CrystFEL: support aarch64-linux and HDF5 on Darwin

[pmiddend]

Description of changes

The CrystFEL software used to not run on aarch64. This is due to:

1. An old version of the dependent library libccp4, which couldn't find the gfortran dependency. There is a newer version, 8.0.0 of this software, but this didn't work out of the box either (the CMake build process assumes certain unnecessary libraries to be installed), so the author of CrystFEL recommended to me to use a patch that adds the meson build systems instead. This is also used by the official package, see here (in nixpkgs, I avoided the wrap functionality and packaged the dependencies using Nix instead). It does not depend on gfortran anymore, it only builds the C version (for CrystFEL, only that is important).
2. On aarch64-darwin, the function fmemopen doesn't exist (used to map a region of memory to a FILE* pointer). The corresponding code I patched and sent the patch upstream (see here). On aarch64-linux, we have the memorymappingHook which (still) works.

Also, the HDF5-External-Filter-Plugin didn't work on Darwin because of a linker issue. This has been fixed by an external contributor.

Things done

• Built on platform(s)
  • x86_64-linux
  • aarch64-linux
  • x86_64-darwin
  • aarch64-darwin
• For non-Linux: Is sandbox = true set in nix.conf? (See Nix manual)
• Tested, as applicable:
  • NixOS test(s) (look inside nixos/tests)
  • and/or package tests
  • or, for functions and "core" functionality, tests in lib/tests or pkgs/test
  • made sure NixOS tests are linked to the relevant packages
• Tested compilation of all packages that depend on this change using nix-shell -p nixpkgs-review --run "nixpkgs-review rev HEAD". Note: all changes have to be committed, also see nixpkgs-review usage
• Tested basic functionality of all binary files (usually in ./result/bin/)
• 23.05 Release Notes (or backporting 22.11 Release notes)
  • (Package updates) Added a release notes entry if the change is major or breaking
  • (Module updates) Added a release notes entry if the change is significant
  • (Module addition) Added a release notes entry if adding a new NixOS module
• Fits CONTRIBUTING.md.

[pmiddend]

@ofborg build crystfel-headless

[pmiddend]

@ofborg build crystfel

[nixos-discourse]

This pull request has been mentioned on NixOS Discourse. There might be relevant details there:

https://discourse.nixos.org/t/prs-ready-for-review/3032/1913

[pmiddend]

@SuperSandro2000 Thanks for the review and for pressing me on the meson patch thingy. The patch is actually in meson's "wrapdb" from where I shamelessly copied it from.

Now it's downloaded from there. I'm not sure about the new postUnpack attribute though. The problem was that wrapdb doesn't give you a patch file, but a zip archive with libccp4-8.0.0/meson.build in it, so I opted for the fetchzip + cp option. Does that seem fine with you?

[pmiddend]

@SuperSandro2000 Any further changes?

[pmiddend]

@SuperSandro2000 Ping

[nixos-discourse]

This pull request has been mentioned on NixOS Discourse. There might be relevant details there:

https://discourse.nixos.org/t/prs-ready-for-review/3032/2131

[wegank]

@ofborg build crystfel crystfel.passthru.tests

[wegank]

Result of nixpkgs-review pr 218968 run on aarch64-darwin 1

2 packages built:

• crystfel
• crystfel-headless