David Lecomber
David Lecomber
Whilst running a workload which uses boost::math::digamma, I discovered unexpectedly slow performance on aarch64 platforms. The default seen in the distros (Ubuntu 22.04, Rocky9) on this platform (Linux aarch64) is...
On a RHEL9/Rocky 9 instance, the default 'docker' is podman - which wraps the docker commands, and runs in userspace instead of via a docker daemon running as root. With...
Attempting to build the bioconda package - with 1.0.13 (and prior versions), GNU 13.3.0 yields an error preventing compilation: ``` 14:49:26 BIOCONDA INFO (OUT) /opt/conda/conda-bld/ont_vbz_hdf_plugin_1740408436260/work/vbz/vbz.cpp: In function 'vbz_size_t vbz_decompressed_size(const void*,...
Using LLVM 19.1.0 or ACfL 24.10 (which is built on top of) results in errors compiling due to deleted atomic operator in candidateoccurence.h. The compiler has become more strict on...
On OS/X, latest C++ compilers, and latest Clang, will error (see https://github.com/conda-forge/coinmp-feedstock/pull/11/) due to use of deprecated 'register' and 'std::bind2nd'. These were removed from C++17, and deprecated in C++17. The...
We're at the point where 98 of the top 100 downloaded packages in bioconda are ported or generic - but basically, they and their dependencies install on linux-aarch64. Or, of...
Per: #54134 - it appears worthwhile to use an explicit SVE port, which has been submitted to bwa-mem2 itself sometime ago. This ticket is a placeholder for that work. -...
I'm looking to enable clair3 in bioconda for linux-aarch64 Three dependencies are pinned to specific versions that don't have linux-aarch64 support. * samtools = 1.15.1 * whatshap = 1.7 *...
Noticed when compiling on osx-arm64 with Apple clang ( using code in this PR : https://github.com/bwa-mem2/bwa-mem2/pull/271 ), we see the following warning in several locations within FMI_search.cpp: ``` src/FMI_search.cpp:1312:17: warning:...
This PR uses the sse2neon framework to port the x86 specific (intrinsics) parts of bwa-mem2 over to run on osx-arm64 and linux-aarch64 platforms. After benchmarking ( https://github.com/bioconda/bioconda-recipes/issues/54172 ) against two...