Commit Graph

23 Commits

Author SHA1 Message Date
Guy Chronister
374e7c1093 ocamlPackages.phylogenetics: migrate to finalAttrs 2026-05-12 13:28:33 -05:00
Ihar Hrachyshka
567e8dfd8e treewide: clean up 'meta = with' pattern
This commit was created by a combination of scripts and tools:
- an ast-grep script to prefix things in meta with `lib.`,
- a modified nixf-diagnose / nixf combination to remove unused `with
lib;`, and
- regular nixfmt.

Co-authored-by: Wolfgang Walther <walther@technowledgy.de>
2025-12-10 18:09:49 +01:00
Silvan Mosberger
4f0dadbf38 treewide: format all inactive Nix files
After final improvements to the official formatter implementation,
this commit now performs the first treewide reformat of Nix files using it.
This is part of the implementation of RFC 166.

Only "inactive" files are reformatted, meaning only files that
aren't being touched by any PR with activity in the past 2 months.
This is to avoid conflicts for PRs that might soon be merged.
Later we can do a full treewide reformat to get the rest,
which should not cause as many conflicts.

A CI check has already been running for some time to ensure that new and
already-formatted files are formatted, so the files being reformatted here
should also stay formatted.

This commit was automatically created and can be verified using

    nix-build a08b3a4d19.tar.gz \
      --argstr baseRev b32a094368
    result/bin/apply-formatting $NIXPKGS_PATH
2024-12-10 20:26:33 +01:00
Vincent Laporte
94366fe336 ocamlPackages.phylogenetics: 0.2.0 → 0.3.0 2024-07-09 06:27:17 +02:00
Vincent Laporte
b377e019ca ocamlPackages.phylogenetics: unstable-2022-05-06 → 0.2.0 2024-04-23 09:34:08 +02:00
Vincent Laporte
0e98a613ff ocamlPackages.gsl: 1.24.3 → 1.25.0 2023-12-13 06:18:54 +01:00
Vincent Laporte
7473ac950e ocamlPackages.phylogenetics: use Dune 3 2023-02-11 13:49:56 +01:00
Ulrik Strid
c53a63adf1 ocamlPackages treewide: strictDeps all packages 2023-02-03 08:59:34 +01:00
Guillaume Girol
33afbf39f6 treewide: switch to nativeCheckInputs
checkInputs used to be added to nativeBuildInputs. Now we have
nativeCheckInputs to do that instead. Doing this treewide change allows
to keep hashes identical to before the introduction of
nativeCheckInputs.
2023-01-21 12:00:00 +00:00
Ben Darwin
287131c409 ocamlPackages.phylogenetics: run full test suite
As of upstream commit
a107e96fa6
, the full tests using `bppsuite`, although barely longer than the short
tests, were not being run.
2022-11-22 10:02:45 +01:00
Aaron L. Zeng
4f6ddfdd23 Add Jane Street ocaml packages version 0.15
- ocamlPackages.tls*: 0.15.2 -> 0.15.3
- ocamlPackages.bistro: unstable-2021-11-13 -> unstable-2022-05-07
- ocamlPackages.phylogenetics: 0.1.0 -> unstable-2022-05-06
2022-07-07 00:32:11 -04:00
Malo Bourgon
f7ef6329bb ocamlPackages: add meta.mainProgram to many packages 2022-05-14 11:31:07 +02:00
Aaron L. Zeng
983a9f4bb6 ocamlPackages.phylogenetics: 0.0.0 -> 0.1.0 2022-04-12 16:02:48 +02:00
Vincent Laporte
ecd0acf293 ocamlPackages.printbox: 0.5 → 0.6
ocamlPackages.printbox-text: init at 0.6
2022-02-02 07:31:55 +01:00
Ben Darwin
2d47affbfb ocamlPackages.phylogenetics: unstable-2020-11-23 -> 0.0.0 2021-11-12 20:21:29 +01:00
Pavol Rusnak
a6ce00c50c treewide: remove stdenv where not needed 2021-01-25 18:31:47 +01:00
Profpatsch
4a7f99d55d treewide: with stdenv.lib; in meta -> with lib;
Part of: https://github.com/NixOS/nixpkgs/issues/108938

meta = with stdenv.lib;

is a widely used pattern. We want to slowly remove
the `stdenv.lib` indirection and encourage people
to use `lib` directly. Thus let’s start with the meta
field.

This used a rewriting script to mostly automatically
replace all occurances of this pattern, and add the
`lib` argument to the package header if it doesn’t
exist yet.

The script in its current form is available at
https://cs.tvl.fyi/depot@2f807d7f141068d2d60676a89213eaa5353ca6e0/-/blob/users/Profpatsch/nixpkgs-rewriter/default.nix
2021-01-11 10:38:22 +01:00
Vincent Laporte
b6f7f1f673 ocamlPackages.janeStreet: 0.13 → 0.14
ocamlPackages.biocaml: 0.10.1 → 0.11.1

ocamlPackages.bistro: fix for Core 0.14

ocamlPackages.js_of_ocaml: 3.7.0 → 3.7.1

ocamlPackages.ocaml-r: 0.2.0 → 0.4.0

ocamlPackages.phylogenetics: 2020-01-25 → 2020-11-23

Co-authored-by: sternenseemann <0rpkxez4ksa01gb3typccl0i@systemli.org>
2020-12-18 21:03:56 +01:00
Vincent Laporte
3e7a2b9147 ocamlPackages.janeStreet: 0.12 → 0.13
ocamlPackages.bistro: fix for core-0.13
ocamlPackages.phylogenetics: 2020-01-05 → 2020-01-25
2020-04-20 08:38:31 +02:00
Vincent Laporte
34db9b5ee3 ocamlPackages.phylogenetics: 2019-11-15 → 2020-01-05 2020-04-01 17:29:30 +02:00
Vincent Laporte
0229936bbe buildDunePackage: add a “useDune2” option 2020-03-23 09:12:50 +01:00
Ben Darwin
fd9b40d076 ocamlPackages_latest.phylogenetics: dune2/fix meta 2020-02-27 12:22:14 -05:00
Ben Darwin
3fa5a19cf8 ocamlPackages_latest.phylogenetics: init at unstable-2019-11-15 2019-12-06 12:00:44 -05:00