jmol: 14.31.24 -> 14.31.32

[r-ryantm]

Automatic update generated by nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/jmol/versions.

meta.description for jmol is: "A Java 3D viewer for chemical structures"

meta.homepage for jmol is: "https://sourceforge.net/projects/jmol"

meta.changelog for jmol is: ""

Updates performed

• Version update

To inspect upstream changes

Impact

Checks done (click to expand)

---

• built on NixOS

• The tests defined in passthru.tests, if any, passed

• 0 of 0 passed binary check by having a zero exit code.

• 0 of 0 passed binary check by having the new version present in output.

• found 14.31.32 with grep in /nix/store/ky4k31hbfxc9dyd730sn39kv2qa9ap5s-jmol-14.31.32

• directory tree listing: https://gist.github.com/625efe2e73a00d1b038da2fdb4439c7a

• du listing: https://gist.github.com/76effea8ad98aa7fa30d5e5460135630

---

Rebuild report (if merged into master) (click to expand)

6 total rebuild path(s)

3 package rebuild(s)

3 x86_64-linux rebuild(s)
1 i686-linux rebuild(s)
1 x86_64-darwin rebuild(s)
1 aarch64-linux rebuild(s)


First fifty rebuilds by attrpath
jmol
sage
sageWithDoc

Instructions to test this update (click to expand)

---

Either download from Cachix:

nix-store -r /nix/store/ky4k31hbfxc9dyd730sn39kv2qa9ap5s-jmol-14.31.32 \
  --option binary-caches 'https://cache.nixos.org/ https://nix-community.cachix.org/' \
  --option trusted-public-keys '
  nix-community.cachix.org-1:mB9FSh9qf2dCimDSUo8Zy7bkq5CX+/rkCWyvRCYg3Fs=
  cache.nixos.org-1:6NCHdD59X431o0gWypbMrAURkbJ16ZPMQFGspcDShjY=
  '

(The Cachix cache is only trusted for this store-path realization.)
For the Cachix download to work, your user must be in the trusted-users list or you can use sudo since root is effectively trusted.

Or, build yourself:

nix-build -A jmol https://github.com/r-ryantm/nixpkgs/archive/c3ceac5e20d3b95ab3d910d3a4fc487140dccba3.tar.gz

After you've downloaded or built it, look at the files and if there are any, run the binaries:

ls -la /nix/store/ky4k31hbfxc9dyd730sn39kv2qa9ap5s-jmol-14.31.32
ls -la /nix/store/ky4k31hbfxc9dyd730sn39kv2qa9ap5s-jmol-14.31.32/bin

---

Pre-merge build results

We have automatically built all packages that will get rebuilt due to
this change.

This gives evidence on whether the upgrade will break dependent packages.
Note sometimes packages show up as failed to build independent of the
change, simply because they are already broken on the target branch.

nixpkgs-review took longer than 45m and timed out

---

Maintainer pings

cc @Mounium @timokau @omasanori @7c6f434c for testing.

[taku0]

Result of nixpkgs-review pr 115006 1

2 packages failed to build:

• sage
• sageWithDoc

builder for '/nix/store/vrxszdhr2ppd671xljg6ir2bclayrfvm-sage-tests-9.2.drv' failed with exit code 1; last 10 log lines:
  sage -t --long --random-seed=0 /nix/store/5psdp31izdr3bl472m4cyrh0ny7vwskb-sage-src-9.2/src/sage/sandpiles/sandpile.py  # 3 doctests failed
  sage -t --long --random-seed=0 /nix/store/5psdp31izdr3bl472m4cyrh0ny7vwskb-sage-src-9.2/src/sage/stats/hmm/hmm.pyx  # 2 doctests failed
  sage -t --long --random-seed=0 /nix/store/5psdp31izdr3bl472m4cyrh0ny7vwskb-sage-src-9.2/src/sage/stats/distributions/discrete_gaussian_lattice.py  # 1 doctest failed
  sage -t --long --random-seed=0 /nix/store/5psdp31izdr3bl472m4cyrh0ny7vwskb-sage-src-9.2/src/sage/structure/coerce.pyx  # 6 doctests failed
  sage -t --long --random-seed=0 /nix/store/5psdp31izdr3bl472m4cyrh0ny7vwskb-sage-src-9.2/src/sage/symbolic/function.pyx  # 1 doctest failed
  sage -t --long --random-seed=0 /nix/store/5psdp31izdr3bl472m4cyrh0ny7vwskb-sage-src-9.2/src/sage/symbolic/ring.pyx  # 1 doctest failed
  ----------------------------------------------------------------------
  Total time for all tests: 3170.5 seconds
      cpu time: 15978.9 seconds
      cumulative wall time: 21157.5 seconds
cannot build derivation '/nix/store/fhi29cp353n9l43xd357hnqflj1j5mxg-sage-9.2.drv': 1 dependencies couldn't be built
cannot build derivation '/nix/store/7f4qqkqipk0q48rmvpcs2a0wgk94dj0i-sage-9.2.drv': 1 dependencies couldn't be built
cannot build derivation '/nix/store/9bm3qnvnsqwnv2wc3rir6b5cy31afypj-env.drv': 2 dependencies couldn't be built

1 package built:

• jmol

jmol itself is working fine.

[collares]

I've tested this with sage and it's working fine. I even included this commit in #114881. Feel free to merge this, in which case I'll remove the commit from that PR.

[tomberek]

Result of nixpkgs-review pr 115006 run on x86_64-linux 1

2 packages failed to build:

• sage
• sageWithDoc

1 package built:

• jmol

[collares]

Sage is already broken, which is why the nixpkgs-review runs are failing. The PR I mentioned above fixes it, and is awaiting review. Updating jmol does not make the situation worse.

[tomberek]

Sage is already broken, which is why the nixpkgs-review runs are failing. The PR I mentioned above fixes it, and is awaiting review. Updating jmol does not make the situation worse.

Agreed. Jmol itself seems to operate as expected.