Hi Vaclav, thanks a lot. Your patch worked perfectly. The remaining problems were solved by loading the conda environment path into LD_LIBRARY. I will look into your repository if there is a better solution. But at least the environment works and grass can be updated to 7.8 and python3.
Thanks a lot again Laura On Tue, 3 Aug 2021 at 17:21, Laura Poggio <[email protected]> wrote: > Hi Vaclav, > thanks a lot! > with the patch for the makefile in the repository I managed to solve the > previous error. Now I am getting a different error apparently linked to > some library conflict (same combination of libraries works in a different > environment): > > /home/user/conda3/envs/sg_py3_geo//lib//libspatialite.so.7: undefined > reference to `GEOSFrechetDistance' > /home/user/conda3/envs/sg_py3_geo//lib//libspatialite.so.7: undefined > reference to `GEOSFrechetDistance_r' > /home/user/conda3/envs/sg_py3_geo//lib//libspatialite.so.7: undefined > reference to `GEOSFrechetDistanceDensify' > /home/user/conda3/envs/sg_py3_geo//lib//libgdal.so.27: undefined > reference to `GEOSMakeValid_r' > /home/user/conda3/envs/sg_py3_geo//lib//libspatialite.so.7: undefined > reference to `GEOSFrechetDistanceDensify_r' > > Tomorrow I will try again with a clean conda environment implementing all > of your scripts. > Thanks a lot! > > Laura > > > > On Tue, 3 Aug 2021 at 15:32, Vaclav Petras <[email protected]> wrote: > >> Hi Laura, >> >> See whether the following is helpful to you. It uses everything from >> conda and has some local fixes for iconv. I didn't test 7.8.5 specifically, >> only the 7.8 release branch. >> >> GRASS GIS on HPC Henry2 >> https://github.com/ncsu-geoforall-lab/grass-gis-on-hpc-henry2/ >> >> Some more comments: >> >> On Tue, Aug 3, 2021 at 9:12 AM Laura Poggio <[email protected]> >> wrote: >> >>> >>> I am trying to compile grass 7.8.5 in a conda environment (on centos7, >>> managed HPC) adapting this instructions here >>> <https://github.com/GRASS-GIS/grass-gis-experimental-ci/blob/conda-compile/configure.sh> >>> . >>> >> >> Nobody touched that repo for a while, but development happened elsewhere. >> We have a CentOS 7 build partially using conda in the main repo's CI. >> However, my experience was that the CentOS 7 Docker container in CI was >> very different from the CentOS 7 environment on HPC which has many >> customizations. >> >> https://github.com/OSGeo/grass/blob/master/.github/workflows/centos.yml >> >> There is also a conda-based build for macOS, but that would need to be >> adapted >> >> >>> conda create -y -n $conda_env python=3.8.5 >>> conda activate $conda_env >>> conda install -c conda-forge geos gdal==3.3.1 -y >>> conda install -c conda-forge pdal fftw -y >>> conda install -c biobuilds libxml2 >>> conda install -c conda-forge libiconv >>> >> >> The GRASS GIS on Henry 2 repo has an environment file you can use. >> >> >>> >>> compile works well. make gives a lot of errors. When I run make again in >>> one of the folder, I get this errors: >>> /home/user/grasspy3/grass-7.8.5/dist.x86_64-pc-linux-gnu/lib/ >>> libgrass_gis.7.8.so: undefined reference to `libiconv' >>> /home/user/grasspy3/grass-7.8.5/dist.x86_64-pc-linux-gnu/lib/ >>> libgrass_gis.7.8.so: undefined reference to `libiconv_open' >>> /home/user/grasspy3/grass-7.8.5/dist.x86_64-pc-linux-gnu/lib/ >>> libgrass_gis.7.8.so: undefined reference to `libiconv_close' >>> >> >> I was not able to create a proper fix for GRASS GIS configuration, but >> the repo has a somewhat hacky patch applied locally which injects libiconv >> into more places. >> >> Let me know how this goes. With the scripts in GRASS GIS on Henry 2, I >> can install new versions easily, but I would like to see it more >> streamlined with less local customizations. >> >> Best, >> Vaclav >> >> >>> >>> I found this answer >>> <http://osgeo-org.1560.x6.nabble.com/Adding-path-iconv-library-to-configure-td5431037.html>, >>> but I am not sure how to continue from there. >>> Thanks a lot >>> Laura >>> >>> _______________________________________________ >>> grass-user mailing list >>> [email protected] >>> https://lists.osgeo.org/mailman/listinfo/grass-user >>> >>
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