This patch provides input arguments `newuidmapPath` and `newgidmapPath`
for apptainer and singularity to specify the path to the SUID-ed executables
newuidmap and newgidmap where they are not available from the FHS PATH.
As NixOS places those suided executables in a non-FHS position
(/run/wrapper/bin), this patch provides
programs.singularity.enableFakeroot option and implement with the above
input parameters.
Upstream changes:
singularity 3.8.7 (the legacy) -> apptainer 1.1.3 (the renamed) / singularity 3.10.4 (Sylabs's fork)
Build process:
* Share between different sources
* Fix the sed regexp to make defaultPath patch work
* allowGoReference is now true
* Provied input parameter removeCompat (default to false)
that removes the compatible "*singularity*" symbolic links
and related autocompletion files when projectName != "singularity"
* Change localstatedir to /var/lib
* Format with nixpkgs-fmt
* Fix the defaultPath patching
and use it instead of the `<executable> path` config directive
deprecated in Apptainer
* Provide dependencies for new functionalities such as
squashfuse (unprivileged squashfs mount)
* Provide an attribute `defaultPathInputs` to override
prefix of container runtime default PATH
NixOS module programs.singularity:
* Allow users to specify packages
* Place related directories to /var/lib
* Format with nixpkgs-fmt
singularity-tools:
* Allow users to specify packages
* Place related directories to /var/lib when building images in VM
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.
This update was made based on information from https://repology.org/metapackage/singularity/versions.
<details><summary>Version release notes (from GitHub)</summary>
Greetings Singularity containerizers!
This release contains fixes for a _high severity_ security issue affecting Singularity 2.3.0 through 2.5.1 on kernels that support overlay file systems (CVE-2018-12021). A malicious user with network access to the host system (e.g. ssh) could exploit this vulnerability to access sensitive information on disk and bypass directory image restrictions like those preventing the root file system from being mounted into the container.
Singularity 2.5.2 should be installed immediately, and all previous versions of Singularity should be removed. The vulnerability addressed in this release affects kernels that support overlayfs. If you are unable to upgrade immediately, you should set `enable overlay = no` in `singularity.conf`.
In addition, this release contains a large number of bug fixes. Details follow:
## [Security related fixes](https://cve.mitre.org/cgi-bin/cvename.cgi?name=2018-12021)
- Removed the option to use overlay images with `singularity mount`. This
flaw could allow a malicious user accessing the host system to access
sensitive information when coupled with persistent ext3 overlay.
- Fixed a race condition that might allow a malicious user to bypass directory
image restrictions, like mounting the host root filesystem as a container
image
## Bug fixes
- Fix an error in malloc allocation #1620
- Honor debug flag when pulling from docker hub #1556
- Fix a bug with passwd abort #1580
- Allow user to override singularity.conf "mount home = no" with --home option
#1496
- Improve debugging output #1535
- Fix some bugs in bind mounting #1525
- Define PR_(S|G)ET_NO_NEW_PRIVS in user space so that these features will
work with kernels that implement them (like Cray systems) #1506
- Create /dev/fd and standard streams symlinks in /dev when using minimal dev
mount or when specifying -c/-C/--contain option #1420
- Fixed * expansion during app runscript creation #1486
As always, please report any bugs to:
https://github.com/singularityware/singularity/issues/new</details>
These checks were done:
- built on NixOS
- /nix/store/3igwiqi311c18w13y5r7zrgpcnzylg9l-singularity-2.5.2/bin/singularity passed the binary check.
- Warning: no invocation of /nix/store/3igwiqi311c18w13y5r7zrgpcnzylg9l-singularity-2.5.2/bin/run-singularity had a zero exit code or showed the expected version
- 1 of 2 passed binary check by having a zero exit code.
- 0 of 2 passed binary check by having the new version present in output.
- found 2.5.2 with grep in /nix/store/3igwiqi311c18w13y5r7zrgpcnzylg9l-singularity-2.5.2
- directory tree listing: https://gist.github.com/ed6db09ad43a19c6abf2d35d15ef489c
- du listing: https://gist.github.com/9bd23f4d6ee86a9eb2ba7ec5c986741d
