Package Details: openms 2.6.0-1

Git Clone URL: https://aur.archlinux.org/openms.git (read-only, click to copy)
Package Base: openms
Description: C++ library and tools for LC/MS data management and analyses
Upstream URL: http://www.openms.de
Licenses: BSD
Submitter: saxonbeta
Maintainer: lukaszimmermann
Last Packager: lukaszimmermann
Votes: 5
Popularity: 1.40
First Submitted: 2014-04-24 21:42
Last Updated: 2020-10-06 08:18

Latest Comments

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lukaszimmermann commented on 2020-10-12 07:09

Should work now

lukaszimmermann commented on 2020-10-08 19:14

Yes, I think we have to wait for the fix in Eigen.

levitsky commented on 2020-10-08 13:50

Build of 2.6.0 fails for me. The following eigen bug seems related: https://bugs.archlinux.org/task/68118

[ 3%] Building CXX object src/openms/CMakeFiles/OpenMS.dir/source/MATH/STATISTICS/GammaDistributionFitter.cpp.o In file included from /usr/include/eigen3/Eigen/Core:88, from /usr/include/eigen3/unsupported/Eigen/NonLinearOptimization:15, from /home/lev/.cache/yay/openms/src/OpenMS-2.6.0/src/openms/source/MATH/STATISTICS/GammaDistributionFitter.cpp:42: /usr/include/eigen3/Eigen/src/Core/products/Parallelizer.h: In function ‘void Eigen::internal::parallelize_gemm(const Functor&, Index, Index, Index, bool)’: /usr/include/eigen3/Eigen/src/Core/products/Parallelizer.h:162:19: error: ‘eigen_assert_exception’ is not a member of ‘Eigen’ 162 | if (errorCount) EIGEN_THROW_X(Eigen::eigen_assert_exception()); | ^~~~~~~~~~~~~ make[3]: *** [src/openms/CMakeFiles/OpenMS.dir/build.make:528: src/openms/CMakeFiles/OpenMS.dir/source/MATH/STATISTICS/GammaDistributionFitter.cpp.o] Error 1 make[2]: *** [CMakeFiles/Makefile2:3060: src/openms/CMakeFiles/OpenMS.dir/all] Error 2 make[1]: *** [CMakeFiles/Makefile2:3067: src/openms/CMakeFiles/OpenMS.dir/rule] Error 2 make: *** [Makefile:584: OpenMS] Error 2 ==> ERROR: A failure occurred in build(). Aborting...

Luxii commented on 2020-03-23 17:04

OpenMS Version 2.5.0 is working. No errors.

xonq commented on 2020-01-29 15:05

Build is failing on mine as well. CMake Errors.

lukaszimmermann commented on 2019-12-05 08:59

Thanks for reporting. I will try to patch soon.

FoPref commented on 2019-12-03 12:15

Does not build on my recently updated Arch installation. I get CMake errors.

See my bug report to upstream: https://github.com/OpenMS/OpenMS/issues/4393

lukaszimmermann commented on 2019-01-31 13:07

I currently split this packages into several subpackages to support different installation flavors. That's why there has not been an update, yet.

lukaszimmermann commented on 2018-03-11 14:42

Sorry for the delay. I added an environment file to /etc/profile.d

levitsky commented on 2018-02-12 10:11

The package builds fine now, but I get this error when running the installed executables:

OpenMS FATAL ERROR! Cannot find shared data! OpenMS cannot function without it! To resolve this, set the environment variable 'OPENMS_DATA_PATH' to the OpenMS share directory (e.g., '/usr/share/OpenMS'). Exiting now.

Setting the variable to the suggested path indeed helps, but maybe this could be done at the package side? Adding a simple profile.d file with export command or whatever the best practice is.

Thanks!