Dear Valentin, I wasn't trying to run the install step either and left the bits you commented out commented out.
The problem seems to be that preinstallopts = 'cd build && ' leads to cd build && make install which fails. I thus modified skipsteps to additionally ignore the install step thus skipsteps = ['configure', 'install'] so that EasyBuild finished without an error and created the module file. I then ran eb Singularity-3.4.0-Go-1.12.eb --robot --force --disable-cleanup-builddir switched to root, changed to the 'build' directory and ran make install and then ran the commented out chowns and chmods. After that as a regular user I was able to download, start singularity image and run an 'exec' on it. Thanks for the help! Cheers, Loris Valentin Plugaru <[email protected]> writes: > Dear Loris, > > We're not running the install step as privileged with sudo from within > EasyBuild. > That's why in the .eb file there were comments for the 'next steps after > installation' that are (a reminder and) taken care of outside of the EB > workflow. > > It may be possible to allow the sudo commands from within EB depending on > your site configuration/policies (e.g. dedicated software build user > registered for restricted sudo commands, etc.). > > Kind regards, > Valentin > > On 2019-09-12 13:16, Loris Bennett wrote: > > Hi Valentin, > > Thanks for the EasyConfig. I have modified it for 3.4.0, which was > mainly just adding 'cryptsetup' to 'osdependencies' (see attachment). > However, I am getting the error: > > == 2019-09-12 11:20:26,246 build_log.py:163 ERROR EasyBuild crashed with an > error (at > easybuild/software/EasyBuild/3.9.4/lib/python2.7/site-packages/vsc_base-2.8.4-py2.7.egg/vsc/utils/exceptions.py:124 > in __init__): cmd "cd build && make install " exited with exit code 2 and > output: > INSTALL > /trinity/shared/easybuild/software/Singularity/3.4.0-Go-1.12/bin/singularity > [snip (11 lines)] > INSTALL > /trinity/shared/easybuild/software/Singularity/3.4.0-Go-1.12/etc/singularity/cgroups/cgroups.toml > SUID binary requires to execute make install as root, use sudo make install > to finish installation > > The documentation says that the install step should be > > sudo make -C ./builddir install > > So do I need to disable the install step completely within EasyBuild and > do 'make install' as root separately afterwards? I'd obviously need to > keep the build directory. > > Cheers, > > Loris > > > Valentin Plugaru <[email protected]> writes: > > Dear all, > > We're using the attached EasyConfig to deploy Singularity 3.3.0. > > Haven't cleaned it up enough for a PR, and there's new a new v3.4.0 > with support for encrypted containers that this EasyConfig should be > adapted for, but I haven't had time to try it yet and see if any > changes are needed. > > Kind regards, > Valentin > > On 2019-09-09 16:04, Loris Bennett wrote: > > Hi, > > I see the most recent version of Singularity available is > > Singularity-2.4.2-GCC-5.4.0-2.26.eb > > Is there any particular reason why there are no easyconfigs for > version 3? > > Regards > > Loris -- Dr. Loris Bennett (Mr.) ZEDAT, Freie Universität Berlin Email [email protected]
