Remove proot from nix-portable

The pkgsStatic.proot is broken due to failed
dependencies. In upstream nix-portable they have
a custom derivation on top o proot gitlab. But
since we don't need it, we can remove it safely.

Reviewed-by: Rodrigo Arias Mallo <rodrigo.arias@bsc.es>

flake.lock

@@ -2,16 +2,16 @@
   "nodes": {
     "nixpkgs": {
       "locked": {
-        "lastModified": 1752436162,
-        "narHash": "sha256-Kt1UIPi7kZqkSc5HVj6UY5YLHHEzPBkgpNUByuyxtlw=",
+        "lastModified": 1767634882,
+        "narHash": "sha256-2GffSfQxe3sedHzK+sTKlYo/NTIAGzbFCIsNMUPAAnk=",
         "owner": "NixOS",
         "repo": "nixpkgs",
-        "rev": "dfcd5b901dbab46c9c6e80b265648481aafb01f8",
+        "rev": "3c9db02515ef1d9b6b709fc60ba9a540957f661c",
         "type": "github"
       },
       "original": {
         "owner": "NixOS",
-        "ref": "nixos-25.05",
+        "ref": "nixos-25.11",
         "repo": "nixpkgs",
         "type": "github"
       }

flake.nix

@@ -1,6 +1,6 @@
 {
   inputs = {
-    nixpkgs.url = "github:NixOS/nixpkgs/nixos-25.05";
+    nixpkgs.url = "github:NixOS/nixpkgs/nixos-25.11";
   };
 
   outputs = { self, nixpkgs, ... }:

keys.nix

@@ -22,8 +22,9 @@ rec {
     storage    = [ bay lake2 ];
     monitor    = [ hut ];
     login      = [ apex ];
+    services   = [ tent ];
 
-    system     = storage ++ monitor ++ login;
+    system     = storage ++ monitor ++ login ++ services;
     safe       = system ++ compute;
     all        = safe ++ playground;
   };

m/apex/configuration.nix

@@ -57,6 +57,18 @@
     };
   };
 
+  services.fail2ban = {
+    enable = true;
+    maxretry = 5;
+    bantime-increment = {
+      enable = true; # Double ban time on each attack
+      maxtime = "7d"; # Ban up to a week
+    };
+  };
+
+  # Disable SSH login with password, allow only keypair
+  services.openssh.settings.PasswordAuthentication = false;
+
   networking.firewall = {
     extraCommands = ''
       # Blackhole BSC vulnerability scanner (OpenVAS) as it is spamming our

m/apex/nfs.nix

@@ -7,7 +7,7 @@
     mountdPort = 4002;
     statdPort = 4000;
     exports = ''
-      /home 10.0.40.0/24(rw,async,no_subtree_check,no_root_squash)
+      /home 10.0.40.0/21(rw,async,no_subtree_check,no_root_squash)
       /home 10.106.0.0/24(rw,async,no_subtree_check,no_root_squash)
     '';
   };
@@ -15,19 +15,19 @@
     # Check with `rpcinfo -p`
     extraCommands = ''
       # Accept NFS traffic from compute nodes but not from the outside
-      iptables -A nixos-fw -p tcp -s 10.0.40.0/24 --dport 111   -j nixos-fw-accept
-      iptables -A nixos-fw -p tcp -s 10.0.40.0/24 --dport 2049  -j nixos-fw-accept
-      iptables -A nixos-fw -p tcp -s 10.0.40.0/24 --dport 4000  -j nixos-fw-accept
-      iptables -A nixos-fw -p tcp -s 10.0.40.0/24 --dport 4001  -j nixos-fw-accept
-      iptables -A nixos-fw -p tcp -s 10.0.40.0/24 --dport 4002  -j nixos-fw-accept
-      iptables -A nixos-fw -p tcp -s 10.0.40.0/24 --dport 20048 -j nixos-fw-accept
+      iptables -A nixos-fw -p tcp -s 10.0.40.0/21 --dport 111   -j nixos-fw-accept
+      iptables -A nixos-fw -p tcp -s 10.0.40.0/21 --dport 2049  -j nixos-fw-accept
+      iptables -A nixos-fw -p tcp -s 10.0.40.0/21 --dport 4000  -j nixos-fw-accept
+      iptables -A nixos-fw -p tcp -s 10.0.40.0/21 --dport 4001  -j nixos-fw-accept
+      iptables -A nixos-fw -p tcp -s 10.0.40.0/21 --dport 4002  -j nixos-fw-accept
+      iptables -A nixos-fw -p tcp -s 10.0.40.0/21 --dport 20048 -j nixos-fw-accept
       # Same but UDP
-      iptables -A nixos-fw -p udp -s 10.0.40.0/24 --dport 111   -j nixos-fw-accept
-      iptables -A nixos-fw -p udp -s 10.0.40.0/24 --dport 2049  -j nixos-fw-accept
-      iptables -A nixos-fw -p udp -s 10.0.40.0/24 --dport 4000  -j nixos-fw-accept
-      iptables -A nixos-fw -p udp -s 10.0.40.0/24 --dport 4001  -j nixos-fw-accept
-      iptables -A nixos-fw -p udp -s 10.0.40.0/24 --dport 4002  -j nixos-fw-accept
-      iptables -A nixos-fw -p udp -s 10.0.40.0/24 --dport 20048 -j nixos-fw-accept
+      iptables -A nixos-fw -p udp -s 10.0.40.0/21 --dport 111   -j nixos-fw-accept
+      iptables -A nixos-fw -p udp -s 10.0.40.0/21 --dport 2049  -j nixos-fw-accept
+      iptables -A nixos-fw -p udp -s 10.0.40.0/21 --dport 4000  -j nixos-fw-accept
+      iptables -A nixos-fw -p udp -s 10.0.40.0/21 --dport 4001  -j nixos-fw-accept
+      iptables -A nixos-fw -p udp -s 10.0.40.0/21 --dport 4002  -j nixos-fw-accept
+      iptables -A nixos-fw -p udp -s 10.0.40.0/21 --dport 20048 -j nixos-fw-accept
 
       # Accept NFS traffic from wg0
       iptables -A nixos-fw -p tcp -i wg0 -s 10.106.0.0/24 --dport 111   -j nixos-fw-accept

m/bay/configuration.nix

@@ -24,7 +24,7 @@
       address = "10.0.40.40";
       prefixLength = 24;
     } ];
-    interfaces.ibp5s0.ipv4.addresses = [ {
+    interfaces.ibs785.ipv4.addresses = [ {
       address = "10.0.42.40";
       prefixLength = 24;
     } ];
@@ -35,7 +35,7 @@
         # Accept monitoring requests from hut
         iptables -A nixos-fw -p tcp -s hut -m multiport --dport 9283,9002 -j nixos-fw-accept
         # Accept all Ceph traffic from the local network
-        iptables -A nixos-fw -p tcp -s 10.0.40.0/24 -m multiport --dport 3300,6789,6800:7568 -j nixos-fw-accept
+        iptables -A nixos-fw -p tcp -s 10.0.40.0/21 -m multiport --dport 3300,6789,6800:7568 -j nixos-fw-accept
       '';
     };
   };

m/common/base/env.nix

@@ -1,11 +1,36 @@
-{ pkgs, config, ... }:
+{ pkgs, ... }:
 
 {
   environment.systemPackages = with pkgs; [
-    vim wget git htop tmux pciutils tcpdump ripgrep nix-index nixos-option
-    nix-diff ipmitool freeipmi ethtool lm_sensors cmake gnumake file tree
-    ncdu config.boot.kernelPackages.perf ldns pv
-    # From bsckgs overlay
+    cmake
+    ethtool
+    file
+    freeipmi
+    git
+    gnumake
+    home-manager
+    htop
+    ipmitool
+    ldns
+    lm_sensors
+    ncdu
+    nix-diff
+    nix-index
+    nix-output-monitor
+    nixfmt-tree
+    nixos-option
+    pciutils
+    perf
+    pv
+    ripgrep
+    tcpdump
+    tmux
+    tree
+    vim
+    wget
+
+    # From jungle overlay
+    nixgen
     osumb
   ];
 

m/common/base/users.nix

@@ -139,6 +139,7 @@
         openssh.authorizedKeys.keys = [
           "ssh-ed25519 AAAAC3NzaC1lZDI1NTE5AAAAIKGt0ESYxekBiHJQowmKpfdouw0hVm3N7tUMtAaeLejK vincent@varch"
         ];
+        shell = pkgs.zsh;
       };
 
       pmartin1 = {
@@ -193,6 +194,32 @@
           "ssh-ed25519 AAAAC3NzaC1lZDI1NTE5AAAAIOlRX7ZCnqtUJYCxKgWmgSrFCYuA2LHY96rVwqxXPl86 aaguirre@BSC-8488184117"
         ];
       };
+
+      emonteir = {
+        uid = 9656;
+        isNormalUser = true;
+        home = "/home/Computational/emonteir";
+        description = "Erwin Royson Monteiro";
+        group = "Computational";
+        hosts = [ "apex" "fox" ];
+        hashedPassword = "$6$0mU88zd3ZuK5NiJQ$DFWL5RMLH6esQM5UyhBCiiNryw4lDDmvJp7Usz3tmevnsiSJr6u0RsUKAnR/K8GRBFrV1.GocrgNjKjik5GY//";
+        openssh.authorizedKeys.keys = [
+          "ssh-ed25519 AAAAC3NzaC1lZDI1NTE5AAAAIOKZKot/Y3F5Wq9pQIXlCbyvQuVVeWMCsAC96Nd+LTcG erwin@Oreo"
+        ];
+      };
+
+      ssanzmar = {
+        uid = 9657;
+        isNormalUser = true;
+        home = "/home/Computational/ssanzmar";
+        description = "Sergio Sanz Martínez";
+        group = "Computational";
+        hosts = [ "apex" "fox" ];
+        hashedPassword = "$6$HUjNDJeJMmNQ6M64$laXSOZcXg6o4v2r8Jm8Xj9kmqw7veCY32po3TVDPRR4WlyxvOeqwoKr4NjlUlPPpKN55Oot3ZYHi.9iNXsH5E1";
+        openssh.authorizedKeys.keys = [
+          "ssh-ed25519 AAAAC3NzaC1lZDI1NTE5AAAAIIELrsRRHXryrdA2ZBx5XmdGxL4DC5bmJydhBeTWQ0SQ sergio.sanz.martinez@estudiantat.upc.edu"
+        ];
+      };
     };
 
     groups = {

m/common/base/watchdog.nix

@@ -5,5 +5,5 @@
   boot.kernelModules = [ "ipmi_watchdog" ];
 
   # Enable systemd watchdog with 30 s interval
-  systemd.watchdog.runtimeTime = "30s";
+  systemd.settings.Manager.RuntimeWatchdogSec = 30;
 }

m/eudy/kernel/perf.nix

@@ -1,11 +1,6 @@
-{ config, pkgs, lib, ... }:
+{ pkgs, lib, ... }:
 
 {
-  # add the perf tool
-  environment.systemPackages = with pkgs; [
-    config.boot.kernelPackages.perf
-  ];
-
   # allow non-root users to read tracing data from the kernel
   boot.kernel.sysctl."kernel.perf_event_paranoid" = -2;
   boot.kernel.sysctl."kernel.kptr_restrict" = 0;

m/fox/configuration.nix

@@ -93,20 +93,4 @@
     wantedBy = [ "multi-user.target" ];
     serviceConfig.ExecStart = script;
   };
-
-  # Only allow SSH connections from users who have a SLURM allocation
-  # See: https://slurm.schedmd.com/pam_slurm_adopt.html
-  security.pam.services.sshd.rules.account.slurm = {
-    control = "required";
-    enable = true;
-    modulePath = "${pkgs.slurm}/lib/security/pam_slurm_adopt.so";
-    args = [ "log_level=debug5" ];
-    order = 999999; # Make it last one
-  };
-
-  # Disable systemd session (pam_systemd.so) as it will conflict with the
-  # pam_slurm_adopt.so module. What happens is that the shell is first adopted
-  # into the slurmstepd task and then into the systemd session, which is not
-  # what we want, otherwise it will linger even if all jobs are gone.
-  security.pam.services.sshd.startSession = lib.mkForce false;
 }

m/hut/configuration.nix

@@ -45,7 +45,7 @@
       address = "10.0.40.7";
       prefixLength = 24;
     } ];
-    interfaces.ibp5s0.ipv4.addresses = [ {
+    interfaces.ibs785.ipv4.addresses = [ {
       address = "10.0.42.7";
       prefixLength = 24;
     } ];

m/hut/gitlab-runner.nix

@@ -51,6 +51,7 @@
           "/nix/store:/nix/store:ro"
           "/nix/var/nix/db:/nix/var/nix/db:ro"
           "/nix/var/nix/daemon-socket:/nix/var/nix/daemon-socket:ro"
+          "/var/run/postgresql/:/var/run/postgresql/"
         ];
         dockerExtraHosts = [
           # Required to pass the proxy via hut

m/hut/monitoring.nix

@@ -5,7 +5,7 @@
     ../module/slurm-exporter.nix
     ../module/meteocat-exporter.nix
     ../module/upc-qaire-exporter.nix
-    ./gpfs-probe.nix
+    ./ssh-robot-probes.nix
     ../module/nix-daemon-exporter.nix
   ];
 
@@ -111,6 +111,7 @@
             "127.0.0.1:${toString config.services.prometheus.exporters.smartctl.port}"
             "127.0.0.1:9341" # Slurm exporter
             "127.0.0.1:9966" # GPFS custom exporter
+            "127.0.0.1:9967" # SLURM custom exporter
             "127.0.0.1:9999" # Nix-daemon custom exporter
             "127.0.0.1:9929" # Meteocat custom exporter
             "127.0.0.1:9928" # UPC Qaire custom exporter

m/hut/nginx.nix

@@ -4,8 +4,8 @@ let
     name = "jungle-web";
     src = pkgs.fetchgit {
       url = "https://jungle.bsc.es/git/rarias/jungle-website.git";
-      rev = "52abaf4d71652a9ef77a0b098db14ca33bffff4c";
-      hash = "sha256-/ul9GazbOrOkmlvSgDz/+2W+V+ir5725Y7mVLc3rb0M=";
+      rev = "5f18335d14126d2fef134c0cd441771436f7dfa1";
+      hash = "sha256-s9VBF91sQ7hg9+lrwNFPYgoXTTyXaQcAulCiGJgWERo=";
     };
     buildInputs = [ pkgs.hugo ];
     buildPhase = ''

m/hut/postgresql.nix

@@ -8,12 +8,14 @@
       { name = "anavarro"; ensureClauses.superuser = true; }
       { name = "rarias";   ensureClauses.superuser = true; }
       { name = "grafana"; }
+      { name = "gitlab-runner"; }
     ];
     authentication = ''
-      #type  database     DBuser    auth-method
-      local  perftestsdb  rarias    trust
-      local  perftestsdb  anavarro  trust
-      local  perftestsdb  grafana   trust
+      #type  database     DBuser         auth-method
+      local  perftestsdb  rarias         trust
+      local  perftestsdb  anavarro       trust
+      local  perftestsdb  grafana        trust
+      local  perftestsdb  gitlab-runner  trust
     '';
   };
 }

m/hut/sblame-probe.sh

@@ -0,0 +1,8 @@
+#!/bin/sh
+
+cat <<EOF
+HTTP/1.1 200 OK
+Content-Type: text/plain; version=0.0.4; charset=utf-8; escaping=values
+
+EOF
+ssh bsc015557@glogin2.bsc.es "timeout 3 command sblame -E"

m/hut/ssh-robot-probes.nix

@@ -6,6 +6,12 @@ let
       chmod +x $out
     ''
   ;
+  sblame-probe-script = pkgs.runCommand "sblame-probe.sh" { }
+    ''
+      cp ${./sblame-probe.sh} $out;
+      chmod +x $out
+    ''
+  ;
 in
 {
   # Use a new user to handle the SSH keys
@@ -28,4 +34,17 @@ in
       Group = "ssh-robot";
     };
   };
+
+  systemd.services.sblame-probe = {
+    description = "Daemon to report SLURM statistics via SSH";
+    path = [ pkgs.openssh pkgs.netcat ];
+    after = [ "network.target" ];
+    wantedBy = [ "default.target" ];
+    serviceConfig = {
+      Type = "simple";
+      ExecStart = "${pkgs.socat}/bin/socat TCP4-LISTEN:9967,fork EXEC:${sblame-probe-script}";
+      User = "ssh-robot";
+      Group = "ssh-robot";
+    };
+  };
 }

m/lake2/configuration.nix

@@ -46,7 +46,7 @@
       address = "10.0.40.42";
       prefixLength = 24;
     } ];
-    interfaces.ibp5s0.ipv4.addresses = [ {
+    interfaces.ibs785.ipv4.addresses = [ {
       address = "10.0.42.42";
       prefixLength = 24;
     } ];
@@ -57,7 +57,7 @@
         # Accept monitoring requests from hut
         iptables -A nixos-fw -p tcp -s hut --dport 9002 -j nixos-fw-accept
         # Accept all Ceph traffic from the local network
-        iptables -A nixos-fw -p tcp -s 10.0.40.0/24 -m multiport --dport 3300,6789,6800:7568 -j nixos-fw-accept
+        iptables -A nixos-fw -p tcp -s 10.0.40.0/21 -m multiport --dport 3300,6789,6800:7568 -j nixos-fw-accept
       '';
     };
   };

m/module/debuginfod.nix

@@ -1,3 +1,10 @@
 {
-  services.nixseparatedebuginfod.enable = true;
+  services.nixseparatedebuginfod2 = {
+    enable = true;
+    substituters = [
+      "local:"
+      "https://cache.nixos.org"
+      "http://hut/cache"
+    ];
+  };
 }

m/module/slurm-client.nix

@@ -1,4 +1,4 @@
-{ lib, ... }:
+{ lib, pkgs, ... }:
 
 {
   imports = [
@@ -21,4 +21,20 @@
   };
 
   services.slurm.client.enable = true;
+
+  # Only allow SSH connections from users who have a SLURM allocation
+  # See: https://slurm.schedmd.com/pam_slurm_adopt.html
+  security.pam.services.sshd.rules.account.slurm = {
+    control = "required";
+    enable = true;
+    modulePath = "${pkgs.slurm}/lib/security/pam_slurm_adopt.so";
+    args = [ "log_level=debug5" ];
+    order = 999999; # Make it last one
+  };
+
+  # Disable systemd session (pam_systemd.so) as it will conflict with the
+  # pam_slurm_adopt.so module. What happens is that the shell is first adopted
+  # into the slurmstepd task and then into the systemd session, which is not
+  # what we want, otherwise it will linger even if all jobs are gone.
+  security.pam.services.sshd.startSession = lib.mkForce false;
 }

m/module/slurm-common.nix

@@ -1,31 +1,6 @@
 { config, pkgs, ... }:
 
-let
-  suspendProgram = pkgs.writeShellScript "suspend.sh" ''
-    exec 1>>/var/log/power_save.log 2>>/var/log/power_save.log
-    set -x
-    export "PATH=/run/current-system/sw/bin:$PATH"
-    echo "$(date) Suspend invoked $0 $*" >> /var/log/power_save.log
-    hosts=$(scontrol show hostnames $1)
-    for host in $hosts; do
-      echo Shutting down host: $host
-      ipmitool -I lanplus -H ''${host}-ipmi -P "" -U "" chassis power off
-    done
-  '';
-
-  resumeProgram = pkgs.writeShellScript "resume.sh" ''
-    exec 1>>/var/log/power_save.log 2>>/var/log/power_save.log
-    set -x
-    export "PATH=/run/current-system/sw/bin:$PATH"
-    echo "$(date) Suspend invoked $0 $*" >> /var/log/power_save.log
-    hosts=$(scontrol show hostnames $1)
-    for host in $hosts; do
-      echo Starting host: $host
-      ipmitool -I lanplus -H ''${host}-ipmi -P "" -U "" chassis power on
-    done
-  '';
-
-in {
+{
   services.slurm = {
     controlMachine = "apex";
     clusterName = "jungle";
@@ -59,16 +34,6 @@ in {
       # the resources. Use the task/cgroup plugin to enable process containment.
       TaskPlugin=task/affinity,task/cgroup
 
-      # Power off unused nodes until they are requested
-      SuspendProgram=${suspendProgram}
-      SuspendTimeout=60
-      ResumeProgram=${resumeProgram}
-      ResumeTimeout=300
-      SuspendExcNodes=fox
-
-      # Turn the nodes off after 1 hour of inactivity
-      SuspendTime=3600
-
       # Reduce port range so we can allow only this range in the firewall
       SrunPortRange=60000-61000
 

m/module/tc1-board.nix

@@ -0,0 +1,27 @@
+{ lib, pkgs, ... }:
+
+{
+  # Allow user access to FTDI USB device
+  services.udev.packages = lib.singleton (pkgs.writeTextFile {
+    # Needs to be < 73
+    name = "60-ftdi-tc1.rules";
+    text = ''
+      # Bus 003 Device 003: ID 0403:6011 Future Technology Devices International, Ltd FT4232H Quad HS USB-UART/FIFO IC
+      # Use := to make sure it doesn't get changed later
+      SUBSYSTEMS=="usb", ATTRS{idVendor}=="0403", ATTRS{idProduct}=="6011", MODE:="0666"
+    '';
+    destination = "/etc/udev/rules.d/60-ftdi-tc1.rules";
+  });
+
+  # Allow access to USB for docker in GitLab runner
+  services.gitlab-runner = {
+    services.gitlab-bsc-docker = {
+      registrationFlags = [
+        # We need raw access to the USB port to reboot the board
+        "--docker-devices /dev/bus/usb/003/003"
+        # And TTY access for the serial port
+        "--docker-devices /dev/ttyUSB2"
+      ];
+    };
+  };
+}

m/owl1/configuration.nix

@@ -20,7 +20,7 @@
       address = "10.0.40.1";
       prefixLength = 24;
     } ];
-    interfaces.ibp5s0.ipv4.addresses = [ {
+    interfaces.ibs785.ipv4.addresses = [ {
       address = "10.0.42.1";
       prefixLength = 24;
     } ];

m/owl2/configuration.nix

@@ -21,7 +21,7 @@
       prefixLength = 24;
     } ];
     # Watch out! The OmniPath device is not in the same place here:
-    interfaces.ibp129s0.ipv4.addresses = [ {
+    interfaces.ibs801.ipv4.addresses = [ {
       address = "10.0.42.2";
       prefixLength = 24;
     } ];

m/tent/configuration.nix

@@ -16,6 +16,8 @@
     ../module/p.nix
     ../module/vpn-dac.nix
     ../module/hut-substituter.nix
+    ../module/tc1-board.nix
+    ../module/ceph.nix
   ];
 
   # Select the this using the ID to avoid mismatches
@@ -63,6 +65,13 @@
     fsType = "ext4";
   };
 
+  # Mount the NFS home
+  fileSystems."/nfs/home" = {
+    device = "10.106.0.30:/home";
+    fsType = "nfs";
+    options = [ "nfsvers=3" "rsize=1024" "wsize=1024" "cto" "nofail" ];
+  };
+
   # Make a /vault/$USER directory for each user.
   systemd.services.create-vault-dirs = let
     # Take only normal users in tent

m/tent/gitea.nix

@@ -1,4 +1,7 @@
 { config, lib, ... }:
+let
+  cfg = config.services.gitea;
+in
 {
   services.gitea = {
     enable = true;
@@ -26,5 +29,54 @@
         SENDMAIL_ARGS = "--";
       };
     };
+
+    dump = {
+      enable = false; # Do not enable NixOS module, use our custom systemd script below
+      backupDir = "/vault/backup/gitea";
+    };
   };
+
+  systemd.services.gitea-backup = let
+    exe = lib.getExe cfg.package;
+  in {
+    description = "Gitea daily backup";
+    after = [ "gitea.service" ];
+    path = [ cfg.package ];
+
+    environment = {
+      USER = cfg.user;
+      HOME = cfg.stateDir;
+      GITEA_WORK_DIR = cfg.stateDir;
+      GITEA_CUSTOM = cfg.customDir;
+    };
+
+    serviceConfig = {
+      Type = "oneshot";
+      User = cfg.user;
+      WorkingDirectory = cfg.dump.backupDir;
+    };
+
+    script = ''
+      name="gitea-dump-$(date +%a).${cfg.dump.type}"
+      ${exe} dump --type ${cfg.dump.type} --file - >"$name.tmp"
+      mv "$name.tmp" "$name"
+      cp "$name" "/ceph/backup/gitea/$name"
+    '';
+  };
+
+  # Create also the /ceph directories if needed
+  systemd.tmpfiles.rules = [
+    "d /ceph/backup/gitea/ 0750 ${cfg.user} ${cfg.group} - -"
+    "z /ceph/backup/gitea/ 0750 ${cfg.user} ${cfg.group} - -"
+  ];
+
+  systemd.timers.gitea-backup = {
+    description = "Update timer for gitea-backup";
+    partOf = [ "gitea-backup.service" ];
+    wantedBy = [ "timers.target" ];
+    timerConfig.OnCalendar = cfg.dump.interval;
+  };
+
+  # Allow gitea user to send mail
+  users.users.gitea.extraGroups = [ "mail-robot" ];
 }

m/tent/gitlab-runner.nix

@@ -43,6 +43,7 @@
         registrationFlags = [
           # Increase build log length to 64 MiB
           "--output-limit 65536"
+          "--docker-network-mode host"
         ];
         preBuildScript = pkgs.writeScript "setup-container" ''
           mkdir -p -m 0755 /nix/var/log/nix/drvs

m/tent/nginx.nix

@@ -4,8 +4,8 @@ let
     name = "jungle-web";
     src = pkgs.fetchgit {
       url = "https://jungle.bsc.es/git/rarias/jungle-website.git";
-      rev = "52abaf4d71652a9ef77a0b098db14ca33bffff4c";
-      hash = "sha256-/ul9GazbOrOkmlvSgDz/+2W+V+ir5725Y7mVLc3rb0M=";
+      rev = "5f18335d14126d2fef134c0cd441771436f7dfa1";
+      hash = "sha256-s9VBF91sQ7hg9+lrwNFPYgoXTTyXaQcAulCiGJgWERo=";
     };
     buildInputs = [ pkgs.hugo ];
     buildPhase = ''

m/weasel/configuration.nix

@@ -25,7 +25,7 @@
       address = "10.0.40.6";
       prefixLength = 24;
     } ];
-    interfaces.ibp5s0.ipv4.addresses = [ {
+    interfaces.ibs785.ipv4.addresses = [ {
       address = "10.0.42.6";
       prefixLength = 24;
     } ];

overlay.nix

@@ -19,11 +19,7 @@ let
     cudainfo = prev.callPackage ./pkgs/cudainfo/default.nix { };
     #extrae = callPackage ./pkgs/extrae/default.nix { }; # Broken and outdated
     gpi-2 = callPackage ./pkgs/gpi-2/default.nix { };
-    intel-apt = callPackage ./pkgs/intel-oneapi/packages.nix { };
     intelPackages_2023 = callPackage ./pkgs/intel-oneapi/2023.nix { };
-    intelPackages_2024 = final.intel-apt.hpckit_2024;
-    intelPackages_2025 = final.intel-apt.hpckit_2025;
-    intelPackages = final.intelPackages_2025;
     jemallocNanos6 = callPackage ./pkgs/nanos6/jemalloc.nix { };
     # FIXME: Extend this to all linuxPackages variants. Open problem, see:
     # https://discourse.nixos.org/t/whats-the-right-way-to-make-a-custom-kernel-module-available/4636
@@ -34,19 +30,19 @@ let
       amd-uprof-driver = _prev.callPackage ./pkgs/amd-uprof/driver.nix { };
     });
     lmbench = callPackage ./pkgs/lmbench/default.nix { };
-    mcxx = callPackage ./pkgs/mcxx/default.nix { };
+    # Broken and unmantained
+    # mcxx = callPackage ./pkgs/mcxx/default.nix { };
     meteocat-exporter = prev.callPackage ./pkgs/meteocat-exporter/default.nix { };
     mpi = final.mpich; # Set MPICH as default
     mpich = callPackage ./pkgs/mpich/default.nix { mpich = prev.mpich; };
     nanos6 = callPackage ./pkgs/nanos6/default.nix { };
     nanos6Debug = final.nanos6.override { enableDebug = true; };
     nixtools = callPackage ./pkgs/nixtools/default.nix { };
-    # Broken because of pkgsStatic.libcap
-    # See: https://github.com/NixOS/nixpkgs/pull/268791
-    #nix-wrap = callPackage ./pkgs/nix-wrap/default.nix { };
+    nixgen = callPackage ./pkgs/nixgen/default.nix { };
+    nix-portable = callPackage ./pkgs/nix-portable/default.nix { };
+    nix-wrap = callPackage ./pkgs/nix-wrap/default.nix { };
     nodes = callPackage ./pkgs/nodes/default.nix { };
     nosv = callPackage ./pkgs/nosv/default.nix { };
-    oneMath = callPackage ./pkgs/onemath/default.nix { };
     openmp = callPackage ./pkgs/llvm-ompss2/openmp.nix { monorepoSrc = final.clangOmpss2Unwrapped.src; version = final.clangOmpss2Unwrapped.version; };
     openmpv = final.openmp.override { enableNosv = true; enableOvni = true; };
     osumb = callPackage ./pkgs/osu/default.nix { };
@@ -64,12 +60,8 @@ let
     stdenvClangOmpss2NodesOmpv = final.stdenv.override { cc = final.clangOmpss2NodesOmpv; allowedRequisites = null; };
     tagaspi = callPackage ./pkgs/tagaspi/default.nix { };
     tampi = callPackage ./pkgs/tampi/default.nix { };
-    tasycl = callPackage ./pkgs/tasycl/default.nix { };
-    tasycl-acpp = callPackage ./pkgs/tasycl/default.nix { useIntel = false; };
     upc-qaire-exporter = prev.callPackage ./pkgs/upc-qaire-exporter/default.nix { };
     wxparaver = callPackage ./pkgs/paraver/default.nix { };
-
-    gromacs = callPackage ./pkgs/gromacs/default.nix { enableSYCL = true; };
   };
 
   tests = rec {
@@ -77,8 +69,6 @@ let
     #sigsegv = callPackage ./test/reproducers/sigsegv.nix { };
     hello-c = callPackage ./test/compilers/hello-c.nix { };
     hello-cpp = callPackage ./test/compilers/hello-cpp.nix { };
-    hello-sycl = callPackage ./test/compilers/hello-sycl.nix { };
-    hello-syclompss = callPackage ./test/compilers/icpx-ompss2.nix { };
     lto = callPackage ./test/compilers/lto.nix { };
     asan = callPackage ./test/compilers/asan.nix { };
     intel2023-icx-c   = hello-c.override   { stdenv = final.intelPackages_2023.stdenv; };
@@ -88,13 +78,6 @@ let
     intel2023-ifort   = callPackage ./test/compilers/hello-f.nix {
       stdenv = final.intelPackages_2023.stdenv-ifort;
     };
-    intel2024-icx-c   = hello-c.override   { stdenv = final.intelPackages_2024.stdenv; };
-    intel2025-icx-c   = hello-c.override   { stdenv = final.intelPackages_2025.stdenv; };
-    intel2024-icx-cpp = hello-cpp.override { stdenv = final.intelPackages_2024.stdenv; };
-    intel2025-icx-cpp = hello-cpp.override { stdenv = final.intelPackages_2025.stdenv; };
-    # intel2023-sycl    = hello-sycl.override { intelPackages = final.intelPackages_2023; }; # broken
-    intel2024-sycl    = hello-sycl.override { intelPackages = final.intelPackages_2024; };
-    intel2025-sycl    = hello-sycl.override { intelPackages = final.intelPackages_2025; };
     clangOmpss2-lto   = lto.override       { stdenv = final.stdenvClangOmpss2Nanos6; };
     clangOmpss2-asan  = asan.override      { stdenv = final.stdenvClangOmpss2Nanos6; };
     clangOmpss2-task  = callPackage ./test/compilers/ompss2.nix {
@@ -118,14 +101,16 @@ let
   pkgsTopLevel = filterAttrs (_: isDerivation) bscPkgs;
 
   # Native build in that platform doesn't imply cross build works
-  canCrossCompile = platform: pkg:
+  canCrossCompile = platform: default: pkg:
     (isDerivation pkg) &&
-    # Must be defined explicitly
-    (pkg.meta.cross or false) &&
-    (meta.availableOn platform pkg);
+    # If meta.cross is undefined, use default
+    (pkg.meta.cross or default) &&
+    (meta.availableOn final.pkgsCross.${platform}.stdenv.hostPlatform pkg);
 
   # For now only RISC-V
-  crossSet = { riscv64 = final.pkgsCross.riscv64.bsc.pkgsTopLevel; };
+  crossSet = genAttrs [ "riscv64" ] (platform:
+    filterAttrs (_: canCrossCompile platform true)
+      final.pkgsCross.${platform}.bsc.pkgsTopLevel);
 
   buildList = name: paths:
     final.runCommandLocal name { } ''
@@ -145,7 +130,7 @@ let
   # For now only RISC-V
   crossList = buildList "ci-cross"
     (filter
-      (canCrossCompile final.pkgsCross.riscv64.stdenv.hostPlatform)
+      (canCrossCompile "riscv64" false) # opt-in (pkgs with: meta.cross = true)
         (builtins.attrValues crossSet.riscv64));
 
 in bscPkgs // {

pkgs/amd-uprof/default.nix

@@ -1,8 +1,6 @@
 { stdenv
 , lib
-, curl
-, cacert
-, runCommandLocal
+, fetchurl
 , autoPatchelfHook
 , elfutils
 , glib
@@ -26,26 +24,22 @@ let
   tarball = "AMDuProf_Linux_x64_${version}.tar.bz2";
 
   # NOTE: Remember to update the radare2 patch below if AMDuProfPcm changes.
-  uprofSrc = runCommandLocal tarball {
-    nativeBuildInputs = [ curl ];
-    outputHash = "sha256-j9gxcBcIg6Zhc5FglUXf/VV9bKSo+PAKeootbN7ggYk=";
-    SSL_CERT_FILE="${cacert}/etc/ssl/certs/ca-bundle.crt";
-  } ''
-    curl \
-    -o $out \
-    'https://download.amd.com/developer/eula/uprof/uprof-5-1/${tarball}' \
-    -H 'User-Agent: Mozilla/5.0 (X11; Linux x86_64; rv:139.0) Gecko/20100101 Firefox/139.0' \
-    -H 'Accept: text/html,application/xhtml+xml,application/xml;q=0.9,*/*;q=0.8' \
-    -H 'Accept-Language: en-US,en;q=0.5' \
-    -H 'Accept-Encoding: gzip, deflate, br, zstd' \
-    -H 'Referer: https://www.amd.com/' 2>&1 | tr '\r' '\n'
-  '';
+  src = fetchurl {
+    url = "https://download.amd.com/developer/eula/uprof/uprof-5-1/${tarball}";
+    sha256 = "sha256-j9gxcBcIg6Zhc5FglUXf/VV9bKSo+PAKeootbN7ggYk=";
+    curlOptsList = [
+      "-H" "User-Agent: Mozilla/5.0 (X11; Linux x86_64; rv:139.0) Gecko/20100101 Firefox/139.0"
+      "-H" "'Accept: text/html,application/xhtml+xml,application/xml;q=0.9,*/*;q=0.8'"
+      "-H" "Accept-Language: en-US,en;q=0.5"
+      "-H" "Accept-Encoding: gzip, deflate, br, zstd"
+      "-H" "Referer: https://www.amd.com/"
+    ];
+  };
 
 in
   stdenv.mkDerivation {
     pname = "AMD-uProf";
-    inherit version;
-    src = uprofSrc;
+    inherit src version;
     dontStrip = true;
     phases = [ "installPhase" "fixupPhase" ];
     nativeBuildInputs = [ autoPatchelfHook radare2 ];
@@ -90,7 +84,7 @@ in
     meta = {
       description = "Performance analysis tool-suite for x86 based applications";
       homepage = "https://www.amd.com/es/developer/uprof.html";
-      platforms = lib.platforms.linux;
+      platforms = [ "x86_64-linux" ];
       license = lib.licenses.unfree;
       maintainers = with lib.maintainers.bsc; [ rarias varcila ];
     };

pkgs/amd-uprof/driver.nix

@@ -19,7 +19,7 @@ in stdenv.mkDerivation {
   '';
   hardeningDisable = [ "pic" "format" ];
   nativeBuildInputs = kernel.moduleBuildDependencies;
-  patches = [ ./makefile.patch ./hrtimer.patch ];
+  patches = [ ./makefile.patch ./hrtimer.patch ./remove-wr-rdmsrq.patch ];
   makeFlags = [
     "KERNEL_VERSION=${kernel.modDirVersion}"
     "KERNEL_DIR=${kernel.dev}/lib/modules/${kernel.modDirVersion}/build"

pkgs/amd-uprof/remove-wr-rdmsrq.patch

@@ -0,0 +1,20 @@
+diff --git a/inc/PwrProfAsm.h b/inc/PwrProfAsm.h
+index d77770a..c93a0e9 100644
+--- a/inc/PwrProfAsm.h
++++ b/inc/PwrProfAsm.h
+@@ -347,6 +347,7 @@
+ 
+ #endif
+ 
++/*
+ #define rdmsrq(msr,val1,val2,val3,val4) ({ \
+         __asm__ __volatile__( \
+                               "rdmsr\n" \
+@@ -362,6 +363,7 @@
+                               :"c"(msr), "a"(val1), "d"(val2), "S"(val3), "D"(val4) \
+                             ); \
+     })
++*/
+ 
+ #define rdmsrpw(msr,val1,val2,val3,val4) ({ \
+         __asm__ __volatile__( \

pkgs/cudainfo/default.nix

@@ -1,5 +1,6 @@
 {
   stdenv
+, lib
 , cudatoolkit
 , cudaPackages
 , autoAddDriverRunpath
@@ -11,7 +12,7 @@ stdenv.mkDerivation (finalAttrs: {
   src = ./.;
   buildInputs = [
     cudatoolkit # Required for nvcc
-    cudaPackages.cuda_cudart.static # Required for -lcudart_static
+    (lib.getOutput "static" cudaPackages.cuda_cudart) # Required for -lcudart_static
     autoAddDriverRunpath
   ];
   installPhase = ''
@@ -40,4 +41,9 @@ stdenv.mkDerivation (finalAttrs: {
     '';
     installPhase = "touch $out";
   };
+
+  meta = {
+    platforms = [ "x86_64-linux" ];
+    maintainers = with lib.maintainers.bsc; [ rarias ];
+  };
 })

pkgs/gpi-2/default.nix

@@ -9,7 +9,6 @@
 , automake
 , libtool
 , mpi
-, rsync
 , gfortran
 }:
 
@@ -44,13 +43,24 @@ stdenv.mkDerivation rec {
 
   configureFlags = [
     "--with-infiniband=${rdma-core-all}"
-    "--with-mpi=${mpiAll}"
+    "--with-mpi=yes" # fixes mpi detection when cross-compiling
     "--with-slurm"
     "CFLAGS=-fPIC"
     "CXXFLAGS=-fPIC"
   ];
 
-  buildInputs = [ slurm mpiAll rdma-core-all autoconf automake libtool rsync gfortran ];
+  nativeBuildInputs = [
+    autoconf
+    automake
+    gfortran
+    libtool
+  ];
+
+  buildInputs = [
+    slurm
+    mpiAll
+    rdma-core-all
+  ];
 
   hardeningDisable = [ "all" ];
 
@@ -60,5 +70,6 @@ stdenv.mkDerivation rec {
     maintainers = with lib.maintainers.bsc; [ rarias ];
     platforms = lib.platforms.linux;
     license = lib.licenses.gpl3Plus;
+    cross = false; # infiniband detection does not work
   };
 }

pkgs/gromacs/default.nix

@@ -1,191 +0,0 @@
-{
-  lib,
-  stdenv,
-  fetchurl,
-  cmake,
-  hwloc,
-  fftw,
-  perl,
-  blas,
-  lapack,
-  llvmPackages,
-  intelPackages ? null,
-  mpi,
-  cudaPackages,
-  plumed,
-  singlePrec ? true,
-  config,
-  enableSYCL ? false,
-  enableCuda ? config.cudaSupport,
-  enableMpi ? false,
-  enablePlumed ? false,
-  cpuAcceleration ? null,
-}:
-
-# CUDA is only implemented for single precission
-assert enableCuda -> singlePrec;
-
-assert !(enableSYCL && enableCuda);
-
-assert enableSYCL -> intelPackages != null;
-
-let
-  inherit (cudaPackages.flags) cmakeCudaArchitecturesString;
-
-  # Select reasonable defaults for all major platforms
-  # The possible values are defined in CMakeLists.txt:
-  # AUTO None SSE2 SSE4.1 AVX_128_FMA AVX_256 AVX2_256
-  # AVX2_128 AVX_512 AVX_512_KNL MIC ARM_NEON ARM_NEON_ASIMD
-  SIMD =
-    x:
-    if (cpuAcceleration != null) then
-      x
-    else if stdenv.hostPlatform.system == "i686-linux" then
-      "SSE2"
-    else if stdenv.hostPlatform.system == "x86_64-linux" then
-      "SSE4.1"
-    else if stdenv.hostPlatform.system == "x86_64-darwin" then
-      "SSE4.1"
-    else if stdenv.hostPlatform.system == "aarch64-linux" then
-      "ARM_NEON_ASIMD"
-    else
-      "None";
-
-  source =
-    if enablePlumed then
-      {
-        version = "2024.2";
-        hash = "sha256-gCp+M18uiVdw9XsVnk7DaOuw/yzm2sz3BsboAlw2hSs=";
-      }
-    else
-      {
-        version = "2025.3";
-        hash = "sha256-i9/KAmjz8Qp8o8BuWbYvc+oCQgxnIRwP85EvMteDPGU=";
-      };
-
-  stdenv' =
-    if enableSYCL then intelPackages.stdenv else stdenv;
-
-in
-stdenv'.mkDerivation rec {
-  pname = "gromacs";
-  version = source.version;
-
-  src = fetchurl {
-    url = "ftp://ftp.gromacs.org/pub/gromacs/gromacs-${version}.tar.gz";
-    inherit (source) hash;
-  };
-
-  patches = [ (if enablePlumed then ./pkgconfig-2024.patch else ./pkgconfig-2025.patch) ];
-
-  postPatch = lib.optionalString enablePlumed ''
-    plumed patch -p -e gromacs-${source.version}
-  '';
-
-  outputs = [
-    "out"
-    "dev"
-    "man"
-  ];
-
-  nativeBuildInputs = [
-    cmake
-  ]
-  ++ lib.optional enablePlumed plumed
-  ++ lib.optionals enableCuda [ cudaPackages.cuda_nvcc ];
-
-  env.MKLROOT = intelPackages.mkl;
-
-  buildInputs = [
-    fftw
-    perl
-    hwloc
-    blas
-    lapack
-  ]
-  ++ lib.optional enableMpi mpi
-  ++ lib.optionals enableCuda [
-    cudaPackages.cuda_cccl
-    cudaPackages.cuda_cudart
-    cudaPackages.libcufft
-    cudaPackages.cuda_profiler_api
-  ]
-  ++ lib.optional stdenv.hostPlatform.isDarwin llvmPackages.openmp;
-
-  propagatedBuildInputs = lib.optional enableMpi mpi;
-  propagatedUserEnvPkgs = lib.optional enableMpi mpi;
-
-  cmakeFlags = [
-    (lib.cmakeBool "GMX_HWLOC" true)
-    "-DGMX_SIMD:STRING=${SIMD cpuAcceleration}"
-    "-DGMX_OPENMP:BOOL=TRUE"
-    "-DBUILD_SHARED_LIBS=ON"
-  ]
-  ++ (
-    if singlePrec then
-      [
-        "-DGMX_DOUBLE=OFF"
-      ]
-    else
-      [
-        "-DGMX_DOUBLE=ON"
-        "-DGMX_DEFAULT_SUFFIX=OFF"
-      ]
-  )
-  ++ (
-    if enableMpi then
-      [
-        "-DGMX_MPI:BOOL=TRUE"
-        "-DGMX_THREAD_MPI:BOOL=FALSE"
-      ]
-    else
-      [
-        "-DGMX_MPI:BOOL=FALSE"
-      ]
-  )
-  ++ (lib.optionals enableSYCL [
-    "-DGMX_GPU=SYCL"
-    "-DGMX_OPENMP=OFF" # TODO: enable OpenMP with SYCL?
-  ])
-  ++ lib.optionals enableCuda [
-    "-DGMX_GPU=CUDA"
-    (lib.cmakeFeature "CMAKE_CUDA_ARCHITECTURES" cmakeCudaArchitecturesString)
-
-    # Gromacs seems to ignore and override the normal variables, so we add this ad hoc:
-    (lib.cmakeFeature "GMX_CUDA_TARGET_COMPUTE" cmakeCudaArchitecturesString)
-  ];
-
-  postInstall = ''
-    moveToOutput share/cmake $dev
-  '';
-
-  meta = with lib; {
-    homepage = "https://www.gromacs.org";
-    license = licenses.lgpl21Plus;
-    description = "Molecular dynamics software package";
-    longDescription = ''
-      GROMACS is a versatile package to perform molecular dynamics,
-      i.e. simulate the Newtonian equations of motion for systems
-      with hundreds to millions of particles.
-
-      It is primarily designed for biochemical molecules like
-      proteins, lipids and nucleic acids that have a lot of
-      complicated bonded interactions, but since GROMACS is
-      extremely fast at calculating the nonbonded interactions (that
-      usually dominate simulations) many groups are also using it
-      for research on non-biological systems, e.g. polymers.
-
-      GROMACS supports all the usual algorithms you expect from a
-      modern molecular dynamics implementation, (check the online
-      reference or manual for details), but there are also quite a
-      few features that make it stand out from the competition.
-
-      See: https://www.gromacs.org/about.html for details.
-    '';
-    platforms = platforms.unix;
-    maintainers = with maintainers; [
-      sheepforce
-      markuskowa
-    ];
-  };
-}

pkgs/gromacs/pkgconfig-2024.patch

@@ -1,24 +0,0 @@
-diff --git a/src/external/muparser/muparser.pc.in b/src/external/muparser/muparser.pc.in
-index 646787cb53..9b97ad57f7 100644
---- a/src/external/muparser/muparser.pc.in
-+++ b/src/external/muparser/muparser.pc.in
-@@ -1,7 +1,5 @@
--prefix=@CMAKE_INSTALL_PREFIX@
--exec_prefix=${prefix}
--libdir=${prefix}/@CMAKE_INSTALL_LIBDIR@
--includedir=${prefix}/@CMAKE_INSTALL_INCLUDEDIR@
-+libdir=@CMAKE_INSTALL_FULL_LIBDIR@
-+includedir=@CMAKE_INSTALL_FULL_INCLUDEDIR@
- 
- Name: @PACKAGE_NAME@
- Description: Mathematical expressions parser library
-diff --git a/src/gromacs/libgromacs.pc.cmakein b/src/gromacs/libgromacs.pc.cmakein
-index ec1ed6684e..ca1105474a 100644
---- a/src/gromacs/libgromacs.pc.cmakein
-+++ b/src/gromacs/libgromacs.pc.cmakein
-@@ -1,4 +1,4 @@
--libdir=@CMAKE_INSTALL_PREFIX@/@CMAKE_INSTALL_LIBDIR@
-+libdir=@CMAKE_INSTALL_FULL_LIBDIR@
- 
- Name: libgromacs@GMX_LIBS_SUFFIX@
- Description: Gromacs library

pkgs/gromacs/pkgconfig-2025.patch

@@ -1,36 +0,0 @@
-diff --git a/src/external/muparser/muparser.pc.in b/src/external/muparser/muparser.pc.in
-index 646787cb53..d26e84de8f 100644
---- a/src/external/muparser/muparser.pc.in
-+++ b/src/external/muparser/muparser.pc.in
-@@ -1,11 +1,9 @@
--prefix=@CMAKE_INSTALL_PREFIX@
--exec_prefix=${prefix}
--libdir=${prefix}/@CMAKE_INSTALL_LIBDIR@
--includedir=${prefix}/@CMAKE_INSTALL_INCLUDEDIR@
--
--Name: @PACKAGE_NAME@
--Description: Mathematical expressions parser library
--Version: @MUPARSER_VERSION@
--Requires:
--Libs: -L${libdir} -lmuparser
--Cflags: -I${includedir} @PKG_CONFIG_FLAGS@
-+libdir=@CMAKE_INSTALL_FULL_LIBDIR@
-+includedir=@CMAKE_INSTALL_FULL_INCLUDEDIR@
-+
-+Name: @PACKAGE_NAME@
-+Description: Mathematical expressions parser library
-+Version: @MUPARSER_VERSION@
-+Requires:
-+Libs: -L${libdir} -lmuparser
-+Cflags: -I${includedir} @PKG_CONFIG_FLAGS@
-diff --git a/src/gromacs/libgromacs.pc.cmakein b/src/gromacs/libgromacs.pc.cmakein
-index af9b5a6dc0..5f58d549bf 100644
---- a/src/gromacs/libgromacs.pc.cmakein
-+++ b/src/gromacs/libgromacs.pc.cmakein
-@@ -1,5 +1,4 @@
--prefix=@CMAKE_INSTALL_PREFIX@
--libdir=${prefix}/@CMAKE_INSTALL_LIBDIR@
-+libdir=@CMAKE_INSTALL_FULL_LIBDIR@
-
- Name: libgromacs@GMX_LIBS_SUFFIX@
- Description: Gromacs library

pkgs/intel-oneapi/2023.nix

@@ -10,7 +10,7 @@
 , zlib
 , autoPatchelfHook
 , libfabric
-, gcc13
+, gcc
 , wrapCCWith
 }:
 
@@ -33,8 +33,6 @@ let
     maintainers = with lib.maintainers.bsc; [ abonerib ];
   };
 
-  gcc = gcc13;
-
   v = {
     hpckit   = "2023.1.0";
     compiler = "2023.1.0";
@@ -42,19 +40,45 @@ let
     mpi      = "2021.9.0";
   };
 
-  findMatch = name:
-  let
-    aptPackages = builtins.fromJSON (builtins.readFile ./packages.json);
-    matches = lib.filter (x: name == x.pname) aptPackages;
-    n = lib.length matches;
-    match = builtins.traceVerbose (name + " -- ${builtins.toString n}") (builtins.head matches);
+  aptPackageIndex = stdenv.mkDerivation {
+    name = "intel-oneapi-packages";
+    srcs = [
+      # Run update.sh to update the package lists
+      ./amd64-packages ./all-packages
+    ];
+    phases = [ "installPhase" ];
+    installPhase = ''
+      awk -F': ' '\
+        BEGIN   { print "[ {" } \
+        NR>1 && /^Package: / { print "} {"; } \
+        /: /    { printf "%s = \"%s\";\n", $1, $2 } \
+        END     { print "} ]" }' $srcs > $out
+    '';
+  };
 
-    apthost = "https://apt.repos.intel.com/oneapi/";
+  aptPackages = import aptPackageIndex;
+
+  apthost = "https://apt.repos.intel.com/oneapi/";
+
+  getSum = pkgList: name:
+  let
+    matches = lib.filter (x: name == x.Package) pkgList;
+    #n = lib.length matches;
+    #match = builtins.trace (name + " -- ${builtins.toString n}") (lib.elemAt matches 0);
+    match = lib.elemAt matches 0;
   in
-    {
-      url = apthost + match.filename;
-      sha256 = match.sha256;
-    };
+    match.SHA256;
+
+  getUrl = pkgList: name:
+  let
+    matches = lib.filter (x: name == x.Package) pkgList;
+    #match = assert lib.length matches == 1; lib.elemAt matches 0;
+    n = lib.length matches;
+    match =
+      #builtins.trace (name + " -- n=${builtins.toString n}")
+      (lib.elemAt matches 0);
+  in
+    apthost + match.Filename;
 
   uncompressDebs = debs: name: stdenv.mkDerivation {
     name = name;
@@ -74,7 +98,10 @@ let
 
   joinDebs = name: names:
   let
-    debs = builtins.map (x: builtins.fetchurl (findMatch x)) names;
+    urls = builtins.map (x: getUrl aptPackages x) names;
+    sums = builtins.map (x: getSum aptPackages x) names;
+    getsrc = url: sha256: builtins.fetchurl { inherit url sha256; };
+    debs = lib.zipListsWith getsrc urls sums;
   in
     uncompressDebs debs "${name}-source";
 
@@ -443,7 +470,7 @@ let
     '';
   };
 
-  ifort-wrapper = wrapIntel {
+  ifort-wrapper = wrapIntel rec {
     cc = intel-compiler-fortran;
     mygcc = gcc;
     extraBuild = ''

pkgs/intel-oneapi/packages.nix

@@ -1,205 +0,0 @@
-{ lib
-, stdenv
-, callPackage
-, dpkg
-, fetchurl
-, recurseIntoAttrs
-
-, sqlite
-, elfutils
-}:
-
-let
-  inherit (builtins)
-    elem attrNames attrValues concatMap filter fromJSON getAttr groupBy head isNull listToAttrs map mapAttrs readFile replaceStrings splitVersion ;
-  inherit (lib)
-    converge findFirst groupBy' hasPrefix optional pipe take toInt toList versionAtLeast versionOlder ;
-
-  aptData = fromJSON (readFile ./packages.json);
-
-  # Compare versions in debian control file syntax
-  # See: https://www.debian.org/doc/debian-policy/ch-relationships.html#syntax-of-relationship-fields
-  #
-  # NOTE: this is not a proper version comparison
-  #
-  # A proper version solver, should aggregate dependencies with the same name
-  # and compute the constraint (e.g. a (>= 2) a (<< 5) -> 2 <= a << 5)
-  #
-  # But in the intel repo, there are no such "duplicated" dependencies to specify
-  # upper limits, which leads to issues when intel-hpckit-2021 depends on things
-  # like intel-basekit >= 2021.1.0-2403 and we end up installing the newest
-  # basekit instead of the one from 2021.
-  #
-  # To mitigate this, >= is set to take the latest version with matching major
-  # and minor (only revision and patch are allowed to change)
-  compareVersions = got: kind: want:
-    let
-      g0 = take 2 (splitVersion got);
-      w0 = take 2 (splitVersion want);
-    in if isNull want then true
-    else if kind == "=" then got == want
-    else if kind == "<<" then versionOlder got want
-    else if kind == "<=" then versionAtLeast want got
-    else if kind == ">>" then versionOlder want got
-    else if kind == ">=" then (g0 == w0) && versionAtLeast got want # always match major version
-    else throw "unknown operation: ${kind}";
-
-  findMatching = { pname, kind, version }:
-    findFirst (x: pname == x.pname && compareVersions x.version kind version) null aptData;
-
-  isIntel = pkg: (hasPrefix "intel-" pkg.pname);
-
-  expandDeps = pkg: (map findMatching (filter isIntel pkg.dependencies)) ++ (optional (pkg.size != 0) pkg);
-
-  # get the oldest by major version. If they have the same major version, take
-  # the newest. This prevents most issues with resolutions
-  # versionOlder b a -> true if b is older than a (b `older` a)
-  getNewerInMajor = a: b: let
-    va = a.version;
-    vb = b.version;
-    va0 = head (splitVersion va);
-    vb0 = head (splitVersion vb);
-  in
-  if isNull a then b
-  else if va0 != vb0 then
-    if va0 > vb0 then b else a
-  else if versionOlder vb va then a else b;
-  removeDups = l: attrValues (groupBy' getNewerInMajor null (getAttr "provides") l);
-
-  _resolveDeps = converge (l: removeDups (concatMap expandDeps l));
-  resolveDeps = pkg: let deps = _resolveDeps (toList pkg);
-      namedDeps = (map (x: "${x.pname}-${x.version}") deps);
-    in builtins.traceVerbose (builtins.deepSeq namedDeps namedDeps) deps;
-
-  blacklist = [
-    "intel-basekit-env"
-    "intel-basekit-getting-started"
-    "intel-hpckit-env"
-    "intel-hpckit-getting-started"
-    "intel-oneapi-advisor"
-    "intel-oneapi-common-licensing"
-    "intel-oneapi-common-oneapi-vars"
-    "intel-oneapi-common-vars"
-    "intel-oneapi-compiler-cpp-eclipse-cfg"
-    "intel-oneapi-compiler-dpcpp-eclipse-cfg"
-    "intel-oneapi-condaindex"
-    "intel-oneapi-dev-utilities-eclipse-cfg"
-    "intel-oneapi-dpcpp-ct-eclipse-cfg"
-    "intel-oneapi-eclipse-ide"
-    "intel-oneapi-hpc-toolkit-getting-started"
-    "intel-oneapi-icc-eclipse-plugin-cpp"
-    "intel-oneapi-vtune"
-    "intel-oneapi-vtune-eclipse-plugin-vtune"
-  ];
-
-  isInBlacklist = pkg: elem pkg.provides blacklist;
-  removeBlacklist = filter (e: !(isInBlacklist e));
-
-  dpkgExtractAll = pname: version: {srcs, deps}: stdenv.mkDerivation {
-    inherit pname version srcs;
-
-    nativeBuildInputs = [ dpkg ];
-    phases = [ "installPhase" ];
-
-    passthru = { inherit deps; };
-
-    installPhase = ''
-      mkdir -p $out
-      for src in $srcs; do
-        echo "Unpacking $src"
-        dpkg -x $src $out
-      done
-    '';
-  };
-
-  apthost = "https://apt.repos.intel.com/oneapi/";
-  fetchDeb = p: fetchurl { url = apthost + p.filename; inherit (p) sha256; };
-
-  buildIntel = pkg: pipe pkg [
-    resolveDeps
-    removeBlacklist
-    (l: {srcs = map fetchDeb l; deps = l; })
-    (dpkgExtractAll "${pkg.provides}-extracted" pkg.version)
-  ];
-
-  findHpcKit = year: findMatching { pname = "intel-hpckit"; kind = "<<"; version = toString (year+1); };
-  years = map toInt (attrNames components);
-
-  patchIntel = callPackage ./patch_intel.nix { };
-
-  # Version information for each hpckit. This is used to normalize the paths
-  # so that files are in $out/{bin,lib,include...} instead of all over the place
-  # in $out/opt/intel/oneapi/*/*/{...}.
-  #
-  # The most important is the compiler component, which is used to build the
-  # stdenv for the hpckit.
-  #
-  # NOTE: this have to be manually specified, so we can avoid IFD. To add a
-  # new version, add a new field with an empty attrset, (e.g. "2026" = {}; ),
-  # build hpckit_2026.unpatched and use the values from
-  # result/opt/intel/oneapi/* to populate the attrset.
-  #
-  # WARN: if there are more than one version in the folders of the unpatched
-  # components, our dependency resolution hacks have probably failed and the
-  # package set may be broken.
-  components = {
-    "2025" = {
-      ishmem = "1.4";
-      pti = "0.13";
-      tcm = "1.4";
-      umf = "0.11";
-
-      ccl = "2021.16";
-      compiler = "2025.2";
-      dal = "2025.8";
-      debugger = "2025.2";
-      dev-utilities = "2025.2";
-      dnnl = "2025.2";
-      dpcpp-ct = "2025.2";
-      dpl = "2022.9";
-      ipp = "2022.2";
-      ippcp = "2025.2";
-      mkl = "2025.2";
-      mpi = "2021.16";
-      tbb = "2022.2";
-    };
-    "2024" = {
-      tcm = "1.1";
-
-      ccl = "2021.13";
-      compiler = "2024.2";
-      dal = "2024.6";
-      debugger = "2024.2";
-      dev-utilities = "2024.2";
-      diagnostics = "2024.2";
-      dnnl = "2024.2";
-      dpcpp-ct = "2024.2";
-      dpl = "2022.6";
-      ipp = "2021.12";
-      ippcp = "2021.12";
-      mkl = "2024.2";
-      mpi = "2021.13";
-      tbb = "2021.13";
-
-      extraPackages = [
-        sqlite
-        elfutils
-      ];
-    };
-  };
-
-  replaceDots = replaceStrings ["."] ["_"];
-
-in recurseIntoAttrs (listToAttrs (map (year: let
-      year_str = toString year;
-    in {
-      name = "hpckit_${year_str}";
-      value = patchIntel {unpatched = buildIntel (findHpcKit year); components = components.${year_str}; };
-  }) years)) // {
-  apt = pipe aptData [
-    (groupBy (p: replaceDots p.provides))
-    (mapAttrs (_: l: listToAttrs (map (pkg: { name = replaceDots ("v" + pkg.version); value = pkg; }) l)))
-  ] ;
-
-  inherit resolveDeps patchIntel buildIntel;
-}

pkgs/intel-oneapi/patch_intel.nix

@@ -1,179 +0,0 @@
-{ stdenvNoCC
-, lib
-, symlinkJoin
-, autoPatchelfHook
-, wrapCCWith
-, overrideCC
-, gcc13
-, gcc13Stdenv
-, hwloc
-, libelf
-, libffi_3_3
-, libpsm2
-, libuuid
-, libxml2
-, numactl
-, ocl-icd
-, openssl
-, python3
-, rdma-core
-, ucx
-, zlib
-, makeOverridable
-, recurseIntoAttrs
-}:
-
-makeOverridable (
-{
-  unpatched,
-  components ? { },
-  extraPackages ? components.extraPackages or []
-}:
-
-let
-  inherit (builtins) attrValues filter mapAttrs removeAttrs;
-
-  gcc = gcc13;
-  stdenv = gcc13Stdenv;
-
-  __components = removeAttrs components ["extraPackages"];
-  _components = __components;
-  # _components = lib.traceSeqN 2 {
-  #   inherit unpatched __components;
-  #   deps = builtins.map (x: "${x.pname}-${x.version}") unpatched.deps;
-  # } __components;
-
-  wrapIntel = { cc, extraBuildCommands ? "", extraInstall ? "", ... }@args:
-    let
-      targetConfig = stdenv.targetPlatform.config;
-    in (wrapCCWith {
-      inherit cc;
-      extraBuildCommands = ''
-        echo "-L${gcc.cc}/lib/gcc/${targetConfig}/${gcc.version}" >> $out/nix-support/cc-ldflags
-        echo "-L${gcc.cc.lib}/lib" >> $out/nix-support/cc-ldflags
-        echo "-L${cc}/lib" >> $out/nix-support/cc-ldflags
-
-        # echo "--gcc-toolchain=${gcc.cc}" >> $out/nix-support/libcxx-cxxflags
-        echo "--gcc-toolchain=${gcc.cc}" >> $out/nix-support/cc-cflags
-
-        # For some reason, If we don't resolve the realpath things go wrong
-        for stddef in ${cc}/lib/clang/*/include/stddef.h ; do
-          dir=$(dirname $(realpath "$stddef"))
-          echo "-isystem $dir" >> $out/nix-support/cc-cflags
-        done
-
-        echo "-isystem ${cc}/include" >> $out/nix-support/cc-cflags
-        echo "-isystem ${cc}/include/intel64" >> $out/nix-support/cc-cflags
-
-        for dir in ${gcc.cc}/lib/gcc/${targetConfig}/*/include; do
-          echo "-isystem $dir" >> $out/nix-support/cc-cflags
-        done
-
-        for dir in ${gcc.cc}/include/c++/*; do
-          echo "-isystem $dir" >> $out/nix-support/libcxx-cxxflags
-        done
-        for dir in ${gcc.cc}/include/c++/*/${targetConfig}; do
-          echo "-isystem $dir" >> $out/nix-support/libcxx-cxxflags
-        done
-
-        # FIXME: We should find a better way to modify the PATH instead of using
-        # this ugly hack. See https://jungle.bsc.es/git/rarias/bscpkgs/issues/9
-        echo 'path_backup="${gcc.cc}/bin:$path_backup"' >> $out/nix-support/cc-wrapper-hook
-
-        # Disable hardening by default
-        echo "" > $out/nix-support/add-hardening.sh
-      '' + extraBuildCommands;
-    } // (removeAttrs args ["cc" "extraBuildCommands" "extraInstall"])
-    ).overrideAttrs (old: {
-      installPhase = old.installPhase + extraInstall;
-    });
-
-in
-stdenvNoCC.mkDerivation (finalAttrs: {
-  pname = lib.removeSuffix "-extracted" unpatched.pname;
-  inherit (unpatched) version;
-  src = unpatched;
-
-  phases = [ "installPhase" "fixupPhase" ];
-  buildInputs = [
-    libffi_3_3
-    libelf
-    libxml2
-    hwloc
-    numactl
-    libuuid
-    libpsm2
-    zlib
-    ocl-icd
-    rdma-core
-    ucx
-    openssl
-    python3
-    stdenv.cc.cc.lib
-  ] ++ extraPackages;
-
-  autoPatchelfIgnoreMissingDeps = [ "libhwloc.so.5" "libcuda.so.1" "libze_loader.so.1" ];
-
-  # There are broken symlinks that go outside packages, ignore them
-  dontCheckForBrokenSymlinks = true;
-
-  nativeBuildInputs = [ autoPatchelfHook ];
-  installPhase = ''
-    cp -r $src/opt/intel/oneapi/ $out
-  '';
-
-  passthru = let
-    pkgs = mapAttrs
-      (folder: version: symlinkJoin {
-        pname = "intel-${folder}";
-        inherit version;
-        paths = ["${finalAttrs.finalPackage}/${folder}/${version}"];
-      })
-      _components;
-  in pkgs // {
-    inherit unpatched;
-    pkgs = recurseIntoAttrs pkgs;
-    components = _components;
-
-    # This contains all packages properly symlinked into toplevel directories
-    # in $out.
-    #
-    # NOTE: there are clashes with packages that have symlinks outside their
-    # scope (libtcm and env/vars.sh)
-    all = symlinkJoin {
-      pname = finalAttrs.finalPackage + "-symlinked";
-      inherit (finalAttrs.finalPackage) version;
-      paths = filter lib.isDerivation (attrValues finalAttrs.finalPackage.pkgs);
-    };
-
-    stdenv = overrideCC stdenv finalAttrs.finalPackage.cc;
-
-    cc = wrapIntel {
-      cc = finalAttrs.finalPackage.pkgs.compiler;
-      extraBuildCommands = ''
-        wrap icx  $wrapper $ccPath/icx
-        wrap icpx $wrapper $ccPath/icpx
-        wrap ifx  $wrapper $ccPath/ifx
-
-        ln -s $out/bin/icpx $out/bin/c++
-        ln -s $out/bin/icx  $out/bin/cc
-
-        # Use this to detect when a compiler subprocess is called
-        # from icpx (--fsycl-host-compiler)
-        echo 'export "NIX_CC_WRAPPER_INTEL=1"' >> $out/nix-support/cc-wrapper-hook
-
-        sed -i 's/.*isCxx=0/isCxx=1/' $out/bin/icpx
-
-        # oneMath looks for sycl libraries in bin/../lib
-        ln -s ${finalAttrs.finalPackage.pkgs.compiler}/lib $out/lib
-        ln -s ${finalAttrs.finalPackage.pkgs.compiler}/include $out/include
-      '';
-      extraInstall = ''
-        export named_cc="icx"
-        export named_cxx="icpx"
-        export named_fc="ifx"
-      '';
-    };
-  };
-
-}))

pkgs/intel-oneapi/process.jq

@@ -1,29 +0,0 @@
-#!/usr/bin/env -S jq -f
-
-def extract_fields: {
-        pname : .Package,
-        version : .Version,
-        provides : .Package | sub("[0-9.-]*$"; ""),
-        filename : .Filename,
-        size : ."Installed-Size" | tonumber,
-        sha256 : .SHA256,
-        dependencies : .Depends,
-    } ;
-
-# parses dependencies into a list of [{.pname, .kind, .version}]
-# some dependencies do not have a version specified, in which case, kind = version = null
-#
-# example dependencies:
-# intel-oneapi-common-vars (>= 2023.0.0-25325), intel-oneapi-common-licensing-2023.0.0
-
-def split_dependencies : map(try(.dependencies |= split(",\\s?"; "")) // .dependencies |= []) ;
-
-def match_version : capture("(?<pname>[a-zA-Z0-9_\\-.]*) *(\\((?<kind>[<>=]*) *(?<version>.*)\\))?"; "") ;
-
-def parse_dependencies : map_values(.dependencies.[] |= match_version) ;
-
-def sort_version_decreasing : sort_by(.version | split("[-.]"; "") | map(tonumber)) | reverse ;
-
-map(extract_fields) | split_dependencies | parse_dependencies | sort_version_decreasing
-
-# [.[] | select(.pname == "intel-hpckit") | .version]

pkgs/intel-oneapi/toJson.awk

@@ -1,29 +0,0 @@
-#!/usr/bin/env -S awk -f
-
-BEGIN   {
-    FS=": "
-
-    prev_empty=1
-    t="  "
-
-    print "[ {"
-}
-
-!NF { # empty line, update separator so next non empty line closes the dict
-    prev_empty=1
-    t="},\n{ "
-    next # skip line (we won't match anything else)
-}
-
-{
-    printf t "\"%s\" : \"%s\"\n", $1, $2
-
-    if (prev_empty) {
-        # we were the first after a group of empty lines, following ones have to
-        # have a comma
-        prev_empty=0
-        t=", "
-    }
-}
-
-END     { print "} ]" }

pkgs/intel-oneapi/update.sh

@@ -1,11 +1,4 @@
 #!/bin/sh
 
-out_64=$(mktemp intel-api.64.XXXXXX)
-out_all=$(mktemp intel-api.all.XXXXXX)
-trap 'rm -f "$out_64" "$out_all"' EXIT INT HUP
-
-curl https://apt.repos.intel.com/oneapi/dists/all/main/binary-amd64/Packages -o "$out_64"
-curl https://apt.repos.intel.com/oneapi/dists/all/main/binary-all/Packages -o "$out_all"
-
-# NOTE: we use `jq -r tostring` to minify the json (3.2Mb -> 2.3Mb)
-cat "$out_64" "$out_all" | ./toJson.awk | ./process.jq | jq -r tostring >packages.json
+curl https://apt.repos.intel.com/oneapi/dists/all/main/binary-amd64/Packages -o amd64-packages
+curl https://apt.repos.intel.com/oneapi/dists/all/main/binary-all/Packages -o all-packages

pkgs/llvm-ompss2/clang.nix

@@ -16,19 +16,19 @@
 , useGit ? false
 , gitUrl ? "ssh://git@bscpm04.bsc.es/llvm-ompss/llvm-mono.git"
 , gitBranch ? "master"
-, gitCommit ? "880e2341c56bad1dc14e8c369fb3356bec19018e"
+, gitCommit ? "872ba63f86edaefc9787984ef3fae9f2f94e0124" # github-release-2025.11
 }:
 
 let
   stdenv = llvmPackages_latest.stdenv;
 
   release = rec {
-    version = "2025.06";
+    version = "2025.11";
     src = fetchFromGitHub {
       owner = "bsc-pm";
       repo = "llvm";
       rev = "refs/tags/github-release-${version}";
-      hash = "sha256-ww9PpRmtz/M9IyLiZ8rAehx2UW4VpQt+svf4XfKBzKo=";
+      hash = "sha256-UgwMTUkM9Z87dDH205swZFBeFhrcbLAxginViG40pBM=";
     };
   };
 

pkgs/llvm-ompss2/default.nix

@@ -2,9 +2,7 @@
   stdenv
 , lib
 , gcc
-, gcc13
 , clangOmpss2Unwrapped
-, writeShellScript
 , openmp ? null
 , wrapCCWith
 , llvmPackages_latest
@@ -29,17 +27,20 @@ let
   # We need to replace the lld linker from bintools with our linker just built,
   # otherwise we run into incompatibility issues when mixing compiler and linker
   # versions.
-  bintools-unwrapped = llvmPackages_latest.tools.bintools-unwrapped.override {
+  bintools-unwrapped = llvmPackages_latest.bintools-unwrapped.override {
     lld = clangOmpss2Unwrapped;
   };
-  bintools = llvmPackages_latest.tools.bintools.override {
+  bintools = llvmPackages_latest.bintools.override {
     bintools = bintools-unwrapped;
   };
   targetConfig = stdenv.targetPlatform.config;
   inherit gcc;
   cc = clangOmpss2Unwrapped;
   gccVersion = with versions; let v = gcc.version; in concatStringsSep "." [(major v) (minor v) (patch v)];
-
+in wrapCCWith {
+  inherit cc bintools;
+  # extraPackages adds packages to depsTargetTargetPropagated
+  extraPackages = optional (openmp != null) openmp;
   extraBuildCommands = ''
     echo "-target ${targetConfig}" >> $out/nix-support/cc-cflags
     echo "-B${gcc.cc}/lib/gcc/${targetConfig}/${gccVersion}" >> $out/nix-support/cc-cflags
@@ -56,52 +57,14 @@ let
     echo "--gcc-toolchain=${gcc}" >> $out/nix-support/cc-cflags
 
     wrap clang++  $wrapper $ccPath/clang++
+
+  '' + optionalString (openmp != null) ''
+    echo "export OPENMP_RUNTIME=${ompname}" >> $out/nix-support/cc-wrapper-hook
+  '' + optionalString (ompss2rt != null) ''
+    echo "export OMPSS2_RUNTIME=${rtname}" >> $out/nix-support/cc-wrapper-hook
+    echo "export ${homevar}=${ompss2rt}"   >> $out/nix-support/cc-wrapper-hook
+  '' + optionalString (ompss2rt != null && ompss2rt.pname == "nodes") ''
+    echo "export NOSV_HOME=${ompss2rt.nosv}" >> $out/nix-support/cc-wrapper-hook
   '';
+}
 
-  envExports = lib.optionalString (openmp != null) ''
-      echo "export OPENMP_RUNTIME=${ompname}" >> $out/nix-support/cc-wrapper-hook
-    '' + optionalString (ompss2rt != null) ''
-      echo "export OMPSS2_RUNTIME=${rtname}" >> $out/nix-support/cc-wrapper-hook
-      echo "export ${homevar}=${ompss2rt}"   >> $out/nix-support/cc-wrapper-hook
-    '' + optionalString (ompss2rt != null && ompss2rt.pname == "nodes") ''
-      echo "export NOSV_HOME=${ompss2rt.nosv}" >> $out/nix-support/cc-wrapper-hook
-    '';
-
-  extraPackages = optional (openmp != null) openmp;
-
-  wrappedCC = wrapCCWith {
-    # extraPackages adds packages to depsTargetTargetPropagated
-    inherit cc bintools extraPackages;
-    extraBuildCommands = extraBuildCommands + envExports;
-  };
-
-  resetIntelCCFlags = let tconf = builtins.replaceStrings ["-"] ["_"] targetConfig;
-  in writeShellScript "remove-intel.sh" ''
-    if [ "''${NIX_CC_WRAPPER_INTEL:-0}" = 1 ]; then
-      unset NIX_CFLAGS_COMPILE_${tconf}
-      unset NIX_CC_WRAPPER_FLAGS_SET_${tconf}
-
-      if (( "''${NIX_DEBUG:-0}" >= 1 )); then
-        echo "ompss2: cleaned NIX_CFLAGS_COMPILE_${tconf} (invokation from intel compiler detected)"
-      fi
-    fi
-  '';
-
-  intelExtraBuildCommands = ''
-    sed -i 's|# Flirting.*|source ${resetIntelCCFlags}\n\n&|' $out/bin/clang
-    sed -i 's|# Flirting.*|source ${resetIntelCCFlags}\n\n&|' $out/bin/clang++
-  '';
-
-  wrappedCCIntel = wrapCCWith {
-    inherit bintools extraPackages;
-    cc = cc.override { gcc = gcc13; }; # Intel uses gcc13, so we have to match it
-    gccForLibs = gcc13;
-    # extraPackages adds packages to depsTargetTargetPropagated
-    extraBuildCommands = intelExtraBuildCommands + envExports;
-  };
-
-in wrappedCC.overrideAttrs (oldAttrs: {
-    passthru = oldAttrs.passthru // {
-      forIcpx = wrappedCCIntel;
-    };
-  })

pkgs/mcxx/default.nix

@@ -65,6 +65,7 @@ stdenv.mkDerivation rec {
   ];
 
   meta = {
+    broken = true;
     homepage = "https://github.com/bsc-pm/mcxx";
     description = "C/C++/Fortran source-to-source compilation infrastructure aimed at fast prototyping";
     maintainers = with lib.maintainers.bsc; [ rpenacob ];

pkgs/meteocat-exporter/default.nix

@@ -1,9 +1,11 @@
 { python3Packages, lib }:
 
-python3Packages.buildPythonApplication rec {
+python3Packages.buildPythonApplication {
   pname = "meteocat-exporter";
   version = "1.0";
 
+  pyproject = true;
+
   src = ./.;
 
   doCheck = false;

pkgs/mpich/default.nix

@@ -6,6 +6,13 @@
 , pmix
 , gfortran
 , symlinkJoin
+# Disabled when cross-compiling
+# To fix cross compilation, we should fill the values in:
+# https://github.com/pmodels/mpich/blob/main/maint/fcrosscompile/cross_values.txt.in
+# For each arch
+, enableFortran ? stdenv.hostPlatform == stdenv.buildPlatform
+, perl
+, targetPackages
 }:
 
 let
@@ -15,10 +22,13 @@ let
     paths = [ pmix.dev pmix.out ];
   };
 in mpich.overrideAttrs (old: {
-  buildInput = old.buildInputs ++ [
+  buildInputs = old.buildInputs ++ [
     libfabric
     pmixAll
   ];
+  nativeBuildInputs = old.nativeBuildInputs ++ [
+    perl
+  ];
   configureFlags = [
     "--enable-shared"
     "--enable-sharedlib"
@@ -31,10 +41,21 @@ in mpich.overrideAttrs (old: {
   ] ++ lib.optionals (lib.versionAtLeast gfortran.version "10") [
     "FFLAGS=-fallow-argument-mismatch" # https://github.com/pmodels/mpich/issues/4300
     "FCFLAGS=-fallow-argument-mismatch"
+  ] ++ lib.optionals (!enableFortran) [
+    "--disable-fortran"
   ];
+
+  preFixup = ''
+    sed -i 's:^CC=.*:CC=${targetPackages.stdenv.cc}/bin/${targetPackages.stdenv.cc.targetPrefix}cc:' $out/bin/mpicc
+    sed -i 's:^CXX=.*:CXX=${targetPackages.stdenv.cc}/bin/${targetPackages.stdenv.cc.targetPrefix}c++:' $out/bin/mpicxx
+  '' + lib.optionalString enableFortran ''
+    sed -i 's:^FC=.*:FC=${targetPackages.gfortran or gfortran}/bin/${targetPackages.gfortran.targetPrefix or gfortran.targetPrefix}gfortran:' $out/bin/mpifort
+  '';
+
   hardeningDisable = [ "all" ];
 
   meta = old.meta // {
     maintainers = old.meta.maintainers ++ (with lib.maintainers.bsc; [ rarias ]);
+    cross = true;
   };
 })

pkgs/nanos6/jemalloc.nix

@@ -5,6 +5,7 @@ jemalloc.overrideAttrs (old: {
     "--with-jemalloc-prefix=nanos6_je_"
     "--enable-stats"
   ];
+  enableParallelBuilding = true;
   hardeningDisable = [ "all" ];
   meta = old.meta // {
     description = old.meta.description + " (for Nanos6)";

pkgs/nix-portable/default.nix

@@ -0,0 +1,650 @@
+with builtins;
+{
+  nix,
+  unzip,
+  zip,
+  unixtools,
+  stdenv,
+  buildPackages,
+  upx,
+
+  bootstrapPrograms ? [
+    "gitMinimal"
+    "netcat-openbsd"
+    "openssh"
+    "bashInteractive"
+  ],
+
+  cacert ? pkgs.cacert,
+  compression ? "zstd -19 -T0",
+  lib ? pkgs.lib,
+  pkgs ? import <nixpkgs> {},
+  # hardcode executable to run. Useful when creating a bundle.
+  bundledPackage ? null,
+
+  nixStatic,
+  busyboxStatic ? pkgs.pkgsStatic.busybox,
+  bwrapStatic ? pkgs.pkgsStatic.bubblewrap,
+  zstdStatic ? pkgs.pkgsStatic.zstd,
+
+  perlBuildBuild ? pkgs.pkgsBuildBuild.perl,
+}@inp:
+with lib;
+let
+
+  perl = perlBuildBuild;
+
+  pname =
+    if bundledPackage == null
+    then "nix-portable"
+    else lib.getName bundledPackage;
+
+  bundledExe = lib.getExe bundledPackage;
+
+  nixpkgsSrc = pkgs.path;
+
+  maketar = targets:
+    let
+      closureInfo = buildPackages.closureInfo { rootPaths = targets; };
+    in
+    stdenv.mkDerivation {
+      name = "nix-portable-store-tarball";
+      nativeBuildInputs = [ perl zstd ];
+      exportReferencesGraph = map (x: [("closure-" + baseNameOf x) x]) targets;
+      buildCommand = ''
+        storePaths=$(cat ${closureInfo}/store-paths)
+        mkdir $out
+        echo $storePaths > $out/index
+        cp -r ${closureInfo} $out/closureInfo
+
+        tar -cf - \
+          --owner=0 --group=0 --mode=u+rw,uga+r \
+          --hard-dereference \
+          $storePaths | ${compression} > $out/tar
+      '';
+    };
+
+  packStaticBin = binPath: let
+      binName = (last (splitString "/" binPath)); in
+    pkgs.runCommand
+    binName
+    { nativeBuildInputs = [ upx ]; }
+    ''
+      mkdir -p $out/bin
+      theBinPath=${binPath}
+
+      if [[ -L "$theBinPath" ]]; then
+        theBinPath=$(readlink -f "$theBinPath")
+      fi
+
+      upx -9 -o $out/bin/${binName} $theBinPath
+    '';
+
+  installBin = pkg: bin: ''
+    unzip -qqoj "\$self" ${ lib.removePrefix "/" "${pkg}/bin/${bin}"} -d \$dir/bin
+    chmod +wx \$dir/bin/${bin};
+  '';
+
+  installDynamic = pkgname: let
+    out = pkgs.${pkgname}.out;
+  in ''
+    if [ ! -e \$store${lib.removePrefix "/nix/store" pkgs.${pkgname}.out} ] ; then
+      debug "Installing ${pkgname}"
+      \$run \$store${lib.removePrefix "/nix/store" nix}/bin/nix build --impure --no-link --expr "
+        (import ${nixpkgsSrc} {}).${pkgname}.out
+      "
+    else
+      debug "${pkgname} already installed"
+    fi
+
+    export PATH="${out}/bin:\$PATH"
+  '';
+
+  caBundleZstd = pkgs.runCommand "cacerts" {} "cat ${cacert}/etc/ssl/certs/ca-bundle.crt | ${zstd}/bin/zstd -19 > $out";
+
+  bwrap = packStaticBin "${bwrapStatic}/bin/bwrap";
+  nixStatic = packStaticBin "${inp.nixStatic}/bin/nix";
+  zstd = packStaticBin "${zstdStatic}/bin/zstd";
+
+  # the default nix store contents to extract when first used
+  storeTar = maketar ([ cacert nix nixpkgsSrc ] ++ lib.optional (bundledPackage != null) bundledPackage);
+
+
+  # The runtime script which unpacks the necessary files to $HOME/.nix-portable
+  # and then executes nix via bwrap
+  # Some shell expressions will be evaluated at build time and some at run time.
+  # Variables/expressions escaped via `\$` will be evaluated at run time
+  runtimeScript = ''
+    #!/usr/bin/env bash
+
+    set -eo pipefail
+
+    start=\$(date +%s%N)  # start time in nanoseconds
+
+    # dump environment on exit if debug is enabled
+    if [ -n "\$NP_DEBUG" ] && [ "\$NP_DEBUG" -ge 1 ]; then
+      trap "declare -p > \''${TMPDIR:-/tmp}/np_env" EXIT
+    fi
+
+    set -e
+    if [ -n "\$NP_DEBUG" ] && [ "\$NP_DEBUG" -ge 2 ]; then
+      set -x
+    fi
+
+    # &3 is our error out which we either forward to &2 or to /dev/null
+    # depending on the setting
+    if [ -n "\$NP_DEBUG" ] && [ "\$NP_DEBUG" -ge 1 ]; then
+      debug(){
+        echo \$@ || true
+      }
+      exec 3>&2
+    else
+      debug(){
+        true
+      }
+      exec 3>/dev/null
+    fi
+
+    # to reference this script's file
+    self="\$(realpath \''${BASH_SOURCE[0]})"
+
+    # fingerprint will be inserted by builder
+    fingerprint="_FINGERPRINT_PLACEHOLDER_"
+
+    # user specified location for program files and nix store
+    [ -z "\$NP_LOCATION" ] && NP_LOCATION="\$HOME"
+    NP_LOCATION="\$(readlink -f "\$NP_LOCATION")"
+    dir="\$NP_LOCATION/.nix-portable"
+
+    # Create NP_LOCATION and remove sgid bit
+    mkdir -p \$dir
+    if [ ! -z "\$BSC_MACHINE" ]; then
+      # Attempt to avoid issues with sgid folders
+      chmod g-s \$dir
+      chgrp bsc \$dir
+    fi
+
+    store="\$dir/nix/store"
+    # create /nix/var/nix to prevent nix from falling back to chroot store.
+    mkdir -p \$dir/{bin,nix/var/nix,nix/store}
+
+    # create minimal drv file for nix to spawn a nix shell
+    echo 'builtins.derivation {name="foo"; builder="/bin/sh"; args = ["-c" "echo hello \> \\\$out"]; system=builtins.currentSystem;}' > "\$dir/mini-drv.nix"
+
+    # the fingerprint being present inside a file indicates that
+    # this version of nix-portable has already been initialized
+    if test -e \$dir/conf/fingerprint && [ "\$(cat \$dir/conf/fingerprint)" == "\$fingerprint" ]; then
+      newNPVersion=false
+    else
+      newNPVersion=true
+    fi
+
+    # Nix portable ships its own nix.conf
+    export NIX_CONF_DIR=\$dir/conf/
+
+    NP_CONF_SANDBOX=\''${NP_CONF_SANDBOX:-false}
+    NP_CONF_STORE=\''${NP_CONF_STORE:-auto}
+
+
+    recreate_nix_conf(){
+      mkdir -p "\$NIX_CONF_DIR"
+      rm -f "\$NIX_CONF_DIR/nix.conf"
+
+      # static config
+      echo "build-users-group = " >> \$dir/conf/nix.conf
+      echo "experimental-features = nix-command flakes" >> \$dir/conf/nix.conf
+      echo "ignored-acls = security.selinux system.nfs4_acl" >> \$dir/conf/nix.conf
+      echo "sandbox-paths = /bin/sh=\$dir/busybox/bin/busybox" >> \$dir/conf/nix.conf
+      echo "extra-substituters = https://jungle.bsc.es/cache">> \$dir/conf/nix.conf
+      echo "extra-trusted-public-keys = jungle.bsc.es:pEc7MlAT0HEwLQYPtpkPLwRsGf80ZI26aj29zMw/HH0=" >> \$dir/conf/nix.conf
+
+      echo "extra-system-features = sys-devices" >> \$dir/conf/nix.conf
+      echo "extra-sandbox-paths = /sys/devices/system/cpu=/sys/devices/system/cpu /sys/devices/system/node=/sys/devices/system/node" >> \$dir/conf/nix.conf
+      echo "extra-trusted-users = @bsc" >> \$dir/conf/nix.conf
+
+
+      # configurable config
+      echo "sandbox = \$NP_CONF_SANDBOX" >> \$dir/conf/nix.conf
+      echo "store = \$NP_CONF_STORE" >> \$dir/conf/nix.conf
+    }
+
+
+    ### install files
+
+    PATH_OLD="\$PATH"
+
+    # as soon as busybox is unpacked, restrict PATH to busybox to ensure reproducibility of this script
+    # only unpack binaries if necessary
+    if [ "\$newNPVersion" == "false" ]; then
+
+      debug "binaries already installed"
+      # our busybox does not run on termux, therefore we suffix the PATH only on termux
+      export PATH="\''${TERMUX_VERSION:+\$PATH:}\$dir/busybox/bin"
+
+    else
+
+      debug "installing files"
+
+      mkdir -p \$dir/emptyroot
+
+      # install busybox
+      mkdir -p \$dir/busybox/bin
+      (base64 -d> "\$dir/busybox/bin/busybox" && chmod +x "\$dir/busybox/bin/busybox") << END
+    $(cat ${busyboxStatic}/bin/busybox | base64)
+    END
+      busyBins="${toString (attrNames (filterAttrs (d: type: type == "symlink") (readDir "${busyboxStatic}/bin")))}"
+      for bin in \$busyBins; do
+        [ ! -e "\$dir/busybox/bin/\$bin" ] && ln -s busybox "\$dir/busybox/bin/\$bin"
+      done
+
+      # our busybox does not run on termux, therefore we suffix the PATH only on termux
+      export PATH="\''${TERMUX_VERSION:+\$PATH:}\$dir/busybox/bin"
+
+      # install other binaries
+      ${installBin zstd "zstd"}
+      ${installBin bwrap "bwrap"}
+      ${installBin nixStatic "nix"}
+
+      # install ssl cert bundle
+      unzip -poj "\$self" ${ lib.removePrefix "/" "${caBundleZstd}"} | \$dir/bin/zstd -d > \$dir/ca-bundle.crt
+
+      recreate_nix_conf
+    fi
+
+    # Override $SHELL with nix bashInteractive
+    export SHELL="${pkgs.bashInteractive.out}/bin/bash"
+    export PS1="\n\[\033[1;32m\][\[\e]0;\u@\h: \w\a\]\u@\h:\w]\$\[\033[0m\] "
+
+    # unset bash function aliases
+    unset -f which ml module
+
+    ### setup SSL
+    # find ssl certs or use from nixpkgs
+    debug "figuring out ssl certs"
+    if [ -z "\$SSL_CERT_FILE" ]; then
+      debug "SSL_CERT_FILE not defined. trying to find certs automatically"
+      if [ -e /etc/ssl/certs/ca-bundle.crt ]; then
+        export SSL_CERT_FILE=\$(realpath /etc/ssl/certs/ca-bundle.crt)
+        debug "found /etc/ssl/certs/ca-bundle.crt with real path \$SSL_CERT_FILE"
+      elif [ -e /etc/ssl/certs/ca-certificates.crt ]; then
+        export SSL_CERT_FILE=\$(realpath /etc/ssl/certs/ca-certificates.crt)
+        debug "found /etc/ssl/certs/ca-certificates.crt with real path \$SSL_CERT_FILE"
+      elif [ ! -e /etc/ssl/certs ]; then
+        debug "/etc/ssl/certs does not exist. Will use certs from nixpkgs."
+        export SSL_CERT_FILE=\$dir/ca-bundle.crt
+      else
+        debug "certs seem to reside in /etc/ssl/certs. No need to set up anything"
+      fi
+    fi
+    if [ -n "\$SSL_CERT_FILE" ]; then
+      sslBind="\$(realpath \$SSL_CERT_FILE) \$dir/ca-bundle.crt"
+      export SSL_CERT_FILE="\$dir/ca-bundle.crt"
+    else
+      sslBind="/etc/ssl /etc/ssl"
+    fi
+
+    if [ -n "\$NP_GIT" ]; then
+      echo "WARN: NP_GIT is not supported, using nix version instead"
+    fi
+
+
+
+    storePathOfFile(){
+      file=\$(realpath \$1)
+      sPath="\$(echo \$file | awk -F "/" 'BEGIN{OFS="/";}{print \$2,\$3,\$4}')"
+      echo "/\$sPath"
+    }
+
+
+    collectBinds(){
+      pathsTopLevel="/boot /run /sys \$PWD /gpfs /tmp /scratch"
+
+      toBind=""
+      for p in \$pathsTopLevel; do
+        if [ -e "\$p" ]; then
+          real=\$(realpath \$p)
+          if [ -e "\$real" ]; then
+            if [[ "\$real" == /nix/store/* ]]; then
+              storePath=\$(storePathOfFile \$real)
+              toBind="\$toBind \$storePath \$storePath"
+            else
+              toBind="\$toBind \$real \$p"
+            fi
+          fi
+        fi
+      done
+
+
+      # TODO: add /var/run/dbus/system_bus_socket
+      paths="/etc/host.conf /etc/hosts /etc/hosts.equiv /etc/mtab /etc/netgroup /etc/networks /etc/passwd /etc/group /etc/nsswitch.conf /etc/resolv.conf /etc/localtime \$HOME"
+
+      for p in \$paths; do
+        if [ -e "\$p" ]; then
+          real=\$(realpath \$p)
+          if [ -e "\$real" ]; then
+            if [[ "\$real" == /nix/store/* ]]; then
+              storePath=\$(storePathOfFile \$real)
+              toBind="\$toBind \$storePath \$storePath"
+            else
+              toBind="\$toBind \$real \$real"
+            fi
+          fi
+        fi
+      done
+
+      # provide /bin/sh via the shipped busybox
+      toBind="\$toBind \$dir/busybox/bin/busybox /bin/sh"
+      toBind="\$toBind \$dir/busybox/bin/busybox /usr/bin/env"
+
+      # on termux, make sure termux packages still work inside the nix-portable environment
+      if [ -n "\$TERMUX_VERSION" ]; then
+        # binds required so termux native packages still run inside the nix-portable sandbox
+        # TODO: this doesn't quite work yet. debug and fix
+        toBind="\$toBind /system/lib64/libc.so /system/lib64/libc.so"
+        toBind="\$toBind /system/lib64/ld-android.so /system/lib64/ld-android.so"
+        toBind="\$toBind /system/lib64/libdl.so /system/lib64/libdl.so"
+        toBind="\$toBind /system/bin /system/bin"
+        toBind="\$toBind /system/lib64 /system/lib64"
+        toBind="\$toBind /apex/com.android.runtime/bin /apex/com.android.runtime/bin"
+        toBind="\$toBind /linkerconfig/ld.config.txt /linkerconfig/ld.config.txt"
+        toBind="\$toBind \$dir/ca-bundle.crt /etc/ssl/certs/ca-certificates.crt"
+        toBind="\$toBind \$(realpath \$HOME/../usr/etc/resolv.conf) /etc/resolv.conf"
+      fi
+
+    }
+
+
+    makeBindArgs(){
+      arg=\$1; shift
+      sep=\$1; shift
+      binds=""
+      while :; do
+        if [ -n "\$1" ]; then
+          from="\$1"; shift
+          to="\$1"; shift || { echo "no bind destination provided for \$from!"; exit 3; }
+          binds="\$binds \$arg \$from\$sep\$to";
+        else
+          break
+        fi
+      done
+    }
+
+
+
+    ### select container runtime
+    debug "figuring out which runtime to use"
+    [ -z "\$NP_BWRAP" ] && NP_BWRAP=\$dir/bin/bwrap
+    debug "bwrap executable: \$NP_BWRAP"
+    [ -z "\$NP_NIX" ] && NP_NIX=\$dir/bin/nix
+    debug "nix executable: \$NP_NIX"
+    debug "testing all available runtimes..."
+    if [ -z "\$NP_RUNTIME" ]; then
+      # read last automatic selected runtime from disk
+      if [ "\$newNPVersion" == "true" ]; then
+        debug "removing cached auto selected runtime"
+        rm -f "\$dir/conf/last_auto_runtime"
+      fi
+      if [ -f "\$dir/conf/last_auto_runtime" ]; then
+        last_auto_runtime="\$(cat "\$dir/conf/last_auto_runtime")"
+      else
+        last_auto_runtime=
+      fi
+      debug "last auto selected runtime: \$last_auto_runtime"
+      if [ "\$last_auto_runtime" != "" ]; then
+        NP_RUNTIME="\$last_auto_runtime"
+      # check if nix --store works
+      elif \\
+          debug "testing nix --store" \\
+          && mkdir -p \$dir/tmp/ \\
+          && touch \$dir/tmp/testfile \\
+          && "\$NP_NIX" --store "\$dir/tmp/__store" shell -f "\$dir/mini-drv.nix" -c "\$dir/bin/nix" store add-file --store "\$dir/tmp/__store" "\$dir/tmp/testfile" >/dev/null 2>&3; then
+        chmod -R +w \$dir/tmp/__store
+        rm -r \$dir/tmp/__store
+        debug "nix --store works on this system -> will use nix as runtime"
+        NP_RUNTIME=nix
+      # check if bwrap works properly
+      elif \\
+          debug "nix --store failed -> testing bwrap" \\
+          && \$NP_BWRAP --bind \$dir/emptyroot / --bind \$dir/ /nix --bind \$dir/busybox/bin/busybox "\$dir/true" "\$dir/true" 2>&3 ; then
+        debug "bwrap seems to work on this system -> will use bwrap"
+        NP_RUNTIME=bwrap
+      else
+        debug "bwrap doesn't work on this system -> will use proot"
+        NP_RUNTIME=proot
+      fi
+      echo -n "\$NP_RUNTIME" > "\$dir/conf/last_auto_runtime"
+    else
+      debug "runtime selected via NP_RUNTIME: \$NP_RUNTIME"
+    fi
+    debug "NP_RUNTIME: \$NP_RUNTIME"
+    if [ "\$NP_RUNTIME" == "nix" ]; then
+      run="\$NP_NIX shell -f \$dir/mini-drv.nix -c"
+      export PATH="\$PATH:\$store${lib.removePrefix "/nix/store" nix}/bin"
+      NP_CONF_STORE="\$dir"
+      recreate_nix_conf
+    elif [ "\$NP_RUNTIME" == "bwrap" ]; then
+      collectBinds
+      makeBindArgs --bind " " \$toBind \$sslBind
+      run="\$NP_BWRAP \$BWRAP_ARGS \\
+        --bind \$dir/emptyroot /\\
+        --dev-bind /dev /dev\\
+        --proc /proc\\
+        --bind \$dir/nix /nix\\
+        \$binds"
+        # --bind \$dir/busybox/bin/busybox /bin/sh\\
+    else
+      # proot
+      echo Unsupported runtime: $NP_RUNTIME
+      exit 1
+    fi
+    debug "base command will be: \$run"
+
+
+
+    ### setup environment
+    export NIX_PATH="\$dir/channels:nixpkgs=\$dir/channels/nixpkgs"
+    mkdir -p \$dir/channels
+    [ -h \$dir/channels/nixpkgs ] || ln -s ${nixpkgsSrc} \$dir/channels/nixpkgs
+
+
+    ### install nix store
+    # Install all the nix store paths necessary for the current nix-portable version
+    # We only unpack missing store paths from the tar archive.
+    index="$(cat ${storeTar}/index)"
+
+    export missing=\$(
+      for path in \$index; do
+        basepath=\$(basename \$path)
+        if [ ! -e \$store/\$basepath ]; then
+          echo "nix/store/\$basepath"
+        fi
+      done
+    )
+
+    if [ -n "\$missing" ]; then
+      debug "extracting missing store paths"
+      (
+        mkdir -p \$dir/tmp \$store/
+        rm -rf \$dir/tmp/*
+        cd \$dir/tmp
+        unzip -qqp "\$self" ${ lib.removePrefix "/" "${storeTar}/tar"} \
+          | \$dir/bin/zstd -d \
+          | tar -x \$missing --strip-components 2
+        mv \$dir/tmp/* \$store/
+      )
+      rm -rf \$dir/tmp
+    fi
+
+    if [ -n "\$missing" ]; then
+      debug "registering new store paths to DB"
+      reg="$(cat ${storeTar}/closureInfo/registration)"
+      cmd="\$run \$store${lib.removePrefix "/nix/store" nix}/bin/nix-store --load-db"
+      debug "running command: \$cmd"
+      echo "\$reg" | \$cmd
+    fi
+
+
+    ### select executable
+    # the executable can either be selected by
+    # - executing './nix-portable BIN_NAME',
+    # - symlinking to nix-portable, in which case the name of the symlink selects the nix executable
+    # Alternatively the executable can be hardcoded by specifying the argument 'executable' of nix-portable's default.nix file.
+    executable="${if bundledPackage == null then "" else bundledExe}"
+    if [ "\$executable" != "" ]; then
+      bin="\$executable"
+      debug "executable is hardcoded to: \$bin"
+
+    elif [[ "\$(basename \$0)" == nix-portable* ]]; then\
+      if [ -z "\$1" ]; then
+        echo "Error: please specify the nix binary to execute"
+        echo "Alternatively symlink against \$0"
+        exit 1
+      elif [ "\$1" == "debug" ]; then
+        bin="\$(which \$2)"
+        shift; shift
+      else
+        bin="\$store${lib.removePrefix "/nix/store" nix}/bin/\$1"
+        shift
+      fi
+    # for binary selection via symlink
+    else
+      bin="\$store${lib.removePrefix "/nix/store" nix}/bin/\$(basename \$0)"
+    fi
+
+
+
+    ### check which runtime has been used previously
+    if [ -f "\$dir/conf/last_runtime" ]; then
+      lastRuntime=\$(cat "\$dir/conf/last_runtime")
+    else
+      lastRuntime=
+    fi
+
+
+
+    ### check if nix is functional with or without sandbox
+    # sandbox-fallback is not reliable: https://github.com/NixOS/nix/issues/4719
+    if [ "\$newNPVersion" == "true" ] || [ "\$lastRuntime" != "\$NP_RUNTIME" ]; then
+      nixBin="\$(dirname \$bin)/nix"
+      debug "Testing if nix can build stuff without sandbox"
+      if ! \$run "\$nixBin" build --no-link -f "\$dir/mini-drv.nix" --option sandbox false >&3 2>&3; then
+        echo "Fatal error: nix is unable to build packages"
+        exit 1
+      fi
+
+      debug "Testing if nix sandbox is functional"
+      if ! \$run "\$nixBin" build --no-link -f "\$dir/mini-drv.nix" --option sandbox true >&3 2>&3; then
+        debug "Sandbox doesn't work -> disabling sandbox"
+        NP_CONF_SANDBOX=false
+        recreate_nix_conf
+      else
+        debug "Sandboxed builds work -> enabling sandbox"
+        NP_CONF_SANDBOX=true
+        recreate_nix_conf
+      fi
+
+    fi
+
+
+    ### save fingerprint and lastRuntime
+    if [ "\$newNPVersion" == "true" ]; then
+      echo -n "\$fingerprint" > "\$dir/conf/fingerprint"
+    fi
+    if [ "\$lastRuntime" != \$NP_RUNTIME ]; then
+      echo -n \$NP_RUNTIME > "\$dir/conf/last_runtime"
+    fi
+
+
+
+    ### set PATH
+    export PATH="\$dir/busybox/bin"
+    export PATH="\$PATH:\$store${lib.removePrefix "/nix/store" nix}/bin"
+
+    ### install programs via nix
+    ${concatMapStringsSep "\n" installDynamic bootstrapPrograms}
+
+    ### print elapsed time
+    end=\$(date +%s%N)  # end time in nanoseconds
+    # time elapsed in millis with two decimal places
+
+    # print stats about initialization time of nix-portable
+    # skipt for termux, as it doesn't have bc installed
+    if [ -z "\$TERMUX_VERSION" ]; then
+      elapsed=\$(echo "scale=2; (\$end - \$start)/1000000" | bc)
+      debug "Time to initialize nix-portable: \$elapsed millis"
+    fi
+
+
+    ### run commands
+    [ -z "\$NP_RUN" ] && NP_RUN="\$run"
+    if [ "\$NP_RUNTIME" == "proot" ]; then
+      debug "running command: \$NP_RUN \$bin \$@"
+      exec \$NP_RUN \$bin "\$@"
+    else
+      cmd="\$NP_RUN \$bin \$@"
+      debug "running command: \$cmd"
+      exec \$NP_RUN \$bin "\$@"
+    fi
+    exit
+  '';
+
+  runtimeScriptEscaped = replaceStrings ["\""] ["\\\""] runtimeScript;
+
+  nixPortable = pkgs.runCommand pname {
+    nativeBuildInputs = [unixtools.xxd unzip];
+
+    meta = {
+      homepage = "https://github.com/DavHau/nix-portable";
+      description = "Nix - Static, Permissionless, Installation-free, Pre-configured for mn5";
+      maintainers = with lib.maintainers.bsc; [ abonerib ];
+      platforms = lib.platforms.linux;
+      license = lib.licenses.mit;
+    };
+  } ''
+    mkdir -p $out/bin
+    echo "${runtimeScriptEscaped}" > $out/bin/nix-portable.zip
+    xxd $out/bin/nix-portable.zip | tail
+
+    sizeA=$(printf "%08x" `stat -c "%s" $out/bin/nix-portable.zip` | tac -rs ..)
+    echo 504b 0304 0000 0000 0000 0000 0000 0000 | xxd -r -p >> $out/bin/nix-portable.zip
+    echo 0000 0000 0000 0000 0000 0200 0000 4242 | xxd -r -p >> $out/bin/nix-portable.zip
+
+    sizeB=$(printf "%08x" `stat -c "%s" $out/bin/nix-portable.zip` | tac -rs ..)
+    echo 504b 0102 0000 0000 0000 0000 0000 0000 | xxd -r -p >> $out/bin/nix-portable.zip
+    echo 0000 0000 0000 0000 0000 0000 0200 0000 | xxd -r -p >> $out/bin/nix-portable.zip
+    echo 0000 0000 0000 0000 0000 $sizeA 4242 | xxd -r -p >> $out/bin/nix-portable.zip
+
+    echo 504b 0506 0000 0000 0000 0100 3000 0000 | xxd -r -p >> $out/bin/nix-portable.zip
+    echo $sizeB 0000 0000 0000 0000 0000 0000 | xxd -r -p >> $out/bin/nix-portable.zip
+
+    unzip -vl $out/bin/nix-portable.zip
+
+    zip="${zip}/bin/zip -0"
+    $zip $out/bin/nix-portable.zip ${bwrap}/bin/bwrap
+    $zip $out/bin/nix-portable.zip ${nixStatic}/bin/nix
+    $zip $out/bin/nix-portable.zip ${zstd}/bin/zstd
+    $zip $out/bin/nix-portable.zip ${storeTar}/tar
+    $zip $out/bin/nix-portable.zip ${caBundleZstd}
+
+    # create fingerprint
+    fp=$(sha256sum $out/bin/nix-portable.zip | cut -d " "  -f 1)
+    sed -i "s/_FINGERPRINT_PLACEHOLDER_/$fp/g" $out/bin/nix-portable.zip
+    # fix broken zip header due to manual modification
+    ${zip}/bin/zip -F $out/bin/nix-portable.zip --out $out/bin/nix-portable-fixed.zip
+
+    rm $out/bin/nix-portable.zip
+    executable=${if bundledPackage == null then "" else bundledExe}
+    if [ "$executable" == "" ]; then
+      target="$out/bin/nix-portable"
+    else
+      target="$out/bin/$(basename "$executable")"
+    fi
+    mv $out/bin/nix-portable-fixed.zip "$target"
+    chmod +x "$target"
+  '';
+in
+nixPortable.overrideAttrs (prev: {
+  passthru = (prev.passthru or {}) // {
+    inherit bwrap;
+  };
+})

pkgs/nix-wrap/default.nix

@@ -14,7 +14,7 @@ let
   nixConfDir = "share";
   nix_wrap_sh = writeText "nix-wrap.sh" ''
     #!/usr/bin/env bash
-    #
+
     busybox_bin="${nixPrefix}${busybox}/bin"
     bubblewrap_bin="${nixPrefix}/${bubblewrap}/bin"
 
@@ -69,7 +69,6 @@ stdenv.mkDerivation rec {
   name = "nix-wrap";
   buildInputs = [
     bashInteractive
-    busybox
     nix
   ];
   src = null;
@@ -92,7 +91,6 @@ stdenv.mkDerivation rec {
     homepage = null;
     description = "nix bubblewrap wrapper";
     maintainers = [ ];
-    broken = true;
     platforms = lib.platforms.linux;
     license = lib.licenses.mit;
   };

pkgs/nixgen/default.nix

@@ -0,0 +1,22 @@
+{
+  stdenv
+, lib
+}:
+
+stdenv.mkDerivation {
+  pname = "nixgen";
+  version = "0.0.1";
+  src = ./nixgen;
+  dontUnpack = true;
+  phases = [ "installPhase" ];
+  installPhase = ''
+    mkdir -p $out/bin
+    cp -a $src $out/bin/nixgen
+  '';
+  meta = {
+    description = "Quickly generate flake.nix from command line";
+    maintainers = with lib.maintainers.bsc; [ rarias ];
+    platforms = lib.platforms.linux;
+    license = lib.licenses.gpl3Plus;
+  };
+}

pkgs/nixgen/nixgen

@@ -0,0 +1,97 @@
+#!/bin/sh
+#
+# Copyright (c) 2025, Barcelona Supercomputing Center (BSC)
+# SPDX-License-Identifier: GPL-3.0+
+# Author: Rodrigo Arias Mallo <rodrigo.arias@bsc.es>
+
+function usage() {
+  echo "USAGE: nixgen [-f] [package [...]] [-b package [...]]" >&2
+  echo "  Generates a flake.nix file with the given packages." >&2
+  echo "  After flake.nix is created, use 'nix develop' to enter the shell." >&2
+  echo "OPTIONS" >&2
+  echo "  -f               Overwrite existing flake.nix (default: no)." >&2
+  echo "  packages...      Add these packages to the shell." >&2
+  echo "  -b packages...   Add the dependencies needed to build these packages." >&2
+  echo "EXAMPLE" >&2
+  echo "  $ nixgen ovni bigotes -b nosv tampi" >&2
+  echo "  Adds the packages ovni and bigotes as well as all required dependencies" >&2
+  echo "  to build nosv and tampi." >&2
+  echo "AUTHOR" >&2
+  echo "  Rodrigo Arias Mallo <rodrigo.arias@bsc.es>" >&2
+  exit 1
+}
+
+mode=package
+packages=
+inputsFrom=
+force=
+
+if [[ $# -eq 0 ]]; then
+  usage
+fi
+
+while [[ $# -gt 0 ]]; do
+    case $1 in -b)
+      mode=build
+      shift
+      ;;
+    -f)
+      force=1
+      shift
+      ;;
+    -h)
+      usage
+      ;;
+    -*|--*)
+      echo "error: unknown option $1" >&2
+      exit 1
+      ;;
+    *)
+      if [ "$mode" == "package" ]; then
+        packages+="${packages:+ }$1"
+      else
+        inputsFrom+="${inputsFrom:+ }$1"
+      fi
+      shift
+      ;;
+  esac
+done
+
+if [ ! "$force" -a -e flake.nix ]; then
+  echo "error: flake.nix exists, force overwrite with -f" >&2
+  exit 1
+fi
+
+cat > flake.nix <<EOF
+{
+  inputs.jungle.url = "git+https://jungle.bsc.es/git/rarias/jungle";
+  outputs = { self, jungle }:
+  let
+    nixpkgs = jungle.inputs.nixpkgs;
+    customOverlay = (final: prev: {
+      # Example overlay, for now empty
+    });
+    pkgs = import nixpkgs {
+      system = "x86_64-linux";
+      overlays = [
+        # Apply jungle overlay to get our BSC custom packages
+        jungle.outputs.bscOverlay
+        # And on top apply our local changes to customize for cluster
+        customOverlay
+      ];
+    };
+  in {
+    devShells.x86_64-linux.default = pkgs.mkShell {
+      pname = "devshell";
+      # Include these packages in the shell
+      packages = with pkgs; [
+        $packages
+      ];
+      # The dependencies needed to build these packages will be also included
+      inputsFrom = with pkgs; [
+        $inputsFrom
+      ];
+    };
+  };
+}
+EOF

pkgs/nodes/default.nix

@@ -14,19 +14,19 @@
 , useGit ? false
 , gitUrl ? "ssh://git@gitlab-internal.bsc.es/nos-v/nodes.git"
 , gitBranch ? "master"
-, gitCommit ? "6002ec9ae6eb876d962cc34366952a3b26599ba6"
+, gitCommit ? "511489e71504a44381e0930562e7ac80ac69a848" # version-1.4
 }:
 
 with lib;
 
 let
   release = rec {
-    version = "1.3";
+    version = "1.4";
     src = fetchFromGitHub {
       owner = "bsc-pm";
       repo = "nodes";
       rev = "version-${version}";
-      hash = "sha256-cFb9pxcjtkMmH0CsGgUO9LTdXDNh7MCqicgGWawLrsU=";
+      hash = "sha256-+lR/R0l3fGZO3XG7whMorFW2y2YZ0ZFnLeOHyQYrAsQ=";
     };
   };
 

pkgs/nosv/default.nix

@@ -13,19 +13,19 @@
 , useGit ? false
 , gitUrl ? "git@gitlab-internal.bsc.es:nos-v/nos-v.git"
 , gitBranch ? "master"
-, gitCommit ? "9f47063873c3aa9d6a47482a82c5000a8c813dd8"
+, gitCommit ? "1108e4786b58e0feb9a16fa093010b763eb2f8e8" # version 4.0.0
 }:
 
 with lib;
 
 let
   release = rec {
-    version = "3.2.0";
+    version = "4.0.0";
     src = fetchFromGitHub {
       owner = "bsc-pm";
       repo = "nos-v";
       rev = "${version}";
-      hash = "sha256-yaz92426EM8trdkBJlISmAoG9KJCDTvoAW/HKrasvOw=";
+      hash = "sha256-llaq73bd/YxLVKNlMebnUHKa4z3sdcsuDUoVwUxNuw8=";
     };
   };
 

pkgs/onemath/default.nix

@@ -1,84 +0,0 @@
-{ lib
-, fetchFromGitHub
-, cmake
-, withCFlags
-, intelPackages
-
-, mklSupport ? true
-
-, config
-
-, cudaSupport ? config.cudaSupport
-, cudaPackages ? { }
-
-, rocmSupport ? config.rocmSupport
-, hipTargets ? null # only one target at a time supported
-, rocmPackages ? { }
-}:
-
-let
-  # rocmSupport is not enough, we need a specific target
-  enableHip = rocmSupport && hipTargets != null;
-
-  stdenv = withCFlags (lib.optionals cudaSupport [ "--cuda-path=${cudaPackages.cudatoolkit}" ]) intelPackages.stdenv;
-in
-
-  # at least one backend has to be enabled
-  assert mklSupport || cudaSupport || enableHip;
-
-stdenv.mkDerivation rec {
-  pname = "oneMath";
-  version = "0.8";
-
-  src = fetchFromGitHub {
-    owner = "uxlfoundation";
-    repo = "oneMath";
-    rev = "v${version}";
-    sha256 = "sha256-xK8lKI3oqKlx3xtvdScpMq+HXAuoYCP0BZdkEqnJP5o=";
-  };
-
-  cmakeFlags = [
-    (lib.cmakeBool "ENABLE_MKLCPU_BACKEND"    mklSupport)
-    (lib.cmakeBool "ENABLE_MKLGPU_BACKEND"    mklSupport)
-
-    (lib.cmakeBool "ENABLE_CUBLAS_BACKEND"    cudaSupport)
-    (lib.cmakeBool "ENABLE_CUFFT_BACKEND"     cudaSupport)
-    (lib.cmakeBool "ENABLE_CURAND_BACKEND"    cudaSupport)
-    (lib.cmakeBool "ENABLE_CUSOLVER_BACKEND"  cudaSupport)
-    (lib.cmakeBool "ENABLE_CUSPARSE_BACKEND"  cudaSupport)
-
-    (lib.cmakeBool "ENABLE_ROCBLAS_BACKEND"   enableHip)
-    (lib.cmakeBool "ENABLE_ROCFFT_BACKEND"    enableHip)
-    (lib.cmakeBool "ENABLE_ROCSOLVER_BACKEND" enableHip)
-    (lib.cmakeBool "ENABLE_ROCRAND_BACKEND"   enableHip)
-    (lib.cmakeBool "ENABLE_ROCSPARSE_BACKEND" enableHip)
-
-    (lib.cmakeBool "BUILD_FUNCTIONAL_TESTS" false)
-    (lib.cmakeBool "BUILD_EXAMPLES" false)
-  ] ++ lib.optionals enableHip [
-    (lib.cmakeFeature "HIP_TARGETS" hipTargets)
-  ];
-
-  nativeBuildInputs = [ cmake ];
-  buildInputs = lib.optionals (mklSupport) [
-    intelPackages.mkl
-    intelPackages.tbb
-  ] ++ lib.optionals (enableHip) [
-    rocmPackages.rocmPath
-    rocmPackages.rocblas
-    rocmPackages.rocfft
-    rocmPackages.rocsolver
-    rocmPackages.rocrand
-    rocmPackages.rocsparse
-  ] ++ lib.optionals (cudaSupport) [
-    (lib.getDev cudaPackages.cuda_cudart)
-    cudaPackages.cudatoolkit
-
-    cudaPackages.libcublas
-    cudaPackages.libcurand
-    cudaPackages.libcufft
-    cudaPackages.libcusparse
-    cudaPackages.libcusolver
-  ];
-
-}

pkgs/osu/default.nix

@@ -32,6 +32,11 @@ stdenv.mkDerivation rec {
       "CXX=mpicxx"
   ];
 
+  env = {
+    MPICH_CC="${stdenv.cc}/bin/${stdenv.cc.targetPrefix}cc";
+    MPICH_CXX="${stdenv.cc}/bin/${stdenv.cc.targetPrefix}c++";
+  };
+
   postInstall = ''
     mkdir -p $out/bin
     for f in $(find $out -executable -type f); do
@@ -44,5 +49,6 @@ stdenv.mkDerivation rec {
     homepage = "http://mvapich.cse.ohio-state.edu/benchmarks/";
     maintainers = [ ];
     platforms = lib.platforms.all;
+    cross = true;
   };
 }

pkgs/ovni/default.nix

@@ -7,7 +7,7 @@
 , useGit ? false
 , gitBranch ? "master"
 , gitUrl ? "ssh://git@bscpm04.bsc.es/rarias/ovni.git"
-, gitCommit ? "e4f62382076f0cf0b1d08175cf57cc0bc51abc61"
+, gitCommit ? "06432668f346c8bdc1006fabc23e94ccb81b0d8b" # version 1.13.0
 , enableDebug ? false
 # Only enable MPI if the build is native (fails on cross-compilation)
 , useMpi ? (stdenv.buildPlatform.canExecute stdenv.hostPlatform)
@@ -15,13 +15,13 @@
 
 let
   release = rec {
-    version = "1.12.0";
+    version = "1.13.0";
     src = fetchFromGitHub {
       owner = "bsc-pm";
       repo = "ovni";
       rev = "${version}";
-      hash = "sha256-H04JvsVKrdqr3ON7JhU0g17jjlg/jzQ7eTfx9vUNd3E=";
-    } // { shortRev = "a73afcf"; };
+      hash = "sha256-0l2ryIyWNiZqeYdVlnj/WnQGS3xFCY4ICG8JedX424w=";
+    } // { shortRev = "0643266"; };
   };
 
   git = rec {

pkgs/paraver/default.nix

@@ -12,7 +12,7 @@
 , paraverKernel
 , openssl
 , glibcLocales
-, wrapGAppsHook
+, wrapGAppsHook3
 }:
 
 let
@@ -64,7 +64,7 @@ stdenv.mkDerivation rec {
     autoconf
     automake
     autoreconfHook
-    wrapGAppsHook
+    wrapGAppsHook3
   ];
 
   buildInputs = [

pkgs/sonar/default.nix

@@ -35,5 +35,6 @@ stdenv.mkDerivation rec {
     maintainers = with lib.maintainers.bsc; [ rarias ];
     platforms = lib.platforms.linux;
     license = lib.licenses.mit;
+    cross = true;
   };
 }

pkgs/tagaspi/default.nix

@@ -5,23 +5,14 @@
 , automake
 , autoconf
 , libtool
-, mpi
 , autoreconfHook
 , gpi-2
 , boost
 , numactl
 , rdma-core
 , gfortran
-, symlinkJoin
 }:
 
-let
-  mpiAll = symlinkJoin {
-    name = "mpi-all";
-    paths = [ mpi.all ];
-  };
-in
-
 stdenv.mkDerivation rec {
   pname = "tagaspi";
   enableParallelBuilding = true;
@@ -35,16 +26,18 @@ stdenv.mkDerivation rec {
     hash = "sha256-RGG/Re2uM293HduZfGzKUWioDtwnSYYdfeG9pVrX9EM=";
   };
 
-  buildInputs = [
+  nativeBuildInputs = [
     autoreconfHook
     automake
     autoconf
     libtool
+    gfortran
+  ];
+
+  buildInputs = [
     boost
     numactl
     rdma-core
-    gfortran
-    mpiAll
   ];
 
   dontDisableStatic = true;
@@ -63,5 +56,6 @@ stdenv.mkDerivation rec {
     maintainers = with lib.maintainers.bsc; [ rarias ];
     platforms = lib.platforms.linux;
     license = lib.licenses.gpl3Plus;
+    cross = false; # gpi-2 cannot cross
   };
 }

pkgs/tampi/default.nix

@@ -68,5 +68,6 @@ in stdenv.mkDerivation {
     maintainers = with lib.maintainers.bsc; [ rarias ];
     platforms = lib.platforms.linux;
     license = lib.licenses.gpl3Plus;
+    cross = true;
   };
 }

pkgs/tasycl/default.nix

@@ -1,87 +0,0 @@
-{
-  lib,
-  stdenv,
-  autoconf,
-  automake,
-  autoreconfHook,
-  boost,
-  fetchFromGitHub,
-  gnumake,
-  libtool,
-  withCFlags,
-
-  useIntel ? true,
-  adaptivecpp ? null,
-  intelPackages ? null,
-
-  useGit ? false,
-  gitUrl ? "git@gitlab-internal.bsc.es:task-awareness/tasycl/tasycl.git",
-  gitBranch ? "main",
-  gitCommit ? "78f98dcf60a66e0eaa3b4ebcf55be076bec64825",
-}:
-
-assert !useIntel -> adaptivecpp != null;
-assert useIntel -> intelPackages != null;
-
-let
-  variant = if useIntel then "intel" else "acpp";
-
-  syclStdenv = withCFlags [ "-O3" ] (if useIntel then intelPackages.stdenv else stdenv);
-
-  release = rec {
-    version = "2.1.0";
-    src = fetchFromGitHub {
-      owner = "bsc-pm";
-      repo = "tasycl";
-      rev = version;
-      hash = "sha256-0kXnb0lHeQNHR27GTLbJ8xbiICLU8k2+FqEnnFSrzzo=";
-    };
-  };
-
-  git = rec {
-    version = src.shortRev;
-    src = builtins.fetchGit {
-      url = gitUrl;
-      ref = gitBranch;
-      rev = gitCommit;
-    };
-  };
-
-  source = if (useGit) then git else release;
-
-in
-
-syclStdenv.mkDerivation {
-  pname = "tasycl-${variant}";
-  inherit (source) src version;
-
-  enableParallelBuilding = true;
-  separateDebugInfo = true;
-
-  nativeBuildInputs = [
-    autoreconfHook
-    automake
-    autoconf
-    libtool
-    gnumake
-  ];
-
-  buildInputs = [
-    boost
-  ];
-
-  configureFlags = lib.optionals (!useIntel) [
-    "CXX=${lib.getExe adaptivecpp}"
-  ];
-
-  # add symlinks so we can explicitly link with tasycl-intel / tasycl-acpp
-  postInstall = ''
-    pushd $out/lib
-    for i in libtasycl* ; do
-      ln -s "$i" "''\${i/tasycl/tasycl-${variant}}"
-    done
-    popd
-  '';
-
-  hardeningDisable = [ "all" ];
-}

pkgs/upc-qaire-exporter/default.nix

@@ -1,9 +1,11 @@
 { python3Packages, lib }:
 
-python3Packages.buildPythonApplication rec {
+python3Packages.buildPythonApplication {
   pname = "upc-qaire-exporter";
   version = "1.0";
 
+  pyproject = true;
+
   src = ./.;
 
   doCheck = false;

secrets/ceph-user.age

@@ -1,25 +1,29 @@
 age-encryption.org/v1
--> ssh-ed25519 AY8zKw /gmhFOFqOs8IobAImvQVKeM5Y6k0FpuR61/Cu5drVVI
-g9FXJg2oIoien0zJ70FWHwSTM8SBwbpS188S3Swj7EM
--> ssh-ed25519 sgAamA opPjlWPhSiI0Rd5l7kd204S5FXFLcQcQftyKb7MDmnU
-3XrRDVnglCP+vBwvfd1rP5gHttsGDHyXwbf10a8/kKY
--> ssh-ed25519 HY2yRg QKZbubM76C3tobPoyCFDRclA9Pzb2fC7s4WOoIgdORc
-K5kckU0KhQFTE6SikJXFJgM41Tco5+VqOsaG0qLrY1Q
--> ssh-ed25519 fw2Xhg +ohqts8dLFjvdHxrGHcOGxU0dm+V3N//giljHkobpDM
-jR/UzGrfS9lrJ/VeolKLxfzeJAf2fIB2pdIn/6ukqNk
--> ssh-ed25519 tcumPQ 3DPkDPIQQSVtXSLzIRETsIyXQ0k1o18Evn6vf+l/6R8
-bLXF62OmJjnOT1vvgq3+AcOKKSG5NonrK5EqCVc0Mwo
--> ssh-ed25519 JJ1LWg 2Wefc7eLolMU5InEmCNTq21Mf71mI0a2N1HgDrlHvy4
-qXFW9CQBnrzubZ0mzS0Io2WGRrwGBkmeYndBTcZn/fM
--> ssh-ed25519 cDBabA oiH36AoIt/fFFYgnoxtH7OoetP+2/wjtn8qo3RJDSHc
-qKmkxy1aZGP4ZwC0iH7n7hiJ0+rFQYvjQb5O1a1Z0r4
--> ssh-ed25519 cK5kHw bX3RtO5StMejUYWAaA37fjHA5nO7Xs1vWDQk3yOjs2o
-Egxmcf8FKAd+E5hMLmhV1yQsCo5rJyUazf1szOvpTAM
--> ssh-ed25519 CAWG4Q oKqqRDJH0w8lsoQBQk0w8PO+z5gFNmSaGBUSumvDp1I
-m1zWp9MfViAmtpbJhqOHraIokDaPKb0DvvO4vAGCTWI
--> ssh-ed25519 xA739A G26kPOz6sbFATs+KAr7gbDvji13eA1smFusQAOJXMwA
-Sppvz7A103kZoNxoGsd6eXeCvVh7mBE2MRwLFj9O1dY
--> ssh-ed25519 MSF3dg 55ekNcp+inbUd+GQ/VZ7BoBASaJ8YDqF74CVXy1PUxQ
-aTHLLAbzQPWWld/OT3BKebc6FcmsqMTaWCPBGm1UHic
---- mVkAMnI9XQhS3fMiFuuXP/yLR9wEG9+Rr8pA4Uc0avY
-<04>DU <20><>s<EFBFBD><73><EFBFBD><EFBFBD>j<EFBFBD><6A>M<EFBFBD><4D>$<24>[<5B>M<EFBFBD><4D><EFBFBD><03>[_<>K7s<37>ju<>v<EFBFBD>D<EFBFBD>4<EFBFBD>g<EFBFBD><67>܄3<>Gn<47><6E><EFBFBD> ɽ<>P<EFBFBD>7~rZs<><73>
+-> ssh-ed25519 AY8zKw Crgof1PMHzv3jBw8VeJAst6FKSoyqPFdANFpf79CAgo
+7fagE5BmlWdTsdY/i3RbExu1KBcjW1LQXbYwu6chxlk
+-> ssh-ed25519 sgAamA tGRCaK8mjvz65YziXjRcjMOHIRoyGNJFzBEEbivXPDo
+YLzE5a3J81r+gzkfZIeh9gS+mXzMooC82tBbZ+C3C8o
+-> ssh-ed25519 HY2yRg +vhO1/vdGPM1JnZRsvVnViFWaFWUZ7MIqvWdePivkxA
+2K+JdN82DTeGh9QwZBTaghg8C5BCLoEsOgTCM64PU28
+-> ssh-ed25519 fw2Xhg NHDn0dq32I/AVdUZlpzBX6retlEYEUipde7A9R90qW4
+SJO78ooqEwfHlBRW+YCzgSQJb1JHNo8jz37t3qvLClE
+-> ssh-ed25519 G5LX5w d4HfLzI2623artkR2FIfRJgr5yb2BKZJUWqPnwOWDCk
+Kh50QESJZSjaJPyp3xroHGn0fD5pPNEYgKkDdqxGpjs
+-> ssh-ed25519 tcumPQ wQyOKtT15Qezs3cyv5/xxIPVD7Jyk6N6ZLkfxxBHLTo
+rKlRBjJdfDVT6U8211+ssFF8yY9yRs1u3GhCSvsw2oE
+-> ssh-ed25519 JJ1LWg 98tF1MdA244xNny4w3RnMFuubf4WcuQaZf2bN2Uq8Qc
+MA1Xh1H9vHisVYdqkxNeBkngtn8cYuT2eSimvooIXYo
+-> ssh-ed25519 cDBabA imJ0rXLQETELP7yo3sArhqA9nJwY+S6gkC7tA7CJsQA
+pKMHW/KDAoEj5ZD64VKekg6et9hlS2PKSgDw3eB3eu8
+-> ssh-ed25519 WY7yGw +2g5021/02HvLxLqq42ynr6qKgOKJ3J5GgB1a1bmFXg
+fYvj52R6bM6ngPOZ2lwVezTJnx+8LJBbdnaapKKbyd0
+-> ssh-ed25519 cK5kHw fLZ6yF3NggJ724rjYqhs5ZZh1xUExuK+ITAyqONluzk
+NS9OMX70XEHrbPQnmC4KB/eoiHChIb8DwDLYJiwOLUU
+-> ssh-ed25519 CAWG4Q tVduE/wMzdfS+DjNbU3Q4blNhL/A63IehNSZGJkJjD0
+jEBB5zG+gLA/88YF+KqWQsNH7lfCsWNvAkrgfbescFs
+-> ssh-ed25519 xA739A ZhFvev77I+YOl1YSHKn2ZcEvGoLjWOILufjd4q/k8HM
+YXEtHHtjPQlgZW60zHgHm7CLI6vYiRo+AM8QERL9tCg
+-> ssh-ed25519 MSF3dg 9DvLNheBU1vlfW2zNNxBrGnJ6k4P5ox7s+OGKlgRdyQ
+wseHfLGHz0huNi5sZsNOfeNkm6Kjjx0SZ8lK4/oXtUQ
+--- bnJE+14onuSla0XmckD4z/wChWGZh6exbkcbyhcmNYU
+<EFBFBD><EFBFBD>t<>N猈<><10>U<EFBFBD>w▮i2<69><32>-<2D>iV'(<1E>IF<49><46>	S<><53>xs/s<><73>	<09><>NDm<44>Q<EFBFBD><51><EFBFBD>o<EFBFBD><6F><EFBFBD><EFBFBD>wZv<7F><76>.\

secrets/gitlab-runner-docker-token.age

@@ -1,13 +1,13 @@
 age-encryption.org/v1
--> ssh-ed25519 HY2yRg U2KQWviZIVNemm9e8h7H+eOzoYNxXgLLS3hsZLMAuGk
-6n5dH1McNzk3rscP4v2pqZYDWtUFMd15rZsEd/mqIFM
--> ssh-ed25519 cK5kHw Ebrj/cpz1cFWAYAV9OxgyyH85OEMUnfUIV66p7jaoFY
-6J7hWqODtS/fIF4BpxhxbrxZq5vbolvbLqRKqazT02M
--> ssh-ed25519 CAWG4Q mXqoQH9ycHF7u0y8mazCgynHxNLxTnrmQHke+2a5QCc
-mq6PdSF+KOqthuXwzTCsOQsi5KG0z1wHUck+bSTyOBY
--> ssh-ed25519 xA739A TADeswueqDEroZWLjMw3RDNwVQ2xRD+JUMVZENovn0M
-KFlnSjVFbjc+ZsbY8Ed7edC5B01TJGzd/dSryiLArPc
--> ssh-ed25519 MSF3dg Pq+ZD8AqJGDHDbd4PO1ngNFST8+6C2ghZkO/knKzzEc
-wyiL/u38hdQMokmfTsBrY7CtYwc+31FG4EDaqVEn31U
---- 1z4cOipayh0zYkvasEVEvGreajegE/dqBV7b6E7aFh0
-<EFBFBD><EFBFBD><EFBFBD><EFBFBD>R<EFBFBD>@<40>/i<>I'<27><><EFBFBD>Nx<4E>r"<1D>`<1E>O<EFBFBD><4F><EFBFBD>y<><79>8<EFBFBD><38> \/<2F><>I<19><17>D<EFBFBD>`<60>ߓ<EFBFBD><DF93><EFBFBD><1E><04>uy<75><79><EFBFBD>:9Lt<4C><1D><><EFBFBD>؋<EFBFBD><D88B><EFBFBD><EFBFBD><EFBFBD><EFBFBD><EFBFBD>AU<41><55><EFBFBD><EFBFBD><EFBFBD><EFBFBD><EFBFBD>`<60>;<3B>q8<71>GLU#<23>i<EFBFBD>y<EFBFBD><79>i<03>ڜ
+-> ssh-ed25519 HY2yRg eHM55QsHK1ca9b5nP3EoVUZYu0w2d4B5tkilNK0j/lw
+6Na6lkMe0fOd7+vNP1fLIaVEQDUw5m65Wh8jUH1I6C0
+-> ssh-ed25519 cK5kHw 0ekhoBYwF7OSWwn4P5f/J4gXb9UHJAWGKV0yI7HCzzE
+2Q+Tt5jXAB9ip9jf1z+jeM4FSiqd1w5DNtbqtacuOcM
+-> ssh-ed25519 CAWG4Q Jmw4v9efOFXHjjNky96q/d6vGBP5dNM4wK9zoGrwOh8
+u5I17wcIq8/2ARWckDXsYckhfX0jWE4AEm5mip/KHws
+-> ssh-ed25519 xA739A 10pPeC2YG9DJzaQlt7p+fGo27VDiL2dN6JmvY2npcUw
+4aRV8DekYeL9HagGWgOSjlYnPKmYdKZH8Aw4lRdm+r8
+-> ssh-ed25519 MSF3dg hDwIE3Su6cN3sq2E5v/oy6vTNfxTT1ZPts85//gIhwY
+aoiaGjQYJB1ededhIuVBCKDRLIOVThWz1pSTvg65J3Y
+--- OYPAGb5U/nwLOIV5VchSvxhChjNnwzbEgU9glSkWCl4
+<EFBFBD>=<3D><><EFBFBD>c<EFBFBD>WȟJSaІ&<26><1F>ቧ)E<><0B> C<><43>J~u<>c<63><7F>2<EFBFBD><32>v<EFBFBD><76><EFBFBD><03><>s<EFBFBD><73><EFBFBD>vf<76><10><>X7(<28>~<7E><1A>=XCi;<3B>״<EFBFBD>\ߢ<><DFA2><EFBFBD>ܣ<EFBFBD><10><><07>ɳCe<43>D;;X*<2A>3<EFBFBD>i<EFBFBD><69>r<EFBFBD>Em<45><6D><

secrets/vpn-dac-login.age

@@ -1,14 +1,13 @@
 age-encryption.org/v1
--> ssh-ed25519 G5LX5w SRJhNenoQXbT1FgX3TMPnVH5P6oe2eHot+M1YsEjsEk
-hfTSLgKi98Eh7JK5o7x2POpTEtQlQCpEa3keUFYCuME
--> ssh-ed25519 cK5kHw z5TwWJTkvx7HztjXHJW/aCOtOfPrQaLP0gyIT7rXcyU
-b4NCpHfasgvkLLr+6LcWUl60p59aSNnfp3bl2OFYXo0
--> ssh-ed25519 CAWG4Q 4VpS1/OnFe8nxcQbRTKNhjsh/ZQ5cbhSMXwK/jjQ+3o
-WF9wvOkqVml4UcEzyzeumKuUwCwwr2zvKLMg+PCB8nk
--> ssh-ed25519 xA739A 67FhuJ070jBVMt/xbKHWhfri6iIm0FyaFvzQabsvFBM
-1G5/913dDv/r/6p1x/c5YiUnZzrX/LvIj33KW+PN0KU
--> ssh-ed25519 MSF3dg Bj/yB4N2wkyHCHC22tcjjJAA4ebSamN0Z4UVX3ZnryI
-6D/ZgTs+j+MGDAbPU5zyK0i9zN6tQy68IcOnQZ27mYg
---- 169erk3ICSYLs4FPEuXCn7QlekWhsmSn0Lr+/R14I5Q
-<EFBFBD><EFBFBD><EFBFBD><EFBFBD><05>ҽ3<D2BD>s<EFBFBD>
-w<EFBFBD><EFBFBD>4D<EFBFBD><EFBFBD>b.<2E><><EFBFBD>"|<7C><><EFBFBD>)"<22><><EFBFBD><EFBFBD><EFBFBD><EFBFBD><EFBFBD><EFBFBD>;<3B>.<2E>ɫ7)<29>LeC<05>=S؟
+-> ssh-ed25519 G5LX5w /9lcJOXC9CN02+XLswUaJ0H7jU6Xhjd8Xg4+KY0l1Vc
+fCLzsLc9zrocM8SHOKyZwt6eUEr8r1WLug9RLi63KU0
+-> ssh-ed25519 cK5kHw 1qza6h2NRSs4g8LYdFU7E+Dn1CgdtCU7DPdYInP1GwM
+/6uk7pTFkNTRTI7nA+x4y4CyOBVQVXX2lnpOg3ktPe4
+-> ssh-ed25519 CAWG4Q o+vyzcejSaNVYPSGzzOdzaqPByZ6zA1uaJf4KOg+wQA
+wfZmWrDSfRV8C+Hu+SeZDcomf/qigBqxuQK77SfnuEo
+-> ssh-ed25519 xA739A +rBsOC+IBE3lmc/pfrziftLIqMSyaGMsggRjC5Pqwl0
+xa7ulLz2+YC3g2hu7e9XhRYDIUb2sriaaigJRYF2oB8
+-> ssh-ed25519 MSF3dg TK6PmKjjQt8ni0mJLCt7P41lUsgimlj3o5Q6n3N+DE4
+ne+s3ctcg8cBjY06LY2lrW7wcxomvKHxu6MlirEA8Kg
+--- eorg2ckkUZ1Ogi4iTTg2MoiVBwl1F0RCmH2D8N1d1So
+<EFBFBD><EFBFBD><EFBFBD>8<1C><><EFBFBD><EFBFBD><EFBFBD><12>i<17>$]K<>J=2Z<1D><>ӼF<D3BC>][<14><><EFBFBD>8<EFBFBD><38>ޤ<12>	<09>=<3D><>
LD/<2F>gz

secrets/wg-fox.age

@@ -1,14 +1,13 @@
 age-encryption.org/v1
--> ssh-ed25519 cDBabA heyW9/cxgwFX9IexQIXjAQDWGQPNcMXcArQp2Rxsqx4
-o9MQ7EH8PDDjsJdpH9F3Xq2zUoaDAJQlfFmYucSFs6Y
--> ssh-ed25519 cK5kHw Sza4pos7K3qW3omEeyidI/jszJNf9smemSZnUJfCIww
-D6vazXki7hIYraIuSiGPS+FPbkFUwHhHWDf52OhEIMg
--> ssh-ed25519 CAWG4Q YexIHueOIMmIN8JIDyNUOKBkyz/k18HqV3hTXh48KlM
-xh8UJzzWT6ByN+Dpn4JrMNsjGC/uc/v6LynwjBDz9NQ
--> ssh-ed25519 xA739A KySG3TXdqfCMUkVEDGa74B0op745s3XGYxFLyAXSQAc
-5EI/yb5ctW9Qu18bHm3/sK97kwGcKzzmWvPSCWm89XA
--> ssh-ed25519 MSF3dg MNxnNj0fHmri8ophexXPNjRUBUWrzcuk5S1mucxUMTE
-GVFWXtISEU8ZmlwL4nh4weAgfGrt2GHX0DTzbpS6zg8
---- UdrqkYG2ZApAuwdZeNhC50NP2rkD/Ol6y8nJa4RHx7Y
-<EFBFBD>ܻ<EFBFBD>m(<28><><EFBFBD>><3E>H<48>Y87<><37>G<0F>+*<12><><EFBFBD><EFBFBD>9V<>.<2E><><EFBFBD><EFBFBD><03><><EFBFBD>p<EFBFBD>Oo<4F>=+哇<>P0<50><30>{<7B>)<29><17><><EFBFBD><EFBFBD>><3E>z3P^
-u
+-> ssh-ed25519 cDBabA So/Tqwdwd7G0PbE4RwH2qDrNcdqTkhFjF4IJrLKKpkM
+MEA5dzlUeFXm3pa+ndxrcE0ZWdO00Xf98+Q8U9LZ+cQ
+-> ssh-ed25519 cK5kHw sCHD/hHBOfMBUQXkLG3MBPNC4ebLOXW37OlF/C8FEjU
+4TFbKoy23Ic2vteXZ02fMrFxyb4NxyWaSo5I8dn48mI
+-> ssh-ed25519 CAWG4Q KYGPAXTx8H5cBC3YIBxi5B7OeF15C9rEIPFCcG0vEDw
+9LC2Zvp1Oiau1/hfPf+nJknl6BUSr+lzTn6TozZNxJg
+-> ssh-ed25519 xA739A hpvNBHPgYRtUx0HyUAdCW8s7QTmGyPXwzRHb8qYoeG0
+QkUZINY7Fr7HpyY6lbIMcP+hGO3oCmLL6N+yDN4weyk
+-> ssh-ed25519 MSF3dg P9TmEfXS+hyxsbVKja58UWAFpad0ZS3LhwrMkLnSNAY
+hiHuh7HhoYwHi2KFbCczXJoF3On9eqjD1Wsp9Q1NW/w
+--- SN3peoDvjXuD/Q4DdebQFam1CE22NyGZlMmnKyCTuX8
+s<0F><><14><>&׳֦<D7B3><D6A6><EFBFBD><EFBFBD>
}<7D>#In0&<26><1F>{<7B>1<EFBFBD><31>.

test/compilers/hello-sycl.nix

@@ -1,55 +0,0 @@
-{ intelPackages,  writeText, strace }:
-
-let
-  stdenv = intelPackages.stdenv;
-  hello_sycl = writeText "hello.cpp" ''
-    #include <sycl/sycl.hpp>
-
-    class hello_world;
-
-    int main(int argc, char** argv) try {
-        auto device_selector = sycl::default_selector_v;
-
-        sycl::queue queue(device_selector);
-
-        std::cout << "Running on: "
-                  << queue.get_device().get_info<sycl::info::device::name>()
-                  << std::endl;
-
-        queue.submit([&] (sycl::handler& cgh) {
-            auto os = sycl::stream{128, 128, cgh};
-            cgh.single_task<hello_world>([=]() {
-                os << "Hello World! (on device)\n";
-            });
-        });
-
-        return 0;
-    } catch (sycl::exception &e) {
-        std::cout << "SYCL exception: " << e.what() << std::endl;
-        return 0; // we excpect to fail since no devices should be available;
-    }
-  '';
-in
-
-stdenv.mkDerivation {
-  version = "0.0.1";
-  name = "hello-sycl";
-  buildInputs = [ stdenv strace ];
-  src = hello_sycl;
-  dontUnpack = true;
-  dontConfigure = true;
-  NIX_DEBUG = 0;
-  buildPhase = ''
-    cp $src hello.cpp
-    set -x
-    echo CXX=$CXX
-    command -v $CXX
-    $CXX -fsycl hello.cpp -o hello
-    ./hello
-    set +x
-  '';
-
-  installPhase = ''
-    touch $out
-  '';
-}

test/compilers/icpx-ompss2.nix

@@ -1,74 +0,0 @@
-{ writeText, intelPackages, nodes, nosv, clangOmpss2Nodes, strace }:
-
-let
-  hello_cpp = writeText "hello.cpp" ''
-    #include <cstdio>
-    #include <sycl/sycl.hpp>
-
-    int main(int argc, char** argv) try {
-        sycl::queue queue;
-
-        std::cout << "Running on: "
-                  << queue.get_device().get_info<sycl::info::device::name>()
-                  << std::endl;
-
-        #pragma oss task
-        queue.submit([&] (sycl::handler& cgh) {
-            auto os = sycl::stream{128, 128, cgh};
-            cgh.single_task<class hello_world>([=]() {
-                os << "Hello World! (on device)\n";
-            });
-        }).wait();
-
-        return 0;
-    } catch (sycl::exception &e) {
-        std::cout << "SYCL exception: " << e.what() << std::endl;
-        return 0; // we expect to fail since no devices should be available;
-    }
-
-  '';
-in
-
-intelPackages.stdenv.mkDerivation {
-  version = "0.0.1";
-  name = "hello-syclompss";
-
-  src = hello_cpp;
-
-  nativeBuildInputs = [
-    strace
-    nodes
-    nosv
-  ];
-
-  dontUnpack = true;
-  dontConfigure = true;
-
-  # NODES requires access to /sys/devices to request NUMA information
-  requiredSystemFeatures = [ "sys-devices" ];
-
-  env.NODES_HOME = nodes;
-
-  NIX_DEBUG = 1;
-  buildPhase = ''
-    cp $src hello.cpp
-    set -x
-    echo CXX=$CXX
-    echo NODES_HOME=$NODES_HOME
-    command -v $CXX
-
-    icpx -Wno-deprecated-declarations -fsycl \
-        -fsycl-host-compiler=${clangOmpss2Nodes.forIcpx}/bin/clang++ \
-        -fsycl-host-compiler-options='-Wno-deprecated-declarations -fompss-2=libnodes' \
-        -lnodes -lnosv \
-        $NODES_HOME/lib/nodes-main-wrapper.o \
-        hello.cpp -o hello
-
-    ./hello
-    set +x
-  '';
-
-  installPhase = ''
-    touch $out
-  '';
-}