Fix setting of component directories when using buildininstalldir by Flamefire · Pull Request #4065 · easybuilders/easybuild-easyblocks

Flamefire · 2026-02-16T15:29:21Z

(created using eb --new-pr)

Fixes #4037 see easybuilders/easybuild-easyconfigs#23852 (comment)

pavelToman · 2026-02-17T12:12:07Z

Even with this fix I am still hitting the error:

== FAILED: Installation ended unsuccessfully: Failed to copy directory 
/scratch/gent/vo/001/gvo00117/easybuild/RHEL9/cascadelake-ampere-ib/software/ModPipe/2.3.1-foss-2025b to 
/scratch/gent/vo/001/gvo00117/easybuild/RHEL9/cascadelake-ampere-ib/software/ModPipe/2.3.1-foss-2025b: [Errno 2] No such file or 
directory: '/scratch/gent/vo/001/gvo00117/easybuild/RHEL9/cascadelake-ampere-ib/software/ModPipe/2.3.1-foss-2025b'

The /scratch/gent/vo/001/gvo00117/easybuild/RHEL9/cascadelake-ampere-ib/software/ModPipe is empty

Flamefire · 2026-02-17T12:50:28Z

That easyconfig didn't work in earlier EB versions did it?
Because it uses buildininstalldir and a tarball component with default install_type that deletes the installdir first:

easybuild-easyblocks/easybuild/easyblocks/generic/tarball.py

Lines 112 to 116 in 27af3bc

    
           elif self.cfg['install_type'] is None: 
        
               # Wipe and copy root of installation directory (default) 
        
               install_path = self.installdir 
        
               dirs_exist_ok = False 
        
               install_logmsg = "Copying tarball contents of %s into %s after wiping it..."

Then of course the directory won't exist anymore

pavelToman · 2026-02-17T13:43:02Z

I've just add the BLAST to the easyconfig, since the version I need was archived last month. So in original (5m old) all works ok.
But it makes sense, because I am hitting same error with v5.1.2. So this new error was introduced by the BLAST component not by the broken bundle.py

pavelToman · 2026-02-17T14:18:20Z

ModPipe v2.3.1 from this PR could be built with this update to the bundle.py (on develop) now

Thyre · 2026-02-17T15:33:31Z

@boegelbot please test @ jsc-zen3
CORE_CNT=16
EB_ARGS="buildenv-default-foss-2023b.eb OpenSSL-3.eb Circuitscape-5.12.3-Julia-1.9.2.eb Perl-bundle-CPAN-5.38.2-GCCcore-13.3.0.eb gfbf-2024a.eb crypt4gh-1.7-GCC-12.3.0.eb jiter-0.4.1-GCCcore-12.3.0.eb X11-20240607-GCCcore-13.3.0.eb --sanity-check-only"

boegelbot · 2026-02-17T15:53:08Z

@Thyre: Request for testing this PR well received on jsczen3l1.int.jsc-zen3.fz-juelich.de

PR test command 'if [[ develop != 'develop' ]]; then EB_BRANCH=develop ./easybuild_develop.sh 2> /dev/null 1>&2; EB_PREFIX=/home/boegelbot/easybuild/develop source init_env_easybuild_develop.sh; fi; EB_PR=4065 EB_ARGS="buildenv-default-foss-2023b.eb OpenSSL-3.eb Circuitscape-5.12.3-Julia-1.9.2.eb Perl-bundle-CPAN-5.38.2-GCCcore-13.3.0.eb gfbf-2024a.eb crypt4gh-1.7-GCC-12.3.0.eb jiter-0.4.1-GCCcore-12.3.0.eb X11-20240607-GCCcore-13.3.0.eb --sanity-check-only" EB_CONTAINER= EB_REPO=easybuild-easyblocks EB_BRANCH=develop /opt/software/slurm/bin/sbatch --job-name test_PR_4065 --ntasks="16" ~/boegelbot/eb_from_pr_upload_jsc-zen3.sh' executed!

exit code: 0
output:

Submitted batch job 9725

Test results coming soon (I hope)...

Details

- notification for comment with ID 3915410384 processed

Message to humans: this is just bookkeeping information for me,
it is of no use to you (unless you think I have a bug, which I don't).

boegelbot · 2026-02-17T15:56:06Z

Test report by @boegelbot

Overview of tested easyconfigs (in order)

FAIL buildenv-default-foss-2023b.eb (unhandled exception: expected str, bytes or os.PathLike object, not NoneType)

Traceback (most recent call last):
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/main.py", line 180, in build_and_install_software
  (ec_res['success'], app_log, err_msg, err_code) = build_and_install_one(ec, init_env)
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/framework/easyblock.py", line 5120, in build_and_install_one
  result = app.run_all_steps(run_test_cases=run_test_cases)
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/framework/easyblock.py", line 4932, in run_all_steps
  self.run_step(step_name, step_methods)
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/framework/easyblock.py", line 4773, in run_step
  current_method()
File "/tmp/eb-wksj913n/included-easyblocks-26fz2qet/easybuild/easyblocks/generic/bundle.py", line 493, in sanity_check_step
  fake_mod_data = self.load_fake_module(purge=True)
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/framework/easyblock.py", line 1910, in load_fake_module
  fake_mod_path = self.make_module_step(fake=True)
File "/home/boegelbot/easybuild/easybuild-easyblocks/easybuild/easyblocks/generic/buildenv.py", line 119, in make_module_step
  wrappers_dir = os.path.join(self.rpath_wrappers_dir, RPATH_WRAPPERS_SUBDIR)
File "/usr/lib64/python3.9/posixpath.py", line 76, in join
  a = os.fspath(a)
TypeError: expected str, bytes or os.PathLike object, not NoneType

SUCCESS OpenSSL-3.eb
FAIL Circuitscape-5.12.3-Julia-1.9.2.eb (unhandled exception: 'NoneType' object has no attribute 'split')

Traceback (most recent call last):
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/main.py", line 180, in build_and_install_software
  (ec_res['success'], app_log, err_msg, err_code) = build_and_install_one(ec, init_env)
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/framework/easyblock.py", line 5120, in build_and_install_one
  result = app.run_all_steps(run_test_cases=run_test_cases)
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/framework/easyblock.py", line 4932, in run_all_steps
  self.run_step(step_name, step_methods)
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/framework/easyblock.py", line 4773, in run_step
  current_method()
File "/home/boegelbot/easybuild/easybuild-easyblocks/easybuild/easyblocks/generic/juliabundle.py", line 94, in sanity_check_step
  super().sanity_check_step(custom_paths=custom_paths)
File "/tmp/eb-wksj913n/included-easyblocks-26fz2qet/easybuild/easyblocks/generic/bundle.py", line 490, in sanity_check_step
  super().sanity_check_step(*args, **kwargs)
File "/home/boegelbot/easybuild/easybuild-easyblocks/easybuild/easyblocks/generic/juliapackage.py", line 308, in sanity_check_step
  return ExtensionEasyBlock.sanity_check_step(self, EXTS_FILTER_JULIA_PACKAGES, *args, **kwargs)
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/framework/extensioneasyblock.py", line 184, in sanity_check_step
  with self.fake_module_environment(extra_modules=extra_modules):
File "/usr/lib64/python3.9/contextlib.py", line 119, in __enter__
  return next(self.gen)
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/framework/easyblock.py", line 2358, in fake_module_environment
  fake_mod_data = self.load_fake_module(purge=True, extra_modules=extra_modules)
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/framework/easyblock.py", line 1910, in load_fake_module
  fake_mod_path = self.make_module_step(fake=True)
File "/tmp/eb-wksj913n/included-easyblocks-26fz2qet/easybuild/easyblocks/generic/bundle.py", line 471, in make_module_step
  return super().make_module_step(*args, **kwargs)
File "/home/boegelbot/easybuild/easybuild-framework/easybuild/framework/easyblock.py", line 4536, in make_module_step
  txt += self.make_module_extra()
File "/home/boegelbot/easybuild/easybuild-easyblocks/easybuild/easyblocks/generic/juliabundle.py", line 98, in make_module_extra
  return super().make_module_extra(*args, **kwargs)
File "/tmp/eb-wksj913n/included-easyblocks-26fz2qet/easybuild/easyblocks/generic/bundle.py", line 482, in make_module_extra
  return super().make_module_extra(*args, **kwargs)
File "/home/boegelbot/easybuild/easybuild-easyblocks/easybuild/easyblocks/generic/juliapackage.py", line 324, in make_module_extra
  mod += self.module_generator.append_paths('JULIA_LOAD_PATH', [self.julia_env_path(absolute=False, base=False)])
File "/home/boegelbot/easybuild/easybuild-easyblocks/easybuild/easyblocks/generic/juliapackage.py", line 125, in julia_env_path
  julia_version = get_software_version('Julia').split('.')
AttributeError: 'NoneType' object has no attribute 'split'

SUCCESS Perl-bundle-CPAN-5.38.2-GCCcore-13.3.0.eb
SUCCESS gfbf-2024a.eb
SUCCESS crypt4gh-1.7-GCC-12.3.0.eb
SUCCESS jiter-0.4.1-GCCcore-12.3.0.eb
SUCCESS X11-20240607-GCCcore-13.3.0.eb

Build succeeded for 6 out of 8 (total: 2 mins 42 secs) (8 easyconfigs in total)
jsczen3c2.int.jsc-zen3.fz-juelich.de - Linux Rocky Linux 9.7, x86_64, AMD EPYC-Milan Processor (zen3), Python 3.9.23
See https://gist.github.com/boegelbot/b8e5a3247808777d4e7b9db7c71df615 for a full test report.

Thyre · 2026-02-17T16:14:31Z

@boegelbot please test @ jsc-zen3
CORE_CNT=16
EB_ARGS="ROCm-LLVM-19.0.0-GCCcore-14.2.0-ROCm-6.4.1.eb --module-only"

Flamefire · 2026-02-17T16:18:15Z

buildenv doesn't support --sanity-check-only due to make_module_step:

It accesses self.rpath_wrappers_dir which is set in prepare_step and overwritten in install_step
It needs self.toolchain.vars which is also set in prepare_step (in framework)

Not sure why --sanity-check-only requires a fake module if the real one exists

Thyre · 2026-02-17T16:27:13Z

buildenv doesn't support --sanity-check-only due to make_module_step:

It accesses self.rpath_wrappers_dir which is set in prepare_step and overwritten in install_step

It needs self.toolchain.vars which is also set in prepare_step (in framework)

Not sure why --sanity-check-only requires a fake module if the real one exists

Yeah... copied that from an older PR, see also #4040

boegelbot · 2026-02-17T16:33:09Z

@Thyre: Request for testing this PR well received on jsczen3l1.int.jsc-zen3.fz-juelich.de

PR test command 'if [[ develop != 'develop' ]]; then EB_BRANCH=develop ./easybuild_develop.sh 2> /dev/null 1>&2; EB_PREFIX=/home/boegelbot/easybuild/develop source init_env_easybuild_develop.sh; fi; EB_PR=4065 EB_ARGS="ROCm-LLVM-19.0.0-GCCcore-14.2.0-ROCm-6.4.1.eb --module-only" EB_CONTAINER= EB_REPO=easybuild-easyblocks EB_BRANCH=develop /opt/software/slurm/bin/sbatch --job-name test_PR_4065 --ntasks="16" ~/boegelbot/eb_from_pr_upload_jsc-zen3.sh' executed!

exit code: 0
output:

Submitted batch job 9730

Test results coming soon (I hope)...

Details

- notification for comment with ID 3915631003 processed

Message to humans: this is just bookkeeping information for me,
it is of no use to you (unless you think I have a bug, which I don't).

boegelbot · 2026-02-17T16:36:42Z

Test report by @boegelbot

Overview of tested easyconfigs (in order)

SUCCESS ROCm-LLVM-19.0.0-GCCcore-14.2.0-ROCm-6.4.1.eb

Build succeeded for 1 out of 1 (total: 3 mins 19 secs) (1 easyconfigs in total)
jsczen3c2.int.jsc-zen3.fz-juelich.de - Linux Rocky Linux 9.7, x86_64, AMD EPYC-Milan Processor (zen3), Python 3.9.23
See https://gist.github.com/boegelbot/349f0815849cd1ea1f57c7e7e0c23056 for a full test report.

Flamefire · 2026-02-17T16:43:41Z

Yeah... copied that from an older PR, see also #4040

Fixed in #4068

Thyre · 2026-02-17T16:48:49Z

Changes here look sane to me. Cannot test this further at the moment.

We should probably think about a well-suited test suite for this EasyBlock to test these PRs with.
We have so many corner cases which can break because we forgot something.

Probably something for a regression test suite.

Flamefire added 2 commits February 16, 2026 16:29

Fix setting of component directories when using buildininstalldir

4ebbcc7

Use post_init for setting paths

4764336

Flamefire mentioned this pull request Feb 16, 2026

{bio,tools}[foss/2025b,gompi/2025b] ModPipe v2.3.1, HH-suite v3.3.0-2025-08-12 easybuilders/easybuild-easyconfigs#23852

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Flamefire mentioned this pull request Feb 17, 2026

Fix --sanity-check-only for Bundle #4068

Open

1 task

Thyre added the bug fix label Feb 17, 2026

boegel added this to the release after 5.2.1 milestone Feb 18, 2026

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