlynx simulate --help - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: tlynx simulate [-t|--nTrees INT] [-n|--nLeaves INT] [-H|--height DOUBLE] [-M|--condition-on-mrca] [-l|--lambda DOUBLE] @@ -491,9 +491,9 @@ elynx --help | head -n -16 - ELynx Suite version 0.3.2.+ ELynx Suite version 0.3.3. Developed by Dominik Schrempf.- Compiled on August 17, 2020, at 14:19 pm, UTC.+ Compiled on August 18, 2020, at 08:07 am, UTC. Usage: elynx COMMAND Validate and redo past ELynx analyses
elynx.cabal view
@@ -1,6 +1,6 @@ cabal-version: 2.2 name: elynx-version: 0.3.2+version: 0.3.3 synopsis: Validate and (optionally) redo ELynx analyses description: Please see the README on GitHub at <https://github.com/dschrempf/elynx>. category: Bioinformatics