Add GitHub action for automatically testing the build process of the core library #16
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Sets up an Action for building the library
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alexfreudenberg
changed the title
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Current yaml allows installing Intel oneAPI and CUDA but we currently rely on the icc compiler which is already deprecated in the latest oneAPI release -- not sure where to go from here. |
* Port storage object and init function to cuSPARSE generic API * Port destroy and main functions * Change COO pointers to 32I * Switch to long-based indexing to avoid integer overflows * Intermediate version with resolved memory issue * Migrate tests to new interface * Update docs to reflect changes in the sparse_solve API * Update docs to reflect changes in the sparse_solve API * Update docs to reflect changes in the sparse_solve API * Start migration of mmagpu * Query OMP_NUM_THREADS * Advance integration of mmagpu * Harmonize naming conventions * Advance mmagpu migration * Remove bugs and change error handling in OMP * Add additional debugging information in OMP region * Adjust tests and debugging info * Add old version * Fix CUTLASS alignment issue * Fix alignment issue and correctness of result * Fix device name for debugging issue * Fix packing bug * Adjust tests to reflect current limitations * Fix unaligned tile size bug * Fix unaligned tile size copy back * Add uncentered tests * Improve tests * Remove unnecessary asm line * Add thrust plink to 2bit conversion mechanism * Remove illegal mem access in transform * Add LD mechanism * Add GRM and LD tests; Refactor Julia module * Fix test_grm bug * Update GRM doc with references * Fix markdown math formating * Add section on standardization * Add section on variance-standardization * Fix formatting bug in SNP set * Add benchmark suite * Fix bugs in benchmark suite * Refactor slurm files * Refinements in benchmarking procedure * Fix memory requirements calculation * Add ld to suite * Create MoBPS simulation file, switch to custom popcounts * Add mobps-to-bed mechanism; TODO: convert 0,1,2 to bed values * Fix conversion 2bit-PLINKmechanism * Update popcount function, some refactoring * Accelerate popcount and twobit conversion * Change command line argument behaviour and update docs * Restructure conversion mechanism, refactor crossproduct tests * Update tests and conversion mechanism * Update dgemm interface and adjust tests * Add gc to free memory, prepare beta hat calculation * Finalize gblup calculation, write BVs to file for analysis * Add cublas uint8 calculation * Add uint8 based LD * Correct memory checks for uint8 * Add Julia package data * Fix simulation script * Fix alignment and integer overflow bugs * Restructure CUDA folder * Add documentation and debugging info * Restructure utils and add documentation
Set-up workflow for instance management
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