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Lars Bilke bilke Helmholtz Centre for Environmental Research Leipzig https://stackoverflow.com/cv/bilke

bilke/cmake-modules 278

Additional CMake functionality. Most of the modules are from Ryan Pavlik (https://github.com/rpavlik/cmake-modules)

bilke/bootstrap-notify 1

Bootstrap alert system made better, builds off of bootstrap-alert.js

bilke/ansible-consul 0

:satellite: Ansible role for Consul clusters

bilke/ansible-nomad 0

:watch: Ansible role for Nomad

bilke/ansible-role-cmake 0

Ansible Role for Installing CMake from Linux Tarball on cmake.org

issue commentbilke/conan-vtk

How to use this repo to get VTK-build?

You need add my remote:

conan remote add ogs https://ogs.jfrog.io/ogs/api/conan/conan

A conanfile.txt could look like this:

[requires]
vtk/8.2.0@bilke/stable

[options]
vtk:qt=True

Then conan install.

artzers

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Lars Bilke

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tfel include is a system include.

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create barnchbilke/conan-tfel

branch : testing/3.3.0

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Lars Bilke

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Update README.md

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Lars Bilke

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[git] Converted jpg from lfs to git.

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Lars Bilke

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[git] Converted png from lfs to git.

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Lars Bilke

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[git] Converted pdf from lfs to git.

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Lars Bilke

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[git] Converted vtu from lfs to git.

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Lars Bilke

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[git] Converted pvtu from lfs to git.

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Lars Bilke

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[git] Converted smesh from lfs to git.

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Lars Bilke

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[git] Converted 3dm from lfs to git.

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Lars Bilke

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[git] Converted fem from lfs to git.

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Lars Bilke

commit sha 2595b374b14e568be3cde03efb2ab331989c6ab1

[git] Converted ele from lfs to git.

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Lars Bilke

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[git] Converted node from lfs to git.

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Lars Bilke

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[git] Converted msh from lfs to git.

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Lars Bilke

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[git] Converted gml from lfs to git.

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Lars Bilke

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[git] Converted vti from lfs to git.

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Lars Bilke

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[git] Converted vtp from lfs to git.

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Lars Bilke

commit sha b5a8574c13983e5ebef8b1fea6c68909a3bff3e1

[git] Converted bin from lfs to git.

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Lars Bilke

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[git] Converted pvtu* from lfs to git.

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Lars Bilke

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[git] Converted gif from lfs to git.

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Lars Bilke

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[git] Converted mp4 from lfs to git.

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Lars Bilke

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[git] Converted nc from lfs to git.

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Lars Bilke

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[git] Converted web/resources/_gen from lfs to git.

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issue closedufz/ogs

Remove Git LFS?

During work on #2947 I struggled a lot with migrating Git LFS files: some files got lost in the past during transition from GitHub to Artifactory, I uploaded all available files to my GitLab test repo but upon clone / checkout some files are still unavailable for the client (even when I confirmed that they are on the server), and so on...

I then stumbled upon the GitLab blog post How Git Partial Clone lets you fetch only the large file you need. In summary:

  • No need for LFS (just convert lfs files back to regular git).
  • Run git clone with a size filter, e.g.: git clone --filter=blob:limit=100k git@gitlab.com:gitlab-com/www-gitlab-com.git.
  • Requires git 2.22.0 or later

That's it. You just need to supply the filter-argument one time. This will fetch just the files which are smaller than 100 Kbyte. Larger files (e.g. benchmark files, images, pdfs) are only fetched when they are needed, e.g. when a branch is checked out.

I tested this briefly (conversion script) and it works as advertised, it also reduced initial clone times from 3 minutes to 1 minute (helpful for CI too). You can try it:

git clone --filter=blob:limit=100k --branch rm-lfs http://github.com/bilke/ogs

# OR

git clone --filter=blob:none --no-checkout http://github.com/bilke/ogs
cd ogs
git checkout rm-lfs

What do you think? I would suggest to implement this before migrating to GitLab.

More info:

  • https://git-scm.com/docs/partial-clone
  • https://docs.gitlab.com/ee/topics/git/partial_clone.html

closed time in 21 days

bilke

issue closedufz/ogs

Move development to GitLab?

What about moving OGS development to our self-hosted GitLab instance? This is just an issue for discussion! Nothing is decided, I would like to hear your opinions! Feel free to directly edit this description.

Pros

  • More project management features, e.g.:
  • CI integrated (see below)
  • No storage limits (LFS integrated). At least we can add more if we need to.
  • Could get rid of ogs-data-repo
  • Could get rid of Jenkins
  • envinf people and friends already have accounts

Cons

  • Migration work
  • Less visibility, keep GitHub as a mirror?

Why not use GitLab.com or git.ufz.de?

Our CI is quite resource intensive so we need to use our own CI runners (the nodes where the code is compiled and tested). This is possible only on self-hosted GitLab instances.

See comment below!

Also storage limits apply there (usually 1 or 10 GB per repo).

CI

I recently experimented with Gitlab CI and am hooked by its simple but powerful syntax and of course integration into GitLab. See my gitlab-ci-branch.

  • Reduced complexity: current Jenkins definitons are almost 1000 LOCs vs. 350 LOCs for similar GitLab CI setup
  • Better pipeline structuring: stages maintain visual structure, a DAG-feature speeds things up, child pipelines may help reduce visual complexity
  • Manual job trigger for on-demand running of expensive jobs
  • Easier nodes (called runner in GitLab) setup, nodes connect to (public) server -> no firewall issues
  • Better UI
  • Automatic setup of CI for user forks and other user projects
  • Is part of GitLab itself, updates automatically
  • We could get rid of Jenkins in the long run -> one thing less to manage..

closed time in 21 days

bilke

issue commentufz/ogs

Move development to GitLab?

Is on its way ...

bilke

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delete branch bilke/ogs

delete branch : license

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Lars Bilke

commit sha b45857d8ac88c453e21d61dfd51523d9a645d3fb

Change license to BSD-3-Clause ("Modified BSD License"). BSD-3-Clause is an approved OSI license. - https://opensource.org/licenses/BSD-3-Clause - https://en.wikipedia.org/wiki/BSD_licenses

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Lars Bilke

commit sha cc24e726ce926d7e19c488003309971f7ea376d4

Adapted README for changed license. [ci skip]

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Lars Bilke

commit sha ed64d7ce400166dad74eea370b94ced63d4c2c76

Merge pull request #2973 from bilke/license Change license to BSD-3-Clause ("Modified BSD License").

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PR merged ufz/ogs

Change license to BSD-3-Clause ("Modified BSD License"). discussion :speaking_head:

To be discussed...

BSD-3-Clause is an approved OSI license.

  • https://opensource.org/licenses/BSD-3-Clause
  • https://en.wikipedia.org/wiki/BSD_licenses
  1. [x] Feature description was added to the changelog
  2. [x] Add citing instructions to web site
+4 -11

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bilke

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created tagufz/ogs

tag6.3.1

OpenGeoSys THMC

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Lars Bilke

commit sha bc817cbf1b6a3769f2a74851d5fbea01e12e5f0e

Release notes for 6.3.1

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Dmitri Naumov

commit sha 3b739fffee96ccfbabc83e8140680865a7e8e50f

[MPL/Exp] Add additive offset.

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Dmitri Naumov

commit sha 8245404e1e0774d9148f1b3e05d2ab4f87790823

[MPL/Exp] Move all of docu into header file. Move individual text snippets in single place. Use \copydoc elsewhere for project tags.

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Dmitri Naumov

commit sha f481ddd243ac03cb3069ba9c822f82ac4bfc1d7f

[T] Update unit test and projects.

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Lars Bilke

commit sha b8c9c2a4370f625a0634fba23439d2236f9d3688

Merge pull request #3008 from endJunction/MplExponenentialPropertyAdditiveOffset MPL exponenential property additive offset

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PR merged ufz/ogs

MPL exponenential property additive offset please review

A small generalization.

Can be used for exponential saturation-head relation as described by Tracy2006 paper for analytical solutions of Richards equation. [https://doi.org/10.1029/2005WR004638]

  1. [ ] Feature description was added to the changelog
  2. [x] Tests covering your feature were added?
  3. [x] Any new feature or behavior change was documented?
+44 -25

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endJunction

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pull request commentufz/ogs

Change license to BSD-3-Clause ("Modified BSD License").

All OGS code contributor have agreed to the license change.

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rinkk

commit sha ce9d3d88e0cb8b93341c1e42d2146faf147aba59

[geolib] copy geometrical object names when duplicating geometries

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renchao_lu

commit sha 08be9866b141b745d12d13632c6f9baf8aef2347

[CL/T] Switched off the chemical solver option of PhreeqcKernel temporarily We are about to rearrange the existing structure of ChemistryLib (PhreeqcIO and PhreeqcKernel). To make a smooth workflow, we switch off the chemical solver option of PhreeqcKernel for the time being

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Tom Fischer

commit sha ae4987d1a47c09e4289d033ce95579490aed0d7d

Merge pull request #2972 from renchao-lu/SwitchOffPhreeqcKernelTesting [CL/T] Switch off the chemical solver option of PhreeqcKernel

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rinkk

commit sha 38a5eea6afb7edc178d7861afff6a8c08383e9db

[geolib] using range constructor for map

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rinkk

commit sha 1a6119c396d16c44b9300af842a92ceb4a4f77b8

[netcdf] allow explicitely setting no data value

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Thomas Fischer

commit sha 8479ac666197bd1b133ebffa87735bfc13322085

[PL/Out] Check if prefix contains '{:meshname}'.

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Dmitry Yu. Naumov

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Merge pull request #2970 from rinkk/DuplicateGeometriesWithPointNames [geolib] copy geometrical object names when duplicating geometries

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renchao_lu

commit sha 041b36f0e044c8ff9d37a88adfefa1e630cc2725

[CL] Fix inconsistent parameter name.

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Dmitri Naumov

commit sha 8ec72e74af32e1b68f55a099440edf915770922e

[MPL] Add descriptive PropertyDataType names. Also used for error reporting.

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Dmitri Naumov

commit sha dc06b99612f83fec12169e0aee63360ffe49484c

[MPL] Property; Catch bad variant access. Accessing a wrong type in value(), dValue() etc. functions is caught with a more or less descriptive error. Keep in mind, the name of a type is compiler/STL implementation dependent.

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Dmitri Naumov

commit sha 8dd4baa9acfdbad8fb03879c55c34bde884afb90

[MPL] Description function phase/medium/comp/prop. Used in error printing.

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Dmitri Naumov

commit sha 128aaf3ac127d3ac3f8bdf9530b383108bf3e62e

[MPL] Property; Use description() in error message Also adjust placement of ticks for consistency.

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Dmitry Yu. Naumov

commit sha ee84a0c0a057d34883b5700f86f49affef7d7472

Merge pull request #2941 from endJunction/ImproveErrorMessagesInMPL Improve error handling in MPL

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renchao_lu

commit sha d2c485876a900eb4c1e9fcc64ea192a078353a93

[App] Swap chemical solver interface parser and process parser.

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renchao_lu

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[App] Update error message.

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renchao_lu

commit sha 9ad0eab91003edc3735cb26f13f60f73d3845f97

[CL] Remove mapping process id to component name.

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renchao_lu

commit sha 0396d73fc91ab00bb7616422406d3c3db78debd9

[PL/CT] Pass chemical solver interface.

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renchao_lu

commit sha 4e5c3329b06a061ae2528999ddb64244f01d948d

[PL/CT] Remove mapping process id to component name.

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renchao_lu

commit sha 58255088b4974b6e3242c731ffe61bbb06c7f3e5

[PL/CT] Sort and compare components with collected process variables.

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renchao_lu

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[CL] Get component list.

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rinkk

commit sha f9466766717c7bfcb33309e3788fc4b65da2d9ef

[meshlib] added flag that allows ignoring nodata values during mesh mapping

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rinkk

commit sha 990d41d8d5fc0150ed0d65210ec4866cf2f3f6c2

[gui] adding widget and access for ignoring nodata

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Lars Bilke

commit sha 0f30c514ac6d905302a453cb9928016c996d78e6

Merge pull request #3007 from rinkk/RasterIgnoreNodata [GUI] Added option to ignore NoData values for mesh mapping

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PR merged ufz/ogs

[GUI] Added option to ignore NoData values for mesh mapping

[Merging this isn't urgent, so we can wait until after the GitLab-migration if that helps]

The change allows to map a mesh based on multiple DEMs with different files being used for patches of the mesh.

+77 -40

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Lars Bilke

commit sha 8c982c1f8bb4394e59f2c738f5833303f843a565

[Jenkins] Disable mpi container build.

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Lars Bilke

commit sha f0d2e66ac03ebc0e994a4be7f644e13657f80689

Removed link to project file on the web site.

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Lars Bilke

commit sha d63cc513f150bd2db0c1fdb3fc1958f148558d40

Added docs on installing a newer compiler on Ubuntu.

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PR opened ufz/ogs

Bump gcc version to 9
  1. [ ] Feature description was added to the changelog
  2. [x] Any new feature or behavior change was documented?
+34 -5

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branch : bump-gcc

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Lars Bilke

commit sha 5553d37ea481e3e455cbeb6d50750a1457759620

[CI] Updated container-maker submodule.

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Lars Bilke

commit sha db1afa04694c7c0afe05f9e29b9d8fb54ed40dbd

[ci] Fix rules for master only.

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Lars Bilke

commit sha 76d44a9f608fb36981d107d8452e98a6a84cc247

[Doxygen] Set CREATE_SUBDIRS to on.

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Lars Bilke

commit sha c1d2c389c14fd28b1340cf79d7e828ade7485f42

[ci] Doxygen redirect page.

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Lars Bilke

commit sha 7cf8f6f906da9ea746822d8f95cc678ddc83eacd

Fixed links in Doxygen.

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Lars Bilke

commit sha 126d62592a01c05f5e2af36f16b17c75c37230f4

[ci] Fix image names.

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Lars Bilke

commit sha 2ac8670631cc351dedaf8cb58b60897ed26e295f

Merge pull request #3002 from bilke/gitlab-prep Some GitLab preparation

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PR merged ufz/ogs

Some GitLab preparation
  • a few GitLab CI things, no review necessary
  • Fixed some links in Doxygen, some urls are not available anymore or have changed
+32 -32

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bilke

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PR opened ufz/ogs

Some GitLab preparation
+32 -32

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branch : gitlab-prep

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Lars Bilke

commit sha 9c85c16a6ed41d3028682b50d8ec9738271560e4

[Jenkins] Build container on envinf1 To enable compatibility of the build image with envinf1 itself (-march capabilities).

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issue commentufz/ogs

Move development to GitLab?

I have found an issue on the migrated preview repo: code review line comments are not shown in GitLab on the comments tab (but on the changes tab they are fine). This is a know issue and will be fixed later on: https://gitlab.com/gitlab-org/gitlab/-/issues/26952

bilke

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issue commentufz/ogs

Remove Git LFS?

@ufz/members In preparation of #2947 which will happen in the week 22th to 26th of June I would like to implement this issue possibly on 22th of June. Therefore I will set a hard dead line for pull requests which contain lfs files (e.g. benchmark files) to be merged in until 21th of June!! After that date they will be not be merged in before the migration to GitLab.

bilke

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Lars Bilke

commit sha f9bbbc9f3f9a2cef186e658916819e4657fef8de

[Jenkins] Whitelist eclipse web site during web link check job. The site check often fails for http://wiki.eclipse.org/Main_Page resulting in a failed master job.

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delete branch : fix-phreeqcio-unity

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Lars Bilke

commit sha 53f885bb144964b077356ad5d0944198db5200cd

[ChemLib] Exclude PhreeqcIO.cpp from Unity builds.

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Lars Bilke

commit sha 30d6ff893214858c3b5c68708005e1e13a7435f4

Merge pull request #2993 from bilke/fix-phreeqcio-unity Fix PhreeqcIO.cpp unity build

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PR merged ufz/ogs

Fix PhreeqcIO.cpp unity build

Follow-up on #2982.

+3 -0

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bilke

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Lars Bilke

commit sha 53f885bb144964b077356ad5d0944198db5200cd

[ChemLib] Exclude PhreeqcIO.cpp from Unity builds.

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PR opened ufz/ogs

Fix PhreeqcIO.cpp unity build

Follow-up on 2982.

+2 -791

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create barnchbilke/ogs

branch : fix-phreeqcio-unity

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issue commentufz/ogs

Move development to GitLab?

Here is a preview of the migrated repo: https://gitlab.opengeosys.org/ogs/ogs

Do not use it yet! It will deleted, and re-imported later on!

bilke

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pull request commentufz/ogs

[CL] Encapsulated into ChemicalSystem

Ok, thanks will try to change ordering...

renchao-lu

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pull request commentufz/ogs

[CL] Encapsulated into ChemicalSystem

@renchao-lu master-builds are failing since this was merged:

In file included from /scif/apps/ogs/src/ThirdParty/iphreeqc/src/src/phreeqcpp/Phreeqc.h:66,
                  from /scif/apps/ogs/src/ChemistryLib/PhreeqcKernel.h:20,
                  from /scif/apps/ogs/src/ChemistryLib/CreateChemicalSolverInterface.cpp:31,
                  from ChemistryLib/CMakeFiles/ChemistryLib.dir/Unity/unity_0_cxx.cxx:3:
 /usr/local/eigen/include/eigen3/Eigen/src/SVD/BDCSVD.h: In member function ���void Eigen::BDCSVD<MatrixType>::deflation(Eigen::Index, Eigen::Index, Eigen::Index, Eigen::Index, Eigen::Index, Eigen::Index)���:
 /usr/local/eigen/include/eigen3/Eigen/src/SVD/BDCSVD.h:1138:15: error: expected unqualified-id before numeric constant
  1138 |         Index pi = permutation[i];
       |               ^~
 /usr/local/eigen/include/eigen3/Eigen/src/SVD/BDCSVD.h:1161:19: error: expected unqualified-id before numeric constant
  1161 |       const Index pi = permutation[length - (total_deflation ? i+1 : i)];
       |                   ^~
 In file included from /usr/local/eigen/include/eigen3/Eigen/SVD:38,
                  from /usr/local/eigen/include/eigen3/Eigen/Dense:5,
                  from /usr/local/eigen/include/eigen3/Eigen/Eigen:1,
                  from /scif/apps/ogs/src/MathLib/LinAlg/Eigen/EigenVector.h:19,
                  from /scif/apps/ogs/src/ChemistryLib/PhreeqcIO.cpp:21,
                  from ChemistryLib/CMakeFiles/ChemistryLib.dir/Unity/unity_0_cxx.cxx:4:
 /usr/local/eigen/include/eigen3/Eigen/src/SVD/BDCSVD.h:1162:33: error: invalid types ���Eigen::Index* {aka long int*}[double]��� for array subscript
  1162 |       const Index J = realCol[pi];
       |                                 ^
 /usr/local/eigen/include/eigen3/Eigen/src/SVD/BDCSVD.h:1177:17: error: invalid types ���Eigen::Index* {aka long int*}[double]��� for array subscript
  1177 |       realCol[pi] = i;

See also the full log

Do you have an idea what the problem is? This is a container build, gcc 9.3.1, mpi 4.0.1, eigen 3.3.4.

renchao-lu

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delete branch bilke/ogs

delete branch : web-icons

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pull request commentufz/ogs

[web] Publications page

@endJunction Doxygen fixed.

@montoyav Thanks for your comments! I restructured a bit: https://deploy-preview-2981--ogs.netlify.app/publications/

There are now 3 clear sections (paper, books, tutorials). The paper also include a category. Feel free to clean up and add to the list (in Documentation/bibliography/ogs.bib) in a subsequent PR, this would be a good opportunity to contribute!

bilke

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Lars Bilke

commit sha 35bf0fc5e11846789ba8149b6dc7b9369f5aadcf

[Jenkins] Fix mac-gui job.

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Lars Bilke

commit sha a43610d18e071f045a72b83bf83df918b5fbd98d

Revert "[Jenkins] Fix mac-gui job." This reverts commit 35bf0fc5e11846789ba8149b6dc7b9369f5aadcf.

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Lars Bilke

commit sha 333815a773732720938d5eaa5bb960499c756a96

[CMake] Fix iphreeqc include order on mac.

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Lars Bilke

commit sha a60df078439a9eb1f7288cd5b227c5d2ba8c3f35

[CMake] Remove explicit C++14 standard on iphreeqc.

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Wenqing Wang

commit sha 8b2aa3fc069e082dee639798ca4cc4e61501d83c

[MPL] Added the missed include safe guard

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Wenqing Wang

commit sha dbdf2e52789704ece8f7f1888a94f4c3a43df903

[MPL] Added the missed include in CreateMedium.cpp

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Lars Bilke

commit sha 0a132f1b8cb794dfef3c7f19889c86276c1bf1b2

[ctest] Some runtime optimizations.

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Lars Bilke

commit sha 9ecf1983bfb98464ea65da3ae9499b447e8f4a95

Merge pull request #2983 from bilke/fix-mac-gui [Jenkins] Fix mac-gui job

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PR merged ufz/ogs

Add GitLab CI config

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  1. [x] Feature description was added to the changelog
+650 -41

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[CMake] Added clcache (win) integration. Install clcache with: pip install git+https://github.com/frerich/clcache.git@cae73d8255d78db8ba11e23c51fd2c9a89e7475b

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PR merged ufz/ogs

[Jenkins] Fix mac-gui job

Conan Qt still does not work, switched back to system-installed dependencies and fixed iphreeqc include order.

+17 -18

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PR opened ufz/ogs

[Jenkins] Fix mac-gui job

Conan Qt still does not work, switched back to system-installed dependencies and fixed iphreeqc include order.

+4 -784

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issue commentbincrafters/community

conan-qt/5.14.(1/2) broken for macOS ( glib / libgio ) due to glib no longer static linked / wrong RPATH

Sorry, 5.14.2/testing does not work, the fix (https://github.com/bincrafters/conan-qt/commit/91f7f5b5abe7c9201a45bde463fdd57b4d7ff422) is in stable/5.12.8 but not in 5.14.2.

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issue commentbincrafters/community

conan-qt/5.14.(1/2) broken for macOS ( glib / libgio ) due to glib no longer static linked / wrong RPATH

I tested 5.14.2/testing and it seems to work.

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rinkk

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[geolib] copy geometrical object names when duplicating geometries

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Thomas Fischer

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[A] ProjectData: std::transform instead of a raw loop.

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[A] TestDefinition: Fix warning: "Function parameter 's' should be passed by const reference".

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[A] Fix warning 'shadow variable' in ElementTreeModel.

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[A/DE] Use std::transform instead of raw loop.

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[A/DE] Use std::transform instead of raw loop.

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[for discussion] [A/DE] Remove contradicting error output.

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[web] Added publications page.

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PR opened ufz/ogs

[web] Publications page please review
  • Added a publications page to the web site, see preview
  • Added citation info to the docs overview page, see preview
  • Publication data is generated with pybtex-convert from Bibtex to yaml to feed the web site generator (needs to be re-run when the bib-files are changed)
  • Migrated web site icons to local copy instead of CDN, minimized size
  1. [ ] Feature description was added to the changelog
  2. [x] Any new feature or behavior change was documented?
+1489 -412

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Added ParaView plugin for assigning material parameters. Originally written by Alireza Hassanzadegan.

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[netcdf] allow explicitely setting no data value

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set internal linkage and fixed typos

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[netcdf] fixed georeference-based flipping in 3D and updated test data set

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Merge pull request #2975 from rinkk/NetcdfNoDataFlag [netcdf] allow explicitly setting no data value

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[netcdf] allow explicitly setting no data value

Allows to manually set the no data value when converting netCDF data.

It's not straightforward to automatically extract this from the file, so this allows to handle the issue in the rare cases when not the default value is used.

+63 -40

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rinkk

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Pull request review commentufz/ogs

Fix some of the CppCheck warnings.

 void VtkVisPipelineView::contextMenuEvent( QContextMenuEvent* event )         QMenu menu;         QAction* addFilterAction = menu.addAction("Add filter..."); -        QAction* addLUTAction(nullptr);-        QAction* addMeshingAction(nullptr);         if (objectType == VTK_IMAGE_DATA)         {             // this exception is needed as image object are only displayed in the vis-pipeline             isSourceItem = false;-            addMeshingAction = menu.addAction("Convert Image to Mesh...");+            QAction* addMeshingAction =

I guess this works, as the menu is populated during runtime (menu.addAction()).

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Refactor docs to reference Gitlab

In preparation of #2947.

  1. [ ] Feature description was added to the changelog
+136 -185

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pull request commentufz/ogs

Change license to BSD-3-Clause ("Modified BSD License").

At the moment our license does not qualify for a "real" open-source license. A solid argument will still not convince people.. People who are willing to cite us will do so, people who are not will not do so, no matter what license we have (in my opinion).

This PR is also a discussion point on the agenda for the dev meeting on next Tuesday.

bilke

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pull request commentufz/ogs

Some changes in Tests

Does this fix the unity build issue you described yesterday in Mattermost?

wenqing

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PR opened ufz/ogs

Change license to BSD-3-Clause ("Modified BSD License").

To be discussed...

BSD-3-Clause is an approved OSI license.

  • https://opensource.org/licenses/BSD-3-Clause
  • https://en.wikipedia.org/wiki/BSD_licenses
  1. [ ] Feature description was added to the changelog
+1 -7

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GollumEvent

PR opened ufz/ogs

Add GitLab CI config

In preparation of #2947.

See a preview run.

Should not effect current Jenkins setup.

  1. [ ] Feature description was added to the changelog
+644 -21

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Dmitri Naumov

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[ParL] Add transformation_3d to coordinate system. This is explicitly allowing the 2d coordinate system being given (contrary to the transformation<3> specialization).

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[MPL] Add liquid_saturation_rate to variables list

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[MPL] Add SaturationDependentSwelling. The property type is swelling_stress_rate.

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[doc] Tags for SaturationDependentPressure.

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[PL/RM] Add initialization of saturation. The saturation is now computed from the initial pressure conditions before any of the assembly runs.

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Dmitri Naumov

commit sha 0f1e91f365db2e1a3cd147e3dc62c6bce4761031

[PL/RM] Add saturation dependent swelling. Uses the optional solid phase swelling_stress_rate property. Stores previous values of saturation and the swelling stress, because of the incremental form.

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Dmitri Naumov

commit sha 7ab78a9df93052de59849818a776ccb1ca3d1515

[PL/RM] Add swelling stress sec. var. output.

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Dmitri Naumov

commit sha c94cfff4df61159c75c012b84f112392aaac9cf4

[T/RM] Orthotropic swelling tests 3d and 2d.

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Tom Fischer

commit sha d8badc6526c6faa3ee59af6cdc051ac63324c864

Merge pull request #2819 from endJunction/RichardsMechanicsSaturationDependentSwelling Richards mechanics saturation dependent swelling

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Lars Bilke

commit sha b4316161c3476a348de7500526b13c244255fb41

[Jenkins] Build non-gui mac version.

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Wenqing Wang

commit sha bc5efb1180f659d3797fcb22ab54c5c1f568daab

[dt] Avoided the infinite time loop when a rejected step gives no change in the step size

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Dmitri Naumov

commit sha 723cb19e5cbf6cdd2171c54fc9c98ca3963160fc

[MPL] Porosity; Fix dValue() impl. to OGS_FATAL.

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Dmitri Naumov

commit sha 37874cf2c8c0e6f5ee09d4e5b24fc8e40939b911

[MPL] Clamp porosity between 0 and 1. For large changes in e_dot or p_dot it could get out of bounds.

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Dmitri Naumov

commit sha aa6dc8ef09d2c7220899dd83dcb0546f0b331421

[MPL] Fix return type of CreateSatDepSwelling.

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Lars Bilke

commit sha 53ee34bc0b9e0125948d1bfc6c93bd53f9c534c9

Merge pull request #2821 from bilke/mac-non-qt [Jenkins] Build config without GUI on macOS

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Lars Bilke

commit sha a7a42691ea65beca1fde4a680430fcf4079ee676

Merge pull request #2824 from endJunction/MplPorosityAndSwellingUpdate MPL porosity and swelling updates

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Dmitri Naumov

commit sha b44caff11ca0e8038794f28f4a89113d2d8d2134

[MPL] Bishop's power law for effective stress.

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Dmitri Naumov

commit sha b31655e69f0d008e80da7c95917348158f5020e7

[MPL] Bishop's saturation cutoff model.

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Dmitri Naumov

commit sha 8d111a525d7dc4b306126660b1b418225c436494

[PL/RM] Compute Bishop's effective stress.

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Dmitri Naumov

commit sha 6a98bc638d91df0b09b1fdbeca4cbf3f3dd6d922

[MPL] Use effective pore pressure rate in porosity This is more correct term for the porosity computation. Remove the so-far unused phase_pressure_rate variable.

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Lars Bilke

commit sha 1260fd50f674c4c00ce719d97c5c2bad275f2765

--gitlab fix.

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pull request commentufz/ogs

Benchmark Richards flow (1d infiltration)

What about testing with variable time stepping on just one platform (Linux)?

waltherm

comment created time in a month

pull request commentufz/ogs

Benchmark Richards flow (1d infiltration)

I checked the output:

On Windows

  • out_ex1_ts_340.vtu is the last file written

error output:

360:   info: [time] Linear solver took 0.0003547 s.
360:
360:   info: Convergence criterion: |dx|=3.3939e-02, |x|=1.6024e+05,
360:   |dx|/|x|=2.1180e-07
360:
360:   info: [time] Iteration #30 took 0.0064527 s.
360:
360:   info: [time] Solving process #0 took 0.192618 s in time step #340
360:
360:   error: The nonlinear solver failed in time step #340 at t = 37464.5 s for
360:   process #0.
360:
360:   info: [time] Output of timestep 340 took 0.0044219 s.
360:
360:   critical: E:/jenkins/workspace/ufz_ogs_PR-2938/ProcessLib/TimeLoop.cpp:680
360:   ProcessLib::TimeLoop::solveUncoupledEquationSystems()
360:
360:   warning: There are still some matrices and vectors in use.  This might be
360:   an indicator of a possible waste of memory.
360:
360:   error: Time stepper cannot reduce the time step size further.
360:
360:   info: OGS terminated on 2020-05-27 09:40:25+0200.
360:
360:   error: OGS terminated with error.

frontend2 (eve)

  • out_ex1_ts_340.vtu is the last file written

error output:

362:   info: [time] Linear solver took 0.00022539 s.
362:
362:   info: Convergence criterion: |dx|=3.4041e-02, |x|=1.6024e+05,
362:   |dx|/|x|=2.1244e-07
362:
362:   info: [time] Iteration #30 took 0.00427144 s.
362:
362:   info: [time] Solving process #0 took 0.124821 s in time step #340
362:
362:   error: The nonlinear solver failed in time step #340 at t = 37464.5 s for
362:   process #0.
362:
362:   info: [time] Output of timestep 340 took 0.00218314 s.
362:
362:   critical:
362:   /gpfs1/data/ogs/jenkins-frontend2/workspace/ufz_ogs_PR-2938/ProcessLib/TimeLoop.cpp:680
362:   solveUncoupledEquationSystems()
362:
362:   warning: There are still some matrices and vectors in use.  This might be
362:   an indicator of a possible waste of memory.
362:
362:   error: Time stepper cannot reduce the time step size further.
362:
362:   info: OGS terminated on 2020-05-27 10:19:55+0200.
362:
362:   error: OGS terminated with error.
waltherm

comment created time in a month

issue commentufz/ogs

Move development to GitLab?

The GitHub repo stays as it is and will also be synced automatically to follow the development on the new GitLab repo. All tags, releases will stay in place. So this should not be any problem. I will of course modify the banner of this repo to point to the new repo and make clear that development happens somewhere else.

bilke

comment created time in a month

issue commentufz/ogs

Move development to GitLab?

Migration to gitlab.opengeosys.de!

Also here is the announcement on Discourse: https://discourse.opengeosys.org/t/development-will-be-moved-to-gitlab/529

bilke

comment created time in a month

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